Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 200 of 203
Found at i:63913940 original size:48 final size:52
Alignment explanation
Indices: 63913870--63913968 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
63913860 AATAATTATT
63913870 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
63913918 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
63913969 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:63913950 original size:17 final size:17
Alignment explanation
Indices: 63913925--63913958 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
63913915 ATAATTTTAA
*
63913925 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
63913942 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
63913959 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:63913975 original size:17 final size:16
Alignment explanation
Indices: 63913930--63913977 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
63913920 TTTAAATTTT
63913930 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
63913947 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
63913961 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
63913978 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:63914052 original size:16 final size:16
Alignment explanation
Indices: 63914031--63914072 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
63914021 TTATTAAATT
*
63914031 ATATATTTTAATTATA
1 ATATATTTTAATAATA
63914047 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
63914062 AT-TATGTTTAA
1 ATATAT-TTTAA
63914073 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:63914057 original size:15 final size:15
Alignment explanation
Indices: 63914022--63914063 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
63914012 TTAAGAATTT
*
63914022 TATTAAATTAT-ATA
1 TATTTAATTATAATA
63914036 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
63914050 TATTTAATAATAAT
1 TATTTAATTATAAT
63914064 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:63914175 original size:154 final size:156
Alignment explanation
Indices: 63914006--63914319 Score: 578
Period size: 154 Copynumber: 2.0 Consensus size: 156
63913996 ATAAGAATAT
*
63914006 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
63914071 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
63914134 AATAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
63914160 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
63914225 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
63914290 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
63914317 TAA
1 TAA
63914320 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 92 0.60
155 2 0.01
157 60 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:63914200 original size:18 final size:17
Alignment explanation
Indices: 63914172--63914206 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
63914162 ATTATTAAGA
*
63914172 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
63914189 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
63914207 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:63914240 original size:75 final size:75
Alignment explanation
Indices: 63914007--63914242 Score: 212
Period size: 75 Copynumber: 3.1 Consensus size: 75
63913997 TAAGAATATT
*
63914007 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
63914072 AATATGATTA
66 AATATGATTA
* ** * * * * * * *
63914082 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
63914143 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
63914157 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
63914222 TTTAAATATGATTA
62 TTTAAATATGATTA
63914236 AATTATT
1 AATTATT
63914243 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
74 1 0.01
75 30 0.26
76 28 0.24
77 6 0.05
78 27 0.23
79 23 0.20
80 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:63914471 original size:16 final size:16
Alignment explanation
Indices: 63914452--63914508 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
63914442 ACACAGCTTT
*
63914452 TCCATTACACCTCTAA
1 TCCAATACACCTCTAA
63914468 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
63914484 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
*
63914500 GCCAATACA
1 TCCAATACA
63914509 GCAAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.25
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:63918467 original size:19 final size:19
Alignment explanation
Indices: 63918443--63918480 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
63918433 TTAAATTAAA
*
63918443 TTTTTTTATTTTTAATATT
1 TTTTTTTATTTTGAATATT
63918462 TTTTTTTATTTTGAATATT
1 TTTTTTTATTTTGAATATT
63918481 CCAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTTTTATTTTGAATATT
Found at i:63919435 original size:9 final size:10
Alignment explanation
Indices: 63919414--63919447 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
63919404 ATAAAGTAAG
63919414 TTATATATATA
1 TTAT-TATATA
63919425 TTATT-TATA
1 TTATTATATA
63919434 TTATTATATA
1 TTATTATATA
63919444 TTAT
1 TTAT
63919448 GATTTTAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 9 0.41
11 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATTATATA
Found at i:63919742 original size:44 final size:45
Alignment explanation
Indices: 63919679--63919772 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 45
63919669 TATTACAACA
*
63919679 TCATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATT
1 TCATTCCATTCAACCAAACA-ATAGAATTACTATTACAGCTCTATT
*
63919723 TCATTCCATTCAACCAAACAATTGAATTACTATTACAGCTCTATT
1 TCATTCCATTCAACCAAACAATAGAATTACTATTACAGCTCTATT
*
63919768 CCATT
1 TCATT
63919773 ACACCTCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (45 bp):
TCATTCCATTCAACCAAACAATAGAATTACTATTACAGCTCTATT
Found at i:63919775 original size:16 final size:16
Alignment explanation
Indices: 63919754--63919793 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
63919744 TTGAATTACT
63919754 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
63919770 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
63919786 ATTACAGC
1 ATTACAGC
63919794 GAACCAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:63923437 original size:17 final size:17
Alignment explanation
Indices: 63923401--63923443 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
63923391 TTGATTACCG
*
63923401 AATTAAATTAATTCTAT
1 AATTAAATTAATTCGAT
* *
63923418 AATTAATTTAATTCGGT
1 AATTAAATTAATTCGAT
*
63923435 AATCAAATT
1 AATTAAATT
63923444 TCCAACACAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (17 bp):
AATTAAATTAATTCGAT
Found at i:63931952 original size:35 final size:35
Alignment explanation
Indices: 63931908--63932000 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 35
63931898 TTGTTATGCA
* * *
63931908 AACCCATGTTGTTATGTGGACCTGTGCTATATGCG
1 AACCCATGTTGTTATGTGAACCTATGCTATAAGCG
** *
63931943 AACTTATGTTGTTATGTGAACCTATGTTATAAGCG
1 AACCCATGTTGTTATGTGAACCTATGCTATAAGCG
*
63931978 AACCCATGATGTTATGTGAACCT
1 AACCCATGTTGTTATGTGAACCT
63932001 TTGTTGTTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (35 bp):
AACCCATGTTGTTATGTGAACCTATGCTATAAGCG
Found at i:63931963 original size:18 final size:18
Alignment explanation
Indices: 63931886--63932011 Score: 87
Period size: 18 Copynumber: 7.1 Consensus size: 18
63931876 CCAATGATTG
63931886 TGTGAA-CTCATGTTGTTA
1 TGTGAACCT-ATGTTGTTA
** *
63931904 TGCAAACCCATGTTGTTA
1 TGTGAACCTATGTTGTTA
* * * *
63931922 TGTGGACCTGTGCT-ATA
1 TGTGAACCTATGTTGTTA
* *
63931939 TGCGAACTTATGTTGTTA
1 TGTGAACCTATGTTGTTA
*
63931957 TGTGAACCTATGTT-ATA
1 TGTGAACCTATGTTGTTA
* * * *
63931974 AGCGAACCCATGATGTTA
1 TGTGAACCTATGTTGTTA
*
63931992 TGTGAACCTTTGTTGTTA
1 TGTGAACCTATGTTGTTA
63932010 TG
1 TG
63932012 CAAACATATG
Statistics
Matches: 76, Mismatches: 29, Indels: 6
0.68 0.26 0.05
Matches are distributed among these distances:
17 23 0.30
18 52 0.68
19 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (18 bp):
TGTGAACCTATGTTGTTA
Found at i:63949328 original size:38 final size:38
Alignment explanation
Indices: 63949286--63949363 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
63949276 GGATCCATTT
63949286 ACTATACAAAAACACATTTCTAATTGTCAAGAATCATC
1 ACTATACAAAAACACATTTCTAATTGTCAAGAATCATC
* * *
63949324 ACTATACAAAAAGACATTTTTAATTGTCAGGAATCATC
1 ACTATACAAAAACACATTTCTAATTGTCAAGAATCATC
63949362 AC
1 AC
63949364 ATTATCGCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (38 bp):
ACTATACAAAAACACATTTCTAATTGTCAAGAATCATC
Found at i:63974778 original size:10 final size:9
Alignment explanation
Indices: 63974755--63974779 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
63974745 TGTACATATA
63974755 CAAAAATGT
1 CAAAAATGT
63974764 CAAAAATGT
1 CAAAAATGT
63974773 CAAAAAT
1 CAAAAAT
63974780 ACTCTTGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.12, G:0.08, T:0.20
Consensus pattern (9 bp):
CAAAAATGT
Found at i:63989822 original size:23 final size:21
Alignment explanation
Indices: 63989780--63989831 Score: 50
Period size: 23 Copynumber: 2.4 Consensus size: 21
63989770 CATAAGTTTG
* *
63989780 ATATTATGTATTAATTAAAAT
1 ATATTATGTATTAATAAAAAA
*
63989801 ATATTATGTTTATTTATAAAAAA
1 ATATTATG--TATTAATAAAAAA
*
63989824 ATGTTATG
