Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 156 of 214
Found at i:46330109 original size:25 final size:25
Alignment explanation
Indices: 46330065--46330124 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
46330055 TATTCTCTCA
46330065 AATTATTTTCCCCAAATCCCTAACTT
1 AATT-TTTTCCCCAAATCCCTAACTT
* * *
46330091 AGTTTTTTCCTCAATTCCCTAACTT
1 AATTTTTTCCCCAAATCCCTAACTT
46330116 AATTTTTTC
1 AATTTTTTC
46330125 TTTCCCATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 27 0.90
26 3 0.10
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.47
Consensus pattern (25 bp):
AATTTTTTCCCCAAATCCCTAACTT
Found at i:46332733 original size:64 final size:64
Alignment explanation
Indices: 46332628--46332753 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
46332618 AGGTAAGATG
*
46332628 GTCGATAGTTTTGGAAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTGAGATTGAGTTTTT
1 GTCGATAGTTTTGGAAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTAAGATTGAGTTTTT
* * *
46332692 GTCGATAGTTTTGGGAATTGATTGTTGTAAGTAATTTAGATTAAGTGACTAAGATTGAGTTT
1 GTCGATAGTTTTGGAAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTAAGATTGAGTTT
46332754 CCAATTGTCG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.29, C:0.05, G:0.25, T:0.41
Consensus pattern (64 bp):
GTCGATAGTTTTGGAAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTAAGATTGAGTTTTT
Found at i:46333100 original size:17 final size:19
Alignment explanation
Indices: 46333069--46333109 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
46333059 AAGGCCATTT
*
46333069 TGGGCTGTGT-GGGCCACA
1 TGGGCTGTGTAGGCCCACA
46333087 TGGGC-GTGTAGGCCCACA
1 TGGGCTGTGTAGGCCCACA
46333105 TGGGC
1 TGGGC
46333110 ATGCAATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.12, C:0.24, G:0.44, T:0.20
Consensus pattern (19 bp):
TGGGCTGTGTAGGCCCACA
Found at i:46336928 original size:30 final size:30
Alignment explanation
Indices: 46336894--46336950 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
46336884 TGCGGCATAA
46336894 TCTTGATGTCATGCATATTGAAAAGAATGT
1 TCTTGATGTCATGCATATTGAAAAGAATGT
46336924 TCTTGATGTCATGCATATTGAAAAGAA
1 TCTTGATGTCATGCATATTGAAAAGAA
46336951 ATTTTGCGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (30 bp):
TCTTGATGTCATGCATATTGAAAAGAATGT
Found at i:46339196 original size:7 final size:7
Alignment explanation
Indices: 46339184--46339215 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
46339174 AAACCACCAC
46339184 TATCTCA
1 TATCTCA
46339191 TATCTCA
1 TATCTCA
46339198 TATCTCA
1 TATCTCA
46339205 TATCTCA
1 TATCTCA
46339212 TATC
1 TATC
46339216 AATGCTCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (7 bp):
TATCTCA
Found at i:46343148 original size:43 final size:44
Alignment explanation
Indices: 46343086--46343181 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
46343076 GCGTTTTCCC
* * * * *
46343086 ACAAATGCCGTTATAGAACATAATCCTTAGCAGTGCTTTTA-CT
1 ACAAACGCCGCTAAAGAACATAATCCTTAGCAGCGCTTCTAGCT
* * * *
46343129 ACAAACGCCGCTAAAGAACATGATCTTTTGCGGCGCTTCTAGCT
1 ACAAACGCCGCTAAAGAACATAATCCTTAGCAGCGCTTCTAGCT
46343173 ACAAACGCC
1 ACAAACGCC
46343182 ACAACATGCT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
43 32 0.74
44 11 0.26
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (44 bp):
ACAAACGCCGCTAAAGAACATAATCCTTAGCAGCGCTTCTAGCT
Found at i:46345552 original size:26 final size:26
Alignment explanation
Indices: 46345500--46345574 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
46345490 GTCTCGATAT
*
46345500 AAGGCTCTTCGTAAGCTTCCCGCTTA
1 AAGGCTCTTCGTAAGCTTCCCGATTA
* *
46345526 AAGGCTCTTTGTAAGCTTCCTGATTA
1 AAGGCTCTTCGTAAGCTTCCCGATTA
* * * *
46345552 ATGGATC-TCCTAAGCTTTCCGAT
1 AAGGCTCTTCGTAAGCTTCCCGAT
46345575 ATGGCTTGCT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 12 0.30
26 28 0.70
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (26 bp):
AAGGCTCTTCGTAAGCTTCCCGATTA
Found at i:46364096 original size:23 final size:21
Alignment explanation
Indices: 46364070--46364115 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
46364060 CATACTTCGT
*
46364070 TTATAGCATTTTATTATATATTA
1 TTATA-CATATTATT-TATATTA
