Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 199 of 332
Found at i:66194827 original size:44 final size:44
Alignment explanation
Indices: 66194779--66195010 Score: 120
Period size: 44 Copynumber: 5.3 Consensus size: 44
66194769 AGCCTTGACC
*
66194779 CCCTAAGTAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCA
1 CCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCA
* * * * ** * *
66194823 CCCTAAGCAGTAGGGAAACA-GAT-CAAATTCACTAGCCTTAACC
1 CCCTAAGCAGTAGGGTAACAGGCTAAAAATT-ACAAATCTTATCA
* * * * * *
66194866 CCCTAAGTAATAGGATAACAGGC-AGAAAATTACAGATCTCATCT
1 CCCTAAGCAGTAGGGTAACAGGCTA-AAAATTACAAATCTTATCA
* * * * * **
66194910 CCCTAAGCAGTAGCGG-AGCA-GATCGAAGA-TAGTAAGCCTTGATC-
1 CCCTAAGCAGTAG-GGTAACAGGCT-AAAAATTA-CAAATCTT-ATCA
* * *
66194954 CCCTAAGCAGTAGGGTAACAGGC-AGAAAATTACAGATCTCATCT
1 CCCTAAGCAGTAGGGTAACAGGCTA-AAAATTACAAATCTTATCA
66194998 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
66195011 TGCAGCAGAT
Statistics
Matches: 131, Mismatches: 43, Indels: 28
0.65 0.21 0.14
Matches are distributed among these distances:
42 5 0.04
43 34 0.26
44 80 0.61
45 12 0.09
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCA
Found at i:66195568 original size:24 final size:25
Alignment explanation
Indices: 66195522--66195570 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
66195512 TTGCCCAGGC
*
66195522 CCCAACAAGCCCAAAACTAAACCTA
1 CCCAACAAGCCCAAAACCAAACCTA
*
66195547 CCCAACAA-CCCAAAACCCAACCTA
1 CCCAACAAGCCCAAAACCAAACCTA
66195571 TCCTAACCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.47, C:0.45, G:0.02, T:0.06
Consensus pattern (25 bp):
CCCAACAAGCCCAAAACCAAACCTA
Found at i:66196687 original size:3 final size:3
Alignment explanation
Indices: 66196679--66197178 Score: 213
Period size: 3 Copynumber: 166.7 Consensus size: 3
66196669 ATCTAAGATG
* * *
66196679 TTA TTA TTA CTC TTA TT- TTCA TTA TTA TTA TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * *** * *
66196724 -TA TTA CTA TTT TTA TTA TCA TTA CCC TTA GTA ATA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
66196770 TTA TTTA CTA TTA TTA TTA GTGA TCTA TTA CTA TTC TTA TTA GTGTA
1 TTA -TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA -T-TA
* * * * * *
66196817 TTG TTA TTTC TTA TTT TTCA -TA TTA TTG TTG TTA TTA GTA TATA TTA
1 TTA TTA -TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * * *
66196864 TTA TTA TT- TCCTA TTA TTA TTA TTA ATA CTA ATA TCA GTA TTA TCA
1 TTA TTA TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
66196910 TT- TTT TTA TTA CTA TTA TTA TTA TT- TTT TTA CTA TCTA ATA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * * *
66196953 TTA CTA -TA CCTTT TTA TTA TTA TTA CTA TT- GTA TTA TTA CTA TTA
1 TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
66196998 TTA TTA -TA TT- TTC TT- TTT TTA TTA CTA TTA CTA -TA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
66197041 TTT TTA TTT TCTA TTA TTA TTA TCA TTA TTA TTA ATA CTA ATA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
66197087 ATA TTA ATA TTC TTA TTA TTA CTT- TTA TTA TTA TCA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
66197132 TTA TTT TTA CTA CTA CTA TTA TTA TTA TCA ATA TTA TTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
66197179 GTTTTTGTTA
Statistics
Matches: 368, Mismatches: 97, Indels: 64
0.70 0.18 0.12
Matches are distributed among these distances:
2 29 0.08
3 312 0.85
4 23 0.06
5 4 0.01
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:66196733 original size:23 final size:23
Alignment explanation
Indices: 66196701--66196811 Score: 73
Period size: 23 Copynumber: 4.7 Consensus size: 23
66196691 TTATTTTCAT
*
66196701 TATTATTATTATTATTATTAGTA
1 TATTACTATTATTATTATTAGTA
* * *
66196724 TATTACTATTTTTATTATCATTA
1 TATTACTATTATTATTATTAGTA
** * *
66196747 CCCTTAGTAATATATTATTATTATTA
1 -TATTACT-AT-TATTATTATTAGTA
* *
66196773 T-TTACTATTATTATTAGT-GATC
1 TATTACTATTATTATTATTAG-TA
*
66196795 TATTACTATTCTTATTA
1 TATTACTATTATTATTA
66196812 GTGTATTGTT
Statistics
Matches: 68, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
22 11 0.16
23 35 0.51
24 8 0.12
25 2 0.03
26 12 0.18
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTACTATTATTATTATTAGTA
Found at i:66196927 original size:20 final size:20
Alignment explanation
Indices: 66196902--66196944 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
66196892 CTAATATCAG
66196902 TATTATCATT-TTTTTATTAC
1 TATTATCATTATTTTT-TTAC
*
66196922 TATTATTATTATTTTTTTAC
1 TATTATCATTATTTTTTTAC
66196942 TAT
1 TAT
66196945 CTAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTATCATTATTTTTTTAC
Found at i:66196954 original size:23 final size:23
Alignment explanation
Indices: 66196902--66196955 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
66196892 CTAATATCAG
* * *
66196902 TATTATCATTTTTTTATTACTAT
1 TATTATTATTTTTTTACTACTAA
66196925 TATTATTATTTTTTTACTATCTAA
1 TATTATTATTTTTTTACTA-CTAA
66196949 TA-TATTA
1 TATTATTA
66196956 CTATACCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTATTATTTTTTTACTACTAA
Found at i:66203224 original size:46 final size:46
Alignment explanation
Indices: 66203125--66203299 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 46
66203115 TAAGACGAGA
*
66203125 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACGTAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAT
* *
66203171 GCTAGTGTAAGATATGTCTGGGACATGCATCGG-CTACGAGATG-AT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAT
* * ** *
66203216 AG-TCAGTGTAAGACCATGTTTGGGATATGGCATC-AACTTGAGA--TAT
1 -GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAT
66203262 GAACTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 G--CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
66203300 ACCTTACCTA
Statistics
Matches: 106, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
45 6 0.06
46 49 0.46
47 43 0.41
48 8 0.08
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAT
Found at i:66205583 original size:20 final size:20
Alignment explanation
Indices: 66205560--66205617 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
66205550 AAAATTTTCA
66205560 AAAAATTTATAAAATATTAC
1 AAAAATTTATAAAATATTAC
* **
66205580 AAAATTTTATAAAATTATTTT
1 AAAAATTTATAAAA-TATTAC
* *
66205601 AAAAATTAAAAAAATAT
1 AAAAATTTATAAAATAT
66205618 AAATTTATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTTATAAAATATTAC
Found at i:66209032 original size:20 final size:20
Alignment explanation
Indices: 66208990--66209037 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
66208980 ATAGTATATA
*
66208990 AAATATAAAGACTTGTATGT
1 AAATATAAAGAATTGTATGT
* * *
66209010 AAATATAAATAATTTTATTT
1 AAATATAAAGAATTGTATGT
*
66209030 AAAAATAA
1 AAATATAA
66209038 TTAAACATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (20 bp):
AAATATAAAGAATTGTATGT
Found at i:66209454 original size:18 final size:20
Alignment explanation
Indices: 66209413--66209457 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
66209403 TTTAACATTT
66209413 AATTTTTACATAATCATATTA
1 AATTTTTACATAATCATA-TA
66209434 AATTTTTACATAAT-ATA-A
1 AATTTTTACATAATCATATA
66209452 AATTTT
1 AATTTT
66209458 CAAAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.29
20 3 0.12
21 14 0.58
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTTTACATAATCATATA
Found at i:66215139 original size:21 final size:22
Alignment explanation
Indices: 66215114--66215160 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
66215104 CAGCACATTG
*
66215114 AAAA-GTCTTACATGGCAAGGA
1 AAAAGGTCTTACACGGCAAGGA
66215135 AAAAGGTCTTACACGGCAAGGA
1 AAAAGGTCTTACACGGCAAGGA
66215157 AAAA
1 AAAA
66215161 AGTCAGCTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (22 bp):
AAAAGGTCTTACACGGCAAGGA
Found at i:66218227 original size:34 final size:34
Alignment explanation
Indices: 66218182--66218251 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
66218172 TGGTGTAGAC
66218182 TATGATAAAGTAGTTGCCCAGTCGCCAGAATTGA
1 TATGATAAAGTAGTTGCCCAGTCGCCAGAATTGA
*
66218216 TATGATGAAGTAGTTGCCCAGTCGCCAGAATTGA
1 TATGATAAAGTAGTTGCCCAGTCGCCAGAATTGA
66218250 TA
1 TA
66218252 CTATAAGGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (34 bp):
TATGATAAAGTAGTTGCCCAGTCGCCAGAATTGA
Found at i:66219677 original size:22 final size:22
Alignment explanation
Indices: 66219651--66219692 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
66219641 CATTGAAAAG
*
66219651 TCTTACACGGCAAGGAAAAATA
1 TCTTACACGACAAGGAAAAATA
*
66219673 TCTTACATGACAAGGAAAAA
1 TCTTACACGACAAGGAAAAA
66219693 AGTCGGCTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (22 bp):
TCTTACACGACAAGGAAAAATA
Found at i:66223640 original size:47 final size:47
Alignment explanation
Indices: 66223582--66224302 Score: 1250
Period size: 47 Copynumber: 15.4 Consensus size: 47
66223572 CAGCCAAGAC
66223582 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66223629 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66223676 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66223723 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66223770 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66223817 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66223864 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66223911 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66223958 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66224005 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66224052 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66224099 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
66224146 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66224193 AGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
66224238 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
66224285 AGTGCA-AAATGTGATAAG
1 AGTGTATATATGTGATAAG
66224303 TCCCGAAGGG
Statistics
Matches: 650, Mismatches: 22, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
45 44 0.07
46 9 0.01
47 597 0.92
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:66224476 original size:37 final size:37
Alignment explanation
Indices: 66224420--66224498 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
66224410 CCGAGCTCTA
* * *
66224420 AAGACCCGATGACTACGTGTGG-GAATTTTTTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
66224457 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
66224494 AAGAC
1 AAGAC
66224499 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:66226371 original size:40 final size:40
Alignment explanation
Indices: 66226316--66226661 Score: 548
Period size: 40 Copynumber: 8.5 Consensus size: 40
66226306 GAGAATTGAG
*
66226316 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
66226356 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