1 ATATTATG
63989832 AAAATTGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 8 0.32
23 17 0.68
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (21 bp):
ATATTATGTATTAATAAAAAA
Found at i:64000883 original size:22 final size:22
Alignment explanation
Indices: 64000836--64000883 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
64000826 TGTCTCATCC
64000836 AACAATTCAAAACAAAAATAAT
1 AACAATTCAAAACAAAAATAAT
* *
64000858 -ACAATCTCTAAATAAAAA-AAT
1 AACAAT-TCAAAACAAAAATAAT
64000879 AACAA
1 AACAA
64000884 ATTAATGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (22 bp):
AACAATTCAAAACAAAAATAAT
Found at i:64001505 original size:45 final size:45
Alignment explanation
Indices: 64001398--64001529 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
64001388 ACACAATCTA
* * * *
64001398 GTAGATGAAATATGCCTTTGGCTGTGGATTTCATAGTAAATAACTC
1 GTAGATGGAATATGCCTTTGGCTGTGGA-TACACAATAAATAACTC
** * * * *
64001444 ACAGATGGAATCTGCCTCTGGCTGTGGATACACAATAGATAACTT
1 GTAGATGGAATATGCCTTTGGCTGTGGATACACAATAAATAACTC
* * *
64001489 GTAGATGGAATATGCCTTTAGTTGTGGATACACAACAAATA
1 GTAGATGGAATATGCCTTTGGCTGTGGATACACAATAAATA
64001530 TTGCAAATAA
Statistics
Matches: 68, Mismatches: 18, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
45 45 0.66
46 23 0.34
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (45 bp):
GTAGATGGAATATGCCTTTGGCTGTGGATACACAATAAATAACTC
Found at i:64005653 original size:30 final size:31
Alignment explanation
Indices: 64005603--64005660 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
64005593 CATAATCTAT
*
64005603 TTTTATAAAAAAAGTATATAAATATTTAAAA
1 TTTTATAAAAAAAGTATATAAAAATTTAAAA
64005634 TTTTA-AAAGAAAA-TATATAAAAATTTA
1 TTTTATAAA-AAAAGTATATAAAAATTTA
64005661 TATAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (31 bp):
TTTTATAAAAAAAGTATATAAAAATTTAAAA
Found at i:64015680 original size:22 final size:22
Alignment explanation
Indices: 64015652--64015699 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
64015642 GATATTTTAA
64015652 ATATAAATATTTAATTTA-ATTT
1 ATATAAATATTT-ATTTATATTT
64015674 ATATAAATATTTATTTATATTT
1 ATATAAATATTTATTTATATTT
64015696 ATAT
1 ATAT
64015700 TTCTTCACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATAAATATTTATTTATATTT
Found at i:64015699 original size:16 final size:17
Alignment explanation
Indices: 64015658--64015701 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
64015648 TTAAATATAA
64015658 ATATTTA-ATTTAATTT
1 ATATTTATATTTAATTT
**
64015674 ATATAAATATTT-ATTT
1 ATATTTATATTTAATTT
64015690 ATATTTATATTT
1 ATATTTATATTT
64015702 CTTCACTAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATATTTATATTTAATTT
Found at i:64015942 original size:85 final size:85
Alignment explanation
Indices: 64015827--64016029 Score: 234
Period size: 85 Copynumber: 2.4 Consensus size: 85
64015817 AAAAATAAGA
* *
64015827 ATTAAATTGAATAAAATATG-TTCAGTGATTTATTCCCACCATTTAACAGATTTTATTCCATTTT
1 ATTAAATTGAATATAATTTGTTTCAG-GATTTATTCCCACCATTTAACAGATTTTATTCCATTTT
64015891 GATTTTGTTTCCAAACGAG-G
65 GATTTTGTTTCCAAACGAGAG
* * * ** *
64015911 ATTAAAATTGAATATAATTTGTTTCTGGATTTATTCCCGCCGTTTAGTAGATTTTATTCGATTTT
1 ATT-AAATTGAATATAATTTGTTTCAGGATTTATTCCCACCATTTAACAGATTTTATTCCATTTT
* *
64015976 GTTTTTGTTTCCAAATGAGAAG
65 GATTTTGTTTCCAAACGAG-AG
* * *
64015998 ATTTAATT-AA-ATAATTTTTTTCGGGATTTATT
1 ATTAAATTGAATATAATTTGTTTCAGGATTTATT
64016030 TTGACGCTTA
Statistics
Matches: 102, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
84 23 0.23
85 67 0.66
86 8 0.08
87 4 0.04
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (85 bp):
ATTAAATTGAATATAATTTGTTTCAGGATTTATTCCCACCATTTAACAGATTTTATTCCATTTTG
ATTTTGTTTCCAAACGAGAG
Found at i:64018760 original size:20 final size:21
Alignment explanation
Indices: 64018731--64018780 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
64018721 CATATATCCT
*
64018731 GATTTTATTTGATTCTAATCA
1 GATTTGATTTGATTCTAATCA
*
64018752 -ATTTGATTTGATTTTAATCA
1 GATTTGATTTGATTCTAATCA
64018772 GA-TTGATTT
1 GATTTGATTT
64018781 AATTGCTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (21 bp):
GATTTGATTTGATTCTAATCA
Found at i:64019250 original size:20 final size:21
Alignment explanation
Indices: 64019213--64019257 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
64019203 GATATTTTAA
64019213 ATATAAATATGTAATTTATTTT
1 ATATAAATATGTAATTTA-TTT
*
64019235 ATATAAATAT-T-TTTTATTT
1 ATATAAATATGTAATTTATTT
64019254 ATAT
1 ATAT
64019258 TTATATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 1 0.05
22 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATATAAATATGTAATTTATTT
Found at i:64020527 original size:24 final size:23
Alignment explanation
Indices: 64020491--64020535 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
64020481 TGATTATGTC
64020491 AATGCAATGTTTTTCAGAAAACAT
1 AATGCAA-GTTTTTCAGAAAACAT
64020515 AATGC-AGATTTTTCAGAAAAC
1 AATGCAAG-TTTTTCAGAAAAC
64020536 GTTCCTACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 14 0.70
24 5 0.25
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (23 bp):
AATGCAAGTTTTTCAGAAAACAT
Found at i:64022084 original size:24 final size:24
Alignment explanation
Indices: 64022017--64022084 Score: 57
Period size: 25 Copynumber: 2.8 Consensus size: 24
64022007 ATGAAAAGAA
**
64022017 AAAAATGGAAAGCAAGAAGAAAAGG
1 AAAAATGGACGGC-AGAAGAAAAGG
** *
64022042 AAAAA-AAACAGACATGAAGAAAAGG
1 AAAAATGGAC-GGCA-GAAGAAAAGG
64022067 AAAAATGGACGGCAGAAG
1 AAAAATGGACGGCAGAAG
64022085 TGGAGACCTT
Statistics
Matches: 32, Mismatches: 8, Indels: 7
0.68 0.17 0.15
Matches are distributed among these distances:
24 6 0.19
25 24 0.75
26 2 0.06
ACGTcount: A:0.62, C:0.07, G:0.26, T:0.04
Consensus pattern (24 bp):
AAAAATGGACGGCAGAAGAAAAGG
Found at i:64029217 original size:14 final size:14
Alignment explanation
Indices: 64029198--64029227 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
64029188 ACAAATTCAC
64029198 TAATGTGAGCCGAA
1 TAATGTGAGCCGAA
64029212 TAATGTGAGCCGAA
1 TAATGTGAGCCGAA
64029226 TA
1 TA
64029228 GACTCACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (14 bp):
TAATGTGAGCCGAA
Found at i:64030875 original size:43 final size:44
Alignment explanation
Indices: 64030828--64030916 Score: 162
Period size: 43 Copynumber: 2.0 Consensus size: 44
64030818 TCTCAATCAT
64030828 TCCATATTTTGCAATAGAATTCAATTCCTAAATAATT-ATTATC
1 TCCATATTTTGCAATAGAATTCAATTCCTAAATAATTCATTATC
*
64030871 TCCATATTTTGCAATAGAATTCAATTCCTAAATAATTCTTTATC
1 TCCATATTTTGCAATAGAATTCAATTCCTAAATAATTCATTATC
64030915 TC
1 TC
64030917 TATCTCACAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 37 0.84
44 7 0.16
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.43
Consensus pattern (44 bp):
TCCATATTTTGCAATAGAATTCAATTCCTAAATAATTCATTATC
Found at i:64032738 original size:127 final size:125
Alignment explanation
Indices: 64032511--64032907 Score: 416
Period size: 140 Copynumber: 3.0 Consensus size: 125
64032501 AATCCTAAGA
* * * * * *
64032511 CGACACTTCCCTAAGTGTTGGGATAGACTTGCGGACATACGTTTTGGCTAACTCTTTGTTTATGG
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGCGGACATACGCTTTGGCCAACTATTTGTATAAGG
* * ** *
64032576 GTCGAGATATGCATGCCTAAGGCAACGTTTAAATAAGAGTCGGCTTTCGTCCAACATTATGT
66 GTAGGGATATGCATGCCTAAGGCAAC-ACTAAATAAGAGTCGGCTTT-GTCCAACACTATGT
** *
64032638 CGACACTTTCCTAAGTGTTGGGATAGACTTGCCTACATACGCTTTGTCCAACTATTTGTATAAGG
1 CGACACTTTCCTAAGTGTTGGGATAGACTTGCGGACATACGCTTTGGCCAACTATTTGTATAAGG
*
64032703 GTAGGGATATGCATGCCTAAGGCAACACGTGAATAAGAGTCGGCTTTGTCCAACACTATGCCAAT
66 GTAGGGATATGCATGCCTAAGGCAACAC-TAAATAAGAGTCGGCTTTGTCCAACACTATG----T
* * * *
64032768 ACTTTTGGACCGACGCTTTCCTAAGTTTTGGGATAAACTTGCGGATATACACTTTGGCCAACTAT
1 -C-----GA-C-A--CTTTCCTAAGTGTTGGGATAGACTTGCGGACATACGCTTTGGCCAACTAT
* * * *
64032833 TTATATAAGGGTTGGGATACGCATGCCTAAGGCAACACTAAAATAAGAGTCGGCTTTGTACAACA
56 TTGTATAAGGGTAGGGATATGCATGCCTAAGGCAACACT-AAATAAGAGTCGGCTTTGTCCAACA
*
64032898 CTATGC
120 CTATGT
64032904 CGAC
1 CGAC
64032908 TTTAGTTATA
Statistics
Matches: 226, Mismatches: 28, Indels: 30
0.80 0.10 0.11
Matches are distributed among these distances:
126 12 0.05
127 97 0.43
129 1 0.00
130 3 0.01
131 1 0.00
135 1 0.00
136 2 0.01
137 1 0.00
138 1 0.00
139 1 0.00
140 106 0.47
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (125 bp):
CGACACTTTCCTAAGTGTTGGGATAGACTTGCGGACATACGCTTTGGCCAACTATTTGTATAAGG
GTAGGGATATGCATGCCTAAGGCAACACTAAATAAGAGTCGGCTTTGTCCAACACTATGT
Found at i:64041390 original size:23 final size:24
Alignment explanation
Indices: 64041364--64041411 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
64041354 ACTTCCATTT
64041364 TATTTTTAT-TCACTTTTCT-CTCA
1 TATTTTTATCTCA-TTTTCTCCTCA
*
64041387 TATTTTTCTCTCATTTTCTCCTCA
1 TATTTTTATCTCATTTTCTCCTCA
64041411 T
1 T
64041412 TCAACAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTTTTATCTCATTTTCTCCTCA
Found at i:64042474 original size:42 final size:42
Alignment explanation
Indices: 64042426--64042539 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 42
64042416 CTATTTTATT
*
64042426 AACTAATATTTGATTTGCATGTTAAGCATGCCAACTATGATA
1 AACTAATATTTGATTTGCATGTTAAGCATGCCAAATATGATA
* *
64042468 AACTAATATTTGATTTGCATGTTAAGCATGCCAAATATGTTG
1 AACTAATATTTGATTTGCATGTTAAGCATGCCAAATATGATA
* * * *