46364093 TTATACATATTATTTATATTA
1 TTATACATATTATTTATATTA
46364114 TT
1 TT
46364116 GTTAGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 8 0.36
23 5 0.23
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATACATATTATTTATATTA
Found at i:46373341 original size:23 final size:21
Alignment explanation
Indices: 46373315--46373355 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
46373305 AATTAAATTA
46373315 TATATATTATGATTTTAGTAT
1 TATATATTATGATTTTAGTAT
46373336 TATATATTATGATTTTAGTA
1 TATATATTATGATTTTAGTA
46373356 AATTCATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
TATATATTATGATTTTAGTAT
Found at i:46373509 original size:38 final size:37
Alignment explanation
Indices: 46373467--46373624 Score: 108
Period size: 38 Copynumber: 4.5 Consensus size: 37
46373457 ATATCTTATG
46373467 ATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 ATTTTAGTAAATT-ATATAAGAATATTTAATATTAAGA
* * * *
46373505 ATTTTATTAAATTATATTTAATAATAATT-AT-TTTA-A
1 ATTTTAGTAAATTATA--TAAGAATATTTAATATTAAGA
* *
46373541 A--TTA-TATATTATAT-----TA-TTATATATTATG-
1 ATTTTAGTAAATTATATAAGAATATTTA-ATATTAAGA
*
46373569 ATTTTAGTAAATTCATATAAGAAGATTTAATATTAAGA
1 ATTTTAGTAAATT-ATATAAGAATATTTAATATTAAGA
*
46373607 ATTTTATTAAATTATATA
1 ATTTTAGTAAATTATATA
46373625 TTTTTATTAA
Statistics
Matches: 92, Mismatches: 11, Indels: 35
0.67 0.08 0.25
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 2 0.02
28 3 0.03
30 3 0.03
31 6 0.07
32 4 0.04
33 8 0.09
34 3 0.03
36 2 0.02
37 19 0.21
38 29 0.32
39 9 0.10
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (37 bp):
ATTTTAGTAAATTATATAAGAATATTTAATATTAAGA
Found at i:46373510 original size:102 final size:102
Alignment explanation
Indices: 46373404--46373623 Score: 370
Period size: 102 Copynumber: 2.2 Consensus size: 102
46373394 AATTATATAT
* * *
46373404 TTTTATCT-AATTATATTTAATAATAATAATTTTAAATTATATTTTGTAGTATTATATCTTATGA
1 TTTTAT-TAAATTATATTTAATAATAATAATTTTAAATTATATATTATAGTATTATATATTATGA
*
46373468 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA
65 TTTTAGTAAATTCATATAAGAAGATTTAATATTAAGAA
* *
46373506 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATATTATATTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATATTATAGTATTATATATTATGAT
46373571 TTTAGTAAATTCATATAAGAAGATTTAATATTAAGAA
66 TTTAGTAAATTCATATAAGAAGATTTAATATTAAGAA
46373608 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
46373624 ATTTTTATTA
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
101 1 0.01
102 110 0.99
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATAATTTTAAATTATATATTATAGTATTATATATTATGAT
TTTAGTAAATTCATATAAGAAGATTTAATATTAAGAA
Found at i:46373630 original size:120 final size:120
Alignment explanation
Indices: 46373506--46373797 Score: 480
Period size: 120 Copynumber: 2.4 Consensus size: 120
46373496 ATATTAAGAA
46373506 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATATTATATTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATATTATATTATTATATATTATGAT
*
46373571 TTTAGTAAATTCATATAAGAAGATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAAAAGATTTAATATTAAGAATTTTATTAAATTATATAT
* * *
46373626 TTTTATTAAATTATATTTAATAATAATAACTTTAAATTATATTTTATATTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATATTATATTATTATATATTATGAT
*
46373691 TTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTAGTAAATTCATATAAAAAGATTTAATATTAAGAATTTTATTAAATTATATAT
* * * *
46373746 TTTAATTAAAATATATTTAATAATAATTATGTTAAA--ATATGATTAAATTATT
1 TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATAT-ATTATATTATT
46373798 TATTATTGAT
Statistics
Matches: 159, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
118 4 0.03
119 9 0.06
120 146 0.92
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (120 bp):
TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATATTATATTATTATATATTATGAT
TTTAGTAAATTCATATAAAAAGATTTAATATTAAGAATTTTATTAAATTATATAT
Found at i:46373719 original size:222 final size:222
Alignment explanation
Indices: 46373333--46373743 Score: 752
Period size: 222 Copynumber: 1.9 Consensus size: 222
46373323 ATGATTTTAG
*
46373333 TATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATT
1 TATTATATATTATGATTTTAGTAAATTCATATAAGAAGATTTAATATTAAGAATTTTATTAAATT
* * *
46373398 ATATATTTTTATCTAATTATATTTAATAATAATAATTTTAAATTATATTTTGTAGTATTATATCT
66 ATATATTTTTATCTAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATATAT
*
46373463 TATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATTTAATA
131 TATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATATTTAATA
46373528 ATAATTATTTTAAATTATATATTATAT
196 ATAATTATTTTAAATTATATATTATAT
46373555 TATTATATATTATGATTTTAGTAAATTCATATAAGAAGATTTAATATTAAGAATTTTATTAAATT
1 TATTATATATTATGATTTTAGTAAATTCATATAAGAAGATTTAATATTAAGAATTTTATTAAATT
*
46373620 ATATATTTTTAT-TAAATTATATTTAATAATAATAACTTTAAATTATATTTTATATTATTATATA
66 ATATATTTTTATCT-AATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATATA
46373684 TTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATAT
130 TTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATAT
46373744 ATTTTAATTA
Statistics
Matches: 182, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
221 1 0.01
222 181 0.99
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (222 bp):
TATTATATATTATGATTTTAGTAAATTCATATAAGAAGATTTAATATTAAGAATTTTATTAAATT
ATATATTTTTATCTAATTATATTTAATAATAATAACTTTAAATTATATTTTATAGTATTATATAT
TATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATATTTAATA
ATAATTATTTTAAATTATATATTATAT
Found at i:46373753 original size:18 final size:17
Alignment explanation
Indices: 46373727--46373761 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46373717 AATATTAAGA
*
46373727 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
46373744 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
46373762 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:46373971 original size:44 final size:45
Alignment explanation
Indices: 46373916--46374010 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
46373906 CTATTACACA
*
46373916 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTATGCCTCTAT
1 TCCATTCCATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* * *
46373960 TCCATTGCATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTCCATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
46374005 TCCATT
1 TCCATT
46374011 ACGCCTCTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (45 bp):
TCCATTCCATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:46377160 original size:12 final size:11
Alignment explanation
Indices: 46377145--46377175 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
46377135 TTTTTATTGT
46377145 TTATTATTATAA
1 TTATTATTAT-A
46377157 TTATTATTATA
1 TTATTATTATA
46377168 TTATTATT
1 TTATTATT
46377176 GTATGTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTATTATA
Found at i:46388796 original size:18 final size:18
Alignment explanation
Indices: 46388773--46388808 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
46388763 GACAACGCAC
46388773 TGAATTTGAATAACAGCA
1 TGAATTTGAATAACAGCA
46388791 TGAATTTGAATAACAGCA
1 TGAATTTGAATAACAGCA
46388809 CCATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
TGAATTTGAATAACAGCA
Found at i:46391264 original size:37 final size:38
Alignment explanation
Indices: 46391214--46391291 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
46391204 CGAAGATAGC
* * *
46391214 AGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGA
1 AGATCCTGTCTTCCCATATTGGTAGCGAAGTAGATCAA
* *
46391251 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAA
1 AGATCCTGTCTTCCCATATTGGTAGCGAAGTAGATCAA
46391289 AGA
1 AGA
46391292 AAGTAGATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 22 0.63
38 13 0.37
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (38 bp):
AGATCCTGTCTTCCCATATTGGTAGCGAAGTAGATCAA
Found at i:46391324 original size:126 final size:126
Alignment explanation
Indices: 46391035--46392025 Score: 1505
Period size: 126 Copynumber: 7.7 Consensus size: 126
46391025 TTTAAGTTGC
* *
46391035 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
46391100 TTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATC---GA---AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
46391165 AA
125 AA
* *
46391167 AGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