66226396 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
66226436 AGTGATATATCCGAGCTAAGTCCCGAGGAGCATTCGGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGA-G-G-A----GCATTCGTGCT
*
66226483 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
66226523 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
66226563 AGTGATATATCCGGGCTAAGTCCCGAGGATCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
66226603 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
66226643 AGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
66226662 ACCTCGAAGA
Statistics
Matches: 286, Mismatches: 13, Indels: 14
0.91 0.04 0.04
Matches are distributed among these distances:
40 245 0.86
41 1 0.00
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 35 0.12
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:66226535 original size:127 final size:121
Alignment explanation
Indices: 66226316--66226661 Score: 552
Period size: 127 Copynumber: 2.8 Consensus size: 121
66226306 GAGAATTGAG
* * *
66226316 AGTGATATATCCGGGCTAAGCCCCGAGGA-GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC
1 AGTGATATATCCGAGCTAAGTCCCGAGGATGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC
66226380 GAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
66 GAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
66226436 AGTGATATATCCGAGCTAAGTCCCGAGGAGCATTCGGCATTCGTGCTAGTGATGTATCCGGGCTA
1 AGTGATATATCCGAGCTAAGTCCCGA-G-G-A-T--GCATTCGTGCTAGTGATGTATCCGGGCTA
66226501 AGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
60 AGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
66226563 AGTGATATATCCGGGCTAAGTCCCGAGGAT-CATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC
1 AGTGATATATCCGAGCTAAGTCCCGAGGATGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC
* * *
66226627 GAAGAGCATTCGTGCTAGTAATATATCCGTGCTAA
66 GAGGAGCATTCGTGCTAGTGATATATCCGGGCTAA
66226662 ACCTCGAAGA
Statistics
Matches: 211, Mismatches: 8, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
120 89 0.42
121 1 0.00
122 1 0.00
123 2 0.01
124 1 0.00
125 1 0.00
126 1 0.00
127 115 0.55
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (121 bp):
AGTGATATATCCGAGCTAAGTCCCGAGGATGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCC
GAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:66226599 original size:167 final size:167
Alignment explanation
Indices: 66226316--66226638 Score: 583
Period size: 167 Copynumber: 1.9 Consensus size: 167
66226306 GAGAATTGAG
66226316 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
66226381 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATAT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATAT
*
66226446 CCGAGCTAAGTCCCGAGGAGCATTCGGCATTCGTGCT
131 CCGAGCTAAGTCCCGAAGAGCATTCGGCATTCGTGCT
* *
66226483 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
* *
66226548 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGATCATTCGTGCTAGTGATGTAT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATAT
* *
66226613 CCGGGCTAAGTTCCGAAGAGCATTCG
131 CCGAGCTAAGTCCCGAAGAGCATTCG
66226639 TGCTAGTAAT
Statistics
Matches: 149, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
167 149 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (167 bp):
AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATAT
CCGAGCTAAGTCCCGAAGAGCATTCGGCATTCGTGCT
Found at i:66230234 original size:47 final size:47
Alignment explanation
Indices: 66230138--66230759 Score: 996
Period size: 47 Copynumber: 13.4 Consensus size: 47
66230128 ATTCCAAGAC
66230138 AGTGTATATATGTGATAAGGCCT-A-AG-C-ATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66230181 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66230228 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66230275 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66230322 AGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66230367 AGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66230412 AGTGTATATATGTGATAAGGCCTAATAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAAT-A--GCCGATGTGATGAATGTGAA
*
66230462 AGTGTATA-GTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66230508 AGTGTATATATGTG-TAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
66230554 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66230601 AGTGTATATATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
66230647 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
66230694 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
66230741 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
66230760 TCCCGAAGGG
Statistics
Matches: 549, Mismatches: 18, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
43 23 0.04
44 1 0.00
45 90 0.16
46 120 0.22
47 270 0.49
48 1 0.00
49 16 0.03
50 28 0.05
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:66230349 original size:139 final size:139
Alignment explanation
Indices: 66230138--66230759 Score: 1006
Period size: 139 Copynumber: 4.5 Consensus size: 139
66230128 ATTCCAAGAC
66230138 AGTGTATATATGTGATAAGGCCTAA--G-C-ATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGATAA
66230199 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
64 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66230264 ATGAATGTGAA
129 ATGAATGTGAA
66230275 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGG
66230340 CCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATGTGATAAGGCCTAATGGCCGATGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
66230403 GAATGTGAA
131 GAATGTGAA
66230412 AGTGTATATATGTGATAAGGCCTAATAATGGCCGATGTGATGAATGTGAAAGTGTATAGTGTGAT
1 AGTGTATATATGTGATAAGGCC---TAATGGCCGATGTGATGAATGTGAAAGTGTATA-TGTGAT
*
66230477 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG-TAAGGCCTAATAGCCGATG
62 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
66230541 TGATGAATGTGAA
127 TGATGAATGTGAA
* *
66230554 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTATAAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTG-ATAAG
*
66230619 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
65 GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
66230684 TGAATGTGAA
130 TGAATGTGAA
* * * * * * * *
66230694 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGATAA
66230759 G
64 G
66230760 TCCCGAAGGG
Statistics
Matches: 456, Mismatches: 15, Indels: 24
0.92 0.03 0.05
Matches are distributed among these distances:
137 88 0.19
138 3 0.01
139 124 0.27
140 108 0.24
141 66 0.14
142 59 0.13
143 8 0.02
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (139 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGATAAGG
CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAA
Found at i:66230654 original size:38 final size:40
Alignment explanation
Indices: 66230563--66230695 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 40
66230553 AAGTGTATAT
*
66230563 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
66230605 TATATATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 -----ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-G
66230651 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 -----ATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66230696 TGTATATATG
Statistics
Matches: 84, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
46 45 0.54
47 39 0.46
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (40 bp):
ATGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGG
Found at i:66230933 original size:37 final size:38
Alignment explanation
Indices: 66230877--66230956 Score: 126
Period size: 37 Copynumber: 2.1 Consensus size: 38
66230867 CCGAGCTCTA
* *
66230877 AAGACCCGATGACTACGTGTGGGA-ATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAGATTATGTCCGGGT
*
66230914 AAGACCCGATAACTTCGTGTGGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAGATTATGTCCGGGT
66230952 AAGAC
1 AAGAC
66230957 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 22 0.56
38 17 0.44
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (38 bp):
AAGACCCGATAACTACGTGTGGGAGATTATGTCCGGGT
Found at i:66247997 original size:139 final size:139
Alignment explanation
Indices: 66247747--66248008 Score: 470
Period size: 139 Copynumber: 1.9 Consensus size: 139
66247737 AATTATGTTA
*
66247747 TGAGTTAGTACAGGTATGTACGTAAAACTCTTGAGTAAAGATTTCAATATGTTAAGTACTTGTGG
1 TGAGTTAGTACAGGTATGTACGTAAAACTCTTGAGTAAAGATTTCAATATATTAAGTACTTGTGG
* * *
66247812 TAAGAGTATGTATAAGGAGGTTAAGCTTATGAAACTTTGTTTTACTTTAACTATTGAGTCATGTT
66 TAAGAGTATGTATAAGAAGATTAAGCTTATGAAACTTTATTTTACTTTAACTATTGAGTCATGTT
66247877 GTTTATTAT
131 GTTTATTAT
* *
66247886 TGAGTTAGTATAGGTATGTATGTAAAACTCTTGAGTAAAGATTTCAATATATTAAGTACTTGTGG
1 TGAGTTAGTACAGGTATGTACGTAAAACTCTTGAGTAAAGATTTCAATATATTAAGTACTTGTGG
66247951 TAAGAGTATGTATAAGAAGATTAAGCTTATGAAACTTTATTTTACTTTAACTATTGAG
66 TAAGAGTATGTATAAGAAGATTAAGCTTATGAAACTTTATTTTACTTTAACTATTGAG
66248009 CTTACTAAGC
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
139 117 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (139 bp):
TGAGTTAGTACAGGTATGTACGTAAAACTCTTGAGTAAAGATTTCAATATATTAAGTACTTGTGG
TAAGAGTATGTATAAGAAGATTAAGCTTATGAAACTTTATTTTACTTTAACTATTGAGTCATGTT
GTTTATTAT
Found at i:66249015 original size:43 final size:43
Alignment explanation
Indices: 66248967--66249053 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
66248957 AATGAAGTTT
66248967 AGATATGTTCTGAAATAGTTTTAAATTTTACCAAGTCTTGATG
1 AGATATGTTCTGAAATAGTTTTAAATTTTACCAAGTCTTGATG
66249010 AGATATGTTCTGAAATAGTTTTAAATTTTACCAAGTCTTGATG
1 AGATATGTTCTGAAATAGTTTTAAATTTTACCAAGTCTTGATG
66249053 A
1 A
66249054 CTTGGAAACG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.41
Consensus pattern (43 bp):
AGATATGTTCTGAAATAGTTTTAAATTTTACCAAGTCTTGATG
Found at i:66251100 original size:21 final size:20
Alignment explanation
Indices: 66251054--66251109 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
66251044 ATATATTTAG
*
66251054 AATTTTAAAATTTTGAATAT
1 AATTTTAAAATTTTTAATAT
**
66251074 TCTTTTAAAATTTTTAATAT
1 AATTTTAAAATTTTTAATAT
*
66251094 AAATTTTAGAATTTTT
1 -AATTTTAAAATTTTT
66251110 TATCAACTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
AATTTTAAAATTTTTAATAT
Found at i:66251539 original size:18 final size:18
Alignment explanation
Indices: 66251503--66251539 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
66251493 TTAATTTTTG
* *
66251503 AATTCAAATAACTCTAAT
1 AATTCAAATAAATCGAAT
66251521 AATTCAAATAAATCGAAT
1 AATTCAAATAAATCGAAT
66251539 A
1 A
66251540 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.30
Consensus pattern (18 bp):
AATTCAAATAAATCGAAT
Found at i:66258799 original size:49 final size:49
Alignment explanation
Indices: 66258698--66258827 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 49
66258688 CATCAAAGTT
* * *
66258698 GATGCCATGTCCCAAATAGGTCTTACACTGACTTTCATATGTCGAGGCC