64042510 ATCTTAGATTTGATTTACATGTTAAGCATG
1 AACTAATATTTGATTTGCATGTTAAGCATG
64042540 TCGACTGATA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (42 bp):
AACTAATATTTGATTTGCATGTTAAGCATGCCAAATATGATA
Found at i:64042668 original size:24 final size:24
Alignment explanation
Indices: 64042630--64042746 Score: 112
Period size: 24 Copynumber: 4.9 Consensus size: 24
64042620 TTACTCCAAA
* *
64042630 ATTGAGTGACTTGTCCACAATGAT
1 ATTGAGTGGCTTGTCCACAACGAT
* *
64042654 ATTGAGTGGCATGTCCACAACGCT
1 ATTGAGTGGCTTGTCCACAACGAT
*
64042678 A-TAAGTGGCTTGTCCACAAC-ACT
1 ATTGAGTGGCTTGTCCACAACGA-T
* ** * *
64042701 AATGAGTGGCTTAACCAGAAAGAT
1 ATTGAGTGGCTTGTCCACAACGAT
*
64042725 ATTGAGTGGCTTGGCCACAACG
1 ATTGAGTGGCTTGTCCACAACG
64042747 TAAATGAGTG
Statistics
Matches: 73, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
23 19 0.26
24 53 0.73
25 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
ATTGAGTGGCTTGTCCACAACGAT
Found at i:64054387 original size:16 final size:16
Alignment explanation
Indices: 64054368--64054407 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
64054358 TATATATTAA
* *
64054368 TTTTATAATATTTTTT
1 TTTTATAACATTATTT
*
64054384 TTTTGTAACATTATTT
1 TTTTATAACATTATTT
64054400 TTTTATAA
1 TTTTATAA
64054408 AAAATTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTATAACATTATTT
Found at i:64054695 original size:18 final size:18
Alignment explanation
Indices: 64054660--64054701 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
64054650 TAACAGTAAA
64054660 ATTTTTAATATTTGATTT
1 ATTTTTAATATTTGATTT
64054678 -TTTTATAAT-TTTGTATTT
1 ATTTT-TAATATTTG-ATTT
64054696 ATTTTT
1 ATTTTT
64054702 GTTCTACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
17 8 0.38
18 9 0.43
19 4 0.19
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (18 bp):
ATTTTTAATATTTGATTT
Found at i:64055102 original size:23 final size:23
Alignment explanation
Indices: 64055076--64055122 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
64055066 ATGTGATAAT
64055076 TTCTTTAACTTAAATAAAAAAGA
1 TTCTTTAACTTAAATAAAAAAGA
* * *
64055099 TTCTTTAAGTTAAATGAAATAGA
1 TTCTTTAACTTAAATAAAAAAGA
64055122 T
1 T
64055123 AAATTGTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (23 bp):
TTCTTTAACTTAAATAAAAAAGA
Found at i:64055251 original size:19 final size:19
Alignment explanation
Indices: 64055192--64055264 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
64055182 CGAATGAAAT
64055192 ATCT-ATATAATTTATTTAA
1 ATCTAATATAATTTATTT-A
* * * * *
64055211 AACAAAATATTATTCATATA
1 ATC-TAATATAATTTATTTA
64055231 ATCTAATATAATTTATTTA
1 ATCTAATATAATTTATTTA
64055250 AT-TAA-AT-ATTTATTT
1 ATCTAATATAATTTATTT
64055265 TAAATTGAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
16 8 0.19
17 2 0.05
18 3 0.07
19 16 0.38
20 3 0.07
21 10 0.24
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATCTAATATAATTTATTTA
Found at i:64057966 original size:14 final size:14
Alignment explanation
Indices: 64057947--64057974 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64057937 CATTTTTATT
64057947 GATTTTTAAATGTC
1 GATTTTTAAATGTC
64057961 GATTTTTAAATGTC
1 GATTTTTAAATGTC
64057975 AAAATGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
GATTTTTAAATGTC
Found at i:64096778 original size:14 final size:14
Alignment explanation
Indices: 64096740--64096780 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
64096730 TCAATGCAGT
*
64096740 CCCGTGATGAAGTA
1 CCCGTGATGACGTA
*
64096754 CCAGTGATGACGTA
1 CCCGTGATGACGTA
64096768 CCCGTGATGACGT
1 CCCGTGATGACGT
64096781 CTGGAGCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (14 bp):
CCCGTGATGACGTA
Found at i:64101268 original size:27 final size:27
Alignment explanation
Indices: 64101238--64101304 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
64101228 ATGCAAGGGA
64101238 TGTGC-ATGGGCT-AGGGACAAGAAGCAG
1 TGTGCGAT-GGCTAAGGGA-AAGAAGCAG
64101265 TGTGCGATGGCTAAGGGAAAGAAGCAG
1 TGTGCGATGGCTAAGGGAAAGAAGCAG
*
64101292 CT-TGCGAGGGCTA
1 -TGTGCGATGGCTA
64101305 GAGTGTGAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 28 0.78
28 8 0.22
ACGTcount: A:0.28, C:0.15, G:0.40, T:0.16
Consensus pattern (27 bp):
TGTGCGATGGCTAAGGGAAAGAAGCAG
Found at i:64116448 original size:27 final size:27
Alignment explanation
Indices: 64116431--64116608 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
64116421 ATATTAAGTC
64116431 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
64116458 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
64116485 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *** ** *
64116513 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
64116540 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
64116567 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
64116594 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
64116609 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:64116570 original size:82 final size:81
Alignment explanation
Indices: 64116452--64116607 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
64116442 TGCTATATAA
* *
64116452 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
64116517 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
64116534 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
64116598 CACTTAGTGC
65 CACTTAGTGC
64116608 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:64116591 original size:54 final size:54
Alignment explanation
Indices: 64116431--64116607 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
64116421 ATATTAAGTC
* * * *
64116431 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
64116485 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
64116540 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
64116594 CGCACACTTAGTGC
1 CGCACACTTAGTGC
64116608 TGTACAATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 45 0.43
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:64123007 original size:14 final size:11
Alignment explanation
Indices: 64122976--64123019 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
64122966 ATTGGTTGAA
64122976 TATTTTATTAT
1 TATTTTATTAT
64122987 TATTTTATTAT
1 TATTTTATTAT
*
64122998 ATGATATTTATTAA
1 -T-AT-TTTATTAT
64123012 TATTTTAT
1 TATTTTAT
64123020 CTAATTAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 16 0.55
12 3 0.10
13 3 0.10
14 7 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:64130038 original size:18 final size:18
Alignment explanation
Indices: 64130003--64130047 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
64129993 TTAAGGAATA
* * *
64130003 ATGTATGTACATATATAT
1 ATGTATGAAAATACATAT
64130021 ATGTATGAAAATACATAT
1 ATGTATGAAAATACATAT
*
64130039 ATATATGAA
1 ATGTATGAA
64130048 TATGGCTAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (18 bp):
ATGTATGAAAATACATAT
Found at i:64132275 original size:29 final size:29
Alignment explanation
Indices: 64132253--64132307 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
64132243 AAAGGAATTT
* *
64132253 CCTTTGTGG-AAACTTTTGGAAAGGTACG
1 CCTTTGTGGCAAACCTTTGGAAAGGAACG
64132281 CCTTTGTGGCAAACCTTTGGAAAGGAA
1 CCTTTGTGGCAAACCTTTGGAAAGGAA
64132308 AGAAGGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (29 bp):
CCTTTGTGGCAAACCTTTGGAAAGGAACG
Found at i:64136834 original size:25 final size:25
Alignment explanation
Indices: 64136806--64136881 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
64136796 ATCTTATAAA
* * *
64136806 CTTACTGATACTCAGCTTGTATGAG
1 CTTACTGTTATTCAGCTAGTATGAG
* *
64136831 CTTACTGTTATTCAGCTAGAAGGAG
1 CTTACTGTTATTCAGCTAGTATGAG
*
64136856 CTTACTGTTATTCAGCTCGTATGAG
1 CTTACTGTTATTCAGCTAGTATGAG
64136881 C
1 C
64136882 ATATATGTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (25 bp):
CTTACTGTTATTCAGCTAGTATGAG
Found at i:64140739 original size:21 final size:22
Alignment explanation
Indices: 64140715--64140758 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
64140705 AAAATATAAG
*
64140715 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
64140736 TATTGAATATAACCAAATCATT
1 TATTGAATATAACCAAATCATT
64140758 T
1 T
64140759 TCATATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:64141446 original size:13 final size:13
Alignment explanation
Indices: 64141428--64141465 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
64141418 ACACTCAAAT
64141428 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
64141441 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
64141454 TTCTCAAAAGCA
1 TTCTCAAAAGCA
64141466 ATAAAGAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:64148650 original size:30 final size:30
Alignment explanation
Indices: 64148591--64148684 Score: 117
Period size: 28 Copynumber: 3.3 Consensus size: 30
64148581 AAAAACTCAA
* *
64148591 TTAAAGGATAGCCTTTGCGGCAAAACTCTG
1 TTAAAGGATAGCCTTTGTGGCAAACCTCTG
*
64148621 TTAAAGGATAGCCTTTGTGGTAAACCTCTG
1 TTAAAGGATAGCCTTTGTGGCAAACCTCTG
64148651 --AAAGGA-ACGCCTTTGTGGCAAACCTC--
1 TTAAAGGATA-GCCTTTGTGGCAAACCTCTG
64148677 TTAAAGGA
1 TTAAAGGA
64148685 ACGCCTGAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
27 1 0.02
28 29 0.51
30 27 0.47
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (30 bp):
TTAAAGGATAGCCTTTGTGGCAAACCTCTG