46391232 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAA
66 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* * * * *
46391293 AGTAGATATTTTCTTTATGTATTGGCGTGAAGTAGATTGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
46391358 TTGGTAGCGAAGTGGATCGAAGATGCAAATATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAG-GAAGTGGATCGAAGAT-C-----TTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
46391423 GAA
124 GAA
*
46391426 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * *
46391491 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGCTGGCGAAGTAGATCAAAGAA
66 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* * * *
46391552 AGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGATCTTGTATTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
46391617 TTGGTAGCGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
66 TTGGTAG-GAAGTGGATCG-A-A-G-A--TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAA
46391682 GAA
124 GAA
* * *
46391685 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAAATCCTATCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
46391750 TTAGTAGGAAGTAGATCGAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
*
46391811 AACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * *
46391876 TTGGTAGGAAGTGGATCTAAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCAAAGAA
66 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* *
46391937 AGCAGATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
46392002 TTGGTAGCGAAGTGGATCGAAGAT
66 TTGGTAG-GAAGTGGATCGAAGAT
46392026 GCAAATCTTG
Statistics
Matches: 789, Mismatches: 55, Indels: 35
0.90 0.06 0.04
Matches are distributed among these distances:
126 431 0.55
127 42 0.05
128 3 0.00
129 4 0.01
130 2 0.00
131 3 0.00
132 103 0.13
133 201 0.25
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (126 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
Found at i:46391509 original size:259 final size:258
Alignment explanation
Indices: 46391038--46392025 Score: 1637
Period size: 259 Copynumber: 3.8 Consensus size: 258
46391028 AAGTTGCAGC
* *
46391038 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
*
46391103 GTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
66 GTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
*
46391168 GCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATAT
131 GCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATAT
46391233 TGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGT
196 TGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGT
* * * *
46391296 AGATATTTTCTTTATGTATTGGCGTGAAGTAGATTGAAGATAGCAGATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
* *
46391361 GTAGCGAAGTGGATCGAAGATGCAAATATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
46391426 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
130 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
46391491 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGCTGGCGAAGTAGATCAAAGAAAGT
195 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGT
* * *
46391555 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGATCTTGTATTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
*
46391620 GTAGCGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
* *
46391685 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAAATCCTATCTTCCTATA
130 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * * * **
46391750 TTAGTAGGAAGTAGATCGAAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAAC
195 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGT
46391814 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
* * * *
46391879 GTAGGAAGTGGATC-----T-AAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCAAAGAAA
66 GTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
* * *
46391938 GCAGATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATAT
131 GCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATAT
46392003 TGGTAGCGAAGTGGATCGAAGAT
196 TGGTAG-GAAGTGGATCGAAGAT
46392026 GCAAATCTTG
Statistics
