Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 143 of 167
Found at i:47629278 original size:87 final size:86
Alignment explanation
Indices: 47629128--47629701 Score: 279
Period size: 87 Copynumber: 6.4 Consensus size: 86
47629118 GTGATCGTGA
* * * * * *
47629128 GCTCAACTCATTTCTCGCAATATGAATTGACTCTTTAAAAACAGACATTAAAATAGAAATTGAAC
1 GCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTAAAAACAAACATTAAAACAGAAATTGAAA
* *
47629193 ATAGCTCAGCACGTGAGCCAAG
65 ATACCTCAGCACGTGACCCAAG
* **
47629215 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-AAAACAAAATATGTAAAACAGATTTTGAA
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAC-AAACAT-TAAAACAGAAATTGAA
* * * *
47629279 AATACCTCGGTATGTGACCCGAG
64 AATACCTCAGCACGTGACCCAAG
* * * * **
47629302 GCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAGCATAA-ATTGAAAAAAAAAACATC
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-AAAAACA-AACATT-------AAAACAGA
** **
47629366 AATTGAAAATACCTCAGCGTGTGACCTGAG
57 AATTGAAAATACCTCAGCACGTGACCCAAG
* * * *
47629396 GCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTGACAAACATAA-ATTGAAAAAAAAAAGA
1 GCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT-AAAAACA-AACATT-----AAAACAGA
* * **
47629460 AATTGAAAATACCTCTG--CGTGTCCTGAG
57 AATTGAAAATACCTCAGCACGTGACCCAAG
* * * *
47629488 GCTGAACTCACCTCTCGCAATATGAATTGATTTTTTTGGAAAAACAAA-ATTTGAAAAACAGAAT
1 GCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT--AAAAACAAACA-TT--AAAACAGAAA
*** **
47629552 TTGAAAATACCTCAGTGTGTGAGTCAAG
59 TTGAAAATACCTCAGCACGTGACCCAAG
** * * *
47629580 GCTCAACTCACCACCCGCAATATGAGTTGATTTTTTTGAAACACAGAA-ATTGAAGAACAAAAAT
1 GCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT-AAAAACA-AACATT-AA-AACAGAAAT
* * ***
47629644 GGAAAACACCTCAG--CGT--CTTGAG
60 TGAAAATACCTCAGCACGTGACCCAAG
* *
47629667 GTTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
47629702 TTTAAAAGAC
Statistics
Matches: 398, Mismatches: 69, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
85 10 0.03
86 8 0.02
87 121 0.30
88 3 0.01
89 8 0.02
90 25 0.06
91 28 0.07
92 87 0.22
93 9 0.02
94 83 0.21
96 16 0.04
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (86 bp):
GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAACAAACATTAAAACAGAAATTGAAAA
TACCTCAGCACGTGACCCAAG
Found at i:47629399 original size:94 final size:92
Alignment explanation
Indices: 47629213--47629702 Score: 421
Period size: 92 Copynumber: 5.4 Consensus size: 92
47629203 ACGTGAGCCA
* * * * *
47629213 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTT-AAAACA-AAATATG--TAAAACAGAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGCAAACATAAAT-TGAAAAAAAAAAAT
* * ** *
47629273 -TTTGAAAATACCTCGGTATGTGACCCG
65 AATTGAAAATACCTCAGCGTGTGACCTG
*
47629300 AGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTGAAAAAAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGCAAA-CATAAATTGAAAAAAAAAA-A
47629364 TCAATTGAAAATACCTCAGCGTGTGACCTG
64 T-AATTGAAAATACCTCAGCGTGTGACCTG
*
47629394 AGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTTGACAAACATAAATTGAAAAAAAAAAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-CAAACATAAATTGAAAAAAAAAA-
*
47629459 A-AATTGAAAATACCTCTGCGTGT--CCTG
63 ATAATTGAAAATACCTCAGCGTGTGACCTG
* * * * *
47629486 AGGCTGAACTCACCTCTCGCAATATGAATTGATTTTTTTGGAAAAACA-AAATTTG-AAAAACAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT-G-CAAACATAAA-TTGAAAAAAAAA
* * *
47629549 AAT--TTGAAAATACCTCAGTGTGTGA-GTCA
62 AATAATTGAAAATACCTCAGCGTGTGACCT-G
* * * * * *
47629578 AGGCTCAACTCACCACCCGCAATATGAGTTGATTTTTTTGAAACACAGAAATTG--AAGAACAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGCAA-ACATAAATTGAAAAAAAAAAA
* * *
47629641 -AATGGAAAACACCTCAGC--GT--CTTG
64 TAATTGAAAATACCTCAGCGTGTGACCTG
*
47629665 AGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
47629703 TTAAAAGACA
Statistics
Matches: 340, Mismatches: 41, Indels: 45
0.80 0.10 0.11
Matches are distributed among these distances:
86 6 0.02
87 64 0.19
88 4 0.01
89 6 0.02
90 30 0.09
91 27 0.08
92 90 0.26
93 10 0.03
94 73 0.21
96 26 0.08
97 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (92 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGCAAACATAAATTGAAAAAAAAAAATA
ATTGAAAATACCTCAGCGTGTGACCTG
Found at i:47629521 original size:92 final size:93
Alignment explanation
Indices: 47629274--47629723 Score: 458
Period size: 92 Copynumber: 4.9 Consensus size: 93
47629264 AAAACAGATT
* ** * *
47629274 TTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTT
1 TTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * * *
47629337 GCAAAGCATAAATTGAAAAAAAAAACATCAA
65 GAAAAACAGAAATTGAAAAAAAAAAGA--AA
*
47629368 TTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTATTTTTTT
1 TTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* *
47629433 GACAAACATAAATTGAAAAAAAAAAGAAA
65 GAAAAACAGAAATTGAAAAAAAAAAGAAA
* * *
47629462 TTGAAAATACCTCTGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAATTGATTTTTTTG
1 TTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-
* *
47629526 GAAAAACA-AAATTTG---AAAAACAGAAT
65 GAAAAACAGAAA-TTGAAAAAAAAAAGAAA
* ** * * *
47629552 TTGAAAATACCTCAGTGTGTGAGTCAAGGCTCAACTCACCACCCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
47629617 GAAACACAGAAATTG--AAGAACAA-AAA
65 GAAAAACAGAAATTGAAAAAAAAAAGAAA
* * * * *
47629643 TGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
1 TTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
47629705 AAAAGACAGAAATTGAAAA
66 AAAA-ACAGAAATTGAAAA
47629724 TACCTCAACG
Statistics
Matches: 303, Mismatches: 42, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
87 39 0.13
88 11 0.04
89 2 0.01
90 29 0.10
91 26 0.09
92 85 0.28
93 10 0.03
94 73 0.24
96 28 0.09
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (93 bp):
TTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
AAAAACAGAAATTGAAAAAAAAAAGAAA
Found at i:47629558 original size:13 final size:14
Alignment explanation
Indices: 47629526--47629558 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
47629516 GATTTTTTTG
47629526 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
47629540 GAAAAACAGAATTT
1 GAAAAACAAAATTT
47629554 GAAAA
1 GAAAA
47629559 TACCTCAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:47629769 original size:76 final size:76
Alignment explanation
Indices: 47629659--47629926 Score: 359
Period size: 76 Copynumber: 3.6 Consensus size: 76
47629649 ACACCTCAGC
*
47629659 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAGACAGAAATTGAAAA
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAGACAGAAATTGAAAA
47629724 TACCTCAACGT
66 TACCTCAACGT
* * * * * *
47629735 GTCTTGAGGCTCAACTCACCTTTCGCAATATGAGTT--TATTTTTGACAA-ACAAAAATTGAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAGACAGAAATTGAAAA
*
47629797 TACCTC-A-GC
66 TACCTCAACGT
* ** **
47629806 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAACTGA-TTTTTTTGGAAGACAGAAATTGAAAA
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAGACAGAAATTGAAAA
*
47629870 TACATCAACGT
66 TACCTCAACGT
*
47629881 GTCTTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT
47629927 GAAACATAAA
Statistics
Matches: 162, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
71 33 0.20
72 8 0.05
73 35 0.22
74 10 0.06
75 35 0.22
76 41 0.25
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (76 bp):
GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAGACAGAAATTGAAAA
TACCTCAACGT
Found at i:47629938 original size:147 final size:147
Alignment explanation
Indices: 47629635--47629923 Score: 472
Period size: 146 Copynumber: 2.0 Consensus size: 147
47629625 GAAATTGAAG
* ** **
47629635 AACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAACTGATTT
* *
47629700 TTTTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTTTCGCAATA
66 TTTTTAAAAGACAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
*
47629765 TGAGTTTATTTTTGACA
131 TGAGTTGATTTTTGACA
47629782 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAACTGA-TT
1 AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAACTGATTT
** *
47629846 TTTTTGGAAGACAGAAATTGAAAATACATCAACGTGTCTTGAGGCTGAACTCACCTCTCGCAATA
66 TTTTTAAAAGACAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
47629911 TGAGTTGATTTTT
131 TGAGTTGATTTTT
47629924 TTTGAAACAT
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
146 74 0.56
147 57 0.44
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (147 bp):
AACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAACTGATTT
TTTTTAAAAGACAGAAATTGAAAATACATCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGACA
Found at i:47630050 original size:14 final size:14
Alignment explanation
Indices: 47630031--47630057 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47630021 ATTTGTAAGG
47630031 CAAAAATTGAAAAA
1 CAAAAATTGAAAAA
47630045 CAAAAATTGAAAA
1 CAAAAATTGAAAA
47630058 TACCTCAGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (14 bp):
CAAAAATTGAAAAA
Found at i:47630159 original size:13 final size:13
Alignment explanation
Indices: 47630113--47630157 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
47630103 TTGATTTTTG
47630113 AAAAACAGAAATT
1 AAAAACAGAAATT
*
47630126 AAAAGCAGAAATT
1 AAAAACAGAAATT
*
47630139 GAAAAATAGAAATT
1 -AAAAACAGAAATT
47630153 AAAAA
1 AAAAA
47630158 TACCTCGGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:47630187 original size:100 final size:101
Alignment explanation
Indices: 47629941--47630229 Score: 390
Period size: 100 Copynumber: 2.9 Consensus size: 101
47629931 CATAAATTAA
*
47629941 AAAAAT-GAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAATAG-AAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
47630005 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
* * * *
47630040 AAAAACAAAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
47630105 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
* * * *
47630140 AAAAATAGAAATTAAAAATACCTCGGCATGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
47630205 GATTTTT-AAAAAGCATAAATTGAAA
66 GATTTTTGAAAAA-CAGAAATTGAAA
47630230 TTACCTCAGC
Statistics
Matches: 166, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
99 66 0.40
100 82 0.49
101 18 0.11
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (101 bp):
AAAAATAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
Found at i:47630415 original size:177 final size:174
Alignment explanation
Indices: 47630040--47630496 Score: 645
Period size: 177 Copynumber: 2.6 Consensus size: 174
47630030 GCAAAAATTG
*