Found at i:64148663 original size:28 final size:28
Alignment explanation
Indices: 64148593--64148705 Score: 113
Period size: 28 Copynumber: 4.0 Consensus size: 28
64148583 AAACTCAATT
* *
64148593 AAAGGATA-GCCTTTGCGGCAAAACTCTG
1 AAAGGA-ACGCCTTTGTGGCAAACCTCTG
*
64148621 TTAAAGGATA-GCCTTTGTGGTAAACCTCTG
1 --AAAGGA-ACGCCTTTGTGGCAAACCTCTG
*
64148651 AAAGGAACGCCTTTGTGGCAAACCTCTT
1 AAAGGAACGCCTTTGTGGCAAACCTCTG
** *
64148679 AAAGGAACGCCTGAGTGGCGAACCTCT
1 AAAGGAACGCCTTTGTGGCAAACCTCT
64148706 AAACAAGACA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.01
28 48 0.65
30 25 0.34
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (28 bp):
AAAGGAACGCCTTTGTGGCAAACCTCTG
Found at i:64151740 original size:25 final size:25
Alignment explanation
Indices: 64151697--64151755 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
64151687 ATTATATATT
64151697 AAATATATA-TTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
64151721 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
*
64151746 AAAAATATAT
1 AAATATATAT
64151756 ATTATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 9 0.27
25 24 0.73
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
AAATATATATTTTTTATTTTTAATC
Found at i:64157878 original size:17 final size:17
Alignment explanation
Indices: 64157856--64157891 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
64157846 ATTAAAGAGC
64157856 TACGAGTTACACATGCA
1 TACGAGTTACACATGCA
64157873 TACGAGTTACACATGCA
1 TACGAGTTACACATGCA
64157890 TA
1 TA
64157892 GTCTGCCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (17 bp):
TACGAGTTACACATGCA
Found at i:64160175 original size:21 final size:20
Alignment explanation
Indices: 64160145--64160184 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
64160135 ACTTATAACA
*
64160145 AAATTCAAATTATCATATTGT
1 AAATTAAAATTATC-TATTGT
*
64160166 AAATTAAAATTTTCTATTG
1 AAATTAAAATTATCTATTG
64160185 ATCAGATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (20 bp):
AAATTAAAATTATCTATTGT
Found at i:64166976 original size:26 final size:26
Alignment explanation
Indices: 64166947--64166999 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
64166937 ACTAATACTG
*
64166947 ATTTGCTTTAAAAATTCTCAAAGCAT
1 ATTTACTTTAAAAATTCTCAAAGCAT
64166973 ATTTACTTTAAAAATTCTCAAAGCAT
1 ATTTACTTTAAAAATTCTCAAAGCAT
64166999 A
1 A
64167000 GAACTACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.38
Consensus pattern (26 bp):
ATTTACTTTAAAAATTCTCAAAGCAT
Found at i:64169086 original size:25 final size:26
Alignment explanation
Indices: 64169041--64169097 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
64169031 AAACAACCTA
64169041 AAAAATTAAAAAGAAATTAAACAAA-T
1 AAAAATTAAAAAGAAATTAAA-AAACT
**
64169067 AAAAATTAAAATTAAA-TAAAAAACT
1 AAAAATTAAAAAGAAATTAAAAAACT
64169092 AAAAAT
1 AAAAAT
64169098 ATAGTATCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 3 0.11
25 11 0.39
26 14 0.50
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (26 bp):
AAAAATTAAAAAGAAATTAAAAAACT
Found at i:64172751 original size:44 final size:47
Alignment explanation
Indices: 64172644--64172751 Score: 104
Period size: 44 Copynumber: 2.4 Consensus size: 47
64172634 TATCAAGATA
*
64172644 AATATTAAATTAAATTAAATGTTAAATCTTATTAAAATAATAGAATGTT
1 AATATTAAATT-AA-TAAATATTAAATCTTATTAAAATAATAGAATGTT
* *
64172693 --TATCTACAA--GATAAATATTAAAT-TTATTAAGATAATA-AAT-TT
1 AATAT-TA-AATTAATAAATATTAAATCTTATTAAAATAATAGAATGTT
64172735 AATATTAAATTAATAAA
1 AATATTAAATTAATAAA
64172752 ATACAATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 17
0.70 0.06 0.24
Matches are distributed among these distances:
42 4 0.08
43 5 0.10
44 21 0.43
45 11 0.22
46 1 0.02
47 3 0.06
48 2 0.04
49 2 0.04
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (47 bp):
AATATTAAATTAATAAATATTAAATCTTATTAAAATAATAGAATGTT
Found at i:64179566 original size:15 final size:16
Alignment explanation
Indices: 64179542--64179584 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
64179532 TGTTCATTTA
64179542 TTTTAGTTATTTAAT-T
1 TTTTA-TTATTTAATCT
*
64179558 TTTTATTATTAAATCT
1 TTTTATTATTTAATCT
*
64179574 TTTTATGATTT
1 TTTTATTATTT
64179585 GTCGCAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTTATTATTTAATCT
Found at i:64182265 original size:50 final size:50
Alignment explanation
Indices: 64182136--64182376 Score: 239
Period size: 50 Copynumber: 4.7 Consensus size: 50
64182126 AATAAAGAGA
*** * *
64182136 TCCCATGTAAGACCATGTCTGGGACATGAAATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAAG
* *
64182192 TCCCCTGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAG
* * *
64182242 TCCCATGTAAGACAATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAG
** * * * * *
64182292 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAG
* * * *
64182342 TCCCATGTAAGACCATATTTGGGATATGGCATTGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
64182377 TAGTACAAGA
Statistics
Matches: 157, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 121 0.77
53 3 0.02
55 1 0.01
56 32 0.20
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAG
Found at i:64182312 original size:100 final size:100
Alignment explanation
Indices: 64182184--64182376 Score: 287
Period size: 100 Copynumber: 1.9 Consensus size: 100
64182174 CATTGAGATT
* * * *
64182184 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATGAGAAGTCCCATG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGAGCACCGAGATGAGAACTCCCATG
* *
64182249 TAAGACAATGTTTGGGACATGGCGTTGGCACCGAG
66 TAAGACAATATTTGGGACATGGCATTGGCACCGAG
* * *
64182284 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCCCATG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGAGCACCGAGATGAGAACTCCCATG
* *
64182349 TAAGACCATATTTGGGATATGGCATTGG
66 TAAGACAATATTTGGGACATGGCATTGG
64182377 TAGTACAAGA
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (100 bp):
ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGAGCACCGAGATGAGAACTCCCATG
TAAGACAATATTTGGGACATGGCATTGGCACCGAG
Found at i:64185979 original size:25 final size:25
Alignment explanation
Indices: 64185951--64186005 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
64185941 TTGAATTCAT
64185951 ATATTTCTAATTAATCATAATATCA
1 ATATTTCTAATTAATCATAATATCA
* *
64185976 ATATTTTTAATTAATCATAATATTA
1 ATATTTCTAATTAATCATAATATCA
64186001 ATATT
1 ATATT
64186006 AATCAAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATTTCTAATTAATCATAATATCA
Found at i:64186259 original size:13 final size:13
Alignment explanation
Indices: 64186241--64186267 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64186231 GTTGACTAAG
64186241 TATGAATATGGCA
1 TATGAATATGGCA
64186254 TATGAATATGGCA
1 TATGAATATGGCA
64186267 T
1 T
64186268 GAGTTTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (13 bp):
TATGAATATGGCA
Found at i:64187842 original size:40 final size:40
Alignment explanation
Indices: 64187787--64187867 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
64187777 AGAGAATCAT
* * *
64187787 AGTAATTCCTTTCAAAAGAGGAAAGAATGATAATTGGATC
1 AGTAATTCCTTTCAAAAAAAGAAAGAATAATAATTGGATC
64187827 AGTAATTCCTTTCAAAAAAAGAAAGAATAATAATTGGATC
1 AGTAATTCCTTTCAAAAAAAGAAAGAATAATAATTGGATC
64187867 A
1 A
64187868 ATATACGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.47, C:0.10, G:0.16, T:0.27
Consensus pattern (40 bp):
AGTAATTCCTTTCAAAAAAAGAAAGAATAATAATTGGATC
Found at i:64191599 original size:21 final size:22
Alignment explanation
Indices: 64191575--64191638 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
64191565 TTAATATATT
*
64191575 TAATATAT-TTAGAAAAATAAA
1 TAATATATATTACAAAAATAAA
* *
64191596 TAATA-ATATTACAAAACTAAT
1 TAATATATATTACAAAAATAAA
* *
64191617 TAATATAATATTATAACAATAA
1 TAATAT-ATATTACAAAAATAA
64191639 TAAGTAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.06
21 20 0.59
23 12 0.35
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (22 bp):
TAATATATATTACAAAAATAAA
Found at i:64193421 original size:44 final size:44
Alignment explanation
Indices: 64193371--64193529 Score: 162
Period size: 44 Copynumber: 3.6 Consensus size: 44
64193361 TCTGCTTCGT
*
64193371 TGCAACTTCAAGGAGATAAGACTTGTATCTTTAACTTGCCCCAC
1 TGCAACTTCAAGGAGATAAGATTTGTATCTTTAACTTGCCCCAC
* ** * * *
64193415 TGCAACTTCACAGG-GATAAGGTTTGT-TACTTCGACCTGCTCTAC
1 TGCAACTTCA-AGGAGATAAGATTTGTAT-CTTTAACTTGCCCCAC
* ** * *
64193459 TGCAACTTC-AGAGAGATAAGGTTTGTGGCCTTAATTTGCCCCAC
1 TGCAACTTCAAG-GAGATAAGATTTGTATCTTTAACTTGCCCCAC
64193503 TGCAACTTCAAGGAGATAAGATTTGTA
1 TGCAACTTCAAGGAGATAAGATTTGTA
64193530 ACCGACCTTC
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 83 0.90
45 5 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
TGCAACTTCAAGGAGATAAGATTTGTATCTTTAACTTGCCCCAC
Found at i:64193475 original size:88 final size:87
Alignment explanation
Indices: 64193371--64193664 Score: 249
Period size: 88 Copynumber: 3.3 Consensus size: 87
64193361 TCTGCTTCGT
64193371 TGCAACTTCA-AGGAGATAAGACTTGTATCTTTAACTTGCCCCACTGCAACTTCACAGG-GATAA
1 TGCAACTTCAGA-GAGATAAGA-TTGTATCTTTAACTTGCCCCACTGCAACTTCA-AGGAGATAA
*
64193434 GGTTTGTTACTTCGACCTGCTCTAC
63 GGTTTGTTACTTCGATCTGCTCTAC
* ** * * *
64193459 TGCAACTTCAGAGAGATAAGGTTTGTGGCCTTAATTTGCCCCACTGCAACTTCAAGGAGATAAGA
1 TGCAACTTCAGAGAGATAA-GATTGTATCTTTAACTTGCCCCACTGCAACTTCAAGGAGATAAGG