Matches: 683, Mismatches: 45, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
252 104 0.15
253 16 0.02
258 73 0.11
259 490 0.72
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (258 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
GTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
GCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATAT
TGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGT
Found at i:46391780 original size:385 final size:386
Alignment explanation
Indices: 46391035--46392040 Score: 1560
Period size: 385 Copynumber: 2.6 Consensus size: 386
46391025 TTTAAGTTGC
* *
46391035 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* * *
46391100 TTGGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
66 TTGGTAGGAAGTGGATC---GA---AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAG
* *
46391165 AAAGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
125 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTA
*
46391230 TATTGGTAG-GAAGTGGATCG-A-A-G-ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAA
190 TATTGGTAGCGAAGTGGATCGAAGATGCATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAA
* * * * * * *
46391290 GAAAGTAGATATTTTCTTTATGTATTGGCGTGAAGTAGATTGAAGATAGCAGATCCTGTCTTCCT
255 GAAAGCAGATATTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAAATCCTATCTTCCT
* *
46391355 ATATTGGTAGCGAAGTGGATCGAAGATGCAAATATTGTCTTCCCATACTGGTGGCGAAGTAGATC
320 ATATTAGTAGCGAAGTAGATCGAAGATGC----ATTGTCTTCCCATACTGGTGGCGAAGTAGATC
46391420 GAAGAA
381 GAAGAA
*
46391426 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
46391491 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGCTGGCGAAGTAGATCAAAGAAAGTA
66 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCA
* * *
46391556 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGATCTTGTATTCCTATATTGG
131 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGG
*
46391621 TAGCGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
196 TAGCGAAGTGGATCGAAGATGCA--TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAA
*
46391686 GCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAAATCCTATCTTCCTATAT
259 GCAGATATTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAAATCCTATCTTCCTATAT
46391751 TAGTAG-GAAGTAGATCGAAGAT-C-TTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
324 TAGTAGCGAAGTAGATCGAAGATGCATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
*
46391811 AACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
1 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
* *
46391876 TTGGTAGGAAGTGGATCTAAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCAAAGAAAGCA
66 TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCA
* *
46391941 GATCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATATTGG
131 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGG
46392006 TAGCGAAGTGGATCGAAGATGCAAATCTTGTCTTC
196 TAGCGAAGTGGATCGAAGATGC--ATCTTGTCTTC
46392041 ATGTATTGGC
Statistics
Matches: 570, Mismatches: 36, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
385 358 0.63
386 11 0.02
387 2 0.00
388 3 0.01
389 1 0.00
390 2 0.00
391 93 0.16
392 100 0.18
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (386 bp):
AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
TTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCA
GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGG
TAGCGAAGTGGATCGAAGATGCATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGC
AGATATTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAAATCCTATCTTCCTATATTA
GTAGCGAAGTAGATCGAAGATGCATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
Found at i:46391914 original size:37 final size:38
Alignment explanation
Indices: 46391858--46391935 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
46391848 CGAAGATAGC
* *
46391858 AGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCTA
1 AGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCAA
* *
46391895 AGATCTTGTCTTTCC-ATATTGGTGGCGAAGTAGATCAA
1 AGATCCTGTC-TTCCTATATTGGTAGCGAAGTAGATCAA
46391933 AGA
1 AGA
46391936 AAGCAGATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
37 18 0.51