1 GATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGCC
** * *
66258747 GATGCTGTGTCCCAAACAGGTCTTACACT-AGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAAACAGGTCTTACACTGA-CTCTCATATATCGAG-GCC
* *
66258796 GATGCCATGTCCTAGACAGGTCTTACACTGAC
1 GATGCCATGTCCCAAACAGGTCTTACACTGAC
66258828 ACACAACAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.03
49 64 0.96
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGCC
Found at i:66258911 original size:48 final size:46
Alignment explanation
Indices: 66258742--66258965 Score: 179
Period size: 46 Copynumber: 4.8 Consensus size: 46
66258732 TCATATGTCG
* * *
66258742 AGGCCGATGCTGTGTCCCAAACAGGTCTTACACTAGCTCTCATCT-A
1 AGGCCGATGC-ATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA
* * * * * * *
66258788 TCGGTGTCGATGCCATGTCCTAGACAGGTCTTACACT-G-ACACA-CAACA
1 --AG-GCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATC-TCA
* * * * *
66258836 A-GCTGACGCTATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCA
1 AGGCCGATGC-ATGTCCCAGACATGTCTTACACTAGC-TCT-CATCTCA
*
66258884 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA
*
66258930 ATGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
66258966 ACACATATCA
Statistics
Matches: 140, Mismatches: 25, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
43 1 0.01
44 26 0.19
45 1 0.01
46 41 0.29
47 5 0.04
48 32 0.23
49 33 0.24
50 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA
Found at i:66258946 original size:46 final size:48
Alignment explanation
Indices: 66258846--66258965 Score: 181
Period size: 46 Copynumber: 2.5 Consensus size: 48
66258836 AGCTGACGCT
* * *
66258846 ATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCAAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGCCGATGC
* *
66258894 ATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGCCGATGC
66258940 ATGTCCCAGACATGTCTTACACTAGC
1 ATGTCCCAGACATGTCTTACACTAGC
66258966 ACACATATCA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
46 40 0.60
47 2 0.03
48 25 0.37
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
ATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGCCGATGC
Found at i:66260186 original size:30 final size:31
Alignment explanation
Indices: 66260150--66260216 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
66260140 CAATTTAACA
*
66260150 AGCAAATGCCTCTAAAATAATAA-CAAAATT
1 AGCAAATGCCTCTAAAATAATAATAAAAATT
* *
66260180 AGCAAATGTCTTTAAAATAATAATAAAAATT
1 AGCAAATGCCTCTAAAATAATAATAAAAATT
*
66260211 ATCAAA
1 AGCAAA
66260217 AAATAAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (31 bp):
AGCAAATGCCTCTAAAATAATAATAAAAATT
Found at i:66260262 original size:11 final size:11
Alignment explanation
Indices: 66260246--66260301 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
66260236 TAGTAGCAAC
66260246 ATAATAGTAAA
1 ATAATAGTAAA
66260257 ATAATAGTAAA
1 ATAATAGTAAA
**
66260268 ATAGGGAG-AAA
1 ATA-ATAGTAAA
66260279 ATAATAAG-AAA
1 ATAAT-AGTAAA
*
66260290 ATAATATTAAA
1 ATAATAGTAAA
66260301 A
1 A
66260302 AATCAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 34 0.92
12 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.23
Consensus pattern (11 bp):
ATAATAGTAAA
Found at i:66271193 original size:24 final size:24
Alignment explanation
Indices: 66271166--66271229 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
66271156 ATTTTTAATA
* *
66271166 AAAAAGAAAAGAAAAAAACAATTC
1 AAAAACAAAAGAAAAAAACAATCC
* * * *
66271190 AAAATCAACAGAAAAAAGCAGTCC
1 AAAAACAAAAGAAAAAAACAATCC
*
66271214 AAAAACAATAGAAAAA
1 AAAAACAAAAGAAAAA
66271230 TATAAAATTC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.70, C:0.12, G:0.09, T:0.08
Consensus pattern (24 bp):
AAAAACAAAAGAAAAAAACAATCC
Found at i:66272300 original size:7 final size:7
Alignment explanation
Indices: 66272288--66272313 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
66272278 GAGGAAAGGA
66272288 CTTGGGG
1 CTTGGGG
66272295 CTTGGGG
1 CTTGGGG
66272302 CTTGGGG
1 CTTGGGG
66272309 CTTGG
1 CTTGG
66272314 AGGGATTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.15, G:0.54, T:0.31
Consensus pattern (7 bp):
CTTGGGG
Found at i:66276523 original size:28 final size:29
Alignment explanation
Indices: 66276491--66276546 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
66276481 TATCAATATA
66276491 ATCAGGC-ACACATTAGTATCCTAATCTG
1 ATCAGGCAACACATTAGTATCCTAATCTG
* *
66276519 ATCAGTCTAACATATTAGTATCCTAATC
1 ATCAGGC-AACACATTAGTATCCTAATC
66276547 AAATCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.25
30 18 0.75
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (29 bp):
ATCAGGCAACACATTAGTATCCTAATCTG
Found at i:66276538 original size:30 final size:30
Alignment explanation
Indices: 66276502--66276560 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
66276492 TCAGGCACAC
**
66276502 ATTAGTATCCTAATCTGATCAGTCTAACAT
1 ATTAGTATCCTAATCAAATCAGTCTAACAT
66276532 ATTAGTATCCTAATCAAATCAGTCTAACA
1 ATTAGTATCCTAATCAAATCAGTCTAACA
66276561 GAATTTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (30 bp):
ATTAGTATCCTAATCAAATCAGTCTAACAT
Found at i:66279790 original size:93 final size:93
Alignment explanation
Indices: 66279682--66279852 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
66279672 GCCCCTAATT
* * * *
66279682 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
66279747 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
*
66279775 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
66279840 CAAGTTCGGATGC
66 CAAGTTCGGATGC
66279853 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:66279846 original size:46 final size:46
Alignment explanation
Indices: 66279681--66279849 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
66279671 CGCCCCTAAT
* * * *
66279681 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
* * * *
66279727 TGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAG
*
66279774 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
*
66279820 TGAACTCGGACTCAACTCAACAAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
66279850 TGCTCAACCA
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 54 0.55
47 28 0.28
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
Found at i:66279868 original size:46 final size:45
Alignment explanation
Indices: 66279775--66279860 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
66279765 TACATTTCAC
* * *
66279775 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCGGA-ATGCGCAACCATAAGT
*
66279821 GAACTCGGACTCAACTCAACAAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCAT
66279861 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCATAAGT
Found at i:66280300 original size:30 final size:30
Alignment explanation
Indices: 66280266--66280325 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
66280256 ATTTAATACG
66280266 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
66280296 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
66280326 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:66288771 original size:27 final size:31
Alignment explanation
Indices: 66288709--66288775 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
66288699 TGTTTTAGAT
* *
66288709 TTTATTTTATTTATTATTTTTATTTGATGGC
1 TTTATTTTATTTATTATTTTTACTTGATAGC
66288740 TTTTATTTTA-TT-TTATTTTTACTT-ATAG-
1 -TTTATTTTATTTATTATTTTTACTTGATAGC
66288768 TTTATTTT
1 TTTATTTT
66288776 TAGGAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 8 0.24
29 3 0.09
30 11 0.33
31 2 0.06
32 9 0.27
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (31 bp):
TTTATTTTATTTATTATTTTTACTTGATAGC
Found at i:66289560 original size:21 final size:22
Alignment explanation
Indices: 66289525--66289565 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
66289515 ACACGGCCTG
66289525 TTCACACGGCTGTGT-CCTTAC
1 TTCACACGGCTGTGTGCCTTAC
66289546 TTCACACGGGC-GTGTGCCTT
1 TTCACAC-GGCTGTGTGCCTT
66289566 TGTAACACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.12, C:0.32, G:0.24, T:0.32
Consensus pattern (22 bp):
TTCACACGGCTGTGTGCCTTAC
Found at i:66291577 original size:13 final size:13
Alignment explanation
Indices: 66291559--66291610 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
66291549 GGGTTAATTA
66291559 TTATTTTT-TGTTT
1 TTATTTTTAT-TTT
66291572 TTATTTTTATTTT
1 TTATTTTTATTTT
* *
66291585 TTATTATTACATTT
1 TTATTTTTA-TTTT
66291599 TTAGTTTTTATT
1 TTA-TTTTTATT
66291611 AACATTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 19 0.59
14 8 0.25
15 5 0.16
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:66291598 original size:21 final size:19
Alignment explanation
Indices: 66291574--66291624 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
66291564 TTTTGTTTTT
66291574 ATTTTTATTTTTTATTATTAC
1 ATTTTTATTTTTTATTA--AC
*
66291595 ATTTTTAGTTTTTATTAAC
1 ATTTTTATTTTTTATTAAC
*
66291614 ATTATTATTTT
1 ATTTTTATTTT
66291625 GTAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
21 16 0.59
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTTTTATTTTTTATTAAC
Found at i:66292218 original size:7 final size:8
Alignment explanation
Indices: 66292201--66292227 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
66292191 ATTATTTTAT
66292201 AAAAATAA
1 AAAAATAA
66292209 AAAAATAA
1 AAAAATAA
66292217 AAAAATAA
1 AAAAATAA
66292225 AAA
1 AAA
66292228 TATTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:66292748 original size:33 final size:35
Alignment explanation
Indices: 66292711--66292782 Score: 96
Period size: 33 Copynumber: 2.1 Consensus size: 35
66292701 CAAATAAATA
66292711 AAAATTTTAATAGA-AAAGATTAA-TT-TATTTTTT
1 AAAA-TTTAATAGATAAAGATTAACTTATATTTTTT
*
66292744 AAAATTTAATATATAAAGATTAACTTACTATTTTTT
1 AAAATTTAATAGATAAAGATTAACTTA-TATTTTTT
66292780 AAA
1 AAA
66292783 TAAAAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
32 8 0.24
33 13 0.38
34 2 0.06
36 11 0.32
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (35 bp):
AAAATTTAATAGATAAAGATTAACTTATATTTTTT
Found at i:66299680 original size:17 final size:17
Alignment explanation
Indices: 66299660--66299741 Score: 123
Period size: 17 Copynumber: 4.9 Consensus size: 17
66299650 TTTATTATAA
66299660 AAATTAATTCTTAATAG
1 AAATTAATTCTTAATAG
66299677 AAATTAATTCTTAATA-
1 AAATTAATTCTTAATAG
*
66299693 AAATTAATTCTTAATTG
1 AAATTAATTCTTAATAG
66299710 AAATTAATTCTTAATAG
1 AAATTAATTCTTAATAG
*
66299727 -AGTTAATTTCTTAAT
1 AAATTAA-TTCTTAAT
66299742 TTTTATAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
16 20 0.33
17 40 0.67
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (17 bp):
AAATTAATTCTTAATAG
Found at i:66299696 original size:33 final size:33
Alignment explanation
Indices: 66299659--66299741 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
66299649 ATTTATTATA