* * *
64193524 TTTGTAACCGACCTTCAATCTGCTCCAC
65 TTTGT----TA-CTTCGATCTGCTCTAC
* * * * * *
64193552 TGCAACTTCAGGGAGATAATATTGATTTAT-TTTAACTTGCTCCACTACATCTTCAAGGAGGTAA
1 TGCAACTTCAGAGAGATAAGATTG---TATCTTTAACTTGCCCCACTGCAACTTCAAGGAGATAA
* *
64193616 GGTTTGATA--T-GATCTACTCTAC
63 GGTTTGTTACTTCGATCTGCTCTAC
* *
64193638 TGCAACTTTAGAGAGATGAGATCTGTA
1 TGCAACTTCAGAGAGATAAGAT-TGTA
64193665 ATCTATAGCT
Statistics
Matches: 163, Mismatches: 31, Indels: 28
0.73 0.14 0.13
Matches are distributed among these distances:
84 2 0.01
86 27 0.17
87 6 0.04
88 56 0.34
89 2 0.01
90 1 0.01
92 4 0.02
93 31 0.19
94 33 0.20
95 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (87 bp):
TGCAACTTCAGAGAGATAAGATTGTATCTTTAACTTGCCCCACTGCAACTTCAAGGAGATAAGGT
TTGTTACTTCGATCTGCTCTAC
Found at i:64193560 original size:49 final size:44
Alignment explanation
Indices: 64193371--64193570 Score: 158
Period size: 44 Copynumber: 4.4 Consensus size: 44
64193361 TCTGCTTCGT
* * *
64193371 TGCAACTTCAAGGAGATAAGACTTGT-ATCTTTAA-CTTGCCCCAC
1 TGCAACTTCAAGGAGATAAGATTTGTGA-CCTTAATC-TGCTCCAC
* * * * *
64193415 TGCAACTTCACAGG-GATAAGGTTTGTTA-CTTCGACCTGCTCTAC
1 TGCAACTTCA-AGGAGATAAGATTTGTGACCTT-AATCTGCTCCAC
* * * *
64193459 TGCAACTTC-AGAGAGATAAGGTTTGTGGCCTTAATTTGCCCCAC
1 TGCAACTTCAAG-GAGATAAGATTTGTGACCTTAATCTGCTCCAC
64193503 TGCAACTTCAAGGAGATAAGATTTGTAACCGACCTTCAATCTGCTCCAC
1 TGCAACTTCAAGGAGATAAGATTTGT----GACCTT-AATCTGCTCCAC
*
64193552 TGCAACTTCAGGGAGATAA
1 TGCAACTTCAAGGAGATAA
64193571 TATTGATTTA
Statistics
Matches: 125, Mismatches: 18, Indels: 21
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.02
44 77 0.62
45 10 0.08
48 5 0.04
49 28 0.22
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
TGCAACTTCAAGGAGATAAGATTTGTGACCTTAATCTGCTCCAC
Found at i:64193730 original size:182 final size:177
Alignment explanation
Indices: 64193186--64193756 Score: 493
Period size: 182 Copynumber: 3.2 Consensus size: 177
64193176 AGCTTCAATA
* * * *
64193186 TGCTCCACTGCAACTTC-GAGGAGATAAGATTGGTGTCTTTAACCTGCTGCA--AC-T-TT-AAG
1 TGCTCCACTGCAACTTCAG-GGAGATAAGATTGTTAT-TTTAACTTGCTCCACTACATCTTCAAG
*
64193245 GAGATAAGGTTTGGATATGATCTGCTCTACTGCAACTTCAGAAAGATAAGATCTGTAATTTATAG
64 GAGATAAGGTTT-GATATGATCTGCTCTACTGCAACTTCAGAGAGAT-AGATCTGTAA-TTATAG
* * * * * * * *
64193310 CTTTAATCTGTTTCACAGCAACTTTACGAAAATAAGATTCGCTATCTCCAGTC
126 C-TTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTTATCTTCAGTC
* ** * * * *
64193363 TGCTTCGTTGCAACTTCAAGGAGATAAGACTTG-TATCTTTAACTTGCCCCACTGCAACTTCACA
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTTAT-TTTAACTTGCTCCACTACATCTTCA-A
* * * * *
64193427 GG-GATAAGGTTTGTTACTTCGACCTGCTCTACTGCAACTTCAGAGAGATA-A--GGT--TTGTG
63 GGAGATAAGGTTTGATA--T-GATCTGCTCTACTGCAACTTCAGAGAGATAGATCTGTAATTATA
* ** * * * *
64193486 GCCTTAATTTGCCCCACTGCAACTTCAAGGAGATAAGATTTGTAACCGACCTTCAATC
125 G-CTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGT----TATCTTCAGTC
*
64193544 TGCTCCACTGCAACTTCAGGGAGATAATATTGATTTATTTTAACTTGCTCCACTACATCTTCAAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTG--TTATTTTAACTTGCTCCACTACATCTTCAAG
* * *
64193609 GAGGTAAGGTTTGATATGATCTACTCTACTGCAACTTTAGAGAGATGAGATCTGTAATCTATAGC
64 GAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGAT-AGATCTGTAAT-TATAGC
* *
64193674 TTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTTGTTATCTTCAGTC
127 TT-AATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTTATCTTCAGTC
* *
64193726 TGCTCCACTGTAACTTTAGGGAGATAAGATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT
64193757 CGCCATGATG
Statistics
Matches: 307, Mismatches: 59, Indels: 51
0.74 0.14 0.12
Matches are distributed among these distances:
177 71 0.23
178 4 0.01
179 27 0.09
180 7 0.02
181 40 0.13
182 82 0.27
183 10 0.03
184 27 0.09
185 4 0.01
186 35 0.11
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (177 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTGTTATTTTAACTTGCTCCACTACATCTTCAAGGA
GATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAGATCTGTAATTATAGCTTAA
TCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGTTATCTTCAGTC
Found at i:64194394 original size:45 final size:45
Alignment explanation
Indices: 64194322--64194408 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 45
64194312 AGCTCAAAAT
* *
64194322 GAATAAATTAATCAAGATAGCAAATTTTGCTAGAATACAAAATGA
1 GAATAAATTAATCAAGATAGCAAATTTTGCCAAAATACAAAATGA
*
64194367 GAATAAATTAATCAAGAT-G-AAGTATTTTTCCAAAATACAAAA
1 GAATAAATTAATCAAGATAGCAA--ATTTTGCCAAAATACAAAA
64194409 ATGAATAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 2 0.05
44 1 0.03
45 34 0.92
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (45 bp):
GAATAAATTAATCAAGATAGCAAATTTTGCCAAAATACAAAATGA
Found at i:64201758 original size:19 final size:20
Alignment explanation
Indices: 64201734--64201780 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
64201724 TTGTGAAACT
* *
64201734 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
64201753 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
64201773 -AATGCAAA
1 TAATGCAAA
64201781 AGAGGTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:64205266 original size:14 final size:14
Alignment explanation
Indices: 64205249--64205324 Score: 50
Period size: 14 Copynumber: 5.3 Consensus size: 14
64205239 ATATATTTAG
64205249 AAAAATAAATAAAT
1 AAAAATAAATAAAT
64205263 AAAAAT-AAT-AAT
1 AAAAATAAATAAAT
*
64205275 ACAAAACTAATTAATAT
1 A-AAAA-TAAATAA-AT
* *
64205292 AATAATATAA-CAAT
1 AAAAATA-AATAAAT
*
64205306 AATAAGTAAATAAAT
1 AA-AAATAAATAAAT
64205321 AAAA
1 AAAA
64205325 GGAAAAATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
12 4 0.09
13 7 0.15
14 15 0.32
15 13 0.28
16 5 0.11
17 3 0.06
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (14 bp):
AAAAATAAATAAAT
Found at i:64207048 original size:23 final size:23
Alignment explanation
Indices: 64207022--64207065 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
64207012 GTAATTATAA
64207022 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
64207045 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
64207066 ATACATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:64209094 original size:23 final size:22
Alignment explanation
Indices: 64209051--64209108 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
64209041 AAAAGGTATC
* *
64209051 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
64209072 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
64209095 TGCATATCATATCT
1 TACAAATCATATCT
64209109 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:64215800 original size:12 final size:11
Alignment explanation
Indices: 64215783--64215839 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
64215773 AATAAATCCT
64215783 CTCTCATATTTC
1 CTCTCA-ATTTC
64215795 CTCTCAA-TTC
1 CTCTCAATTTC
64215805 CTCTCAATTTC
1 CTCTCAATTTC
*
64215816 CT-TCCAAAATT-
1 CTCT-C-AATTTC
64215827 CTCTCAATTTC
1 CTCTCAATTTC
64215838 CT
1 CT
64215840 TCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 15 0.39
11 12 0.32
12 11 0.29
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:64215830 original size:22 final size:22
Alignment explanation
Indices: 64215800--64215855 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
64215790 ATTTCCTCTC
64215800 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
64215823 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
64215845 AATTCTCTCAA
1 AATTCTCTCAA
64215856 ATCCATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:64216747 original size:7 final size:7
Alignment explanation
Indices: 64216737--64216761 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
64216727 ATTCGATTGA
64216737 TATTTAG
1 TATTTAG
64216744 TATTTAG
1 TATTTAG
64216751 TATTTAG
1 TATTTAG
64216758 TATT
1 TATT
64216762 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:64217423 original size:18 final size:18
Alignment explanation
Indices: 64217397--64217431 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64217387 AGGTGTGTTT
*
64217397 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
64217415 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
64217432 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:64217907 original size:43 final size:45
Alignment explanation
Indices: 64217854--64217939 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
64217844 ATATTTTGAA
*
64217854 TATTTTGATATTATTTTATGTAA-AAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
*
64217897 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGA
64217940 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 12 0.31
45 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTATTTGAGT
Found at i:64218009 original size:35 final size:35
Alignment explanation
Indices: 64217900--64218010 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 35
64217890 TTTGAGTTAT
*
64217900 TTTGATATTATTTGATGTAATAAAATAGAAGTTTA
1 TTTGATATTATTTGATGTAATAAAATAGGAGTTTA
* * *** * **
64217935 TTTGATGTAATAAAATAATAA-AAAATTCGAG-TTA
1 TTTGATATTATTTGAT-GTAATAAAATAGGAGTTTA
64217969 TTTTGATATTATTTGATGTAATAAAATAGGAGTTTA
1 -TTTGATATTATTTGATGTAATAAAATAGGAGTTTA
64218005 TTTGAT
1 TTTGAT
64218011 GTAATAAAAA
Statistics