38 17 0.49
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (38 bp):
AGATCCTGTCTTCCTATATTGGTAGCGAAGTAGATCAA
Found at i:46392148 original size:385 final size:386
Alignment explanation
Indices: 46391037--46392156 Score: 1492
Period size: 385 Copynumber: 2.9 Consensus size: 386
46391027 TAAGTTGCAG
* *
46391037 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* * * *
46391102 GGTAGGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GGTAGGAAGTGGATC-----T-AAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAA
* *
46391167 AGCAGATCTTATCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
125 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATA
*
46391232 TTGGTAG-GAAGTGGATCG-A-A-G--ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAG
190 TTGGTAGCGAAGTGGATCGAAGATGCAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
* ** * * * **
46391291 AAAGT-AGAT-ATTTTCTTTATGTATTGGCGTGAAGTAGATTGAAGATAGCAGATCCTGTCTTCC
255 AAA-TCAGATCATGTT-TTCCTATATTAGTGCAAAGTAGATTGAAGATAGCAGATCCTGTCTTCC
*
46391354 TATATTGGTAGCGAAGTGGATCGAAGATGCAAATATTGTCTTCCCATACTGGTGGCGAAGTAGAT
318 TATATTGGTA-CGAAGTAGATCGAAGATGC----ATTGTCTTCCCATACTGGTGGCGAAGTAGAT
*
46391419 CGAAGAAAG
378 CGAAGAAAA
*
46391428 CAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
* * *
46391493 GGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGCTGGCGAAGTAGATCAAAGAAAGTAGA
66 GGTAGGAAGTGGATCTAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGA
* * *
46391558 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGATCTTGTATTCCTATATTGGTA
131 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTA
* * *
46391623 GCGAAGTGGATCGAAGATGCAGGTCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
196 GCGAAGTGGATCGAAGATGCA-ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAATC
* * * * * * *
46391688 AGATCTTGTCTTCATGTATT-G-GCATGAAGTAGATCGAAGATAGCAAATCCTATCTTCCTATAT
260 AGATCATGTTTTCCTATATTAGTGCA--AAGTAGATTGAAGATAGCAGATCCTGTCTTCCTATAT
* *
46391751 TAGTAGGAAGTAGATCGAAGAT-C-TTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
323 TGGTACGAAGTAGATCGAAGATGCATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
46391813 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
*
46391878 GGTAGGAAGTGGATCTAAGATCTTGTCTTTCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGA
66 GGTAGGAAGTGGATCTAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGA
* *
46391943 TCTTGTTTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCCTGTCTTCCTATATTGGTA
131 TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTA
*** * * *
46392008 GCGAAGTGGATCGAAGATGCAAATCTTGTCTTCATGTATTGG-CGTGAAATAGATCGAAGAAATC
196 GCGAAGTGGATCGAAGATGC-AATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAATC
* * * * * *
46392072 AAATCATGTTTTCCTATATTAGTAGCAAAGTGGATTGAAGATAGCAGATCTTGTTTTCATGTATT
260 AGATCATGTTTTCCTATATTAGT-GCAAAGTAGATTGAAGATAGCAGATCCTGTCTTCCTATATT
* *
46392137 GGCATGAAGTAGATCGAAGA
324 GGTACGAAGTAGATCGAAGA
46392157 AAGCAAATCC
Statistics
Matches: 647, Mismatches: 67, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
384 33 0.05
385 411 0.64
386 12 0.02
387 4 0.01
388 1 0.00
389 1 0.00
390 2 0.00
391 92 0.14
392 89 0.14
393 2 0.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (386 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
GGTAGGAAGTGGATCTAAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGA
TCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGTA
GCGAAGTGGATCGAAGATGCAATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAATCA
GATCATGTTTTCCTATATTAGTGCAAAGTAGATTGAAGATAGCAGATCCTGTCTTCCTATATTGG
TACGAAGTAGATCGAAGATGCATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
Found at i:46392186 original size:89 final size:89
Alignment explanation
Indices: 46391901--46392212 Score: 421
Period size: 89 Copynumber: 3.5 Consensus size: 89
46391891 TCTAAGATCT
* * *
46391901 TGTCTTTCC-ATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTTTTCATGTATTGGCGT
1 TGTC-TTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTTTTCATGTATTGGCGT
* * *
46391965 GAAGTAGATCGAAGATAGTAGATCC
65 GAAGTAGATCGAAGAAAGCAAATCC
* * *