47630040 AAAAACAAAAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAAAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
47630104 TGA-TTTTTGAAAAACAGAAATT-AAAAGCAGAAATTGAAAAATAGAAATTAAAAATACCTCGGC
65 TGATTTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTGAAAAATAGAAATTAAAAAGACCTCGGC
* * *
47630167 ATGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTT
130 ATGCCCCGAGACTCAACTCACCTCTCGCAATACGAGTTGATTTTT
*
47630212 AAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAA-CAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
47630277 TGATTTTTTGAAAAGCATAAATTGAAAAAACAGAAATTGAAAACA-A-AATTTGAAAAGACCTCG
65 TGATTTTTTGAAAAGCAGAAATTG-AAAAGCAGAAATTGAAAA-ATAGAAATTAAAAAGACCTCG
* *
47630340 GCGTATGGCTCGAGACTCAACTCACCTCTCGCAATACGAGTTGATTTTTT
128 GC--ATGCCCCGAGACTCAACTCACCTCTCGCAATACGAGTTGA-TTTTT
* * * *
47630390 GACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATTTGAGTT
1 AAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
47630455 GATTCTTTTGAAAAGTAGAAATTGAAAAGCAGAAATTGAAAA
66 GATT-TTTTGAAAAGCAGAAATTGAAAAGCAGAAATTGAAAA
47630497 TACCTCAGCA
Statistics
Matches: 255, Mismatches: 20, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
172 5 0.02
173 57 0.22
174 19 0.07
175 16 0.06
176 18 0.07
177 115 0.45
178 25 0.10
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (174 bp):
AAAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTGAAAAGCAGAAATTGAAAAGCAGAAATTGAAAAATAGAAATTAAAAAGACCTCGGCA
TGCCCCGAGACTCAACTCACCTCTCGCAATACGAGTTGATTTTT
Found at i:47630479 original size:14 final size:14
Alignment explanation
Indices: 47630462--47630496 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
47630452 GTTGATTCTT
*
47630462 TTGAAAAGTAGAAA
1 TTGAAAAGCAGAAA
47630476 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
47630490 TTGAAAA
1 TTGAAAA
47630497 TACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.20, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:47630624 original size:84 final size:82
Alignment explanation
Indices: 47630388--47630966 Score: 335
Period size: 75 Copynumber: 6.9 Consensus size: 82
47630378 AGTTGATTTT
*
47630388 TTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATTTGA
1 TTGACAAACAGAAATTGAAA-TACCTCAGC--GT-CTGAGGCTCAACTCACCTCTCGCAATATGA
*
47630452 GTTGATTCTTTTGAAAAGTAGAAA
62 GTTGATT-TTTTGAAAA--ATAAA
*
47630476 TTGA-AAAGCAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATA
1 TTGACAAA-CAGAAATTG-AAATACCTCAG--CGT---CTGAGGCTCAACTCACCTCTCGCAATA
47630540 TGAGTTGGA-TTTTTGAAAAATAAA
59 TGAGTT-GATTTTTTGAAAAATAAA
*
47630564 TTGACAAACGGAAATTGACAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGACAAACAGAAATTGA-AATACCTCAGCGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGT
47630629 TGATTTTTTTGAAAAAT--A
64 TGA-TTTTTTGAAAAATAAA
** *
47630647 --GA-AATTA-AAA-T----TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAG
1 TTGACAAACAGAAATTGAAATACCTCAGC--GT-CTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
47630703 TTGATTCTTTAAAAACATACA
63 TTGATTTTTTGAAAA-ATAAA
* * ** * * *
47630724 TT-A-AAATAGAAATTGAACATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTTGTAATAT
1 TTGACAAACAGAAATTGAA-ATACCTCAG--CGT---CTGAGGCTCAACTCACCTCTCGCAATAT
* * * *
47630787 GAATTGATTTTTT-TAAAAGACA
60 GAGTTGATTTTTTGAAAAATAAA
** * ** ** *
47630809 --G--AAATTGAAAAT-ACCT-CAAC-GTGTCTTGAGGCTCAACTCACCTCCTCGCAATATGAGT
1 TTGACAAACAGAAATTGAAATACCTCAGCGTC-TGAGGCTCAACTCACCT-CTCGCAATATGAGT
* *
47630867 TGA-TTTTTGAAAACAGAAT
64 TGATTTTTTGAAAA-ATAAA
* ** **
47630886 TTGAAAAACAGATTTTGAAAATACCTCAGCGTGCCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGACAAACAGAAATTG-AAATACCTCAGCGT--CTGAGGCTCAACTCACCTCTCGCAATATGAG
*
47630951 TAGATTTTTTTGAAAA
63 TTGA-TTTTTTGAAAA
47630967 CAGAAATAAA
Statistics
Matches: 389, Mismatches: 53, Indels: 99
0.72 0.10 0.18
Matches are distributed among these distances:
73 9 0.02
74 10 0.03
75 56 0.14
76 18 0.05
77 6 0.02
78 6 0.02
79 8 0.02
80 4 0.01
81 9 0.02
82 1 0.00
83 15 0.04
84 33 0.08
85 44 0.11
86 21 0.05
87 48 0.12
88 32 0.08
89 22 0.06
90 12 0.03
91 33 0.08
92 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (82 bp):
TTGACAAACAGAAATTGAAATACCTCAGCGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGAAAAATAAA
Found at i:47630652 original size:250 final size:236
Alignment explanation
Indices: 47630355--47630884 Score: 674
Period size: 250 Copynumber: 2.2 Consensus size: 236
47630345 TGGCTCGAGA
* * *
47630355 CTCAACTCACCTCTCGCAATACGAGTTGA-TTTTTTGACAACAGAAATTGAAATTACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCTCAGCGT
* **
47630419 GTCCTGAGGCTCAACTCACCTCTCGCAATTTGAGTTGATTCTTTTGAAAAGTAGAAATTGAAAAG
66 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTC-TTT-AAAAACAGAAATT-AAAA-
* *
47630484 CAGAAATTGAAAATACCTCAGCACGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGGA
127 CAGAAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAATT-GA
* *
47630549 TTTTTGAAAAATAAATTGACAAACGGAAATTGACAATACCTC-A-GCGTCTTGAGG
191 TTTTT-----ATAAA-AGAC--A--GAAATTGAAAATACCTCAACGCGTCTTGAGG
*
47630603 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTAAAATTACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTAAAATTACCTCAGCG
* * * *
47630668 TGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTCTTTAAAAACATACATTAAAATAG
65 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTAAAAACAGAAATTAAAACAG
* * * * *
47630733 AAATTGAACATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTTGTAATATGAATTGATTTT
130 AAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
* *
47630798 TTTAAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
195 TATAAAAGACAGAAATTGAAAATACCTCAACGCGTCTTGAGG
47630840 CTCAACTCACCTCCTCGCAATATGAGTTGA--TTTTTGAAAACAGAA
1 CTCAACTCACCT-CTCGCAATATGAGTTGATTTTTTTGAAAACAGAA
47630885 TTTGAAAAAC
Statistics
Matches: 254, Mismatches: 23, Indels: 23
0.85 0.08 0.08
Matches are distributed among these distances:
235 24 0.09
236 7 0.03
237 23 0.09
238 17 0.07
239 3 0.01
240 4 0.02
245 7 0.03
246 54 0.21
247 4 0.02
248 37 0.15
249 10 0.04
250 64 0.25
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (236 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTAAAATTACCTCAGCGT
GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTAAAAACAGAAATTAAAACAGA
AATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTT
ATAAAAGACAGAAATTGAAAATACCTCAACGCGTCTTGAGG
Found at i:47630800 original size:162 final size:161
Alignment explanation
Indices: 47630476--47630973 Score: 563
Period size: 162 Copynumber: 3.1 Consensus size: 161
47630466 AAAGTAGAAA
*
47630476 TTGAAAAG-CAGAAATTGAAAATACCTCAGCACGTGAGCC-GAGGCTCAACTCACCT-CTCGCAA
1 TTGAAAAGACAGAAATTGAAAATACCTCA--ACGTG-TCCTGAGGCTCAACTCACCTCCTCGCAA
* * * * * ***
47630538 TATGAGTTGGATTTTTGAAAAATA-AATTGACAAACGGAAATTGACAATACCTCAGCGT-CTTGA
63 TATGAGTT-GATTTTT-AAAAACAGAATTTAAAAACAGAAATTGAAAATACCTCAGCGTGCCCAA
47630601 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
126 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
47630637 TTGAAAA-ATAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCT-CTCGTAATA
1 TTGAAAAGACAGAAATTGAAAA-TACCTCAACGTGTCCTGAGGCTCAACTCACCTCCTCGCAATA
* * * * *
47630699 TGAGTTGATTCTTTAAAAACATACA-TT-AAAATAGAAATTGAACATAGCTCAGCACGTGAGCCA
65 TGAGTTGATT-TTTAAAAACAGA-ATTTAAAAACAGAAATTGAAAATACCTCAG--CGTG-CCCA
* * * *
47630762 AGGCTCAACTCACTTCTTGTAATATGAATTGATTTTT
125 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
47630799 TT-AAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCCTCGCAATAT
1 TTGAAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCCTCGCAATAT
* **
47630863 GAGTTGATTTTTGAAAACAGAATTTGAAAAACAGATTTTGAAAATACCTCAGCGTGCCCAAGGCT
66 GAGTTGATTTTTAAAAACAGAATTT-AAAAACAGAAATTGAAAATACCTCAGCGTGCCCAAGGCT
*
47630928 CAACTCACCTCTCGCAATATGAGTAGATTTTT
130 CAACTCACCTCTCGCAATATGAGTTGATTTTT
47630960 TTG-AAA-ACAGAAAT
1 TTGAAAAGACAGAAAT
47630974 AAAAACATCA
Statistics
Matches: 283, Mismatches: 37, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
158 31 0.11
159 39 0.14
160 16 0.06
161 66 0.23
162 89 0.31
163 22 0.08
164 20 0.07
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (161 bp):
TTGAAAAGACAGAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCCTCGCAATAT
GAGTTGATTTTTAAAAACAGAATTTAAAAACAGAAATTGAAAATACCTCAGCGTGCCCAAGGCTC
AACTCACCTCTCGCAATATGAGTTGATTTTT
Found at i:47630895 original size:14 final size:14
Alignment explanation
Indices: 47630872--47630906 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
47630862 TGAGTTGATT
47630872 TTTG-AAAACAGAA
1 TTTGAAAAACAGAA
*
47630885 TTTGAAAAACAGAT
1 TTTGAAAAACAGAA
47630899 TTTGAAAA
1 TTTGAAAA
47630907 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:47630961 original size:87 final size:87
Alignment explanation
Indices: 47630813--47630971 Score: 241
Period size: 87 Copynumber: 1.8 Consensus size: 87
47630803 AAGACAGAAA
*** *
47630813 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCCTCGCAATATGAGTTGATTTTTGAA
1 TTGAAAATACCTCAACGTGTCCCAAGGCTCAACTCACCTCCTCGCAATATGAGTAGATTTTTGAA
47630878 AACAGAATTTGAAAAACAGATT
66 AACAGAATTTGAAAAACAGATT
*
47630900 TTGAAAATACCTCAGCGTG-CCCAAGGCTCAACTCACCT-CTCGCAATATGAGTAGATTTTTTTG
1 TTGAAAATACCTCAACGTGTCCCAAGGCTCAACTCACCTCCTCGCAATATGAGTAGA--TTTTTG
47630963 AAAACAGAA
64 AAAACAGAA
47630972 ATAAAAACAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 16 0.25
86 16 0.25
87 33 0.51
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (87 bp):
TTGAAAATACCTCAACGTGTCCCAAGGCTCAACTCACCTCCTCGCAATATGAGTAGATTTTTGAA
AACAGAATTTGAAAAACAGATT
Found at i:47634467 original size:21 final size:21
Alignment explanation
Indices: 47634437--47634478 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
47634427 CTTCCTGAGG
*
47634437 TTTCCTACATGCTCTCTTTCC
1 TTTCCAACATGCTCTCTTTCC
47634458 TTTCCAACATGCTCTCTTTCC
1 TTTCCAACATGCTCTCTTTCC
47634479 CTCTTGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.38, G:0.05, T:0.45
Consensus pattern (21 bp):
TTTCCAACATGCTCTCTTTCC
Found at i:47640579 original size:52 final size:52
Alignment explanation
Indices: 47640522--47640624 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
47640512 ATGAAATGCC
*
47640522 TAAATAGGGGCTATCTTGAAATCAACACCAACTTTTTGCATATTCATTCATA
1 TAAATAGGGGCTATCTTGAAATCAACACCAAATTTTTGCATATTCATTCATA
* *
47640574 TAAATAGGGGCTATCTTTAAATTAACACCAAATTTTTGCATATTCATTCAT
1 TAAATAGGGGCTATCTTGAAATCAACACCAAATTTTTGCATATTCATTCAT
47640625 GACTGACATT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (52 bp):
TAAATAGGGGCTATCTTGAAATCAACACCAAATTTTTGCATATTCATTCATA
Found at i:47640659 original size:12 final size:12
Alignment explanation