Matches: 55, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
34 6 0.11
35 43 0.78
36 6 0.11
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (35 bp):
TTTGATATTATTTGATGTAATAAAATAGGAGTTTA
Found at i:64218075 original size:29 final size:29
Alignment explanation
Indices: 64218035--64218372 Score: 471
Period size: 29 Copynumber: 11.5 Consensus size: 29
64218025 AACCTAATTT
* *
64218035 AACCCTAAACCCTAACCTAAATCAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
64218065 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
64218094 AATCCTAACCCCTAACCTAAATTAATTACA
1 AACCCTAA-CCCTAACCTAATTTAATTAAA
64218124 AACCCTAACCCTAACCTAATTTAATT-AA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
64218152 AACCCTAACCCTAACTTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
64218181 AACCTTAACCCCTAACCTAAATTAATTACA
1 AACCCTAA-CCCTAACCTAATTTAATTAAA
64218211 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
64218240 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
64218269 AATCCTAACTCCTAACCTAAATTAATTATA
1 AACCCTAAC-CCTAACCTAATTTAATTAAA
*
64218299 AACCCTAAACCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
64218328 AACCCTAACCCCTAACCTAAATTAATTACA
1 AACCCTAA-CCCTAACCTAATTTAATTAAA
*
64218358 AACCCAAAACCCTAA
1 AACCC-TAACCCTAA
64218373 AACCTTAACT
Statistics
Matches: 275, Mismatches: 27, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
28 26 0.09
29 136 0.49
30 111 0.40
31 2 0.01
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.26
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:64218112 original size:59 final size:59
Alignment explanation
Indices: 64218035--64218372 Score: 493
Period size: 59 Copynumber: 5.7 Consensus size: 59
64218025 AACCTAATTT
* *
64218035 AACCCTAAACCCTAACCTAAATCAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
* *
64218094 AATCCTAACCCCTAACCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATT-AA
1 AACCCTAACCCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
* * * * *
64218152 AACCCTAA-CCCTAACTTAATTTAATTAAAAACCTTAACCCCTAACCTAAATTAATTACA
1 AACCCTAACCCCTAACCTAAATTAATTAAAAACCCTAA-CCCTAACCTAATTTAATTAAA
*
64218211 AACCCTAA-CCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
* * * *
64218269 AATCCTAACTCCTAACCTAAATTAATTATAAACCCTAAACCTAACCTAATTTAATTAAA
1 AACCCTAACCCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
* *
64218328 AACCCTAACCCCTAACCTAAATTAATTACAAACCCAAAACCCTAA
1 AACCCTAACCCCTAACCTAAATTAATTAAAAACCC-TAACCCTAA
64218373 AACCTTAACT
Statistics
Matches: 250, Mismatches: 25, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
57 25 0.10
58 52 0.21
59 166 0.66
60 7 0.03
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.26
Consensus pattern (59 bp):
AACCCTAACCCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
Found at i:64218170 original size:23 final size:22
Alignment explanation
Indices: 64218130--64218172 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
64218120 TACAAACCCT
*
64218130 AACCCTAACCTAATTTAATTAA
1 AACCCTAACCTAACTTAATTAA
64218152 AACCCTAACCCTAACTTAATT
1 AACCCTAA-CCTAACTTAATT
64218173 TAATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (22 bp):
AACCCTAACCTAACTTAATTAA
Found at i:64218302 original size:88 final size:88
Alignment explanation
Indices: 64218035--64218355 Score: 538
Period size: 88 Copynumber: 3.6 Consensus size: 88
64218025 AACCTAATTT
* *
64218035 AACCCTAAACCCTAACCTAAATCAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCT
1 AACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCT
64218100 AACCCCTAACCTAAATTAATTACA
65 AACCCCTAACCTAAATTAATTACA
*
64218124 AACCCTAACCCTAACCTAATTTAATT-AAAACCCTAACCCTAACTTAATTTAATTAAAAA-CCTT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCC-T
64218187 AACCCCTAACCTAAATTAATTACA
65 AACCCCTAACCTAAATTAATTACA
64218211 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCTA
* *
64218276 ACTCCTAACCTAAATTAATTATA
66 ACCCCTAACCTAAATTAATTACA
* *
64218299 AACCCTAAACCTAACCTAATTTAATTAAAAACCCTAACCCCTAACCTAAATTAATTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCCTAACCTAATTTAATTA
64218356 CAAACCCAAA
Statistics
Matches: 220, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
86 2 0.01
87 83 0.38
88 109 0.50
89 26 0.12
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (88 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCTA
ACCCCTAACCTAAATTAATTACA
Found at i:64218390 original size:22 final size:22
Alignment explanation
Indices: 64218363--64218412 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
64218353 TTACAAACCC
64218363 AAAACCCTAAAACCTTAACTTA
1 AAAACCCTAAAACCTTAACTTA
*
64218385 AAAACCCTAAACCCTTAACTTA
1 AAAACCCTAAAACCTTAACTTA
64218407 AAAACC
1 AAAACC
64218413 TTAAGGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAACCCTAAAACCTTAACTTA
Found at i:64218390 original size:88 final size:86
Alignment explanation
Indices: 64218035--64218397 Score: 462
Period size: 88 Copynumber: 4.1 Consensus size: 86
64218025 AACCTAATTT
* * *
64218035 AACCCTAAACCCTAACCTAAATCAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCT
1 AACCCTAAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
64218100 AACCCCTAACCTAAATTAATTACA
65 AAACCCTAA-C-AAATTAATTACA
* * *
64218124 AACCCTAACCCTAACCTAATTTAATT-AAAACCCTAACCCTAACTTAATTTAATTAAAAACCTTA
1 AACCCTAAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
*
64218188 ACCCCTAACCTAAATTAATTACA
66 AACCCTAA-C-AAATTAATTACA
* *
64218211 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAATCCT-
1 AACCCTAAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
*
64218275 AACTCCTAACCTAAATTAATTATA
66 AAC-CCTAA-C-AAATTAATTACA
* * *
64218299 AACCCTAAACCTAACCTAATTTAATTAAAAACCCTAACCCCTAACCTAAATTAATTACAAACCCA
1 AACCCTAAACCTAACCTAATTTAATTAAAAACCCTAA-CCCTAACCTAATTTAATTAAAAACCCT
* *
64218364 AAACCCTAA-AACCTTAACTTAAA
65 AAACCCTAACAA-ATTAA-TTACA
64218387 AACCCTAAACC
1 AACCCTAAACC
64218398 CTTAACTTAA
Statistics
Matches: 250, Mismatches: 18, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
86 2 0.01
87 90 0.36
88 119 0.48
89 36 0.14
90 3 0.01
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (86 bp):
AACCCTAAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
AACCCTAACAAATTAATTACA
Found at i:64218622 original size:116 final size:116
Alignment explanation
Indices: 64218420--64218685 Score: 464
Period size: 116 Copynumber: 2.3 Consensus size: 116
64218410 ACCTTAAGGT
* * *
64218420 TTTTACTAACCATTAATACAA--TTATCAGTTAATAATTTTACATTCACATAATGTTAGATTTGG
1 TTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACATAATGTTAGATTTGG
64218483 AAAAATATTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATAA
66 AAAAATATTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATAA
* *
64218534 TTTTACTAACCATTAATAAAATTTTTTGACTCAATAATTTTACATTCACATAATGTTAGATTTGG
1 TTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACATAATGTTAGATTTGG
*
64218599 AAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATAA
66 AAAAATATTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATAA
64218650 TTTTACTAACCATTAATACAATTTTTTGACTTAATA
1 TTTTACTAACCATTAATACAATTTTTTGACTTAATA
64218686 CAATTTATCA
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
114 20 0.14
116 122 0.86
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (116 bp):
TTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACATAATGTTAGATTTGG
AAAAATATTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATAA
Found at i:64218702 original size:17 final size:18
Alignment explanation
Indices: 64218661--64218702 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
64218651 TTTACTAACC
* *
64218661 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
64218679 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
64218696 ATTAATA
1 ATTAATA
64218703 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:64221879 original size:124 final size:124
Alignment explanation
Indices: 64221739--64222066 Score: 593
Period size: 124 Copynumber: 2.6 Consensus size: 124
64221729 AAGCGCGTCC
* * * * *
64221739 ACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATATTATTT
1 ACGAGGCCGCGATTTCACAAATTATTCACAAATAGCATCCTGCTAGAAGCGATTTTATACTATTT
64221804 GCTCAGAAACGTCAAAAAAATTTATTTCGTACATGACCTACTATAGCAAAAGCATGCTG
66 GCTCAGAAACGTCAAAAAAATTTATTTCGTACATGACCTACTATAGCAAAAGCATGCTG
64221863 ACGAGGCCGCGATTTCACAAATTATTCACAAATAGCATCCTGCTAGAAGCGATTTTATACTATTT
1 ACGAGGCCGCGATTTCACAAATTATTCACAAATAGCATCCTGCTAGAAGCGATTTTATACTATTT
64221928 GCTCAGAAACGTCAAAAAAATTTATTTCGTACATGACCTACTATAGCAAAAGCATGCTG
66 GCTCAGAAACGTCAAAAAAATTTATTTCGTACATGACCTACTATAGCAAAAGCATGCTG
64221987 ACGAGGCCGCGATTTCACAAATTATTCACAAATAGCATCCTGCTAGAAGCGATTTTATACTATTT
1 ACGAGGCCGCGATTTCACAAATTATTCACAAATAGCATCCTGCTAGAAGCGATTTTATACTATTT
**
64222052 TATCAGAAACGTCAA
66 GCTCAGAAACGTCAA
64222067 CTCGAAATTA
Statistics
Matches: 197, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 197 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (124 bp):
ACGAGGCCGCGATTTCACAAATTATTCACAAATAGCATCCTGCTAGAAGCGATTTTATACTATTT
GCTCAGAAACGTCAAAAAAATTTATTTCGTACATGACCTACTATAGCAAAAGCATGCTG
Found at i:64228362 original size:12 final size:12
Alignment explanation
Indices: 64228328--64228366 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