66299659 AAAATTAATTCTTAATAGAAATTAATTCTTAAT
1 AAAATTAATTCTTAATAGAAATTAATTCTTAAT
*
66299692 AAAATTAATTCTTAATTGAAATTAATTCTTAAT
1 AAAATTAATTCTTAATAGAAATTAATTCTTAAT
* *
66299725 AGAGTTAATTTCTTAAT
1 AAAATTAA-TTCTTAAT
66299742 TTTTATAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 38 0.83
34 8 0.17
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (33 bp):
AAAATTAATTCTTAATAGAAATTAATTCTTAAT
Found at i:66300335 original size:20 final size:22
Alignment explanation
Indices: 66300298--66300346 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
66300288 CTTAAAAAAA
*
66300298 TTTAAAAAATCTTAAATT-TTT
1 TTTAAAAAATCTGAAATTATTT
*
66300319 TTTAAAAAAT-TGGAATTATTT
1 TTTAAAAAATCTGAAATTATTT
66300340 TTTAAAA
1 TTTAAAA
66300347 TTTTTAAGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTAAAAAATCTGAAATTATTT
Found at i:66300413 original size:23 final size:23
Alignment explanation
Indices: 66300369--66300415 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
66300359 ATTATATATT
* *
66300369 ATAAAAAATTAAAAATTGAATAA
1 ATAAAAAAATAAAAATAGAATAA
66300392 ATAAAAAAATAAAAA-AGAAATAA
1 ATAAAAAAATAAAAATAG-AATAA
66300415 A
1 A
66300416 AAATTAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (23 bp):
ATAAAAAAATAAAAATAGAATAA
Found at i:66300838 original size:31 final size:32
Alignment explanation
Indices: 66300802--66300873 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
66300792 TTAACTAAAA
66300802 TTTTATTTTTA-TTTT-CAATTTATATATATTC
1 TTTTATTTTTAGTTTTACAATTTATATAT-TTC
** *
66300833 TTTTA-TTGAAGTTTTATAATTTATATATTTC
1 TTTTATTTTTAGTTTTACAATTTATATATTTC
*
66300864 TTATATTTTT
1 TTTTATTTTT
66300874 TAAAAAAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
30 3 0.09
31 16 0.50
32 13 0.41
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (32 bp):
TTTTATTTTTAGTTTTACAATTTATATATTTC
Found at i:66303629 original size:82 final size:85
Alignment explanation
Indices: 66303531--66303705 Score: 293
Period size: 82 Copynumber: 2.1 Consensus size: 85
66303521 TTTTGTTAAA
66303531 CCATTTGGAATACTACCGGATACTCAATAGCCCTAACATGGGTTAAGATGCTGACGCCA-AT-CA
1 CCATTTGGAATACTACCGGATACTCAATAGCCCTAACATGGGTTAAGATGCTGACGCCATATCCA
*
66303594 TA-ATGGTCTTACACTAGCT
66 GACATGGTCTTACACTAGCT
*
66303613 CCATTTGGAATACTACCGGATACTCAATAGCCCTAACATGGGTTAAGATGCTGACGCCATGTCCC
1 CCATTTGGAATACTACCGGATACTCAATAGCCCTAACATGGGTTAAGATGCTGACGCCATAT-CC
66303678 AGACATGGTCTTACACTAGCT
65 AGACATGGTCTTACACTAGCT
66303699 CTCATTT
1 C-CATTT
66303706 ATCAATGTCG
Statistics
Matches: 86, Mismatches: 2, Indels: 5
0.92 0.02 0.05
Matches are distributed among these distances:
82 59 0.69
83 1 0.01
85 3 0.03
86 18 0.21
87 5 0.06
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (85 bp):
CCATTTGGAATACTACCGGATACTCAATAGCCCTAACATGGGTTAAGATGCTGACGCCATATCCA
GACATGGTCTTACACTAGCT
Found at i:66303791 original size:48 final size:47
Alignment explanation
Indices: 66303670--66303888 Score: 192
Period size: 48 Copynumber: 4.6 Consensus size: 47
66303660 ATGCTGACGC
* * * * * *
66303670 CATGTCCCAGACATGGTCTTACACTAGCTCT-CATTTATCAATGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCT-TAAATCT-CCGAGGCCGATG
* * *
66303719 CCATGTCCCAGCCAGGTCTTACACTAGCTTATATCTCGCGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTTAAATCTC-CGAGGCCGATG
* ** * *
66303768 CATGTCCCAGGCATGTCTTACACTAGCTCTCGA-CT-CAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TAAATCTCCGAGGCCGATG
* * *
66303814 CATGTCTCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATCTC-CGAGGCCGATG
*
66303862 CATGTCCCAGACCTGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
66303889 ATACAAATGA
Statistics
Matches: 138, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 35 0.25
48 62 0.45
49 27 0.20
50 12 0.09
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATCTCCGAGGCCGATG
Found at i:66303843 original size:94 final size:95
Alignment explanation
Indices: 66303670--66303888 Score: 289
Period size: 94 Copynumber: 2.3 Consensus size: 95
66303660 ATGCTGACGC
* *
66303670 CATGTCCCAGACATGGTCTTACACTAGCTCTCATTTATCAATGTCGATGCCATGTCCCAGCCAGG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCA--TATCAATGCCGATGCCATGTCCCAGACAGG
* *
66303735 TCTTACACTAGCTTATATCTCGCGAGGCCGATG
63 TCTTACACTAGCTTAAATATCGCGAGGCCGATG
* * * *
66303768 CATGTCCCAGGCATGTCTTACACTAGCTCTCGA-CTCAATGCCGATG-CATGTCTCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTCTC-ATATCAATGCCGATGCCATGTCCCAGACAGGTC
* *
66303831 TTACACTGGCTTAAATATCTCGAGGCCGATG
65 TTACACTAGCTTAAATATCGCGAGGCCGATG
*
66303862 CATGTCCCAGACCTGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
66303889 ATACAAATGA
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
94 66 0.61
95 11 0.10
97 17 0.16
98 14 0.13
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (95 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCCAGACAGGTCT
TACACTAGCTTAAATATCGCGAGGCCGATG
Found at i:66311578 original size:94 final size:94
Alignment explanation
Indices: 66311385--66311599 Score: 247
Period size: 94 Copynumber: 2.3 Consensus size: 94
66311375 AAGCTGACGC
* ** * * *
66311385 CATGTCCCAGACAGGTCTTACACTAGCTTGCATCTCGCGAGGCCGATGCATGTCCTAGGCATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTC
*
66311450 TTACACTAGCTCTCGACTCAATACTGATG
66 TTACACTAGCTCTCGACTCAATACGGATG
* * *
66311479 TATGTCCCAGACATGTCTTACACTGGCTTAAATATCTG-GGGGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATC-GCGAGGCCGATGCATGTCCCAGACATGT
* * ** *
66311543 CTTACACTGGTTCTC-A-TACTGTGGCGGATG
65 CTTACACTAGCTCTCGACT-CAAT-ACGGATG
66311573 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
66311600 ATACAAATGA
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
92 1 0.01
93 3 0.03
94 96 0.95
95 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCGACTCAATACGGATG
Found at i:66311590 original size:46 final size:48
Alignment explanation
Indices: 66311475--66311596 Score: 169
Period size: 46 Copynumber: 2.6 Consensus size: 48
66311465 ACTCAATACT
*
66311475 GATGTATGTCCCAGACATGTCTTACACTGGCTTAAATATCTGGGGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTGGGGGCC
** * *
66311523 GATGCATGTCCCAGACATGTCTTACACTGG-TTCTCATA-CT-GTGGCG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-AAATATCTGGGGGCC
66311569 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
66311597 AGCATACAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
46 32 0.47
47 4 0.06
48 32 0.47
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTGGGGGCC
Found at i:66315947 original size:6 final size:6
Alignment explanation
Indices: 66315938--66315970 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
66315928 CACCGTAAGG
*
66315938 GTAACA GTAACA GTAACA ATAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
66315971 GCGGTACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:66316220 original size:11 final size:11
Alignment explanation
Indices: 66316193--66316242 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
66316183 TAAACTTTCA
66316193 AATTTTCAATTT
1 AATTTT-AATTT
*
66316205 CATTTTAATTT
1 AATTTTAATTT
66316216 AATTTTAATTT
1 AATTTTAATTT
* *
66316227 AATTTCAATTC
1 AATTTTAATTT
66316238 AATTT
1 AATTT
66316243 AATACATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 29 0.85
12 5 0.15
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTTTAATTT
Found at i:66316227 original size:16 final size:16
Alignment explanation
Indices: 66316196--66316245 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
66316186 ACTTTCAAAT
*
66316196 TTTCAATTTCATTTTAA
1 TTTCAA-TTCAATTTAA
*
66316213 TTT-AATTTTAATTTAA
1 TTTCAA-TTCAATTTAA
66316229 TTTCAATTCAATTTAA
1 TTTCAATTCAATTTAA
66316245 T
1 T
66316246 ACATTTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 24 0.83
17 5 0.17
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTCAATTCAATTTAA
Found at i:66316358 original size:37 final size:37
Alignment explanation
Indices: 66316309--66316380 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
66316299 TTCAATTTTC
*
66316309 CACTCAATATTCACATA-TTCTATTCAATATCAATAAT
1 CACTCAATATTCACAAATTTCTATTCAAT-TCAATAAT
* *
66316346 CACT-AATAATTCATAAATTTTTATTCAATTCAATA
1 CACTCAAT-ATTCACAAATTTCTATTCAATTCAATA
66316381 CCATAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 3 0.10
37 17 0.57
38 10 0.33
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (37 bp):
CACTCAATATTCACAAATTTCTATTCAATTCAATAAT
Found at i:66323876 original size:17 final size:18
Alignment explanation
Indices: 66323845--66323878 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
66323835 AAAAGAACAC
66323845 TTAACAACACAAGTTTAT
1 TTAACAACACAAGTTTAT
66323863 TTAACAAC-CAAGTTTA
1 TTAACAACACAAGTTTA
66323879 ATAATCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (18 bp):
TTAACAACACAAGTTTAT
Found at i:66331161 original size:30 final size:31
Alignment explanation
Indices: 66331125--66331182 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
66331115 CTATATCATC
66331125 CACATTTGC-TCATCATACCCTGTAATTGGT
1 CACATTTGCATCATCATACCCTGTAATTGGT
* **
66331155 CACATTTTCATTTTCATACCCTGTAATT
1 CACATTTGCATCATCATACCCTGTAATT
66331183 ATTCATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (31 bp):
CACATTTGCATCATCATACCCTGTAATTGGT
Found at i:66331193 original size:31 final size:31
Alignment explanation
Indices: 66331137--66331195 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
66331127 CATTTGCTCA
*
66331137 TCATACCCTGTAATTGGTCACATTTTCATTT
1 TCATACCCTGTAATTAGTCACATTTTCATTT
* *
66331168 TCATACCCTGTAATTATTCATATTTTCA
1 TCATACCCTGTAATTAGTCACATTTTCA
66331196 CATTTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.46
Consensus pattern (31 bp):
TCATACCCTGTAATTAGTCACATTTTCATTT
Found at i:66331737 original size:20 final size:20
Alignment explanation
Indices: 66331712--66331752 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
66331702 TTATCAACAA
66331712 TGGTACACGGGCTAGCTAAT
1 TGGTACACGGGCTAGCTAAT
66331732 TGGTACACGGGCTAGCTAAT
1 TGGTACACGGGCTAGCTAAT
66331752 T
1 T
66331753 CAAGCTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (20 bp):
TGGTACACGGGCTAGCTAAT
Found at i:66334570 original size:14 final size:14
Alignment explanation
Indices: 66334551--66334580 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66334541 TTATATCGAG
66334551 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
66334565 ACCAATCCAATTCA
1 ACCAATCCAAATCA
66334579 AC
1 AC
66334581 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:66342349 original size:14 final size:14
Alignment explanation
Indices: 66342330--66342359 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66342320 TTATATCGAG
66342330 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
66342344 ACCAATCCAATTCA
1 ACCAATCCAAATCA
66342358 AC
1 AC
66342360 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:66358090 original size:39 final size:39