Indices: 47640642--47640677 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
47640632 ATTCATTTGA
47640642 CATTCATGCATT
1 CATTCATGCATT
*
47640654 CATTCATGCATC
1 CATTCATGCATT
*
47640666 CATTCATTCATT
1 CATTCATGCATT
47640678 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:47640671 original size:16 final size:17
Alignment explanation
Indices: 47640650--47640681 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47640640 GACATTCATG
47640650 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
47640666 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
47640682 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:47641177 original size:25 final size:25
Alignment explanation
Indices: 47641149--47641198 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
47641139 TTAGGGCAAG
* *
47641149 GAATATTCATATCAAATTCTGGGGC
1 GAATATTCATACCAAATCCTGGGGC
47641174 GAATATTCATACCAAATCCTGGGGC
1 GAATATTCATACCAAATCCTGGGGC
47641199 TAACCCTGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
GAATATTCATACCAAATCCTGGGGC
Found at i:47646259 original size:104 final size:104
Alignment explanation
Indices: 47646121--47646323 Score: 352
Period size: 104 Copynumber: 2.0 Consensus size: 104
47646111 ACAATGTATG
* *
47646121 TTGTATCACACGACATGGCTAATTTCAAATCTGGACCCAATAAAATACATGAAGGAATCATCGAC
1 TTGTATCACACGACATGGCTAATTTCAAAGCTGGACCCAATAAAATACATGAAGGAATCACCGAC
*
47646186 ACTATCAGGAAGATTGGCACGATGGCAGATCCTCATATA
66 ACTATCAGGAAGAATGGCACGATGGCAGATCCTCATATA
* * *
47646225 TTGTATCACACGACATGGCTAATTTCAAAGCTGGACCCAATAAAATACATGATGGAATCGCCGGC
1 TTGTATCACACGACATGGCTAATTTCAAAGCTGGACCCAATAAAATACATGAAGGAATCACCGAC
47646290 ACTATCAGGAAGAATGGCACGATGGCAGATCCTC
66 ACTATCAGGAAGAATGGCACGATGGCAGATCCTC
47646324 CTTTCAGAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 93 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (104 bp):
TTGTATCACACGACATGGCTAATTTCAAAGCTGGACCCAATAAAATACATGAAGGAATCACCGAC
ACTATCAGGAAGAATGGCACGATGGCAGATCCTCATATA
Found at i:47646580 original size:41 final size:41
Alignment explanation
Indices: 47646522--47646602 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
47646512 TGATGGTGCG
47646522 TCAAATGCTTTAAGGCATGGAATTGGAGCAATCCTGGTATA
1 TCAAATGCTTTAAGGCATGGAATTGGAGCAATCCTGGTATA
*
47646563 TCAAATGCTTTAGGGCATGGAATTGGAGCAATCCTGGTAT
1 TCAAATGCTTTAAGGCATGGAATTGGAGCAATCCTGGTAT
47646603 CACCAGACGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (41 bp):
TCAAATGCTTTAAGGCATGGAATTGGAGCAATCCTGGTATA
Found at i:47649593 original size:21 final size:21
Alignment explanation
Indices: 47649567--47649607 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47649557 AGACGAGCAA
*
47649567 TACTCCACAGCAGGTGGAGTG
1 TACTCCACAACAGGTGGAGTG
*
47649588 TACTCCAGAACAGGTGGAGT
1 TACTCCACAACAGGTGGAGT
47649608 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.32, T:0.20
Consensus pattern (21 bp):
TACTCCACAACAGGTGGAGTG
Found at i:47659594 original size:5 final size:5
Alignment explanation
Indices: 47659586--47659661 Score: 91
Period size: 5 Copynumber: 14.6 Consensus size: 5
47659576 ATTTTTTTAT
* *
47659586 TTTCA TTTCA TTTCA TTTC- TTCCA TTTCA TTTCA TTTGTA TTTCTA TTTCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTT-CA TTTC-A TTTCA
47659637 TTTCA TTTACA TTTCTA TTTCA TTT
1 TTTCA TTT-CA TTTC-A TTTCA TTT
47659662 AAATTTTATT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
4 3 0.05
5 40 0.65
6 19 0.31
ACGTcount: A:0.18, C:0.18, G:0.01, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:47659637 original size:22 final size:21
Alignment explanation
Indices: 47659586--47659661 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 21
47659576 ATTTTTTTAT
47659586 TTTCATTTCATTTCATTTCTTCCA
1 TTTCATTTCATTTCATTTC-T--A
*
47659610 TTTCATTTCATTTGTATTTCTA
1 TTTCATTTCATTT-CATTTCTA
47659632 TTTCATTTCATTTACATTTCTA
1 TTTCATTTCATTT-CATTTCTA
47659654 TTTCATTT
1 TTTCATTT
47659662 AAATTTTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
22 29 0.60
24 14 0.29
25 5 0.10
ACGTcount: A:0.18, C:0.18, G:0.01, T:0.62
Consensus pattern (21 bp):
TTTCATTTCATTTCATTTCTA
Found at i:47659700 original size:18 final size:18
Alignment explanation
Indices: 47659654--47659720 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
47659644 TACATTTCTA
* *
47659654 TTTCATTTAAATTTTATTAT
1 TTTCATTTCAGTTTT-TT-T
47659674 TTCTCATTTCAGTTTTTTT
1 TT-TCATTTCAGTTTTTTT
*
47659693 TTTCATTTCAGTCTTTTT
1 TTTCATTTCAGTTTTTTT
47659711 TTTCATTTCA
1 TTTCATTTCA
47659721 ATTTATAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 25 0.58
19 3 0.07
20 4 0.09
21 11 0.26
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTCATTTCAGTTTTTTT
Found at i:47659776 original size:5 final size:5
Alignment explanation
Indices: 47659747--47659832 Score: 59
Period size: 5 Copynumber: 16.4 Consensus size: 5
47659737 TTATTTAAAC
* * *
47659747 TTTCA TTCCA TTTCA TAATCA --TCA TTTCA TTTCA TTTCA TTATAAA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA TTTCA TTTCA TT-T-CA
* *
47659793 TTACA TTTCA TTTCA TATTCA TTTAA TTTTTCA TTTCA TT
1 TTTCA TTTCA TTTCA T-TTCA TTTCA --TTTCA TTTCA TT
47659833 AATTTTTTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
3 3 0.05
5 45 0.70
6 9 0.14
7 7 0.11
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (5 bp):
TTTCA
Found at i:47659840 original size:17 final size:18
Alignment explanation
Indices: 47659803--47659839 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
47659793 TTACATTTCA
47659803 TTTCATATTCATTTAATT
1 TTTCATATTCATTTAATT
47659821 TTTCAT-TTCA-TTAATT
1 TTTCATATTCATTTAATT
47659837 TTT
1 TTT
47659840 TTCATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 4 0.21
18 6 0.32
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTCATATTCATTTAATT
Found at i:47660134 original size:115 final size:110
Alignment explanation
Indices: 47659964--47660168 Score: 259
Period size: 115 Copynumber: 1.8 Consensus size: 110
47659954 TATTATTAAA
* * * *
47659964 TGTACTTGGTGTCGGCCATTACATGTCCAACACCCAATTTTTTTTTAAAATACACTGATGCCAGC
1 TGTACTTGGTGGCGACCATTACATGGCCAACACCAAATTTTTTTTTAAAATACACTGATGCC-GC
*
47660029 -CATCAATGTTCCAAAATAAATAAAAAATGTATTGAAAGTCGAAAAT
65 TCATCAATGTCCCAAAATAAA-AAAAAATGTATTGAAAGTCGAAAAT
* * *
47660075 TGTACTTGGTGGCGACCATTACATGGCCAGCACTCAAAAGTTATTTTTTTTAAATACACTGGTGC
1 TGTACTTGGTGGCGACCATTACATGGCCAACAC-C-AAA-TT-TTTTTTTAAAATACACTGATGC
* *
47660140 CGCTCATCAGTGTCCCAAAGTAAAAAAAA
62 CGCTCATCAATGTCCCAAAATAAAAAAAA
47660169 TGTGCCTTGG
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
111 29 0.37
112 1 0.01
113 2 0.03
114 9 0.11
115 38 0.48
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.30
Consensus pattern (110 bp):
TGTACTTGGTGGCGACCATTACATGGCCAACACCAAATTTTTTTTTAAAATACACTGATGCCGCT
CATCAATGTCCCAAAATAAAAAAAAATGTATTGAAAGTCGAAAAT
Found at i:47670496 original size:5 final size:5
Alignment explanation
Indices: 47670486--47670517 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
47670476 GCTTTTGTGA
47670486 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
47670518 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:47670511 original size:9 final size:9
Alignment explanation
Indices: 47670487--47670517 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
47670477 CTTTTGTGAA
47670487 AAATAAAAT
1 AAATAAAAT
47670496 AAAATAAAAT
1 -AAATAAAAT
47670506 AAATAAAAT
1 AAATAAAAT
47670515 AAA
1 AAA
47670518 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:47678450 original size:3 final size:3
Alignment explanation
Indices: 47678408--47678433 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47678398 ACAATAACTA
47678408 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
47678434 AACATCGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:47681003 original size:5 final size:5
Alignment explanation
Indices: 47680990--47681068 Score: 52
Period size: 5 Copynumber: 14.8 Consensus size: 5
47680980 GCTGACACCT
* * *
47680990 TTTTG TTTTC TTTTTC TTTTA TTTTC ATATTTC TTTTG TTTT- TTTTC
1 TTTTC TTTTC -TTTTC TTTTC TTTTC -T-TTTC TTTTC TTTTC TTTTC
* *
47681037 TTTTA TTTTC ATATTTC TTTTA TTTTAC TTTT
1 TTTTC TTTTC -T-TTTC TTTTC TTTT-C TTTT
47681069 TTATTTTGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.07
5 34 0.58
6 13 0.22
7 8 0.14
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:47681022 original size:17 final size:17
Alignment explanation
Indices: 47681002--47681062 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
47680992 TTGTTTTCTT
47681002 TTTCTTTTATTTTCATA
1 TTTCTTTTATTTTCATA
*
47681019 TTTCTTTTGTTTT--T-
1 TTTCTTTTATTTTCATA
47681033 TTTCTTTTATTTTCATA
1 TTTCTTTTATTTTCATA
47681050 TTTCTTTTATTTT
1 TTTCTTTTATTTT
47681063 ACTTTTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
14 12 0.31
15 1 0.03
16 1 0.03
17 25 0.64
ACGTcount: A:0.11, C:0.10, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTCTTTTATTTTCATA
Found at i:47681038 original size:31 final size:31
Alignment explanation
Indices: 47680990--47681075 Score: 120
Period size: 31 Copynumber: 2.7 Consensus size: 31
47680980 GCTGACACCT
47680990 TTTTGTTTTCTTTTTCTTTTATTTTCATATTTC
1 TTTTG-TTT-TTTTTCTTTTATTTTCATATTTC
47681023 TTTTGTTTTTTTTCTTTTATTTTCATATTTC
1 TTTTGTTTTTTTTCTTTTATTTTCATATTTC
* **
47681054 TTTTATTTTACTT-TTTTATTTT
1 TTTTGTTTTTTTTCTTTTATTTT
47681076 GTTCCTTAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
30 9 0.18
31 33 0.66
32 3 0.06
33 5 0.10
ACGTcount: A:0.10, C:0.09, G:0.02, T:0.78
Consensus pattern (31 bp):
TTTTGTTTTTTTTCTTTTATTTTCATATTTC
Found at i:47681110 original size:9 final size:9
Alignment explanation
Indices: 47681096--47681165 Score: 54
Period size: 9 Copynumber: 7.9 Consensus size: 9
47681086 AAATTTTATC
47681096 TTTTTATTT
1 TTTTTATTT
*
47681105 TTTTTACTT
1 TTTTTATTT
*
47681114 TTTTGA-TT
1 TTTTTATTT
*
47681122 TTTTT-CTT
1 TTTTTATTT
* *
47681130 ATTTCATTT
1 TTTTTATTT
*
47681139 TGTTTATTT
1 TTTTTATTT
47681148 TGTTTTATTT
1 T-TTTTATTT
*
47681158 TTATTATT
1 TTTTTATT
47681166 AACTTTAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
8 11 0.23
9 28 0.60
10 8 0.17
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:47681138 original size:16 final size:17
Alignment explanation
Indices: 47681103--47681144 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
47681093 ATCTTTTTAT
* *
47681103 TTTTTTTACTTTTTTGA
1 TTTTTTTACTTATTTCA
47681120 TTTTTTT-CTTATTTCA
1 TTTTTTTACTTATTTCA
47681136 TTTTGTTTA
1 TTTT-TTTA
47681145 TTTTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (17 bp):
TTTTTTTACTTATTTCA
Found at i:47681139 original size:24 final size:24