64228318 AAAAATTTAG
64228328 AAATTTTATTAA
1 AAATTTTATTAA
64228340 AAATATGTTATTAA
1 AAAT-T-TTATTAA
*
64228354 GAATTTTATTAA
1 AAATTTTATTAA
64228366 A
1 A
64228367 TCATTTCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 11 0.48
13 2 0.09
14 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (12 bp):
AAATTTTATTAA
Found at i:64230901 original size:20 final size:20
Alignment explanation
Indices: 64230872--64231217 Score: 287
Period size: 20 Copynumber: 17.3 Consensus size: 20
64230862 TTGAAATGTA
*
64230872 TCTGTTTGTACTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCC
* * ** *
64230892 TCTATTTGTACCACGATGCC
1 TCTGTTTGCACTTCGGTGCC
* * *
64230912 TTTATTTGCAGTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCC
* *
64230932 TCTGTATGCACTTCGATGCC
1 TCTGTTTGCACTTCGGTGCC
* *
64230952 TCTGTATGCACTTTGGTGCC
1 TCTGTTTGCACTTCGGTGCC
*
64230972 TCTGTTTGTACTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCC
*
64230992 TCTGTTTGTACTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCC
* * ** **
64231012 TCTATTTGTACTTCAATATC
1 TCTGTTTGCACTTCGGTGCC
* * *
64231032 TTTGTATGCACTTCGATGCC
1 TCTGTTTGCACTTCGGTGCC
*
64231052 TCTGTATGCACTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCC
* *
64231072 TCTGTATGTACTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCC
*
64231092 TCGGTTTGCACTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCC
* * * *
64231112 TTTTTTTTCACTCCGGTGCC
1 TCTGTTTGCACTTCGGTGCC
* * * *
64231132 TCTATTTGTACTTCGATGTC
1 TCTGTTTGCACTTCGGTGCC
* * **
64231152 TCTGTTTGCACTCCAGCACC
1 TCTGTTTGCACTTCGGTGCC
* *
64231172 TCTATTTGCACTTCAGTGCC
1 TCTGTTTGCACTTCGGTGCC
* *
64231192 TCTATATGCACTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCC
*
64231212 TTTGTT
1 TCTGTT
64231218 CAGCACTATG
Statistics
Matches: 259, Mismatches: 67, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 259 1.00
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.42
Consensus pattern (20 bp):
TCTGTTTGCACTTCGGTGCC
Found at i:64230945 original size:60 final size:60
Alignment explanation
Indices: 64230872--64231217 Score: 323
Period size: 60 Copynumber: 5.8 Consensus size: 60
64230862 TTGAAATGTA
* ** * * *
64230872 TCTGTTTGTACTTCGGTGCCTCTATTTGTACCACGATGCCTTTATTTGCAGTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCCTCTATTTGTACTTCGATGCCTCTGTTTGCACTTCGGTGCC
* * * * * * * *
64230932 TCTGTATGCACTTCGATGCCTCTGTATGCACTTTGGTGCCTCTGTTTGTACTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCCTCTATTTGTACTTCGATGCCTCTGTTTGCACTTCGGTGCC
* * ** * * *
64230992 TCTGTTTGTACTTCGGTGCCTCTATTTGTACTTCAATATCTTTGTATGCACTTCGATGCC
1 TCTGTTTGCACTTCGGTGCCTCTATTTGTACTTCGATGCCTCTGTTTGCACTTCGGTGCC
* * * * *
64231052 TCTGTATGCACTTCGGTGCCTCTGTATGTACTTCGGTGCCTCGGTTTGCACTTCGGTGCC
1 TCTGTTTGCACTTCGGTGCCTCTATTTGTACTTCGATGCCTCTGTTTGCACTTCGGTGCC
* * * * * * * **
64231112 TTTTTTTTCACTCCGGTGCCTCTATTTGTACTTCGATGTCTCTGTTTGCACTCCAGCACC
1 TCTGTTTGCACTTCGGTGCCTCTATTTGTACTTCGATGCCTCTGTTTGCACTTCGGTGCC
* * * * * *
64231172 TCTATTTGCACTTCAGTGCCTCTATATGCACTTCGGTGCCTTTGTT
1 TCTGTTTGCACTTCGGTGCCTCTATTTGTACTTCGATGCCTCTGTT
64231218 CAGCACTATG
Statistics
Matches: 221, Mismatches: 65, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
60 221 1.00
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.42
Consensus pattern (60 bp):
TCTGTTTGCACTTCGGTGCCTCTATTTGTACTTCGATGCCTCTGTTTGCACTTCGGTGCC
Found at i:64231045 original size:100 final size:100
Alignment explanation
Indices: 64230872--64231212 Score: 340
Period size: 100 Copynumber: 3.4 Consensus size: 100
64230862 TTGAAATGTA
* ** * * * ** *
64230872 TCTGTTTGTACTTCGGTGCCTCTATTTGTACCACGATGCCTTTATTTGCAGTTCGGTGCCTCTGT
1 TCTGTTTGTACTTCGGTGCCTCTGTTTGTACTTCGGTGCCTCTATTTGCACTTCAATACCTCTGT
*
64230937 ATGCACTTCGATGCCTCTGTATGCACTTTGGTGCC
66 ATGCACTTCGATGCCTCTGTATGCACTTCGGTGCC
* * *
64230972 TCTGTTTGTACTTCGGTGCCTCTGTTTGTACTTCGGTGCCTCTATTTGTACTTCAATATCTTTGT
1 TCTGTTTGTACTTCGGTGCCTCTGTTTGTACTTCGGTGCCTCTATTTGCACTTCAATACCTCTGT
64231037 ATGCACTTCGATGCCTCTGTATGCACTTCGGTGCC
66 ATGCACTTCGATGCCTCTGTATGCACTTCGGTGCC
* * * * * * * ** * *
64231072 TCTGTATGTACTTCGGTGCCTCGGTTTGCACTTCGGTGCCTTTTTTTTCACTCCGGTGCCTCTAT
1 TCTGTTTGTACTTCGGTGCCTCTGTTTGTACTTCGGTGCCTCTATTTGCACTTCAATACCTCTGT
* * * * * * **
64231137 TTGTACTTCGATGTCTCTGTTTGCACTCCAGCACC
66 ATGCACTTCGATGCCTCTGTATGCACTTCGGTGCC
* * * * * *
64231172 TCTATTTGCACTTCAGTGCCTCTATATGCACTTCGGTGCCT
1 TCTGTTTGTACTTCGGTGCCTCTGTTTGTACTTCGGTGCCT
64231213 TTGTTCAGCA
Statistics
Matches: 199, Mismatches: 42, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
100 199 1.00
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.41
Consensus pattern (100 bp):
TCTGTTTGTACTTCGGTGCCTCTGTTTGTACTTCGGTGCCTCTATTTGCACTTCAATACCTCTGT
ATGCACTTCGATGCCTCTGTATGCACTTCGGTGCC
Found at i:64231389 original size:20 final size:19
Alignment explanation
Indices: 64231352--64231393 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
64231342 CAAATGAAAT
64231352 ATGATGATTAAATTATATGA
1 ATGATGATTAAATTATAT-A
*
64231372 ATGAT-ATTGAATTAATATA
1 ATGATGATTAAATT-ATATA
64231391 ATG
1 ATG
64231394 TATGTGGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (19 bp):
ATGATGATTAAATTATATA
Found at i:64236461 original size:15 final size:15
Alignment explanation
Indices: 64236441--64236473 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
64236431 ATTAAAATTC
64236441 AAAACC-AATTTTTAT
1 AAAACCAAATTTTT-T
64236456 AAAACCAAATTTTTT
1 AAAACCAAATTTTTT
64236471 AAA
1 AAA
64236474 CATGTATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAACCAAATTTTTT
Found at i:64238932 original size:28 final size:28
Alignment explanation
Indices: 64238892--64238956 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
64238882 CAAGGAACAT
64238892 GCCTGTGTGAGGGCGGTGTGTCCCACAC
1 GCCTGTGTGAGGGCGGTGTGTCCCACAC
*
64238920 GCCTGTGTGAGGGCGGTGTGTCCTACAC
1 GCCTGTGTGAGGGCGGTGTGTCCCACAC
* *
64238948 CCCCGTGTG
1 GCCTGTGTG
64238957 GCCCTAATCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.09, C:0.29, G:0.38, T:0.23
Consensus pattern (28 bp):
GCCTGTGTGAGGGCGGTGTGTCCCACAC
Found at i:64243747 original size:19 final size:19
Alignment explanation
Indices: 64243725--64243761 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
64243715 ATCACTATCA
*
64243725 CCCAACGTAATCAAATTTG
1 CCCAACATAATCAAATTTG
*
64243744 CCCACCATAATCAAATTT
1 CCCAACATAATCAAATTT
64243762 ATTATTAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.27
Consensus pattern (19 bp):
CCCAACATAATCAAATTTG
Found at i:64246289 original size:2 final size:2
Alignment explanation
Indices: 64246282--64246314 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
64246272 CTCATCCATA
*
64246282 TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
64246315 TATCTTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.45, T:0.55
Consensus pattern (2 bp):
TG
Found at i:64247116 original size:14 final size:14
Alignment explanation
Indices: 64247094--64247129 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
64247084 CACATTTCAC
* *
64247094 TATTATGTCTTTTT
1 TATTCTGTCTTTTA
64247108 TATTCTGTCTTTTA
1 TATTCTGTCTTTTA
64247122 TATTCTGT
1 TATTCTGT
64247130 ATGCAAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.08, T:0.67
Consensus pattern (14 bp):
TATTCTGTCTTTTA
Found at i:64248574 original size:22 final size:22
Alignment explanation
Indices: 64248546--64248587 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
64248536 GGCGTGTAAA
64248546 GAATGTCAACACCAGAGGCCGG
1 GAATGTCAACACCAGAGGCCGG
*
64248568 GAATGTCAGCACCAGAGGCC
1 GAATGTCAACACCAGAGGCC
64248588 CCAAGGCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.29, G:0.31, T:0.10
Consensus pattern (22 bp):
GAATGTCAACACCAGAGGCCGG
Found at i:64249668 original size:24 final size:24
Alignment explanation
Indices: 64249610--64249668 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
64249600 TTAATATTAT
*
64249610 ATATTATA-TAAATAAAATTTAAC
1 ATATTATATTCAATAAAATTTAAC
* **
64249633 ATA-TATATTTCAATAAATTTTGTC
1 ATATTATA-TTCAATAAAATTTAAC
64249657 ATATTATATTCA
1 ATATTATATTCA
64249669 TATCATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
22 4 0.14
23 3 0.10
24 18 0.62
25 4 0.14
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (24 bp):
ATATTATATTCAATAAAATTTAAC
Found at i:64253427 original size:22 final size:23
Alignment explanation
Indices: 64253388--64253441 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
64253378 AGAGAAGTAG
* *
64253388 AAAAGAATGAAAAATAAAGGAA-
1 AAAAGAAAGAAAAATAAAAGAAC
**
64253410 AAAAGAAAGAAAGTTAAAAGAAC
1 AAAAGAAAGAAAAATAAAAGAAC
64253433 ATAAAGAAA
1 A-AAAGAAA
64253442 AGAATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 18 0.69
23 1 0.04
24 7 0.27
ACGTcount: A:0.72, C:0.02, G:0.17, T:0.09
Consensus pattern (23 bp):
AAAAGAAAGAAAAATAAAAGAAC
Found at i:64256527 original size:29 final size:29
Alignment explanation
Indices: 64256491--64256550 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
64256481 CCATAAATTT
64256491 AACTTTAAAAATTAAATCA-TTACAATTGA
1 AACTTTAAAAATTAAAT-AGTTACAATTGA
64256520 AACTTTAAAAATTAAATAGTTACAATTGA
1 AACTTTAAAAATTAAATAGTTACAATTGA
64256549 AA
1 AA