Alignment explanation
Indices: 66358047--66358124 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
66358037 TGTCTTTGAC
* * *
66358047 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAT
**
66358086 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAT
66358125 TTCTAATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (39 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAT
Found at i:66364983 original size:39 final size:39
Alignment explanation
Indices: 66364940--66365017 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
66364930 TGTCTTTGAC
* * *
66364940 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAT
**
66364979 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAT
66365018 TTCTAATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (39 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAT
Found at i:66372517 original size:16 final size:17
Alignment explanation
Indices: 66372496--66372533 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
66372486 TTGTAACGCT
66372496 CCAAAAATCCCGAAA-C
1 CCAAAAATCCCGAAATC
66372512 CCAAAAATCCCGAAATC
1 CCAAAAATCCCGAAATC
66372529 CCAAA
1 CCAAA
66372534 CTTTTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.50, C:0.37, G:0.05, T:0.08
Consensus pattern (17 bp):
CCAAAAATCCCGAAATC
Found at i:66375477 original size:67 final size:64
Alignment explanation
Indices: 66375339--66375522 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
66375329 ATATAGTTCG
* * * * * *
66375339 GCTCTCTTGTCCACATGGTGAACAC-TCA-ATACCACCCATGTGACCTAGCCA-ATTTATCTCGT
1 GCTCTCTTGTCTACATGGTGTACACAT-AGA-ACCACCCATGCGACCTAGCTACATATATCCCGT
66375401 A
64 A
* * *
66375402 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGAACCACCCATGCGACCTAGCTACATATATCCCG
66375467 TA
63 TA
* *
66375469 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACAT
66375523 CATAATGTCT
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
63 19 0.19
64 29 0.28
66 22 0.22
67 32 0.31
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGAACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:66376292 original size:30 final size:30
Alignment explanation
Indices: 66376258--66376318 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
66376248 TCTTTAACTC
66376258 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
66376288 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
66376318 A
1 A
66376319 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:66377641 original size:29 final size:29
Alignment explanation
Indices: 66377608--66377707 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
66377598 TGAATGTGAC
* *
66377608 TGGGCTTAACGGGCCATATAAATATGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* **
66377637 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* * *
66377666 TGGGCCTAATGGGTCATATGAATATGA-A
1 TGGGCCTAATGGGCCATATAAATATGATT
*
66377694 TGGGCTTAATGGGC
1 TGGGCCTAATGGGC
66377708 TAGATACAGG
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 12 0.21
29 46 0.79
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATGATT
Found at i:66378507 original size:18 final size:18
Alignment explanation
Indices: 66378481--66378522 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
66378471 CTAGGTGGCC
*
66378481 GACTAGCAAGATAATTCG
1 GACTTGCAAGATAATTCG
66378499 GACTTGCAAGATAATTCG
1 GACTTGCAAGATAATTCG
66378517 GACTTG
1 GACTTG
66378523 GTTTTTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (18 bp):
GACTTGCAAGATAATTCG
Found at i:66381795 original size:13 final size:13
Alignment explanation
Indices: 66381777--66381805 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
66381767 TAATGACCAA
66381777 AATATTATATTTC
1 AATATTATATTTC
66381790 AATATTATATTTC
1 AATATTATATTTC
66381803 AAT
1 AAT
66381806 GACATCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
AATATTATATTTC
Found at i:66382953 original size:20 final size:20
Alignment explanation
Indices: 66382928--66382966 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
66382918 TATAATATTT
66382928 GTAATAATTT-GTGTAATTAG
1 GTAAT-ATTTGGTGTAATTAG
66382948 GTAATATTTGGTGTAATTA
1 GTAATATTTGGTGTAATTA
66382967 AAACCGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
GTAATATTTGGTGTAATTAG
Found at i:66385889 original size:111 final size:110
Alignment explanation
Indices: 66385767--66385972 Score: 324
Period size: 112 Copynumber: 1.9 Consensus size: 110
66385757 AGTATTTTTT
*
66385767 AAAAAAATTT-GGTTCTAGCCTTTTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAACGCAA
1 AAAAAAATTTGGGTTCTAGCCTTCTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAACGC-A
66385831 ATTTTTTTTTTACCTTTCTACACTGATGGCCAGCTCCAGACCGGTA
65 ATTTTTTTTTTACCTTTCTACACTGATGGCCAGCTCCAGACCGGTA
* * * *
66385877 AAAAAAATTTTGGGTTCTGGCCTTCTAATGGCCAGCACCATGGACTTTTTTCGTGTCCCAATGCA
1 AAAAAAA-TTTGGGTTCTAGCCTTCTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAACGCA
**
66385942 ATTTTTTTTTTATTTTTCTACACTGATGGCC
65 ATTTTTTTTTTACCTTTCTACACTGATGGCC
66385973 GACACCAAAC
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
110 7 0.08
111 33 0.38
112 47 0.54
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (110 bp):
AAAAAAATTTGGGTTCTAGCCTTCTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAACGCAA
TTTTTTTTTTACCTTTCTACACTGATGGCCAGCTCCAGACCGGTA
Found at i:66386040 original size:117 final size:114
Alignment explanation
Indices: 66385877--66386441 Score: 573
Period size: 117 Copynumber: 4.9 Consensus size: 114
66385867 CAGACCGGTA
* *
66385877 AAAAAAATTTTGGGTTCTGGCCTTCTAATGGCCAGCACCATGGACTTTTTTCGTGTCCCAATGCA
1 AAAAAAA-TTT-GATTCTGGCCTTCTAATGG-CAGCACCAAGGACTTTTTTCGTGTCCCAATGCA
* * *
66385942 ATTTTTTTTTTATTTTTCTACACTGATGGCCGACACCAAACCAGTAATTGTTTT
63 A--TTTTTTTTACTTTTCTACACTGATGGCCGGCACCAAACCAGTAATTTTTTT
*** * * * * *
66385996 AAAATTTTTTTATCCTGGCCTTCTAATGGCAGGCACCAAAGACTTTTTTCGTATCCCAATACAAT
1 AAAAAAATTTGATTCTGGCCTTCTAATGGCA-GCACCAAGGACTTTTTTCGTGTCCCAATGCAAT
* * *
66386061 TTTTTTTACCTTTT-TACACT-ATGGCTGGCACCAGACTAGTAA---TTTT
65 TTTTTTTA-CTTTTCTACACTGATGGCCGGCACCAAACCAGTAATTTTTTT
***** * * * * *
66386107 AATTTTTTTTTATTCTGGCCTTCTAATGGCTGGCACCAAGGACTTTTTTCGTATTCCAATGTAAT
1 AAAAAAATTTGATTCTGGCCTTCTAATGGC-AGCACCAAGGACTTTTTTCGTGTCCCAATGCAA-
* * * *
66386172 TTTTTTTTTTACTTTTCTACACTAATGGTCGGCACCAGACCAATAATTTTTTT
64 --TTTTTTTTACTTTTCTACACTGATGGCCGGCACCAAACCAGTAATTTTTTT
* * * * *
66386225 AAAAAAATTTGGTTTTGGCCTTCTAATGACTAGCACCAGGGGCTTTTTTCGTGTCCCAATGCAAT
1 AAAAAAATTTGATTCTGGCCTTCTAATGGC-AGCACCAAGGACTTTTTTCGTGTCCCAATGCAAT
*
66386290 TTTTTTTACTTTTCTACACTGATGGTCGGCACCAAACCAGTAATTTTTTTTT
65 TTTTTTTACTTTTCTACACTGATGGCCGGCACCAAACCAGTAA--TTTTTTT
* ** *
66386342 AAAAAAATTTGGTTCTAACCTTCTAATGGCCAGAACCAAGGACTTTTTTCGTGTCCCAATGCAAA
1 AAAAAAATTTGATTCTGGCCTTCTAATGG-CAGCACCAAGGACTTTTTTCGTGTCCCAATGC-AA
* *
66386407 TTTTTTTTACTTTTCTACATTGATGGCCAGCACCA
64 TTTTTTTTACTTTTCTACACTGATGGCCGGCACCA
66386442 GAGATATAAA
Statistics
Matches: 376, Mismatches: 55, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
111 59 0.16
113 5 0.01
114 33 0.09
115 74 0.20
116 6 0.02
117 104 0.28
118 91 0.24
119 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (114 bp):
AAAAAAATTTGATTCTGGCCTTCTAATGGCAGCACCAAGGACTTTTTTCGTGTCCCAATGCAATT
TTTTTTACTTTTCTACACTGATGGCCGGCACCAAACCAGTAATTTTTTT
Found at i:66386151 original size:111 final size:114
Alignment explanation
Indices: 66385779--66386441 Score: 556
Period size: 117 Copynumber: 5.8 Consensus size: 114
66385769 AAAAATTTGG
* * * * * * *
66385779 TTCTAGCCTTTTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAACGCAAATTTTTTTTTTAC
1 TTCTGGCCTTCTAATGGCTAGCACCAAGGACTTTTTTCGTATCCCAATGC-AA-TTTTTTTTTAC
* * * * * * * * ***
66385844 CTTTCTACACTGATGGCCAGCTCCAGACCGGTAA----AAAAAATTTTGGG
64 TTTTCTACACTGATGGTCGGCACCAAACCAGTAATTTTTAAAATTTTTTTA
* * * *
66385891 TTCTGGCCTTCTAATGGCCAGCACCATGGACTTTTTTCGTGTCCCAATGCAATTTTTTTTTTATT
1 TTCTGGCCTTCTAATGGCTAGCACCAAGGACTTTTTTCGTATCCCAATGCAA-TTTTTTTTTACT
* *
66385956 TTTCTACACTGATGGCCGACACCAAACCAGTAATTGTTTTAAAATTTTTTTA
65 TTTCTACACTGATGGTCGGCACCAAACCAGTAA-T-TTTTAAAATTTTTTTA
* * *
66386008 TCCTGGCCTTCTAATGGC-AGGCACCAAAGACTTTTTTCGTATCCCAATACAA-TTTTTTTTACC
1 TTCTGGCCTTCTAATGGCTA-GCACCAAGGACTTTTTTCGTATCCCAATGCAATTTTTTTTTA-C
* * **
66386071 TTTT-TACACT-ATGG-CTGGCACCAGACTAGTAA-TTTTAATTTTTTTTTA
64 TTTTCTACACTGATGGTC-GGCACCAAACCAGTAATTTTTAAAATTTTTTTA
* * *
66386119 TTCTGGCCTTCTAATGGCTGGCACCAAGGACTTTTTTCGTATTCCAATGTAATTTTTTTTTTTAC
1 TTCTGGCCTTCTAATGGCTAGCACCAAGGACTTTTTTCGTATCCCAATGCAA--TTTTTTTTTAC
* * * *** **
66386184 TTTTCTACACTAATGGTCGGCACCAGACCAATAATTTTTTTAAAAAAATTTGG
64 TTTTCTACACTGATGGTCGGCACCAAACCAGTAA--TTTTTAAAATTTTTTTA
* * * * *
66386237 TTTTGGCCTTCTAATGACTAGCACCAGGGGCTTTTTTCGTGTCCCAATGCAA-TTTTTTTTACTT
1 TTCTGGCCTTCTAATGGCTAGCACCAAGGACTTTTTTCGTATCCCAATGCAATTTTTTTTTACTT
*** **
66386301 TTCTACACTGATGGTCGGCACCAAACCAGTAATTTTTTTTTAAAAAAATTTGG
66 TTCTACACTGATGGTCGGCACCAAACCAGTAA----TTTTTAAAATTTTTTTA
** * * * *
66386354 TTCTAACCTTCTAATGGCCAGAACCAAGGACTTTTTTCGTGTCCCAATGCAAATTTTTTTTACTT
1 TTCTGGCCTTCTAATGGCTAGCACCAAGGACTTTTTTCGTATCCCAATGCAATTTTTTTTTACTT
* * *
66386419 TTCTACATTGATGGCCAGCACCA
66 TTCTACACTGATGGTCGGCACCA
66386442 GAGATATAAA
Statistics
Matches: 464, Mismatches: 65, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
111 100 0.22
112 45 0.10
113 6 0.01
114 32 0.07
115 74 0.16
116 6 0.01
117 116 0.25
118 85 0.18
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (114 bp):
TTCTGGCCTTCTAATGGCTAGCACCAAGGACTTTTTTCGTATCCCAATGCAATTTTTTTTTACTT
TTCTACACTGATGGTCGGCACCAAACCAGTAATTTTTAAAATTTTTTTA
Found at i:66386194 original size:229 final size:229
Alignment explanation
Indices: 66385891--66386434 Score: 607
Period size: 229 Copynumber: 2.4 Consensus size: 229
66385881 AAATTTTGGG
* * *
66385891 TTCTGGCCTTCTAATGGCCAGCACCATGGACTTTTTTCGTGTCCCAATGCAATTTTTTTTTTATT
1 TTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTATCCCAATGCAATTTTTTTTTTACT
* * *** *
66385956 TTTCTACACTGATGGCCGACACCAAACCAGTAATTGTTTTAAAATTTTTTTATCCTGGCCTTCTA
66 TTTCTACACTAATGGCCGACACCAAACCAATAATTGTTTTAAAAAAATTTGATCCTGGCCTTCTA
*
66386021 ATGGC-AGGCACCAAAGACTTTTTTCGTATCCCAATACAATTTTTTTTACCTTTT-TACACT-AT
131 ATGACTA-GCACCAAAGACTTTTTTCGTATCCCAATACAATTTTTTTTA-CTTTTCTACACTGAT
* *
66386083 GG-CTGGCACCAGACTAGTAATTTTAATTTTTTTTTA
194 GGTC-GGCACCAAACCAGTAATTTTAATTTTTTTTTA
** * *
66386119 TTCTGGCCTTCTAATGGCTGGCACCAAGGACTTTTTTCGTATTCCAATGTAATTTTTTTTTTTAC
1 TTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTATCCCAATGCAA-TTTTTTTTTTAC
* * * * * **
66386184 TTTTCTACACTAATGGTCGGCACCAGACCAATAATTTTTTTAAAAAAATTTGGTTTTGGCCTTCT
65 TTTTCTACACTAATGGCCGACACCAAACCAATAATTGTTTTAAAAAAATTTGATCCTGGCCTTCT
** * * *
66386249 AATGACTAGCACCAGGGGCTTTTTTCGTGTCCCAATGCAATTTTTTTTACTTTTCTACACTGATG