Alignment explanation
Indices: 47681112--47681157 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
47681102 TTTTTTTTAC
*
47681112 TTTT-TTGATTTTTTTCTTATTTCA
1 TTTTGTTGATTTTGTT-TTATTTCA
*
47681136 TTTTGTTTATTTTGTTTTATTT
1 TTTTGTTGATTTTGTTTTATTT
47681158 TTATTATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTGTTGATTTTGTTTTATTTCA
Found at i:47699324 original size:26 final size:26
Alignment explanation
Indices: 47699294--47699352 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
47699284 AACAAATTTC
47699294 TCAAAATTTTAATA-AGGGTAAAATCA
1 TCAAAATTTT-ATAGAGGGTAAAATCA
* **
47699320 TCAAAATTTTATAGGGGGTAAAATTG
1 TCAAAATTTTATAGAGGGTAAAATCA
47699346 TCAAAAT
1 TCAAAAT
47699353 ATTGCTCAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTATAGAGGGTAAAATCA
Found at i:47704871 original size:37 final size:37
Alignment explanation
Indices: 47704821--47704896 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
47704811 TGAAATCATC
*
47704821 TAGCTTTAGTCTTTATTGAAAGATTTTGGTGTCACTT
1 TAGCTTCAGTCTTTATTGAAAGATTTTGGTGTCACTT
*
47704858 TAGCTTCAGTCTTTGTTGAAAGATTTTGGTGTCACTT
1 TAGCTTCAGTCTTTATTGAAAGATTTTGGTGTCACTT
47704895 TA
1 TA
47704897 CTCGATCCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.47
Consensus pattern (37 bp):
TAGCTTCAGTCTTTATTGAAAGATTTTGGTGTCACTT
Found at i:47710215 original size:5 final size:5
Alignment explanation
Indices: 47710205--47710234 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
47710195 TGGTATTGTG
*
47710205 GAATT GAATT GGATT GAATT GAATT GAATT
1 GAATT GAATT GAATT GAATT GAATT GAATT
47710235 ATGAGTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (5 bp):
GAATT
Found at i:47710281 original size:17 final size:17
Alignment explanation
Indices: 47710252--47710295 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
47710242 TGTGTGATTA
47710252 ATTGAATTGATATGAAT
1 ATTGAATTGATATGAAT
*
47710269 ATTG-ATTGTATATGAAA
1 ATTGAATTG-ATATGAAT
*
47710286 AGTGAATTGA
1 ATTGAATTGA
47710296 AGAACCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (17 bp):
ATTGAATTGATATGAAT
Found at i:47711149 original size:30 final size:30
Alignment explanation
Indices: 47711113--47711174 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
47711103 CATAAGAAAT
47711113 GTTAAAGTTATCAAATGATAAGTTTTAGTA
1 GTTAAAGTTATCAAATGATAAGTTTTAGTA
47711143 GTTAAAGTTATCAAATGATAAGTTTTAGTA
1 GTTAAAGTTATCAAATGATAAGTTTTAGTA
47711173 GT
1 GT
47711175 AAATATGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (30 bp):
GTTAAAGTTATCAAATGATAAGTTTTAGTA
Found at i:47711653 original size:55 final size:54
Alignment explanation
Indices: 47711582--47711712 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 54
47711572 ACTTCCTCAG
* * * *
47711582 CCCGTGTGCAACACTGACTTTAGGGCACGGCCATGACACATGCCCGTGTGGCCTA
1 CCCGTGGGCAATACTGACTTTA-GACACGGCCATGACACACGCCCGTGTGGCCTA
* * * *
47711637 CCCGTGGGCAATACTGACTTATAGACACGGCTATGGCACACGTCCTTGTGGCCTA
1 CCCGTGGGCAATACTGACTT-TAGACACGGCCATGACACACGCCCGTGTGGCCTA
* * *
47711692 ACCATGGACAATACTGA-TTTA
1 CCCGTGGGCAATACTGACTTTA
47711713 AAAGTTTAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 58 0.91
56 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (54 bp):
CCCGTGGGCAATACTGACTTTAGACACGGCCATGACACACGCCCGTGTGGCCTA
Found at i:47712801 original size:94 final size:94
Alignment explanation
Indices: 47712551--47712867 Score: 351
Period size: 94 Copynumber: 3.4 Consensus size: 94
47712541 CTCCATCGAG
* * *
47712551 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGTGA-T-ATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATG-ATA-GTGACTGATGCATGTCC
*
47712614 CAGACATGTCTTACACTAGCA-TGAAACT-TA
64 CAGACATGTCTTACACTAGCACT-CAACTCTA
* * * * * * *
47712644 GCCGATG-TATGTCCCAGACA-CGTCTTACACTGGCTAACATCATCGAGGCTGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATAGTGACTGATGCATGTCCCA
* *
47712707 GACATGTCTTACACTTGCACTCACCTCTA
66 GACATGTCTTACACTAGCACTCAACTCTA
* *
47712736 CGCCGATGCCATGTCCTAGACATGGTCTTACACGGGCTATCATGA-AGTGACTGATGCATGTCCC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATAGTGACTGATGCATGTCCC
* * ** *
47712800 AGACACGTCTTACACTAGCCCTCGTCTCAA
65 AGACATGTCTTACACTAGCACTCAACTCTA
*
47712830 TGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
47712868 CTCACATAAC
Statistics
Matches: 185, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
89 2 0.01
90 3 0.02
91 48 0.26
92 15 0.08
93 14 0.08
94 85 0.46
95 18 0.10
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATAGTGACTGATGCATGTCCCA
GACATGTCTTACACTAGCACTCAACTCTA
Found at i:47712843 original size:47 final size:46
Alignment explanation
Indices: 47712604--47712851 Score: 148
Period size: 47 Copynumber: 5.3 Consensus size: 46
47712594 TATACGTGAT
* * * * *
47712604 ATGCATGTCCCAGACATGTCTTACACTAG-CATGAAACT-TA-GCCG
1 ATGCATGTCCCAGACACGTCTTACACTAGCCCT-CATCTCAATGCCG
* * *** * * *
47712648 ATGTATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCTG
1 ATGCATGTCCCAGACACGTCTTACACTAGCCCTCATC-TCAATGCCG
* * * * * *
47712695 ATGCATGTCCCAGACATGTCTTACACTTGCACTCACCTCTACGCCG
1 ATGCATGTCCCAGACACGTCTTACACTAGCCCTCATCTCAATGCCG
* * ** * *
47712741 ATGCCATGTCCTAGACATGGTCTTACAC--GGGCT-ATCATGAAGTGACTG
1 ATG-CATGTCCCAGACA-CGTCTTACACTAGCCCTCATC-TCAA-TG-CCG
*
47712789 ATGCATGTCCCAGACACGTCTTACACTAGCCCTCGTCTCAATGCCG
1 ATGCATGTCCCAGACACGTCTTACACTAGCCCTCATCTCAATGCCG
47712835 ATGCCATGTCCCAGACA
1 ATG-CATGTCCCAGACA
47712852 TGGTCTTATA
Statistics
Matches: 156, Mismatches: 35, Indels: 23
0.73 0.16 0.11
Matches are distributed among these distances:
44 28 0.18
45 4 0.03
46 29 0.19
47 73 0.47
48 20 0.13
49 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (46 bp):
ATGCATGTCCCAGACACGTCTTACACTAGCCCTCATCTCAATGCCG
Found at i:47715229 original size:46 final size:46
Alignment explanation
Indices: 47715066--47715236 Score: 236
Period size: 46 Copynumber: 3.7 Consensus size: 46
47715056 CCATCCACGG
* * *
47715066 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATATCACGTTGCCATGGTA
* * * *
47715112 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
* *
47715158 TCTTTCAACCATGGTCATATTCATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
*
47715204 TCTTTCAACCATGGTCTTACACATTTCATATCA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCA
47715237 GAGAGCACAC
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
45 4 0.04
46 108 0.96
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
Found at i:47717991 original size:220 final size:220
Alignment explanation
Indices: 47717609--47718049 Score: 855
Period size: 220 Copynumber: 2.0 Consensus size: 220
47717599 ACACTATTGG
*
47717609 TCCTTCAACTTTTTCATATTTACACTTTAACCCCTCAAATTTTGAGTATTTACTCTTGTGCAATA
1 TCCTTCAACTTTTTCATATTTACACTTTAACCCCTCAAATTTTGAGTATTTACTCTTGTGCAACA
47717674 AAACTTTTCTCACTTTTACAATTTAGTCCTTTCTTGAATTAATATATCATAATATACTTCCCAAT
66 AAACTTTTCTCACTTTTACAATTTAGTCCTTTCTTGAATTAATATATCATAATATACTTCCCAAT
*
47717739 ATTGACATAACTTAAAATTTCCCTTTTTGTCACTTTATTTCCTTATTTTACTATATCACGGATAA
131 ATTGACATAACTCAAAATTTCCCTTTTTGTCACTTTATTTCCTTATTTTACTATATCACGGATAA
47717804 TATTTTACTGTAAAAATTTTCAGAA
196 TATTTTACTGTAAAAATTTTCAGAA
*
47717829 TCCTTCAACTTTTTCATATTTACACTTTAACCCCTCAAATTTTGAGTATTTGCTCTTGTGCAACA
1 TCCTTCAACTTTTTCATATTTACACTTTAACCCCTCAAATTTTGAGTATTTACTCTTGTGCAACA
47717894 AAACTTTTCTCACTTTTACAATTTAGTCCTTTCTTGAATTAATATATCATAATATACTTCCCAAT
66 AAACTTTTCTCACTTTTACAATTTAGTCCTTTCTTGAATTAATATATCATAATATACTTCCCAAT
47717959 ATTGACATAACTCAAAATTTCCCTTTTTGTCACTTTATTTCCTTATTTTACTATATCACGGATAA
131 ATTGACATAACTCAAAATTTCCCTTTTTGTCACTTTATTTCCTTATTTTACTATATCACGGATAA
47718024 TATTTTACTGTAAAAATTTTCAGAA
196 TATTTTACTGTAAAAATTTTCAGAA
47718049 T
1 T
47718050 ATTACACCGT
Statistics
Matches: 218, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
220 218 1.00
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.45
Consensus pattern (220 bp):
TCCTTCAACTTTTTCATATTTACACTTTAACCCCTCAAATTTTGAGTATTTACTCTTGTGCAACA
AAACTTTTCTCACTTTTACAATTTAGTCCTTTCTTGAATTAATATATCATAATATACTTCCCAAT
ATTGACATAACTCAAAATTTCCCTTTTTGTCACTTTATTTCCTTATTTTACTATATCACGGATAA
TATTTTACTGTAAAAATTTTCAGAA
Found at i:47719039 original size:154 final size:153
Alignment explanation
Indices: 47718715--47719116 Score: 463
Period size: 154 Copynumber: 2.6 Consensus size: 153
47718705 AAAATGCCGT
* *
47718715 TATAGATCGAGCATTAG-ATGCGCTTTTAGGAAAACACCGCAAAAAATTTAAGCAAAACACATCA
1 TATAGATCGAGCATTAGCA-GCGCTTTTAAGAAAACA-CGCAAAAAATTTAAGCAAAAGACATCA
* * *
47718779 CTTGTTGTTGAACTTTAATGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAAATCAAGAATT
64 TTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAAATCAAGAATT
** *
47718844 AGCGACGATTATTGAAAAATTTCGC
129 AGCGACGATTATTGAAAAACGTCAC
* * * * *
47718869 TATAGCTCGTGTATTAGCAGCGCTTTT-TGAAAA-ACGCATCAAAAATTTAACCAAAATGACATC
1 TATAGATCGAGCATTAGCAGCGCTTTTAAGAAAACACGCA--AAAAATTTAAGCAAAA-GACATC
* * * *
47718932 GTTTGTTGTTGAGCTTTGGTGGCATTAGCGGCGCTTTTTAAAGAACGCCGCAATAAATCGAGAAT
63 ATTTGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAAATCAAGAAT
* * *
47718997 TAGCGGCGCTTGTTGAAAAACGTCAC
128 TAGCGACGATTATTGAAAAACGTCAC
* * * *
47719023 TGTAGATCGAGCATTAGC-GACGCTTTTCAGAAAATGC-CGCAAAAAAGTTGAGCAAAACGACAT
1 TATAGATCGAGCATTAGCAG-CGCTTTTAAGAAAA--CACGCAAAAAATTTAAGCAAAA-GACAT
*
47719086 CATTTGTTTTTGAGCTTTAGTGGCATTAGCG
62 CATTTGTTGTTGAGCTTTAGTGGCATTAGCG
47719117 ATAAAAACGC
Statistics
Matches: 208, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
151 4 0.02
152 1 0.00
153 21 0.10
154 126 0.61
155 52 0.25
157 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (153 bp):
TATAGATCGAGCATTAGCAGCGCTTTTAAGAAAACACGCAAAAAATTTAAGCAAAAGACATCATT
TGTTGTTGAGCTTTAGTGGCATTAGCGGCGCTTTTTAAAAAACGCCGCAATAAATCAAGAATTAG
CGACGATTATTGAAAAACGTCAC
Found at i:47719495 original size:14 final size:14
Alignment explanation
Indices: 47719465--47719651 Score: 67
Period size: 14 Copynumber: 13.4 Consensus size: 14
47719455 TAGGGTGTAT
* *
47719465 GTTTATGGTTTGGG
1 GTTTAAGGTTTAGG
*
47719479 GTTTAAGGTTTATG
1 GTTTAAGGTTTAGG
* * *
47719493 GTTTATGATTTAGT
1 GTTTAAGGTTTAGG
*
47719507 G-TTAAGGATTTAGT
1 GTTTAAGG-TTTAGG
47719521 GTTTACA-GTTTAGG
1 GTTTA-AGGTTTAGG
* *
47719535 GTGTAA-GTTTAAG
1 GTTTAAGGTTTAGG
**
47719548 GTTT-AGTGTTTATA
1 GTTTAAG-GTTTAGG
*
47719562 GTTTAGGGTTTAGG
1 GTTTAAGGTTTAGG
* ** **
47719576 GGTTAAGGGCTAAA
1 GTTTAAGGTTTAGG
* * *
47719590 GCTTAGGGTTTAGA
1 GTTTAAGGTTTAGG
* *
47719604 GTTTAAGATTTAAG
1 GTTTAAGGTTTAGG
* *
47719618 GTTTAGGGGATTAGG
1 GTTTA-AGGTTTAGG
* * *
47719633 GTTTACGATTTAGT
1 GTTTAAGGTTTAGG
47719647 GTTTA
1 GTTTA
47719652 GGGTCTAATT