64256551 ATATAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.33
Consensus pattern (29 bp):
AACTTTAAAAATTAAATAGTTACAATTGA
Found at i:64256557 original size:29 final size:29
Alignment explanation
Indices: 64256496--64256557 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
64256486 AATTTAACTT
* *
64256496 TAAAAATTAAATCATTACAATTGAAACTT
1 TAAAAATTAAATCATTACAATTGAAAATA
64256525 TAAAAATTAAAT-AGTTACAATTGAAAATA
1 TAAAAATTAAATCA-TTACAATTGAAAATA
64256554 TAAA
1 TAAA
64256558 TAAAATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.32
Consensus pattern (29 bp):
TAAAAATTAAATCATTACAATTGAAAATA
Found at i:64262687 original size:36 final size:35
Alignment explanation
Indices: 64262640--64262711 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
64262630 CATCTCTGGA
*
64262640 GCTTGGCAAATAAGGAAAGAGATCTTTTGAAGATAT
1 GCTTGGCAAATAAGGAAAGAGAACTTTTG-AGATAT
* * *
64262676 GCTTGGCAAATATGGAAGGTGAACTTTTGAGATAT
1 GCTTGGCAAATAAGGAAAGAGAACTTTTGAGATAT
64262711 G
1 G
64262712 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 7 0.22
36 25 0.78
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (35 bp):
GCTTGGCAAATAAGGAAAGAGAACTTTTGAGATAT
Found at i:64263084 original size:48 final size:48
Alignment explanation
Indices: 64263009--64263103 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
64262999 TAAGGGAATT
* * **
64263009 CTGTTGAATCCTTTATTGTTGCGAGTTAAGCTGGCTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATTATTGCAAGTTAAGCTCACTTAGGCGTTTTTA
*
64263057 CTGTTGAATCCTTTATTATTGCAAGTTAGGCTCACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATTATTGCAAGTTAAGCTCACTTAGGCGTTTTT
64263104 TAGTAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (48 bp):
CTGTTGAATCCTTTATTATTGCAAGTTAAGCTCACTTAGGCGTTTTTA
Found at i:64268238 original size:48 final size:48
Alignment explanation
Indices: 64268163--64268257 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
64268153 TAAGGGAATT
** *
64268163 CTGTTGAATCCTTTATTGTTACGAGTTAAGCTGACTTAGGCATTTTTA
1 CTGTTGAATCCTTTATTACTACAAGTTAAGCTGACTTAGGCATTTTTA
* * *
64268211 CTGTTGAATCCTTTATTACTGCAAGTTATGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATTACTACAAGTTAAGCTGACTTAGGCATTTTT
64268258 GAGCAAAGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (48 bp):
CTGTTGAATCCTTTATTACTACAAGTTAAGCTGACTTAGGCATTTTTA
Found at i:64271668 original size:3 final size:3
Alignment explanation
Indices: 64271660--64271727 Score: 70
Period size: 3 Copynumber: 23.0 Consensus size: 3
64271650 TATTTATTTA
* *
64271660 TAT TAT TAT TAT T-G TAT TAT TAT TAG T-T TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
64271705 ATAT TAT ATAT TAT AAT TAT TAT
1 -TAT TAT -TAT TAT TAT TAT TAT
64271728 ACTTATTTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 4 0.07
3 44 0.81
4 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:64271677 original size:11 final size:11
Alignment explanation
Indices: 64271632--64271727 Score: 65
Period size: 11 Copynumber: 8.4 Consensus size: 11
64271622 TTTTAGTTTT
*
64271632 TTATTATATTT
1 TTATTATATTA
*
64271643 TTAATACTATTTA
1 TTATTA-TA-TTA
64271656 TT-TATATTATTA
1 TTAT-TA-TATTA
*
64271668 TTATTGTATTA
1 TTATTATATTA
64271679 TTATTAGT-TTA
1 TTATTA-TATTA
64271690 TTATTAT-TATA
1 TTATTATAT-TA
64271701 TTA-TATATTA
1 TTATTATATTA
64271711 TATATTATAATTA
1 T-TATTAT-ATTA
64271724 TTAT
1 TTAT
64271728 ACTTATTTAT
Statistics
Matches: 69, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
10 8 0.12
11 32 0.46
12 15 0.22
13 14 0.20
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (11 bp):
TTATTATATTA
Found at i:64271677 original size:14 final size:14
Alignment explanation
Indices: 64271660--64271734 Score: 84
Period size: 14 Copynumber: 5.3 Consensus size: 14
64271650 TATTTATTTA
64271660 TATTATTATTAT-T
1 TATTATTATTATAT
64271673 GTATTATTATTAGT-T
1 -TATTATTATTA-TAT
64271688 TATTATTATTATAT
1 TATTATTATTATAT
64271702 TATATATTA-TATAT
1 TAT-TATTATTATAT
*
64271716 TATAATTATTATACT
1 TATTATTATTATA-T
64271731 TATT
1 TATT
64271735 TATATATGCG
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.09
14 38 0.70
15 11 0.20
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (14 bp):
TATTATTATTATAT
Found at i:64271723 original size:25 final size:25
Alignment explanation
Indices: 64271633--64271724 Score: 77
Period size: 25 Copynumber: 3.8 Consensus size: 25
64271623 TTTAGTTTTT
*
64271633 TATTATAT-TTTTAA-TACTATT-TA
1 TATTATATATTATAATTA-TATTATA
* *
64271656 T-TTATATTATTATTATTGTATTAT-
1 TATTATA-TATTATAATTATATTATA
* *
64271680 TATTAGTTTATTATTATTATATTATA
1 TATTA-TATATTATAATTATATTATA
64271706 TATTATATATTATAATTAT
1 TATTATATATTATAATTAT
64271725 TATACTTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
22 5 0.09
23 2 0.04
24 9 0.16
25 33 0.60
26 6 0.11
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (25 bp):
TATTATATATTATAATTATATTATA
Found at i:64272199 original size:15 final size:15
Alignment explanation
Indices: 64272179--64272210 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64272169 TGTATGAACA
*
64272179 TTTTTAACATATATT
1 TTTTTAAAATATATT
64272194 TTTTTAAAATATATT
1 TTTTTAAAATATATT
64272209 TT
1 TT
64272211 GATTTTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTAAAATATATT
Found at i:64279309 original size:26 final size:26
Alignment explanation
Indices: 64279278--64279333 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
64279268 TTCGTATGCA
*
64279278 TTTTTGAGCCAGTATTCTTTCATTCT
1 TTTTTGAGCAAGTATTCTTTCATTCT
* * *
64279304 TTTTTGAGTAATTATTCTTTTATTCT
1 TTTTTGAGCAAGTATTCTTTCATTCT
64279330 TTTT
1 TTTT
64279334 CTACATCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.62
Consensus pattern (26 bp):
TTTTTGAGCAAGTATTCTTTCATTCT
Found at i:64279364 original size:23 final size:23
Alignment explanation
Indices: 64279312--64279365 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
64279302 CTTTTTTGAG
* **
64279312 TAATTATTCTTTTATTCTTTTTC
1 TAATCATTCTTTTATTCGATTTC
64279335 TACATCATTCTTTTATT-GATTTC
1 TA-ATCATTCTTTTATTCGATTTC
64279358 ATAATCAT
1 -TAATCAT
64279366 ATTTTGTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.24, C:0.15, G:0.02, T:0.59
Consensus pattern (23 bp):
TAATCATTCTTTTATTCGATTTC
Found at i:64284015 original size:88 final size:88
Alignment explanation
Indices: 64283903--64284070 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 88
64283893 TTCAGCCTTA
* ** *
64283903 TCTCCCTGAACAGCAGTAGAGTAGGTTGAAAATAGCAGATCTT-GTCTTCCTGTTTTGATAGCGA
1 TCTCCCTGAACAGCAGTAGAGTAGGTTGAAAATAGCAGATCTTACT-TTCCTGTACTGACAGCGA
*
64283967 AGTAGATCGAAGATACTAGCATTG
65 AGCAGATCGAAGATACTAGCATTG
** * * * *
64283991 TCTCCCTGGGCAGCAGTGGAGTAGGTTGAAAATGGTAGATCTTACTTTCCTGTACTGGCAGCGAA
1 TCTCCCTGAACAGCAGTAGAGTAGGTTGAAAATAGCAGATCTTACTTTCCTGTACTGACAGCGAA
64284056 GCAGATCGAAGATAC
66 GCAGATCGAAGATAC
64284071 CAGTCTTATC
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 67 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (88 bp):
TCTCCCTGAACAGCAGTAGAGTAGGTTGAAAATAGCAGATCTTACTTTCCTGTACTGACAGCGAA
GCAGATCGAAGATACTAGCATTG
Found at i:64284142 original size:50 final size:50
Alignment explanation
Indices: 64284088--64284187 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
64284078 ATCGCATTGA
*
64284088 CGTTGCA-ATGGAAAAGATTGAAGCCACAACGGCATATCTTA-CTTCCCTAG
1 CGTTGCAGAT-GAAAAGATTGAAGCCACAACGGCAGATCTTATC-TCCCTAG
* ** *
64284138 CGTTGCAGCTGAGCAGATTGAAGCCACAACGGCGGATCTTATCTCCCTAG
1 CGTTGCAGATGAAAAGATTGAAGCCACAACGGCAGATCTTATCTCCCTAG
64284188 TGTTAAGACT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
50 41 0.95
51 2 0.05
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (50 bp):
CGTTGCAGATGAAAAGATTGAAGCCACAACGGCAGATCTTATCTCCCTAG
Found at i:64285868 original size:22 final size:22
Alignment explanation
Indices: 64285833--64285890 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 22
64285823 ATGTTGTTAA
64285833 TACTGT-TTATTTATATTATTTT
1 TACTGTATTA-TTATATTATTTT
*
64285855 TACTGTATTA-T-TATTAGTTT
1 TACTGTATTATTATATTATTTT
64285875 T--T-TATTATTATATTAT
1 TACTGTATTATTATATTAT
64285891 ATATTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
17 5 0.16
18 2 0.06
19 5 0.16
20 9 0.29
21 1 0.03
22 6 0.19
23 3 0.10
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (22 bp):
TACTGTATTATTATATTATTTT
Found at i:64292601 original size:22 final size:21
Alignment explanation
Indices: 64292560--64292610 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 21
64292550 TCAAAATGTA
64292560 AAAATATATAATTTTTTTTT-T
1 AAAATA-ATAATTTTTTTTTAT
64292581 CAAAATAAT-ATTTATTCTTTTAT
1 -AAAATAATAATTT-TT-TTTTAT
64292604 AAAATAA
1 AAAATAA
64292611 AGGATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.15
21 4 0.15
22 17 0.65
23 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
AAAATAATAATTTTTTTTTAT
Found at i:64293460 original size:21 final size:22
Alignment explanation
Indices: 64293414--64293460 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
64293404 TGATTATATA
* * *
64293414 AAATATAATGATGTGATATATT
1 AAATTTAATGATATGATAAATT
64293436 -AATTTAATGATATGA-AAATT
1 AAATTTAATGATATGATAAATT
64293456 AAATT
1 AAATT
64293461 AAACTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (22 bp):
AAATTTAATGATATGATAAATT
Done.