130 AATGACTAGCACCAAAGACTTTTTTCGTATCCCAATACAATTTTTTTTACTTTTCTACACTGATG
**
66386314 GTCGGCACCAAACCAGTAATTTT--TTTTTAAAAAAATTTGG
195 GTCGGCACCAAACCAGTAATTTTAATTTTT-------TTTTA
** * * *
66386354 TTCTAACCTTCTAATGGCCAGAACCAAGGACTTTTTTCGTGTCCCAATGCAA-ATTTTTTTTACT
1 TTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTATCCCAATGCAATTTTTTTTTTACT
* *
66386418 TTTCTACATTGATGGCC
66 TTTCTACACTAATGGCC
66386435 AGCACCAGAG
Statistics
Matches: 262, Mismatches: 42, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
228 56 0.21
229 110 0.42
230 23 0.09
231 1 0.00
233 25 0.10
235 47 0.18
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (229 bp):
TTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTATCCCAATGCAATTTTTTTTTTACT
TTTCTACACTAATGGCCGACACCAAACCAATAATTGTTTTAAAAAAATTTGATCCTGGCCTTCTA
ATGACTAGCACCAAAGACTTTTTTCGTATCCCAATACAATTTTTTTTACTTTTCTACACTGATGG
TCGGCACCAAACCAGTAATTTTAATTTTTTTTTA
Found at i:66386271 original size:118 final size:115
Alignment explanation
Indices: 66385761--66386443 Score: 672
Period size: 111 Copynumber: 5.9 Consensus size: 115
66385751 AATATTAGTA
* * * *
66385761 TTTTTTAAAAAAATTTGGTTCTAGCCTTTTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAA
1 TTTTTTAAAAAAATTTGGTTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTGTCCCAA
* * * * *
66385826 CGCAAATTTTTTTTTTACCTTTCTACACTGATGGCCAGCTCCAGACCGGTAA-
66 TGC-AA--TTTTTTTTACTTTTCTACACTGATGGCCGGCACCAGACCAGTAAT
* *
66385878 ------AAAAAATTTTGGGTTCTGGCCTTCTAATGGCCAGCACCATGGACTTTTTTCGTGTCCCA
1 TTTTTTAAAAAAATTT-GGTTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTGTCCCA
* * *
66385937 ATGCAATTTTTTTTTTATTTTTCTACACTGATGGCCGACACCAAACCAGTAAT
65 ATGCAA--TTTTTTTTACTTTTCTACACTGATGGCCGGCACCAGACCAGTAAT
* *** ** * * *
66385990 TGTTTTAAAATTTTTTTATCCTGGCCTTCTAATGG-CAGGCACCAAAGACTTTTTTCGTATCCCA
1 TTTTTTAAAAAAATTTGGTTCTGGCCTTCTAATGGCCA-GCACCAAGGACTTTTTTCGTGTCCCA
* * *
66386054 ATACAATTTTTTTTACCTTTT-TACACT-ATGGCTGGCACCAGACTAGTAA-
65 ATGCAATTTTTTTTA-CTTTTCTACACTGATGGCCGGCACCAGACCAGTAAT
***** ** ** * *
66386103 --TTTTAATTTTTTTTTATTCTGGCCTTCTAATGGCTGGCACCAAGGACTTTTTTCGTATTCCAA
1 TTTTTTAAAAAAATTTGGTTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTGTCCCAA
* * * *
66386166 TGTAATTTTTTTTTTTACTTTTCTACACTAATGGTCGGCACCAGACCAATAAT
66 TGCAA---TTTTTTTTACTTTTCTACACTGATGGCCGGCACCAGACCAGTAAT
* * * * *
66386219 TTTTTTAAAAAAATTTGGTTTTGGCCTTCTAATGACTAGCACCAGGGGCTTTTTTCGTGTCCCAA
1 TTTTTTAAAAAAATTTGGTTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTGTCCCAA
* *
66386284 TGCAATTTTTTTTACTTTTCTACACTGATGGTCGGCACCAAACCAGTAATTT
66 TGCAATTTTTTTTACTTTTCTACACTGATGGCCGGCACCAGACCAGTAA--T
** *
66386336 TTTTTTAAAAAAATTTGGTTCTAACCTTCTAATGGCCAGAACCAAGGACTTTTTTCGTGTCCCAA
1 TTTTTTAAAAAAATTTGGTTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTGTCCCAA
* *
66386401 TGCAAATTTTTTTTACTTTTCTACATTGATGGCCAGCACCAGA
66 TGC-AATTTTTTTTACTTTTCTACACTGATGGCCGGCACCAGA
66386444 GATATAAAAA
Statistics
Matches: 474, Mismatches: 70, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
111 108 0.23
112 47 0.10
113 5 0.01
114 33 0.07
115 74 0.16
116 6 0.01
117 105 0.22
118 96 0.20
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (115 bp):
TTTTTTAAAAAAATTTGGTTCTGGCCTTCTAATGGCCAGCACCAAGGACTTTTTTCGTGTCCCAA
TGCAATTTTTTTTACTTTTCTACACTGATGGCCGGCACCAGACCAGTAAT
Found at i:66388379 original size:26 final size:26
Alignment explanation
Indices: 66388357--66388411 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
66388347 TTTTTATGTG
66388357 TTAAAATATA-TATATTAAATTATTA
1 TTAAAATATAGTATATTAAATTATTA
* * *
66388382 TTATATTATAGTATATTATATTATATA
1 TTAAAATATAGTATATTAAATTAT-TA
66388409 TTA
1 TTA
66388412 TATTATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.32
26 12 0.48
27 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTAAAATATAGTATATTAAATTATTA
Found at i:66388388 original size:5 final size:5
Alignment explanation
Indices: 66388362--66388419 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
66388352 ATGTGTTAAA
* *
66388362 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
66388411 ATATT ATAT
1 ATATT ATAT
66388420 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:66388398 original size:10 final size:9
Alignment explanation
Indices: 66388363--66388420 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
66388353 TGTGTTAAAA
66388363 TATATATAT
1 TATATATAT
*
66388372 TAAAT-TAT
1 TATATATAT
66388380 TAT-TATAT
1 TATATATAT
66388388 TATAGTATAT
1 TATA-TATAT
66388398 TATAT-TA-
1 TATATATAT
66388405 TATATTATAT
1 TATA-TATAT
66388415 TATATA
1 TATATA
66388421 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:66388410 original size:12 final size:12
Alignment explanation
Indices: 66388365--66388420 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
66388355 TGTTAAAATA
*
66388365 TATATATTAAAT
1 TATATATTATAT
66388377 TAT-TATTATATT
1 TATATATTATA-T
66388389 ATAGTATATTATAT
1 -TA-TATATTATAT
66388403 TATATATTATAT
1 TATATATTATAT
66388415 TATATA
1 TATATA
66388421 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:66389757 original size:18 final size:19
Alignment explanation
Indices: 66389734--66389772 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
66389724 ATATATAGAT
66389734 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
66389752 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
66389771 AT
1 AT
66389773 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:66390284 original size:18 final size:19
Alignment explanation
Indices: 66390263--66390303 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
66390253 AATGAAATGA
66390263 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
66390281 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
66390300 GAAA
1 GAAA
66390304 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:66392415 original size:20 final size:23
Alignment explanation
Indices: 66392392--66392454 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
66392382 ATAGATAATT
66392392 TAAA-TGAAATGAG-AAAAA-AA
1 TAAATTGAAATGAGCAAAAATAA
66392412 TAAATTGAAATGAGCAAAAATAA
1 TAAATTGAAATGAGCAAAAATAA
* * *
66392435 TATAAATGAATTGAGGAAAA
1 TA-AATTGAAATGAGCAAAA
66392455 TTTTAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 4 0.11
21 9 0.25
22 5 0.14
23 4 0.11
24 14 0.39
ACGTcount: A:0.62, C:0.02, G:0.16, T:0.21
Consensus pattern (23 bp):
TAAATTGAAATGAGCAAAAATAA
Found at i:66392421 original size:21 final size:21
Alignment explanation
Indices: 66392392--66392455 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 21
66392382 ATAGATAATT
66392392 TAAATGAAATGAGAAAAA-AA
1 TAAATGAAATGAGAAAAATAA
66392412 TAAATTGAAATGAGCAAAAATAATA
1 TAAA-TGAAATGAG-AAAAAT-A-A
* *
66392437 TAAATGAATTGAGGAAAAT
1 TAAATGAAATGAGAAAAAT
66392456 TTTAAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
20 4 0.11
21 9 0.24
22 5 0.14
23 5 0.14
24 9 0.24
25 5 0.14
ACGTcount: A:0.61, C:0.02, G:0.16, T:0.22
Consensus pattern (21 bp):
TAAATGAAATGAGAAAAATAA
Found at i:66392505 original size:21 final size:21
Alignment explanation
Indices: 66392388--66392507 Score: 62
Period size: 21 Copynumber: 5.2 Consensus size: 21
66392378 AAAGATAGAT
66392388 AATTTAAATGAAATGA-GAAA
1 AATTTAAATGAAATGAGGAAA
** *
66392408 AAAATAAATTGAAATGAGCAAA
1 AATTTAAA-TGAAATGAGGAAA
*
66392430 AATAATATAAATGAATTGAGGAAA
1 AAT--T-TAAATGAAATGAGGAAA
* * * *
66392454 ATTTTAAATTTACAAGGAAAGAAAGATA
1 AATTTAAA-TGA-AATG--AG---GAAA
66392482 AATTTAAATGAAATGAGGAAA
1 AATTTAAATGAAATGAGGAAA
66392503 AATTT
1 AATTT
66392508 TAATTTAAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 23
0.65 0.14 0.21
Matches are distributed among these distances:
20 6 0.08
21 20 0.28
22 8 0.11
23 2 0.03
24 15 0.21
25 6 0.08
26 3 0.04
27 2 0.03
28 10 0.14
ACGTcount: A:0.57, C:0.02, G:0.15, T:0.26
Consensus pattern (21 bp):
AATTTAAATGAAATGAGGAAA
Found at i:66392515 original size:27 final size:27
Alignment explanation
Indices: 66392480--66392745 Score: 212
Period size: 27 Copynumber: 10.4 Consensus size: 27
66392470 GAAAGAAAGA
*
66392480 TAAATTTAAATGAAATGAGGAAAAATT
1 TAAATTTAAATGAAATGAGGAAAAAAT
* *
66392507 TTAATTTAAAAGAAATGA-GAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
*
66392533 TAAAATTAAAATTG-AA--A-G-AAAAA-
1 T-AAATTTAAA-TGAAATGAGGAAAAAAT
66392556 TAAATTTAAATGAAATGAGGAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
* * *
66392583 TTAATTTAAATGAAATTAGAAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
* *
66392610 TAAATTAAAATTG-AA--A-G-AAAGA-
1 TAAATTTAAA-TGAAATGAGGAAAAAAT
66392632 TAAATTTAAATGAAATGAGGAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
* *
66392659 TTAATTTAAATGAAATGAGAAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
* * *
66392686 TTAATTAAAATTG-AA--A-G-AAAGA-
1 TAAATTTAAA-TGAAATGAGGAAAAAAT
*
66392708 TAAATTTAAATGAAATAAGGAAAAAAAT
1 TAAATTTAAATGAAATGAGG-AAAAAAT
66392736 T-AATTTAAAT
1 TAAATTTAAAT
66392746 AAAAAATAAT
Statistics
Matches: 192, Mismatches: 24, Indels: 46
0.73 0.09 0.18
Matches are distributed among these distances:
21 6 0.03
22 31 0.16
23 9 0.05
24 8 0.04
25 7 0.04
26 17 0.09
27 108 0.56
28 6 0.03
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.28
Consensus pattern (27 bp):
TAAATTTAAATGAAATGAGGAAAAAAT
Found at i:66392559 original size:76 final size:76
Alignment explanation
Indices: 66392470--66392745 Score: 473
Period size: 76 Copynumber: 3.6 Consensus size: 76
66392460 AATTTACAAG
* *
66392470 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAATTTTAATTTAAAAGAAATGAG-AAAAAATT
1 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAAAATT
66392534 AAAATTAAAATT
66 -AAATTAAAATT
* *
66392546 GAAAGAAAAATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATTAGAAAAAAATT
1 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAAAATT
66392611 AAATTAAAATT
66 AAATTAAAATT
66392622 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAAAATT
1 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAAAATT
*
66392687 TAATTAAAATT
66 AAATTAAAATT
* *
66392698 GAAAGAAAGATAAATTTAAATGAAATAAGGAAAAAAATTAATTTAAAT
1 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAAT
66392746 AAAAAATAAT
Statistics
Matches: 190, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
76 182 0.96
77 8 0.04
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (76 bp):
GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAAAATT
AAATTAAAATT
Found at i:66392686 original size:49 final size:48
Alignment explanation
Indices: 66392388--66392836 Score: 232
Period size: 49 Copynumber: 9.4 Consensus size: 48
66392378 AAAGATAGAT
66392388 AATTTAAATGAAATGAG-AAAAA---AA--TAAATTGAAATGAGCAAAAA
1 AATTTAAATGAAATGAGAAAAAATTTAATTTAAA-TGAAATGAG-AAAAA
* * * * * *
66392432 TAATATAAATGAATTGAGGAAAATTTTAAATTTACAAGGAAA-GA-AAGATA