Statistics
Matches: 124, Mismatches: 42, Indels: 14
0.69 0.23 0.08
Matches are distributed among these distances:
12 1 0.01
13 14 0.11
14 93 0.75
15 15 0.12
16 1 0.01
ACGTcount: A:0.23, C:0.02, G:0.31, T:0.44
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:47719504 original size:21 final size:21
Alignment explanation
Indices: 47719465--47719504 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47719455 TAGGGTGTAT
* *
47719465 GTTTATGGTTTGGGGTTTAAG
1 GTTTATGGTTTAGGATTTAAG
*
47719486 GTTTATGGTTTATGATTTA
1 GTTTATGGTTTAGGATTTA
47719505 GTGTTAAGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (21 bp):
GTTTATGGTTTAGGATTTAAG
Found at i:47719642 original size:29 final size:29
Alignment explanation
Indices: 47719599--47719654 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
47719589 AGCTTAGGGT
47719599 TTAGAGTTTAAGATTTAAG-GTTTAGGGGA
1 TTAGAGTTTAAGATTT-AGTGTTTAGGGGA
* *
47719628 TTAGGGTTTACGATTTAGTGTTTAGGG
1 TTAGAGTTTAAGATTTAGTGTTTAGGG
47719655 TCTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.41
Consensus pattern (29 bp):
TTAGAGTTTAAGATTTAGTGTTTAGGGGA
Found at i:47724764 original size:64 final size:64
Alignment explanation
Indices: 47724683--47724866 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
47724673 AGACATTTTG
* *
47724683 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTATACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTATACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
47724747 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTATACCATGTAGACAAGAGAGCTACGAGAT
47724812 AA
63 AA
* * *
47724814 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGT-TCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTAT-ACCATGTAG-ACAAGAGAGC
47724867 CAAAATTATG
Statistics
Matches: 96, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTATACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:47727303 original size:20 final size:20
Alignment explanation
Indices: 47727274--47727349 Score: 127
Period size: 20 Copynumber: 3.8 Consensus size: 20
47727264 GAGACATAGC
47727274 ACAC-TCCGTGTACTTTGGG
1 ACACGTCCGTGTACTTTGGG
47727293 ACACGTCCGTGTACTTTGGG
1 ACACGTCCGTGTACTTTGGG
47727313 ACACGTCCGTGTACTTTGGG
1 ACACGTCCGTGTACTTTGGG
*
47727333 ACACGCCCGTGTCACTT
1 ACACGTCCGTGT-ACTT
47727350 ACCTGTGTGG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
19 4 0.07
20 46 0.85
21 4 0.07
ACGTcount: A:0.16, C:0.29, G:0.26, T:0.29
Consensus pattern (20 bp):
ACACGTCCGTGTACTTTGGG
Found at i:47727824 original size:16 final size:15
Alignment explanation
Indices: 47727803--47727854 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
47727793 AGATTTCTAT
47727803 AAACCTCATTGCATG
1 AAACCTCATTGCATG
47727818 CAAACCTCA----AT-
1 -AAACCTCATTGCATG
47727829 AAACCTCATTGCATG
1 AAACCTCATTGCATG
47727844 TAAACCTCATT
1 -AAACCTCATT
47727855 TCATCGGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
10 8 0.27
12 2 0.07
14 2 0.07
16 18 0.60
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.27
Consensus pattern (15 bp):
AAACCTCATTGCATG
Found at i:47727830 original size:26 final size:26
Alignment explanation
Indices: 47727801--47727852 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
47727791 ATAGATTTCT
47727801 ATAAACCTCATTGCATGCAAACCTCA
1 ATAAACCTCATTGCATGCAAACCTCA
*
47727827 ATAAACCTCATTGCATGTAAACCTCA
1 ATAAACCTCATTGCATGCAAACCTCA
47727853 TTTCATCGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.29, G:0.08, T:0.25
Consensus pattern (26 bp):
ATAAACCTCATTGCATGCAAACCTCA
Found at i:47731561 original size:13 final size:13
Alignment explanation
Indices: 47731545--47731577 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47731535 TTTAATTAAA
*
47731545 TTAGTTAATTAGT
1 TTAGATAATTAGT
47731558 TTAGATAATTAGT
1 TTAGATAATTAGT
47731571 TTA-ATAA
1 TTAGATAA
47731578 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:47732990 original size:35 final size:35
Alignment explanation
Indices: 47732950--47733088 Score: 154
Period size: 35 Copynumber: 4.0 Consensus size: 35
47732940 ATGGCAAAGT
*
47732950 TATGACACGTAGGTATGGTATTATCCATACTAAGC
1 TATGACACGTAGGTATGGTATTATCCATACTGAGC
47732985 TATGACACGTAGGTATGGTATTATCCATA-TCGAGC
1 TATGACACGTAGGTATGGTATTATCCATACT-GAGC
* * * * * * * *
47733020 TATAATACATATGCATGGTATTTTCTATACTGAGT
1 TATGACACGTAGGTATGGTATTATCCATACTGAGC
* * *
47733055 TGTGAAACGTAGGTATGGTATTAACCATACTGAG
1 TATGACACGTAGGTATGGTATTATCCATACTGAG
47733089 TTGTGAATCG
Statistics
Matches: 84, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
34 1 0.01
35 82 0.98
36 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (35 bp):
TATGACACGTAGGTATGGTATTATCCATACTGAGC
Found at i:47735347 original size:58 final size:58
Alignment explanation
Indices: 47735285--47735473 Score: 378
Period size: 58 Copynumber: 3.3 Consensus size: 58
47735275 ACTAAAAAAT
47735285 ATTAATTTTTTATATGATTAAATACTATTTTTTTACTAAGAGTATATATTTAATACTA
1 ATTAATTTTTTATATGATTAAATACTATTTTTTTACTAAGAGTATATATTTAATACTA
47735343 ATTAATTTTTTATATGATTAAATACTATTTTTTTACTAAGAGTATATATTTAATACTA
1 ATTAATTTTTTATATGATTAAATACTATTTTTTTACTAAGAGTATATATTTAATACTA
47735401 ATTAATTTTTTATATGATTAAATACTATTTTTTTACTAAGAGTATATATTTAATACTA
1 ATTAATTTTTTATATGATTAAATACTATTTTTTTACTAAGAGTATATATTTAATACTA
47735459 ATTAATTTTTTATAT
1 ATTAATTTTTTATAT
47735474 TAATAATGTT
Statistics
Matches: 131, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 131 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (58 bp):
ATTAATTTTTTATATGATTAAATACTATTTTTTTACTAAGAGTATATATTTAATACTA
Found at i:47735550 original size:9 final size:9
Alignment explanation
Indices: 47735536--47735757 Score: 80
Period size: 9 Copynumber: 24.0 Consensus size: 9
47735526 AAATATAAAT
47735536 CATAACTTA
1 CATAACTTA
*
47735545 CATAACTTG
1 CATAACTTA
*
47735554 CATAATTTA
1 CATAACTTA
47735563 CATAACTTA
1 CATAACTTA
* *
47735572 CGTAA-ATA
1 CATAACTTA
* * *
47735580 TATATCATA
1 CATAACTTA
*
47735589 TCAAAACTTA
1 -CATAACTTA
47735599 CATAACTTA
1 CATAACTTA
47735608 CATAA-TATA
1 CATAACT-TA
47735617 CATAACTTTA
1 CATAAC-TTA
* *
47735627 AAGAA-TTAAA
1 CATAACTT--A
* *
47735637 AAAAACTTTAGA
1 CATAAC-TT--A
*
47735649 TCTTAACTTA
1 -CATAACTTA
47735659 -ATAACTTA
1 CATAACTTA
* *
47735667 TATATATCATA
1 CATA-A-CTTA
47735678 TCATAACTTA
1 -CATAACTTA
*
47735688 CATAACTCA
1 CATAACTTA
47735697 CATAACTTA
1 CATAACTTA
* *
47735706 CGTAGCTTA
1 CATAACTTA
47735715 CATAA--TA
1 CATAACTTA
*
47735722 CATAA-ATA
1 CATAACTTA
* * *
47735730 TATATCATA
1 CATAACTTA
47735739 TCATAACTTA
1 -CATAACTTA
47735749 CATAACTTA
1 CATAACTTA
47735758 ATTATACTTA
Statistics
Matches: 160, Mismatches: 36, Indels: 34
0.70 0.16 0.15
Matches are distributed among these distances:
7 7 0.04
8 19 0.12
9 91 0.57
10 26 0.16
11 5 0.03
12 9 0.06
13 3 0.02
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:47749180 original size:339 final size:339
Alignment explanation
Indices: 47748560--47749236 Score: 1309
Period size: 339 Copynumber: 2.0 Consensus size: 339
47748550 AGAATAAGTA
47748560 TTTTTCAAAACTCGTATTGCGTTTTAAAAGAGTATCCCGTTATTTAGGTTAAATGAGAAAAATCG
1 TTTTTCAAAACTCGTATTGCGTTTTAAAAGAGTATCCCGTTATTTAGGTTAAATGAGAAAAATCG
47748625 AAAACCCAATAAGTTAGGGCACGATTGTCTCGAATTACCAAATACGGAATATCACTTTTATGAAA
66 AAAACCCAATAAGTTAGGGCACGATTGTCTCGAATTACCAAATACGGAATATCACTTTTATGAAA
47748690 GAATCATTTTAAGGCATCAAGTGAAAAACATAATGTTATTTATGGTAAAACATGAGAGCAAATTA
131 GAATCATTTTAAGGCATCAAGTGAAAAACATAATGTTATTTATGGTAAAACATGAGAGCAAATTA
* *
47748755 TTGTGCTAATATGTAATAACATAATAATAGGTGCAACAATGTCAAAAATAATAATATGAGCAATT
196 TGGTGCTAATATGTAATAACATAATAATAGGTGCAACAATGTCAAAAATAATAATATGAACAATT
47748820 ATAAAAGGTGAAATAATAGCAAGGCTAGTAATATGCAAATATAAACAAATACATGAGGAAAATGA
261 ATAAAAGGTGAAATAATAGCAAGGCTAGTAATATGCAAATATAAACAAATACATGAGGAAAATGA
47748885 AATGATTGAACGCT
326 AATGATTGAACGCT
47748899 TTTTTCAAAACTCGTATTGCGTTTTAAAAGAGTATCCCGTTATTTAGGTTAAATGAGAAAAATCG
1 TTTTTCAAAACTCGTATTGCGTTTTAAAAGAGTATCCCGTTATTTAGGTTAAATGAGAAAAATCG
* *
47748964 AAAACCGAATAAGTTAGGGCACGATTGTCTCGAATTACCGAATACGGAATATCACTTTTATGAAA
66 AAAACCCAATAAGTTAGGGCACGATTGTCTCGAATTACCAAATACGGAATATCACTTTTATGAAA
47749029 GAATCATTTTAAGGCATCAAGTGAAAAACATAATGTTATTTATGGTAAAACATGAGAGCAAATTA
131 GAATCATTTTAAGGCATCAAGTGAAAAACATAATGTTATTTATGGTAAAACATGAGAGCAAATTA
*
47749094 TGGTGCTAATATGTAATAACATAATAATAGGTGCGACAATGTCAAAAATAATAATATGAACAATT
196 TGGTGCTAATATGTAATAACATAATAATAGGTGCAACAATGTCAAAAATAATAATATGAACAATT
47749159 ATAAAAGGTGAAATAATAGCAAGGCTAGTAATATGCAAATATAAACAAATACATGAGGAAAATGA
261 ATAAAAGGTGAAATAATAGCAAGGCTAGTAATATGCAAATATAAACAAATACATGAGGAAAATGA
47749224 AATGATTGAACGC
326 AATGATTGAACGC
47749237 GTAAAAATAA
Statistics
Matches: 333, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
339 333 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (339 bp):
TTTTTCAAAACTCGTATTGCGTTTTAAAAGAGTATCCCGTTATTTAGGTTAAATGAGAAAAATCG
AAAACCCAATAAGTTAGGGCACGATTGTCTCGAATTACCAAATACGGAATATCACTTTTATGAAA
GAATCATTTTAAGGCATCAAGTGAAAAACATAATGTTATTTATGGTAAAACATGAGAGCAAATTA
TGGTGCTAATATGTAATAACATAATAATAGGTGCAACAATGTCAAAAATAATAATATGAACAATT
ATAAAAGGTGAAATAATAGCAAGGCTAGTAATATGCAAATATAAACAAATACATGAGGAAAATGA
AATGATTGAACGCT
Found at i:47749853 original size:11 final size:11
Alignment explanation
Indices: 47749839--47749934 Score: 63
Period size: 11 Copynumber: 8.5 Consensus size: 11
47749829 TATTTACATA
47749839 ATATAAAAAAT
1 ATATAAAAAAT
*
47749850 ATATGAATAATAT
1 ATAT-AA-AAAAT
*
47749863 GATATTAAAAAT
1 -ATATAAAAAAT
47749875 ATATACATAAAA-
1 ATATA-A-AAAAT
*
47749887 ATATAATAAAT
1 ATATAAAAAAT
*
47749898 ATAT--ATAAT
1 ATATAAAAAAT
*
47749907 ATATATAAAAT
1 ATATAAAAAAT
* *
47749918 GTATAAAATAT
1 ATATAAAAAAT
47749929 ATATAA
1 ATATAA
47749935 TACATACACA
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
9 7 0.11
10 3 0.05
11 30 0.46
12 12 0.18
13 9 0.14
14 4 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:47749860 original size:45 final size:45
Alignment explanation
Indices: 47749799--47749916 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 45
47749789 CAATATAGAC
* * *
47749799 AAAAATATATACATAATGT-AGTATTGAAAATATTTACATAATATA
1 AAAAATATATACATAATATGA-TATTAAAAATATATACATAATATA
47749844 AAAAATATATGA-ATAATATGATATTAAAAATATATACATAAAAATATA
1 AAAAATATAT-ACATAATATGATATTAAAAATATATACAT---AATATA
*
47749892 ATAAATATAT--ATAATAT-ATA-TAAAA
1 AAAAATATATACATAATATGATATTAAAA
47749917 TGTATAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
44 5 0.08
45 35 0.55
46 9 0.14
48 15 0.23
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (45 bp):
AAAAATATATACATAATATGATATTAAAAATATATACATAATATA
Found at i:47749867 original size:25 final size:23
Alignment explanation
Indices: 47749839--47749934 Score: 94
Period size: 25 Copynumber: 4.3 Consensus size: 23
47749829 TATTTACATA
47749839 ATATAAAAAATATATGAATAATAT
1 ATATAAAAAATATAT-AATAATAT
* *
47749863 GATATTAAAAATATATACATAA-AA
1 -ATATAAAAAATATATA-ATAATAT
*
47749887 ATATAATAAATATAT-ATAATAT
1 ATATAAAAAATATATAATAATAT
*
47749909 ATAT--AAAATGTATAA-AATAT
1 ATATAAAAAATATATAATAATAT
47749929 ATATAA
1 ATATAA
47749935 TACATACACA
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
20 16 0.27
21 5 0.08
22 5 0.08
23 13 0.22
24 2 0.03
25 18 0.31
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (23 bp):
ATATAAAAAATATATAATAATAT
Found at i:47749922 original size:9 final size:9
Alignment explanation
Indices: 47749884--47749936 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
47749874 TATATACATA
47749884 AAAATATAAT
1 AAAATAT-AT
47749894 AAATATATAT
1 AAA-ATATAT
*
47749904 AATATATAT
1 AAAATATAT
*
47749913 AAAATGTAT
1 AAAATATAT
47749922 AAAATATAT
1 AAAATATAT
*
47749931 ATAATA
1 AAAATA
47749937 CATACACATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
9 26 0.70
10 7 0.19
11 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAATATAT
Found at i:47750036 original size:23 final size:23
Alignment explanation
Indices: 47749991--47750036 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
47749981 AATACCTCAT
* *
47749991 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
47750014 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
47750037 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:47752194 original size:23 final size:23
Alignment explanation
Indices: 47752164--47752209 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
47752154 AAGAAAGAAA
47752164 AATATGGACAAATTTTGCTTTCT
1 AATATGGACAAATTTTGCTTTCT
47752187 AATATGGACAAATTTTGCTTTCT
1 AATATGGACAAATTTTGCTTTCT
47752210 TTTTCCCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (23 bp):
AATATGGACAAATTTTGCTTTCT
Found at i:47755826 original size:21 final size:21
Alignment explanation
Indices: 47755802--47755851 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
47755792 CTACAACTTA
*
47755802 AAGCGGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
*
47755823 AAGCAGAGGTAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGGG
47755844 AAGCAGAG
1 AAGCAGAG
47755852 CAGAGCAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.48, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGGG
Found at i:47761546 original size:14 final size:14
Alignment explanation
Indices: 47761497--47761548 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
47761487 GTTTGTAATT
47761497 TATATTTTAATAAA
1 TATATTTTAATAAA
* * *
47761511 TTAGTTATGTTCATATA
1 -TA--TATTTTAATAAA
47761528 TATATTTTAATAAA
1 TATATTTTAATAAA
47761542 TATATTT
1 TATATTT
47761549 ATGTTTTAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 16 0.55
15 2 0.07
16 2 0.07
17 9 0.31
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (14 bp):
TATATTTTAATAAA
Found at i:47765546 original size:19 final size:20
Alignment explanation
Indices: 47765522--47765565 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
47765512 TCCAAACACC
47765522 AGAAAAGTAAATCA-TTTCT
1 AGAAAAGTAAATCATTTTCT
*
47765541 AGAAAAGTAAGTCATTTTCT
1 AGAAAAGTAAATCATTTTCT
47765561 AGAAA
1 AGAAA
47765566 TCATTTTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.30
Consensus pattern (20 bp):
AGAAAAGTAAATCATTTTCT
Found at i:47775568 original size:12 final size:12
Alignment explanation
Indices: 47775551--47775575 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47775541 TTAGCCGCAT
47775551 CAATAGTAGTGG
1 CAATAGTAGTGG
47775563 CAATAGTAGTGG
1 CAATAGTAGTGG
47775575 C
1 C
47775576 GAGAGATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (12 bp):
CAATAGTAGTGG
Found at i:47779056 original size:17 final size:18
Alignment explanation
Indices: 47779022--47779066 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
47779012 GCTTGTCACA
47779022 TTTTATTTATTTTAATTTG
1 TTTTATTT-TTTTAATTTG
47779041 TTTTATTTTTTT-ATTTG
1 TTTTATTTTTTTAATTTG
*
47779058 TTATATTTT
1 TTTTATTTT
47779067 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.52
18 4 0.16
19 8 0.32
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTATTTTTTTAATTTG
Found at i:47779064 original size:9 final size:9
Alignment explanation
Indices: 47779022--47779065 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
47779012 GCTTGTCACA
*
47779022 TTTTATTTA
1 TTTTATTTG
47779031 TTTTAATTTG
1 TTTT-ATTTG
47779041 TTTTATTT-
1 TTTTATTTG
47779049 TTTTATTTG
1 TTTTATTTG
*
47779058 TTATATTT
1 TTTTATTT
47779066 TAAAATTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
10 8 0.26
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (9 bp):
TTTTATTTG
Found at i:47780802 original size:86 final size:86
Alignment explanation
Indices: 47780651--47780825 Score: 271
Period size: 86 Copynumber: 2.0 Consensus size: 86
47780641 AGAAAAAAAA
*
47780651 TTATTTTAGTCCTTAAAATGTGCATAAGAATCTCAAATCAGCATGTCACTTATCAATTTCAGTTT
1 TTATTTTAGTCCTTAAAATGTGCATAAGAATCTCAAATCAACATGTCACTTATCAATTTCAGTTT
** *
47780716 ATGATATTGTCATGTCTGATT
66 ACAATATTGTCATATCTGATT
* *
47780737 TTATTTTAGTCCTTAGAATGTGCATAAGAATCTCAAATCAACATGTCAGTTATCAATTT-AGGTT
1 TTATTTTAGTCCTTAAAATGTGCATAAGAATCTCAAATCAACATGTCACTTATCAATTTCA-GTT
*
47780801 TACAATATTTTCATATCTGATT
65 TACAATATTGTCATATCTGATT
47780823 TTA
1 TTA
47780826 ATATTATTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 1 0.01
86 80 0.99
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (86 bp):
TTATTTTAGTCCTTAAAATGTGCATAAGAATCTCAAATCAACATGTCACTTATCAATTTCAGTTT
ACAATATTGTCATATCTGATT
Found at i:47783928 original size:14 final size:14
Alignment explanation
Indices: 47783909--47783937 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47783899 GCACACTATA
47783909 TTTTACTATCATTG
1 TTTTACTATCATTG
47783923 TTTTACTATCATTG
1 TTTTACTATCATTG
47783937 T
1 T
47783938 GATGCACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTTACTATCATTG
Found at i:47787035 original size:22 final size:20
Alignment explanation
Indices: 47787008--47787057 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
47786998 TTGGACTTTA
*
47787008 TTATTTTGGTTTTGTTATTTTT
1 TTATTTTGGTTTT-TT-TTGTT
47787030 TTATTTT-G-TTTTTTTGTT
1 TTATTTTGGTTTTTTTTGTT
47787048 TTATTTTGGT
1 TTATTTTGGT
47787058 GTAAGCCCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 11 0.44
19 3 0.12
20 3 0.12
21 1 0.04
22 7 0.28
ACGTcount: A:0.08, C:0.00, G:0.14, T:0.78
Consensus pattern (20 bp):
TTATTTTGGTTTTTTTTGTT
Found at i:47787369 original size:43 final size:45
Alignment explanation
Indices: 47787276--47787371 Score: 106
Period size: 43 Copynumber: 2.2 Consensus size: 45
47787266 ACTGCTTAGG
* * *
47787276 GAGATAAGATCTTCAATCTTCAGTCTACTTTTTTACTACATCAAA
1 GAGATAAGATCTTCAATCTTCAGCCTACTCTCTTACTACATCAAA
* * * * *
47787321 AAGATAAGA-C-TCAATCTTCAGCCTGCTCTCTTGCTACCTCAGA
1 GAGATAAGATCTTCAATCTTCAGCCTACTCTCTTACTACATCAAA
47787364 GAGATAAG
1 GAGATAAG
47787372 GCTTGAGGCT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
43 33 0.79
44 1 0.02
45 8 0.19
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (45 bp):
GAGATAAGATCTTCAATCTTCAGCCTACTCTCTTACTACATCAAA
Found at i:47787550 original size:140 final size:138
Alignment explanation
Indices: 47787285--47787554 Score: 378
Period size: 140 Copynumber: 1.9 Consensus size: 138
47787275 GGAGATAAGA
** *
47787285 TCTTCAATCTTCAGTCTACTTTTTTACTACATCAAAAAGATAAGACTCAATCTTCAGCCTGCTCT
1 TCTTCAATCTTCAGTCTACTTCCTTACTACATCAAAAAGATAAGACTCAATCTTCAACCTGCTCT
* * ** *
47787350 CTTGCTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCTCCATTTCCGGTACTTGGAGATAA
66 CTTGCTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCCCCATTGCCAATACATGGAGATAA
47787415 AATTCGCC
131 AATTCGCC
* * ** *
47787423 TCTTGCAATCTTCAGTCTGCTTCCTTACTACTTCAGGAAGATAAGACTTCAATTTTCAACCTGCT
1 TCTT-CAATCTTCAGTCTACTTCCTTACTACATCAAAAAGATAAGAC-TCAATCTTCAACCTGCT
* * *
47787488 CTCTTGCTACCTTAGAGAGATAATGCTTGGGGCTTAAATCTGCCCCATTGCCAATACATGGAGAT
64 CTCTTGCTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCCCCATTGCCAATACATGGAGAT
47787553 AA
129 AA
47787555 GATTAGCCAT
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
138 4 0.04
139 36 0.32
140 74 0.65
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (138 bp):
TCTTCAATCTTCAGTCTACTTCCTTACTACATCAAAAAGATAAGACTCAATCTTCAACCTGCTCT
CTTGCTACCTCAGAGAGATAAGGCTTGAGGCTTAAATCTGCCCCATTGCCAATACATGGAGATAA
AATTCGCC
Found at i:47787644 original size:181 final size:181
Alignment explanation
Indices: 47787434--47788100 Score: 966
Period size: 181 Copynumber: 3.7 Consensus size: 181
47787424 CTTGCAATCT
* *
47787434 TCAGTCTGCTTCCTTACTACTTCAGGAAGATAAGACT-TCAATTTTCAACCTGCTCTCTTGCTAC
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATC-ATTTTCAACCTGCTCTCTTGCTAC
* * *
47787498 CTTAGAGAGATAATGCTTGGGGCTTAAATCTGCCCCATTGCCAATACATGGAGATAAGATTAGCC
65 CTCAGAGAAATAAGGCTTGGGGCTTAAATCTGCCCCATTGCCAATACATGGAGATAAGATTAGCC
* * * *
47787563 ATCTGCGAAGATCTGCTCCGCTGTAACTTCAAGGAGATAAAATATTCAATTC
130 ATCTGCGAAGATCTACTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTC
* * * *
47787615 TCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGAATATCATATACAACCTGCTCTCTTGCTACC
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCATTTTCAACCTGCTCTCTTGCTACC
* *
47787680 TCAGAGAGATAAGGC-TGGTGGCTTAAATCTGCCCCACTGCCAATACATGGAGATAAGATTAGCC
66 TCAGAGAAATAAGGCTTGG-GGCTTAAATCTGCCCCATTGCCAATACATGGAGATAAGATTAGCC
*
47787744 ATCTGCGAAGATCTACTCCGCTGCAACTTTAGGGAGATAAAATCTTCAATT-
130 ATCTGCGAAGATCTACTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTC
* * *
47787795 TCCAGTCTGCTTCATTGCTACCTCAGGAAGATAAGACTATCATCTTCAACCTGCTCTCTTGCTTC
1 T-CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCATTTTCAACCTGCTCTCTTGCTAC
*** * *
47787860 CTCAGAGAAATAAGGCTTAAAGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTAGCC
65 CTCAGAGAAATAAGGCTTGGGGCTTAAATCTGCCCCATTGCCAATACATGGAGATAAGATTAGCC
* *
47787925 ATCTGTGAAGATCTACTCCGCTGCAACTTCAGGGAGATAGAATCTTCAATTC
130 ATCTGCGAAGATCTACTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTC
* * * *
47787977 CCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGAC--TCATTCTTTAACCTGCTCTCTTGTTAC
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCATT-TTCAACCTGCTCTCTTGCTAC
* * *
47788040 CTCAGAGAAATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATATATGGAGATAAGATT
65 CTCAGAGAAATAAGGCTTGGGGCTTAAATCTGCCCCATTGCCAATACATGGAGATAAGATT
47788101 TGCCTTTTCC
Statistics