1 -AATTTAAATGAAATGAGAAAAAATTT-AATTTA-AATGAAATGAGAA-AAA
* *
66392482 AATTTAAATGAAATGAGGAAAAATTTTAATTTAAAAGAAATGAG-AAAA
1 AATTTAAATGAAATGA-GAAAAAATTTAATTTAAATGAAATGAGAAAAA
* * * *
66392530 AATTAAAATTAAAATTGA-AAGAAAAATAAATTTAAATGAAATGAGGAAAAAA
1 AATTTAAA-TGAAA-TGAGAA-AAAATTTAATTTAAATGAAATGA-G-AAAAA
* * * *
66392582 TTTAATTTAAATGAAATTAGAAAAAAATTAAATTAAAATTGAAA-GA-AAGATA
1 ---AATTTAAATGAAATGAG-AAAAAATTTAATTTAAA-TGAAATGAGAA-AAA
66392634 AATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAA
1 AATTTAAATGAAATGA-GAAAAAATTTAATTTAAATGAAATGAGAAAAA
* * * *
66392683 AATTTAATTAAAATTGA-AAGAAAGA-TAAATTTAAATGAAATAAGGAAAAA
1 AATTTAAATGAAA-TGAGAA-AAA-ATTTAATTTAAATGAAATGA-GAAAAA
* * *
66392733 AA-TTAATTTAAAT---AAAAAA--TAATATAAATGAAATGAGAAAAA
1 AATTTAAATGAAATGAGAAAAAATTTAATTTAAATGAAATGAGAAAAA
* *
66392775 AAATTAAAT----T--GAAAAAATATAATTTAAATGAAATGA-AAATGAA
1 AATTTAAATGAAATGAGAAAAAATTTAATTTAAATGAAATGAGAAA--AA
** *
66392818 AATGGAAATAAAATGAGAA
1 AATTTAAATGAAATGAGAA
66392837 TAAGAATCAA
Statistics
Matches: 321, Mismatches: 39, Indels: 84
0.72 0.09 0.19
Matches are distributed among these distances:
39 1 0.00
40 6 0.02
41 3 0.01
42 24 0.07
43 27 0.08
44 1 0.00
45 18 0.06
46 6 0.02
47 1 0.00
48 25 0.08
49 124 0.39
50 32 0.10
51 4 0.01
52 12 0.04
53 4 0.01
54 19 0.06
55 14 0.04
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.26
Consensus pattern (48 bp):
AATTTAAATGAAATGAGAAAAAATTTAATTTAAATGAAATGAGAAAAA
Found at i:66392755 original size:16 final size:17
Alignment explanation
Indices: 66392729--66392761 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
66392719 GAAATAAGGA
*
66392729 AAAAAATTAATTTAAAT
1 AAAAAATTAATATAAAT
66392746 AAAAAA-TAATATAAAT
1 AAAAAATTAATATAAAT
66392762 GAAATGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAAATTAATATAAAT
Found at i:66392762 original size:43 final size:43
Alignment explanation
Indices: 66392660--66392810 Score: 162
Period size: 43 Copynumber: 3.4 Consensus size: 43
66392650 GGAAAAAATT
*
66392660 TAATTTAAATGAAATGA-GAAAAAAATTTAATTAAAATTGAAAGAAAGA
1 TAATTTAAATGAAATGAGGAAAAAAA-TTAATTTAAA-T--AA-AAA-A
*
66392708 TAAATTTAAATGAAATAAGGAAAAAAATTAATTTAAATAAAAAA
1 T-AATTTAAATGAAATGAGGAAAAAAATTAATTTAAATAAAAAA
* * * * *
66392752 TAATATAAATGAAATGAGAAAAAAAATTAAATTGAA-AAAATA
1 TAATTTAAATGAAATGAGGAAAAAAATTAATTTAAATAAAAAA
66392794 TAATTTAAATGAAATGA
1 TAATTTAAATGAAATGA
66392811 AAATGAAAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
42 21 0.23
43 30 0.33
44 2 0.02
45 3 0.03
46 2 0.02
48 2 0.02
49 24 0.26
50 8 0.09
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (43 bp):
TAATTTAAATGAAATGAGGAAAAAAATTAATTTAAATAAAAAA
Found at i:66392830 original size:17 final size:17
Alignment explanation
Indices: 66392800--66392833 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
66392790 AATATAATTT
66392800 AAATGAAATGAAAATGA
1 AAATGAAATGAAAATGA
66392817 AAATGGAAAT-AAAATGA
1 AAAT-GAAATGAAAATGA
66392834 GAATAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.18
Consensus pattern (17 bp):
AAATGAAATGAAAATGA
Found at i:66393271 original size:5 final size:5
Alignment explanation
Indices: 66393257--66393332 Score: 62
Period size: 5 Copynumber: 13.8 Consensus size: 5
66393247 CAAATGAAAT
* *
66393257 ATGAA TATGAA ATGAA ATGAA ATTTGTA ATGAA TATGAA ATTAA ATGAA
1 ATGAA -ATGAA ATGAA ATGAA A--TGAA ATGAA -ATGAA ATGAA ATGAA
*
66393306 ATGTTAA ATGAA TATAAA ATGAA ATGA
1 ATG--AA ATGAA -ATGAA ATGAA ATGA
66393333 TGATTATGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
5 35 0.60
6 14 0.24
7 9 0.16
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (5 bp):
ATGAA
Found at i:66393274 original size:23 final size:24
Alignment explanation
Indices: 66393248--66393351 Score: 79
Period size: 23 Copynumber: 4.2 Consensus size: 24
66393238 AAATTTAATC
*
66393248 AAATGAAAT-ATGAATATGAAATG
1 AAATGAAATAATGAATATGAAATA
*
66393271 AAATGAAATTTGTAATGAATATGAAATT
1 AAATGAAA----TAATGAATATGAAATA
* *
66393299 AAATGAAAT-GTTAA-ATGAATATA
1 AAATGAAATAATGAATATGAA-ATA
* *
66393322 AAATGAAATGATGATTATGAAATA
1 AAATGAAATAATGAATATGAAATA
*
66393346 GAATGA
1 AAATGA
66393352 GATTTAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
22 5 0.08
23 22 0.34
24 11 0.17
25 5 0.08
27 1 0.02
28 21 0.32
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (24 bp):
AAATGAAATAATGAATATGAAATA
Found at i:66393279 original size:28 final size:26
Alignment explanation
Indices: 66393248--66393332 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 26
66393238 AAATTTAATC
66393248 AAATGAAATATGAATATGAAATGAAATG
1 AAATG-AA-ATGAATATGAAATGAAATG
* *
66393276 AAATTTGTAATGAATATGAAATTAAATG
1 AAA--TGAAATGAATATGAAATGAAATG
*
66393304 AAATGTTAAATGAATATAAAATGAAATG
1 AAATG--AAATGAATATGAAATGAAATG
66393332 A
1 A
66393333 TGATTATGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
26 2 0.04
28 43 0.90
29 1 0.02
30 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.29
Consensus pattern (26 bp):
AAATGAAATGAATATGAAATGAAATG
Found at i:66397421 original size:29 final size:29
Alignment explanation
Indices: 66397375--66397431 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
66397365 GTCTTTTCTT
* *
66397375 AATTTATTTCATAGTATAATAATATAATC
1 AATTTATTTCATAATATAATAAAATAATC
66397404 AATTTAATTT-ATAATATAATAAAATAAT
1 AATTT-ATTTCATAATATAATAAAATAAT
66397432 AAATAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (29 bp):
AATTTATTTCATAATATAATAAAATAATC
Found at i:66397610 original size:19 final size:20
Alignment explanation
Indices: 66397579--66397623 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
66397569 GAAAAATGAT
66397579 TTCTGGAAAATGATTTACTG
1 TTCTGGAAAATGATTTACTG
*
66397599 TTCTGG-AAATGATTTACTT
1 TTCTGGAAAATGATTTACTG
66397618 TTCTGG
1 TTCTGG
66397624 TATTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.44
Consensus pattern (20 bp):
TTCTGGAAAATGATTTACTG
Found at i:66404163 original size:22 final size:22
Alignment explanation
Indices: 66404135--66404181 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
66404125 TTCTCCTTAT
66404135 AGCAAAGAAATGACACACAATA
1 AGCAAAGAAATGACACACAATA
66404157 AGCAAAGAAATGACACACAATA
1 AGCAAAGAAATGACACACAATA
66404179 AGC
1 AGC
66404182 TTTCTTGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.57, C:0.19, G:0.15, T:0.09
Consensus pattern (22 bp):
AGCAAAGAAATGACACACAATA
Found at i:66405448 original size:18 final size:18
Alignment explanation
Indices: 66405425--66405482 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
66405415 TTTGATTATT
66405425 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* * *
66405443 GTTATTCAGTATCAAAC-
1 GTTATTCAATAACAATCA
66405460 G--A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
66405475 GTTATTCA
1 GTTATTCA
66405483 GTCCAGTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 9 0.30
15 2 0.07
17 2 0.07
18 17 0.57
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:66406516 original size:37 final size:33
Alignment explanation
Indices: 66406435--66406506 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 33
66406425 TATTTATCAT
66406435 ATAAAA-ATC-TTTTACTAATTAATAATAAATA
1 ATAAAATATCATTTTACTAATTAATAATAAATA
66406466 ATAAAATATCATTTTACTAATT-ATATATAAATA
1 ATAAAATATCATTTTACTAATTAATA-ATAAATA
66406499 ATACAAAT
1 ATA-AAAT
66406507 GTCCTCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 6 0.16
33 21 0.57
34 4 0.11
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAATATCATTTTACTAATTAATAATAAATA
Found at i:66407408 original size:21 final size:22
Alignment explanation
Indices: 66407384--66407425 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
66407374 AAACACTCTA
66407384 AAAATT-AATACAAAAA-AATAT
1 AAAATTCAA-ACAAAAATAATAT
66407405 AAAATTCAAACAAAAATAATA
1 AAAATTCAAACAAAAATAATA
66407426 CGCACTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAATTCAAACAAAAATAATAT
Found at i:66407568 original size:90 final size:88
Alignment explanation
Indices: 66407345--66407587 Score: 278
Period size: 90 Copynumber: 2.7 Consensus size: 88
66407335 AGAAATTGAC
* * *
66407345 AAATTAAATTTACAGACA-CAATAAAATACAAACACTCTAAAAATTAATACAAAAAAATATAAAA
1 AAATTAAATTTACAGACATCAAAAAAATACAAACATTCTAAAAATTAATACAAGAAAATATAAAA
66407409 TTCAAACAAAAATAATACGCACT
66 TTCAAACAAAAATAATACGCACT
* * * *
66407432 AAATTAAATTTA-A-ACACTCAACAAAATACAAACATATGGGT-AAAATTAATACACGAAAATTT
1 AAATTAAATTTACAGACA-TCAAAAAAATACAAACAT-T--CTAAAAATTAATACAAGAAAATAT
* * * *
66407494 TAAATTCAAACTACATATAATACGGACT
62 AAAATTCAAAC-AAAAATAATACGCACT
* * *
66407522 AAATTAAATTTACAGATATAAAAAAAATTCAAACATTCTAAGAAATTAATACAAGAAAATATAAA
1 AAATTAAATTTACAGACATCAAAAAAATACAAACATTCTAA-AAATTAATACAAGAAAATATAAA
66407587 A
65 A
66407588 AATGAATCCT
Statistics
Matches: 128, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
85 3 0.02
86 1 0.01
87 27 0.21
88 2 0.02
89 29 0.23
90 48 0.38
91 16 0.12
92 2 0.02
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.25
Consensus pattern (88 bp):
AAATTAAATTTACAGACATCAAAAAAATACAAACATTCTAAAAATTAATACAAGAAAATATAAAA
TTCAAACAAAAATAATACGCACT
Found at i:66408133 original size:27 final size:27
Alignment explanation
Indices: 66408095--66408160 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
66408085 TTCAGTTATA
* *
66408095 CACTACGAAAAACTCCCATCTACAATC
1 CACTACAAAAAACTCCCATATACAATC
*
66408122 CACTACAAAAAACTTCCATATACAATC
1 CACTACAAAAAACTCCCATATACAATC
66408149 CACTACAAAAAA
1 CACTACAAAAAA
66408161 AATCATTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (27 bp):
CACTACAAAAAACTCCCATATACAATC
Found at i:66408464 original size:46 final size:44
Alignment explanation
Indices: 66408321--66408465 Score: 141
Period size: 46 Copynumber: 3.2 Consensus size: 44
66408311 ATATTTTTCT
* * * *
66408321 CTCTAGTGCCAGCCATTACATGGCCAGCA-ACAAATTTTTTTTTA
1 CTCTGGTG-CAGCCAATACATGCCCAGCACCCAAATTTTTTTTTA
* * *
66408365 CTCTGGTGCCGACCAATA-ACTGCCCAACACCCCAATTTTTTTTTA
1 CTCTGGTGCAG-CCAATACA-TGCCCAGCACCCAAATTTTTTTTTA
* *
66408410 TTTTTGGTGACAGCCAATACATGCCCAGCACCCAAATTTTTTTTTTA
1 -CTCTGGTG-CAGCCAATACATGCCCAGCACCCAAA-TTTTTTTTTA
66408457 CTCTGGTGC
1 CTCTGGTGC
66408466 CGATCATTAC
Statistics
Matches: 80, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
43 3 0.04
44 19 0.24
45 14 0.17
46 31 0.39
47 13 0.16
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (44 bp):
CTCTGGTGCAGCCAATACATGCCCAGCACCCAAATTTTTTTTTA
Found at i:66408477 original size:46 final size:45
Alignment explanation
Indices: 66408337--66408499 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 45
66408327 TGCCAGCCAT
* *
66408337 TACATGGCCAGCA-ACAAATTTTTTTTTACTCTGGTGCCGACCAA
1 TACATGCCCAGCACCCAAATTTTTTTTTACTCTGGTGCCGACCAA
* * * * *
66408381 TA-ACTGCCCAACACCCCAATTTTTTTTTATTTTTGGTGAC-AGCCAA
1 TACA-TGCCCAGCACCCAAATTTTTTTTTA-CTCTGGTGCCGA-CCAA
* *
66408427 TACATGCCCAGCACCCAAATTTTTTTTTTACTCTGGTGCCGATCAT
1 TACATGCCCAGCACCCAAA-TTTTTTTTTACTCTGGTGCCGACCAA
* * *
66408473 TACATGGCTAG-AACC-AATTTTTTTTTA
1 TACATGCCCAGCACCCAAATTTTTTTTTA
66408500 AAAATTACTG
Statistics
Matches: 95, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
43 11 0.12
44 11 0.12
45 17 0.18
46 44 0.46
47 12 0.13
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.37
Consensus pattern (45 bp):
TACATGCCCAGCACCCAAATTTTTTTTTACTCTGGTGCCGACCAA
Found at i:66408659 original size:113 final size:114
Alignment explanation
Indices: 66408459--66408714 Score: 406
Period size: 113 Copynumber: 2.2 Consensus size: 114
66408449 TTTTTTTACT
* * * *
66408459 CTGGTGCCGATCATTACATGGCTAGAACCAATTTTTTTTTAAAAATTACTGGTCTGGTGCCGACC
1 CTGGTGCCGACCATTAGAAGGCCAGAACCAATTTTTTTTT-AAAATTACTGGTCTGGTGCCGACC
*
66408524 ATCAGTGTAGAAAAGTAAAAAAAAATTGCATTGGGACATGAAAAAAGTCC
65 ATCAGTGTACAAAAGTAAAAAAAAATTGCATTGGGACATGAAAAAAGTCC
* *
66408574 CTGGTGCCGACCATTAGAAGGCCAGAACCAATTTTTTTTT-AAATTACTGGTCTGGTGCTGGCCA
1 CTGGTGCCGACCATTAGAAGGCCAGAACCAATTTTTTTTTAAAATTACTGGTCTGGTGCCGACCA
*
66408638 TCAGTGTACAAAAGTAAAAAAAAATTGCGTTGGGACATGAAAAAAGTCC
66 TCAGTGTACAAAAGTAAAAAAAAATTGCATTGGGACATGAAAAAAGTCC
* *
66408687 CTAGTGCCGGCCATTAGAAGGCCAGAAC
1 CTGGTGCCGACCATTAGAAGGCCAGAAC
66408715 AAAAAAAAAT
Statistics
Matches: 131, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
113 95 0.73
115 36 0.27
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (114 bp):
CTGGTGCCGACCATTAGAAGGCCAGAACCAATTTTTTTTTAAAATTACTGGTCTGGTGCCGACCA
TCAGTGTACAAAAGTAAAAAAAAATTGCATTGGGACATGAAAAAAGTCC
Found at i:66410717 original size:21 final size:21
Alignment explanation
Indices: 66410693--66410735 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
66410683 AATACGCAAG
*
66410693 AAAAATAAAATAATAATTTAA
1 AAAAAGAAAATAATAATTTAA
66410714 AAAAAGAAAATAATAATTTAA
1 AAAAAGAAAATAATAATTTAA
66410735 A
1 A
66410736 GGAGATTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAAGAAAATAATAATTTAA
Found at i:66413004 original size:342 final size:342
Alignment explanation
Indices: 66412373--66413060 Score: 1349
Period size: 342 Copynumber: 2.0 Consensus size: 342
66412363 GTCAAACTTC
*
66412373 GGACATTGCTTGATGGGATGACCTGGGTTCACGGCGTACGAATCCCCTCCCTACATGCGTACTCT
1 GGACATTGCTTGATGGGATGACCTAGGTTCACGGCGTACGAATCCCCTCCCTACATGCGTACTCT
66412438 CGATGTTGCAGTGAAGGTGGTTTAAAATTCCTAGACCTTCCTCATAAAATACCAAGGTATGCGAC
66 CGATGTTGCAGTGAAGGTGGTTTAAAATTCCTAGACCTTCCTCATAAAATACCAAGGTATGCGAC
66412503 TTCGGCAATAAATTTTGGCCATTTAGAGGTTGGGATAGAGTTTGACTCCAAATATTCTTTTGTAG
131 TTCGGCAATAAATTTTGGCCATTTAGAGGTTGGGATAGAGTTTGACTCCAAATATTCTTTTGTAG
66412568 CTACAATCAAGCGGTATAACATACAACTTAGTGTCAACTTCATCGCTACATTGATGATCGCTATA
196 CTACAATCAAGCGGTATAACATACAACTTAGTGTCAACTTCATCGCTACATTGATGATCGCTATA
66412633 CTAACTAAAAATTCTACTAAGGCAAGCTCACCTATCGAACAGTAGTATAGTTAAGGTGAGACCGA
261 CTAACTAAAAATTCTACTAAGGCAAGCTCACCTATCGAACAGTAGTATAGTTAAGGTGAGACCGA
66412698 AAATATCATATCCACAA
326 AAATATCATATCCACAA
*
66412715 GGACATTGCTTGATGGGATGACCTAGGTTCACGGCGTACGAATCCCCTCCCTACATGCGTATTCT
1 GGACATTGCTTGATGGGATGACCTAGGTTCACGGCGTACGAATCCCCTCCCTACATGCGTACTCT
66412780 CGATGTTGCAGTGAAGGTGGTTTAAAATTCCTAGACCTTCCTCATAAAATACCAAGGTATGCGAC
66 CGATGTTGCAGTGAAGGTGGTTTAAAATTCCTAGACCTTCCTCATAAAATACCAAGGTATGCGAC
66412845 TTCGGCAATAAATTTTGGCCATTTAGAGGTTGGGATAGAGTTTGACTCCAAATATTCTTTTGTAG
131 TTCGGCAATAAATTTTGGCCATTTAGAGGTTGGGATAGAGTTTGACTCCAAATATTCTTTTGTAG
66412910 CTACAATCAAGCGGTATAACATACAACTTAGTGTCAACTTCATCGCTACATTGATGATCGCTATA
196 CTACAATCAAGCGGTATAACATACAACTTAGTGTCAACTTCATCGCTACATTGATGATCGCTATA
*
66412975 CTAACTAAAAATTCTACTAAGGTAAGCTCACCTATCGAACAGTAGTATAGTTAAGGTGAGACCGA
261 CTAACTAAAAATTCTACTAAGGCAAGCTCACCTATCGAACAGTAGTATAGTTAAGGTGAGACCGA
66413040 AAATATCATATCCACAA
326 AAATATCATATCCACAA
66413057 GGAC
1 GGAC
66413061 TAAAAGTATT
Statistics
Matches: 343, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
342 343 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (342 bp):
GGACATTGCTTGATGGGATGACCTAGGTTCACGGCGTACGAATCCCCTCCCTACATGCGTACTCT
CGATGTTGCAGTGAAGGTGGTTTAAAATTCCTAGACCTTCCTCATAAAATACCAAGGTATGCGAC
TTCGGCAATAAATTTTGGCCATTTAGAGGTTGGGATAGAGTTTGACTCCAAATATTCTTTTGTAG
CTACAATCAAGCGGTATAACATACAACTTAGTGTCAACTTCATCGCTACATTGATGATCGCTATA
CTAACTAAAAATTCTACTAAGGCAAGCTCACCTATCGAACAGTAGTATAGTTAAGGTGAGACCGA
AAATATCATATCCACAA
Found at i:66419385 original size:11 final size:11
Alignment explanation
Indices: 66419359--66419422 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
66419349 TGAAAATTGG
*
66419359 AAATAGAAATAA
1 AAATA-AAAGAA
66419371 AAATAAAAGAA
1 AAATAAAAGAA
66419382 AAATAAAA-ACA
1 AAATAAAAGA-A
* *
66419393 AAAGGAAAAGCA
1 AAA-TAAAAGAA
66419405 AAAT-AAAGTAA
1 AAATAAAAG-AA
66419416 AAATAAA
1 AAATAAA
66419423 TGGACTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
10 5 0.12
11 22 0.52
12 15 0.36
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (11 bp):
AAATAAAAGAA
Found at i:66419386 original size:23 final size:22
Alignment explanation
Indices: 66419359--66419422 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
66419349 TGAAAATTGG
66419359 AAATAGAAATAAAAATAAAAGAA
1 AAATA-AAATAAAAATAAAAGAA
* *
66419382 AAATAAAA-ACAAAAGGAAAAGCA
1 AAATAAAATA-AAAA-TAAAAGAA
*
66419405 AAATAAAGTAAAAATAAA
1 AAATAAAATAAAAATAAA
66419423 TGGACTCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 1 0.03
22 10 0.29
23 22 0.65
24 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (22 bp):
AAATAAAATAAAAATAAAAGAA
Found at i:66419387 original size:17 final size:17
Alignment explanation
Indices: 66419365--66419422 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
66419355 TTGGAAATAG
66419365 AAATAAAAATAAAAGAA
1 AAATAAAAATAAAAGAA
* *
66419382 AAATAAAAACAAAAGGA
1 AAATAAAAATAAAAGAA
**
66419399 AAAGCAAAAT-AAAGTAA
1 AAATAAAAATAAAAG-AA
66419416 AAATAAA
1 AAATAAA
66419423 TGGACTCAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 4 0.12
17 28 0.88
ACGTcount: A:0.78, C:0.03, G:0.09, T:0.10
Consensus pattern (17 bp):
AAATAAAAATAAAAGAA
Found at i:66427642 original size:23 final size:23
Alignment explanation
Indices: 66427615--66427658 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
66427605 AGAAAAGAAA
66427615 AAATT-AAACTAAAAATAAAAAGT
1 AAATTGAAA-TAAAAATAAAAAGT
*
66427638 AAATTGAAATAAAAGTAAAAA
1 AAATTGAAATAAAAATAAAAA
66427659 TGGTTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (23 bp):
AAATTGAAATAAAAATAAAAAGT
Found at i:66437676 original size:7 final size:7
Alignment explanation
Indices: 66437659--66437707 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
66437649 AAAGAAAAAG
66437659 TAAATTAA
1 TAAA-TAA
66437667 TAAATAA
1 TAAATAA
66437674 TAAATAA
1 TAAATAA
*
66437681 GAAA-AA
1 TAAATAA
66437687 GTAAATTAA
1 -TAAA-TAA
66437696 TAAATAA
1 TAAATAA
66437703 TAAAT
1 TAAAT
66437708 TAAATTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 2 0.06
7 24 0.67
8 8 0.22
9 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (7 bp):
TAAATAA
Found at i:66437683 original size:29 final size:29
Alignment explanation
Indices: 66437650--66437707 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
66437640 TGTCAAGAGA
66437650 AAGAAAAAGTAAATTAATAAATAATAAAT
1 AAGAAAAAGTAAATTAATAAATAATAAAT
66437679 AAGAAAAAGTAAATTAATAAATAATAAAT
1 AAGAAAAAGTAAATTAATAAATAATAAAT
66437708 TAAATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (29 bp):
AAGAAAAAGTAAATTAATAAATAATAAAT
Found at i:66437713 original size:5 final size:5
Alignment explanation
Indices: 66437703--66437733 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
66437693 TAATAAATAA
*
66437703 TAAAT TAAAT TAAAT GAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
66437734 GTAAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (5 bp):
TAAAT
Found at i:66441421 original size:63 final size:62
Alignment explanation
Indices: 66441311--66441554 Score: 283
Period size: 63 Copynumber: 3.9 Consensus size: 62
66441301 TACCTATTGA
* * ** * *
66441311 GAAGGTGTTGATGCATGAAATGATTGTGGGTGTTATGGT-TCTTGTGTAAAATAAATTGGTGCT
1 GAAGGTGTTGATG-AGGGAATGATTGTGCATGTTGTGGTGT-TTGTGTAAAATAAATTGGAGCT
* * * *
66441374 GAATGTATTAATGTAGGGAATGATTGTACATGTTGTGGTGTTTGTGTAAAATAAATTGGAGCT
1 GAAGGTGTTGATG-AGGGAATGATTGTGCATGTTGTGGTGTTTGTGTAAAATAAATTGGAGCT
* * * * * *
66441437 GAAGGTGTTGATGAGGGGAATGATTGTGCGTGCTATGGTGTTTGTGTAAAATAAACTAGAGTT
1 GAAGGTGTTGATGA-GGGAATGATTGTGCATGTTGTGGTGTTTGTGTAAAATAAATTGGAGCT
*
66441500 GAAGGTGTTGATGCAGGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAA
1 GAAGGTGTTGATG-AGGGAATGATTGTGCATGTTGTGGTGTTTGTGTAAAATAAA
66441555 CTAGGTTAGC
Statistics
Matches: 153, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
62 1 0.01
63 150 0.98
64 2 0.01
ACGTcount: A:0.27, C:0.05, G:0.32, T:0.36
Consensus pattern (62 bp):
GAAGGTGTTGATGAGGGAATGATTGTGCATGTTGTGGTGTTTGTGTAAAATAAATTGGAGCT
Found at i:66441521 original size:126 final size:126
Alignment explanation
Indices: 66441311--66441554 Score: 330
Period size: 126 Copynumber: 1.9 Consensus size: 126
66441301 TACCTATTGA
* * * * * *
66441311 GAAGGTGTTGATGCATGAAATGATTGTGGGTGTTATGGTTCTTGTGTAAAATAAATTGGTGCTGA
1 GAAGGTGTTGATGCAGGAAATGATTGTGCGTGCTATGGTTCTTGTGTAAAATAAACTAGAGCTGA
* * *
66441376 ATGTATTAATGTAGGGAATGATTGTACATGTTGTGGTGTTTGTGTAAAATAAATTGGAGCT
66 AGGTATTAATGCAGGGAATGATTGTACATGTTGTGGTGCTTGTGTAAAATAAATTGGAGCT
* *
66441437 GAAGGTGTTGATG-AGGGGAATGATTGTGCGTGCTATGGTGT-TTGTGTAAAATAAACTAGAGTT
1 GAAGGTGTTGATGCA-GGAAATGATTGTGCGTGCTATGGT-TCTTGTGTAAAATAAACTAGAGCT
* * *
66441500 GAAGGTGTTGATGCAGGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAA
64 GAAGGTATTAATGCAGGGAATGATTGTACATGTTGTGGTGCTTGTGTAAAATAAA
66441555 CTAGGTTAGC
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
125 1 0.01
126 100 0.98
127 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.32, T:0.36
Consensus pattern (126 bp):
GAAGGTGTTGATGCAGGAAATGATTGTGCGTGCTATGGTTCTTGTGTAAAATAAACTAGAGCTGA
AGGTATTAATGCAGGGAATGATTGTACATGTTGTGGTGCTTGTGTAAAATAAATTGGAGCT
Found at i:66443282 original size:7 final size:7
Alignment explanation
Indices: 66443270--66443388 Score: 103
Period size: 7 Copynumber: 17.0 Consensus size: 7
66443260 TAAAAATAAT
66443270 AATTGAG
1 AATTGAG
66443277 AATTGAG
1 AATTGAG
*
66443284 GATTGAG
1 AATTGAG
66443291 AATTGAG
1 AATTGAG
*
66443298 AATTTAG
1 AATTGAG
*
66443305 AATTTAG
1 AATTGAG
*
66443312 AATTTAG
1 AATTGAG
*
66443319 AATTTAG
1 AATTGAG
*
66443326 AATTTAG
1 AATTGAG
*
66443333 AATTGAA
1 AATTGAG
*
66443340 AATTAAG
1 AATTGAG
*
66443347 GATTGAG
1 AATTGAG
*
66443354 AATTTAG
1 AATTGAG
* *
66443361 GACTGAG
1 AATTGAG
*
66443368 GATTGAG
1 AATTGAG
*
66443375 GATTGAG
1 AATTGAG
*
66443382 TATTGAG
1 AATTGAG
66443389 TTGAAAAGAA
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 96 1.00
ACGTcount: A:0.39, C:0.01, G:0.26, T:0.34
Consensus pattern (7 bp):
AATTGAG
Done.