Matches: 439, Mismatches: 41, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
179 4 0.01
180 79 0.18
181 353 0.80
182 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (181 bp):
TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTATCATTTTCAACCTGCTCTCTTGCTACC
TCAGAGAAATAAGGCTTGGGGCTTAAATCTGCCCCATTGCCAATACATGGAGATAAGATTAGCCA
TCTGCGAAGATCTACTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTC
Found at i:47788968 original size:130 final size:128
Alignment explanation
Indices: 47788735--47788982 Score: 338
Period size: 130 Copynumber: 1.9 Consensus size: 128
47788725 ATGTTTATGC
** * *
47788735 CAAATAATTAGGATTTTATGATCAAAATGAATCAAATGCTCTTAACTAGATATGATGCTTATGTC
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAAGGCTCTTAACTAGATATGATGCTGATGTC
*
47788800 AAATAATTAGAATGCTATGATCAACATGAATCAAATGCACCTAACTAAATGTGATGCTTGTGT
66 AAATAATTAGAATACTATGATCAACATGAATCAAATGCACCTAACTAAATGTGATGCTTGTGT
** * *
47788863 CAAATAATTAGGATGCTATGATTGAAATGAATCAAAGGCT-TCTAACTGGATGTGTTATGCTGAT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAAGGCTCT-TAACTAGATATG--ATGCTGAT
* * *
47788927 GTCAAATAATTAGGATACTATGATCGAA-ATGAGTCAAATGCATCTAACTAAATGTG
63 GTCAAATAATTAGAATACTATGATC-AACATGAATCAAATGCACCTAACTAAATGTG
47788983 TTATGAATGA
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
127 1 0.01
128 45 0.43
130 56 0.54
131 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (128 bp):
CAAATAATTAGGATGCTATGATCAAAATGAATCAAAGGCTCTTAACTAGATATGATGCTGATGTC
AAATAATTAGAATACTATGATCAACATGAATCAAATGCACCTAACTAAATGTGATGCTTGTGT
Found at i:47788987 original size:66 final size:64
Alignment explanation
Indices: 47788735--47788982 Score: 295
Period size: 64 Copynumber: 3.8 Consensus size: 64
47788725 ATGTTTATGC
** * * * *
47788735 CAAATAATTAGGATTTTATGATCAAAATGAATCAAATGC-TCTTAACTAGATATGATGCTTATGT
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCATC-TAACTAAATGTGATGCTGATGT
* *
47788799 CAAATAATTAGAATGCTATGATC-AACATGAATCAAATGCACCTAACTAAATGTGATGCTTG-TG
1 CAAATAATTAGGATGCTATGATCGAA-ATGAATCAAATGCATCTAACTAAATGTGATGC-TGATG
47788862 T
64 T
* * * **
47788863 CAAATAATTAGGATGCTATGATTGAAATGAATCAAAGGCTTCTAACTGGATGTGTTATGCTGATG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCATCTAACTAAATGTG--ATGCTGATG
47788928 T
64 T
* *
47788929 CAAATAATTAGGATACTATGATCGAAATGAGTCAAATGCATCTAACTAAATGTG
1 CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCATCTAACTAAATGTG
47788983 TTATGAATGA
Statistics
Matches: 156, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.01
64 94 0.60
65 6 0.04
66 54 0.35
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (64 bp):
CAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCATCTAACTAAATGTGATGCTGATGT
Found at i:47790118 original size:19 final size:19
Alignment explanation
Indices: 47790075--47790118 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
47790065 TCTTTTTTAA
*
47790075 TTTTTAATTCTTTTAATTT
1 TTTTTTATTCTTTTAATTT
*
47790094 TTTTTTATT-TTTTGATTAT
1 TTTTTTATTCTTTTAATT-T
47790113 TTTTTT
1 TTTTTT
47790119 CAAGGTCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTTATTCTTTTAATTT
Found at i:47790654 original size:20 final size:21
Alignment explanation
Indices: 47790617--47790656 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
47790607 TTTGCTTTTC
*
47790617 CTTTTTTTTTTCTATTTTTGTA
1 CTTTTATTTTTC-ATTTTTGTA
47790639 CTTTTATTTTTC-TTTTTG
1 CTTTTATTTTTCATTTTTG
47790657 AATGTCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.07, C:0.10, G:0.05, T:0.78
Consensus pattern (21 bp):
CTTTTATTTTTCATTTTTGTA
Found at i:47796915 original size:11 final size:11
Alignment explanation
Indices: 47796901--47796932 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
47796891 TTGTTATATT
47796901 TTTTTATTTTG
1 TTTTTATTTTG
47796912 TTTTTATTTTG
1 TTTTTATTTTG
47796923 -TTTTATTTTG
1 TTTTTATTTTG
47796933 GTGTAAGCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.09, C:0.00, G:0.09, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTG
Found at i:47796932 original size:10 final size:10
Alignment explanation
Indices: 47796889--47796932 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
47796879 ATTATTTTGG
*
47796889 TTTTGTTATA
1 TTTTGTTTTA
47796899 -TTT-TTTTA
1 TTTTGTTTTA
47796907 TTTTGTTTTTA
1 TTTTG-TTTTA
47796918 TTTTGTTTTA
1 TTTTGTTTTA
47796928 TTTTG
1 TTTTG
47796933 GTGTAAGCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 4 0.13
9 6 0.20
10 10 0.33
11 10 0.33
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (10 bp):
TTTTGTTTTA
Found at i:47798771 original size:6 final size:7
Alignment explanation
Indices: 47798741--47798770 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
47798731 TAAATATTTT
47798741 AATAAAA
1 AATAAAA
47798748 AATAAAA
1 AATAAAA
47798755 AATAAAAA
1 AAT-AAAA
47798763 AATAAAA
1 AATAAAA
47798770 A
1 A
47798771 TTTAATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AATAAAA
Found at i:47799631 original size:14 final size:14
Alignment explanation
Indices: 47799612--47799639 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47799602 ATCCCACCCC
47799612 AAATCAGATACAGA
1 AAATCAGATACAGA
47799626 AAATCAGATACAGA
1 AAATCAGATACAGA
47799640 TTTATCAAAT
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:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (14 bp):
AAATCAGATACAGA
Found at i:47806953 original size:12 final size:11
Alignment explanation
Indices: 47806932--47806965 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
47806922 AAACCCTAAA
47806932 TTTTTCTTTTC
1 TTTTTCTTTTC
47806943 TTTTTCTTTTTC
1 TTTTTC-TTTTC
*
47806955 TTTTTCCTTTC
1 TTTTTCTTTTC
47806966 CCCTTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:47806964 original size:7 final size:6
Alignment explanation
Indices: 47806932--47806960 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
47806922 AAACCCTAAA
47806932 TTTTTC -TTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
47806961 CTTTCCCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:47807022 original size:14 final size:14
Alignment explanation
Indices: 47807003--47807033 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
47806993 TTTCTTTTTC
*
47807003 TATTTCTTTTGTTT
1 TATTTCTTTTATTT
47807017 TATTTCTTTTATTT
1 TATTTCTTTTATTT
47807031 TAT
1 TAT
47807034 GTTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.77
Consensus pattern (14 bp):
TATTTCTTTTATTT
Found at i:47808464 original size:53 final size:52
Alignment explanation
Indices: 47808397--47808548 Score: 173
Period size: 52 Copynumber: 2.9 Consensus size: 52
47808387 ATATCATACT
* *
47808397 GATGCCATATCCCAGATATGGTCTTATAC-GGAATCATGTTATCACATCACACC
1 GATGCCATAGCCCAGATATGGTCTTATACAGGAA-CAT-ATATCACATCACACC
* * * * ** *
47808450 GATGCCATAGCCCAGTTATGGTCTTATACGGGAACACATATCATATTGCACT
1 GATGCCATAGCCCAGATATGGTCTTATACAGGAACATATATCACATCACACC
*
47808502 AATGCCATAGCCCA-ACTATGGTCTTATACAGGAACATATATCACATC
1 GATGCCATAGCCCAGA-TATGGTCTTATACAGGAACATATATCACATC
47808549 TTTTCCGTCA
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 50 0.60
53 29 0.35
54 4 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (52 bp):
GATGCCATAGCCCAGATATGGTCTTATACAGGAACATATATCACATCACACC
Found at i:47815548 original size:21 final size:20
Alignment explanation
Indices: 47815516--47815558 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
47815506 TTAACATTTA
47815516 TTAATAATAATTAATTAATAT
1 TTAATAATAATT-ATTAATAT
*
47815537 TTAAGTAA-AATTATTAGTAT
1 TTAA-TAATAATTATTAATAT
47815557 TT
1 TT
47815559 TTGTATAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 8 0.40
22 3 0.15
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAATAATAATTATTAATAT
Found at i:47815621 original size:26 final size:24
Alignment explanation
Indices: 47815577--47815630 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
47815567 CTCTTTCATG
*
47815577 ATATTTTATTTTATTTTTATGATAAA
1 ATATTATATTTTATTTTTAT-A-AAA
47815603 ATATTATATTATTA-TTTTATAAAA
1 ATATTATATT-TTATTTTTATAAAA
47815627 ATAT
1 ATAT
47815631 ATGAAATTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 1 0.04
26 15 0.58
27 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
ATATTATATTTTATTTTTATAAAA
Found at i:47824881 original size:7 final size:7
Alignment explanation
Indices: 47824867--47824897 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
47824857 TTAAATTTAT
47824867 ATTT-TA
1 ATTTCTA
47824873 ATTTCTA
1 ATTTCTA
47824880 ATTTCTA
1 ATTTCTA
47824887 ATTTCTA
1 ATTTCTA
47824894 ATTT
1 ATTT
47824898 TTTATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (7 bp):
ATTTCTA
Found at i:47824890 original size:14 final size:13
Alignment explanation
Indices: 47824854--47824898 Score: 56
Period size: 14 Copynumber: 3.5 Consensus size: 13
47824844 TTTTTCTTTA
* *
47824854 AATTTAAATTTAT
1 AATTTTAATTTCT
47824867 -ATTTTAATTTCT
1 AATTTTAATTTCT
47824879 AATTTCTAATTTCT
1 AATTT-TAATTTCT
47824893 AATTTT
1 AATTTT
47824899 TTATATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 5 0.18
14 13 0.46
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (13 bp):
AATTTTAATTTCT
Found at i:47833400 original size:18 final size:18
Alignment explanation
Indices: 47833373--47833465 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
47833363 TACGACCGTT
47833373 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
47833391 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
47833409 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
47833427 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
47833445 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
47833463 TAC
1 TAC
47833466 AGTAGTTGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:47833420 original size:36 final size:36
Alignment explanation
Indices: 47833373--47833465 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
47833363 TACGACCGTT
47833373 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
47833409 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
47833445 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
47833466 AGTAGTTGGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:47845732 original size:33 final size:35
Alignment explanation
Indices: 47845694--47845790 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
47845684 ATAGTTATAT
47845694 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
47845727 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
*
47845762 --AAATATTTTAAATTTATATTTTATATATT
1 TTAAATA-TTTAAA-ATATATTTTATATATT
47845791 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
32 7 0.14
33 22 0.43
34 3 0.06
35 16 0.31
36 3 0.06
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:47846004 original size:26 final size:27
Alignment explanation
Indices: 47845974--47846038 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
47845964 TTAAATCAAA
47845974 TTTTTCAAAAGCACTTCTAAAAAACAC
1 TTTTTCAAAAGCACTTCTAAAAAACAC
* * * *
47846001 TTTTTC-ATAGCACTTTTCAAAAGCAC
1 TTTTTCAAAAGCACTTCTAAAAAACAC
47846027 -TTTTCAAAAGCA
1 TTTTTCAAAAGCA
47846039 TTACCAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 5 0.16
26 21 0.66
27 6 0.19
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (27 bp):
TTTTTCAAAAGCACTTCTAAAAAACAC
Found at i:47846014 original size:13 final size:14
Alignment explanation
Indices: 47845974--47846038 Score: 66
Period size: 13 Copynumber: 4.9 Consensus size: 14
47845964 TTAAATCAAA
47845974 TTTTTCAAAAGCAC
1 TTTTTCAAAAGCAC
* * *
47845988 -TTCTAAAAAACAC
1 TTTTTCAAAAGCAC
*
47846001 TTTTTC-ATAGCAC
1 TTTTTCAAAAGCAC
47846014 -TTTTCAAAAGCAC
1 TTTTTCAAAAGCAC
47846027 -TTTTCAAAAGCA
1 TTTTTCAAAAGCA
47846039 TTACCAAACT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
12 5 0.12
13 33 0.80
14 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (14 bp):
TTTTTCAAAAGCAC
Found at i:47847879 original size:42 final size:42
Alignment explanation
Indices: 47847832--47847918 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
47847822 TTCAACCTTC
* *
47847832 TTAAATTTCTGTCTAATCGTATGAAATTCTTTGTATAATTGT
1 TTAAATTTCTGTCTAATCGTATGAAATTCTCTGTATAATTAT
* *
47847874 TTAAATTTCTGTGTAATCGTTTGAAATTCTCTGTATAATTAT
1 TTAAATTTCTGTCTAATCGTATGAAATTCTCTGTATAATTAT
47847916 TTA
1 TTA
47847919 GGGAGATGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (42 bp):
TTAAATTTCTGTCTAATCGTATGAAATTCTCTGTATAATTAT
Found at i:47847895 original size:20 final size:21
Alignment explanation
Indices: 47847832--47847912 Score: 85
Period size: 22 Copynumber: 3.9 Consensus size: 21
47847822 TTCAACCTTC
*
47847832 TTAAATT-TCTGTCTAATCGT
1 TTAAATTCTCTGTATAATCGT
* * *
47847852 ATGAAATTCTTTGTATAATTGT
1 -TTAAATTCTCTGTATAATCGT
*
47847874 TTAAATT-TCTGTGTAATCGT
1 TTAAATTCTCTGTATAATCGT
47847894 TTGAAATTCTCTGTATAAT
1 TT-AAATTCTCTGTATAAT
47847913 TATTTAGGGA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 12 0.25
21 17 0.35
22 19 0.40
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.49
Consensus pattern (21 bp):
TTAAATTCTCTGTATAATCGT
Found at i:47848919 original size:31 final size:31
Alignment explanation
Indices: 47848884--47848947 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
47848874 ACCAGGAACA
47848884 TTGTTGTTTTTAATCTTTTTAATTATGTTGT
1 TTGTTGTTTTTAATCTTTTTAATTATGTTGT
47848915 TTGTTGTTTTTAATCTTTTTAATTATGTTGT
1 TTGTTGTTTTTAATCTTTTTAATTATGTTGT
47848946 TT
1 TT
47848948 TACTCTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.16, C:0.03, G:0.12, T:0.69
Consensus pattern (31 bp):
TTGTTGTTTTTAATCTTTTTAATTATGTTGT
Found at i:47848957 original size:31 final size:31
Alignment explanation
Indices: 47848890--47848964 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
47848880 AACATTGTTG
**
47848890 TTTTTAATCTTTTTAATTATGTTGTTTGTTG
1 TTTTTAATCTTTTTAATTATGTTGTTTGTAC
47848921 TTTTTAATCTTTTTAATTATGTTGTTT-TAC
1 TTTTTAATCTTTTTAATTATGTTGTTTGTAC
*
47848951 TCTTTTAATGTTTT
1 T-TTTTAATCTTTT
47848965 ATGGAGGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 2 0.05
31 38 0.95
ACGTcount: A:0.17, C:0.05, G:0.09, T:0.68
Consensus pattern (31 bp):
TTTTTAATCTTTTTAATTATGTTGTTTGTAC
Found at i:47853090 original size:3 final size:3
Alignment explanation
Indices: 47853082--47853116 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
47853072 TGATATTGTC
47853082 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
47853117 TTGGGGCGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:47865770 original size:21 final size:21
Alignment explanation
Indices: 47865735--47865790 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
47865725 ATTTGTCAAG
*
47865735 TTCTTATATTTTTTTTATTTGTTT
1 TTCTTATA--TTTTTTACTT-TTT
*
47865759 TTTTTA-ATTTTTTACTTTTT
1 TTCTTATATTTTTTACTTTTT
47865779 TTCTTATATTTT
1 TTCTTATATTTT
47865791 GTCTCTTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.29
21 14 0.50
23 1 0.04
24 5 0.18
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (21 bp):
TTCTTATATTTTTTACTTTTT
Found at i:47865865 original size:36 final size:36
Alignment explanation
Indices: 47865796--47865869 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
47865786 ATTTTGTCTC
*
47865796 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
47865833 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
47865869 T
1 T
47865870 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:47865874 original size:18 final size:17
Alignment explanation
Indices: 47865823--47865870 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
47865813 TTTTTTAAGT
*
47865823 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
47865841 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
47865859 TTTATATTATTA
1 TTTATATTATTA
47865871 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:47865928 original size:21 final size:22
Alignment explanation
Indices: 47865886--47865945 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
47865876 AAAAAAATTG
* *
47865886 TAATATATATTTAAAATGTTTTA
1 TAATATTTTTTTAAAA-GTTTTA
47865909 TAATATTTTTTTAAAA-TTTTA
1 TAATATTTTTTTAAAAGTTTTA
*
47865930 -ATTATTATTTTTAAAA
1 TAATATT-TTTTTAAAA
47865946 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 5 0.15
21 14 0.42
23 14 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATATTTTTTTAAAAGTTTTA
Found at i:47865938 original size:23 final size:23
Alignment explanation
Indices: 47865886--47865945 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
47865876 AAAAAAATTG
* * *
47865886 TAATATATATTTAAAATGTTTTA
1 TAATATTTTTTTAAAATGTTTAA
47865909 TAATATTTTTTTAAAAT-TTTAA
1 TAATATTTTTTTAAAATGTTTAA
47865931 T--TATTATTTTTAAAA
1 TAATATT-TTTTTAAAA
47865946 ATATTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 4 0.12
21 9 0.27
22 5 0.15
23 15 0.45
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TAATATTTTTTTAAAATGTTTAA
Found at i:47866230 original size:18 final size:18
Alignment explanation
Indices: 47866207--47866255 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
47866197 GTGACTATTA
47866207 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
47866225 ATAAATTTTAAA-AAAAAT
1 ATAAA-TTTAAATATAAAT
*
47866243 ATATA-TTAAATAT
1 ATAAATTTAAATAT
47866256 TATTTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 14 0.54
19 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:47866255 original size:11 final size:11
Alignment explanation
Indices: 47866239--47866281 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
47866229 ATTTTAAAAA
47866239 AAATATATATT
1 AAATATATATT
47866250 AAATAT-TATT
1 AAATATATATT
** *
47866260 TTATAAATATT
1 AAATATATATT
47866271 AAATATATATT
1 AAATATATATT
47866282 TTTTCTTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
10 7 0.28
11 18 0.72
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATATATATT
Found at i:47866634 original size:21 final size:21
Alignment explanation
Indices: 47866592--47866637 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
47866582 TATTATTAAT
*
47866592 TTTAAAAATTTTGTAATGTATA
1 TTTAAAAATTTTATAA-GTATA
47866614 TTTAAAATATTTTATAA-TATA
1 TTTAAAA-ATTTTATAAGTATA
47866635 TTT
1 TTT
47866638 TTTACAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 7 0.32
23 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TTTAAAAATTTTATAAGTATA
Found at i:47866793 original size:18 final size:18
Alignment explanation
Indices: 47866770--47866817 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
47866760 GTGATTTTTA
47866770 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
47866788 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
47866804 ATATA-TTAAATATA
1 ATAAATTTAAATATA
47866818 TATTTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.16
16 9 0.36
17 2 0.08
18 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:47866822 original size:27 final size:28
Alignment explanation
Indices: 47866765--47866824 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
47866755 GTGATGTGAT
* *
47866765 TTTTAATAAATTTAAATATAAATATAAA
1 TTTTAAAAAATATAAATATAAATATAAA
* *
47866793 TTTTAAAAAATATATAT-TAAATATATA
1 TTTTAAAAAATATAAATATAAATATAAA
47866820 TTTTA
1 TTTTA
47866825 TTATTTTGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTTAAAAAATATAAATATAAATATAAA
Found at i:47869710 original size:30 final size:30
Alignment explanation
Indices: 47869674--47869766 Score: 107
Period size: 30 Copynumber: 3.1 Consensus size: 30
47869664 GTCCCAGAGC
*
47869674 AGTTCATATAACCTGGACATAGGTGGTTCG
1 AGTTCATATCACCTGGACATAGGTGGTTCG
* *
47869704 AGTTCATATCA-CTCAGACATGGGTGGTTCG
1 AGTTCATATCACCT-GGACATAGGTGGTTCG
* * * *
47869734 AGTTCATATCACCCGGATATAGGCGGTTTG
1 AGTTCATATCACCTGGACATAGGTGGTTCG
47869764 AGT
1 AGT
47869767 CCATTTGACC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
29 2 0.04
30 49 0.94
31 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (30 bp):
AGTTCATATCACCTGGACATAGGTGGTTCG
Found at i:47873289 original size:19 final size:19
Alignment explanation
Indices: 47873267--47873303 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
47873257 AAAAATATAT
47873267 TTTTAAATTAT-TTTTTAAA
1 TTTTAAA-TATGTTTTTAAA
47873286 TTTTAAATATGTTTTTAA
1 TTTTAAATATGTTTTTAA
47873304 TATTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTAAATATGTTTTTAAA
Found at i:47873377 original size:10 final size:9
Alignment explanation
Indices: 47873329--47873376 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
47873319 AAAACATGTA
*
47873329 AAATGATTTA
1 AAAT-ATTTT
47873339 AAATATTTTT
1 AAATA-TTTT
*
47873349 TAATATTTT
1 AAATATTTT
47873358 AAATGATTTT
1 AAAT-ATTTT
47873368 AAATATTTT
1 AAATATTTT
47873377 TTAAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 13 0.39
10 20 0.61
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (9 bp):
AAATATTTT
Found at i:47873404 original size:29 final size:29
Alignment explanation
Indices: 47873329--47873386 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
47873319 AAAACATGTA
*
47873329 AAATGATTTAAAATATTTTTTAATATTTT
1 AAATGATTTTAAATATTTTTTAATATTTT
47873358 AAATGATTTTAAATATTTTTTAA-ATTTT
1 AAATGATTTTAAATATTTTTTAATATTTT
47873386 A
1 A
47873387 CATAGAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (29 bp):
AAATGATTTTAAATATTTTTTAATATTTT
Done.