46391990 TGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-GCAAATCTTGTCTTCATGTATTGGCGTG
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTTTTCATGTATTGGCGTG
* * *
46392054 AAATAGATCGAAGAAATCAAATCA
66 AAGTAGATCGAAGAAAGCAAATCC
* * * * * *
46392078 TGTTTTCCTATATTAGTAGCAAAGTGGATTGAAGATAGCAGATCTTGTTTTCATGTATTGGCATG
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTTTTCATGTATTGGCGTG
46392143 AAGTAGATCGAAGAAAGCAAATCC
66 AAGTAGATCGAAGAAAGCAAATCC
* *
46392167 TATCTTCCTATATTGGTAGCGAAGTAGATTGAAGATAGCAGATCTT
1 TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTT
46392213 ATCTTCCCAT
Statistics
Matches: 194, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
88 80 0.41
89 114 0.59
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.32
Consensus pattern (89 bp):
TGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTTTTCATGTATTGGCGTG
AAGTAGATCGAAGAAAGCAAATCC
Found at i:46392283 original size:89 final size:90
Alignment explanation
Indices: 46392142--46392308 Score: 203
Period size: 90 Copynumber: 1.9 Consensus size: 90
46392132 GTATTGGCAT
* * * * *
46392142 GAAGTAGATCGAAGAAAGCAAATCCTATCTTCCTATATTGGTAGCGAAGTAGATTGAA-GATAGC
1 GAAGTAGATCGAAGAAAACAAATCCTATCTTCATATATTGGCAGCGAAGTAGA-TCAAGGATAAC
*
46392206 AGATCTTATCTTCCCATACTGGTGGC
65 AGATCTTACCTTCCCATACTGGTGGC
* * * * * *
46392232 GAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCAAGGATAACA
1 GAAGTAGATCGAAGAAAACAAATCCTATCTTCATATATTGGCAGCGAAGTAGATCAAGGATAACA
46392296 GATCTTACCTTCC
66 GATCTTACCTTCC
46392309 TGTACTGGCA
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
88 3 0.05
89 26 0.41
90 35 0.55
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.28
Consensus pattern (90 bp):
GAAGTAGATCGAAGAAAACAAATCCTATCTTCATATATTGGCAGCGAAGTAGATCAAGGATAACA
GATCTTACCTTCCCATACTGGTGGC
Found at i:46392315 original size:89 final size:90
Alignment explanation
Indices: 46392142--46392330 Score: 202
Period size: 89 Copynumber: 2.1 Consensus size: 90
46392132 GTATTGGCAT
* * * * *
46392142 GAAGTAGATCGAAGAAAGCAAATCCTATCTTCCTATATTGGTAGCGAAGTAGATTGAAGATAGCA
1 GAAGTAGATCGAAGAAAACAAATCCTATCTTCATATATTGGCAGCGAAGTAGATTCAAGATAACA
* **
46392207 GATCTTATCTTCCCATACTGGTGGC
66 GATCTTACCTTCCCATACTGGCAGC
* * * * * *
46392232 GAAGTAGATCGAAGAAAATAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGA-TCAAGGATAAC
1 GAAGTAGATCGAAGAAAACAAATCCTATCTTCATATATTGGCAGCGAAGTAGATTCAA-GATAAC
** *
46392295 AGATCTTACCTTCCTGTACTGGCAGT
65 AGATCTTACCTTCCCATACTGGCAGC
46392321 GAAGTAGATC
1 GAAGTAGATC
46392331 AAAAATAGCA
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
88 3 0.04
89 43 0.53
90 35 0.43
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (90 bp):
GAAGTAGATCGAAGAAAACAAATCCTATCTTCATATATTGGCAGCGAAGTAGATTCAAGATAACA
GATCTTACCTTCCCATACTGGCAGC
Found at i:46392331 original size:45 final size:44
Alignment explanation
Indices: 46391037--46392332 Score: 414
Period size: 44 Copynumber: 29.9 Consensus size: 44
46391027 TAAGTTGCAG
* * *
46391037 CAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGATAG
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* *** * * *
46391081 CAGGTCCGGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-G
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* ** * ** *
46391124 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* *
46391168 GCAGATCTTATCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAG
1 -CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * * *
46391213 CAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATC--G---A
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATCAAGATAA
* ** ** *
46391251 -AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGA-AA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * ** * *
46391294 GTAGATATTTTCTTTATGTATTGGC-GTGAAGTAGATTGAAGATAG
1 -CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGA-TCAAGATAA
* * * * * * *
46391339 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-G
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * ** * ** *
46391383 CAAATATTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * *
46391427 GCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAG
1 -CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * * *
46391472 CAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATC--G---A
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATCAAGATAA
* ** * *
46391510 -AGATCTTGTCTTCCCATATT-GCTGGCGAAGTAGATCAAAGA-AA
1 CAGATCTTATCTTCCTGTATTGGC-AGTGAAGTAGATC-AAGATAA
* * * * *
46391553 GTAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAAATAG
1 -CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * * * * *
46391598 CAGATCTTGTATTCCTATATTGGTAGCGAAGTGGATCGAAGAT-G
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * ** * ** *
46391642 CAGGTCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * *
46391686 GCAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCGAAGATAG
1 -CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * * *
46391731 CAAATCCTATCTTCCTATATTAGTAG-GAAGTAGATC--G---A
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATCAAGATAA
* ** * ** * *
46391769 -AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * *
46391813 CAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCGAAGATAG
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * * *
46391857 CAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATC----T-A
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATCAAGATAA
* * ** *
46391895 -AGATCTTGTCTTTCC-ATATTGGTGGCGAAGTAGATCAAAGA-AA
1 CAGATCTTATC-TTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * *
46391938 GCAGATCTTGTTTTCATGTATTGGC-GTGAAGTAGATCGAAGATAG
1 -CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * * * * * *
46391983 TAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-G
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * *
46392027 CAAATCTTGTCTTCATGTATTGGC-GTGAAATAGATCGAAGA-AA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * * * * * ** * * *
46392070 TCAAATCATGTTTTCCTATATTAGTAGCAAAGTGGATTGAAGATAG
1 -CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGA-TCAAGATAA
* * *
46392116 CAGATCTTGTTTTCATGTATTGGCA-TGAAGTAGATCGAAGA-AA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * * * * * *
46392159 GCAAATCCTATCTTCCTATATTGGTAGCGAAGTAGATTGAAGATAG
1 -CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGA-TCAAGATAA
** * ** * *
46392205 CAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATC-AAGATAA
* * *
46392250 TAGATCTTGTCTTCATGTATTGGCA-TGAAGTAGATCAAGGATAA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATCAA-GATAA
* *
46392294 CAGATCTTACCTTCCTGTACTGGCAGTGAAGTAGATCAA
1 CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATCAA
46392333 AAATAGCATA
Statistics
Matches: 952, Mismatches: 227, Indels: 145
0.72 0.17 0.11
Matches are distributed among these distances:
36 1 0.00
37 77 0.08
38 41 0.04
39 1 0.00
41 6 0.01
43 42 0.04
44 500 0.53
45 278 0.29
46 6 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (44 bp):
CAGATCTTATCTTCCTGTATTGGCAGTGAAGTAGATCAAGATAA
Found at i:46400494 original size:14 final size:14
Alignment explanation
Indices: 46400475--46400502 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46400465 TCATTTACTC
46400475 ATTTACTCTCTTTT
1 ATTTACTCTCTTTT
46400489 ATTTACTCTCTTTT
1 ATTTACTCTCTTTT
46400503 CTTTTCAATT
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:0.14, C:0.21, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTACTCTCTTTT
Found at i:46401618 original size:3 final size:3
Alignment explanation
Indices: 46401610--46401699 Score: 92
Period size: 3 Copynumber: 30.3 Consensus size: 3
46401600 CGAATTTTTC
* * * * * *
46401610 TCT TCT TCT CCT CCT CCT -CT TCC TCT TCC TCT TCT TCT TCT TCC TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
46401657 TCT TCT TTT TCT TCT TCT TTT TCT TCT TCT TCT TCT TTT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
46401700 TTATTGCCCA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
2 2 0.03
3 71 0.97
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:46403238 original size:13 final size:13
Alignment explanation
Indices: 46403208--46403256 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
46403198 ATGTGAATTA
*
46403208 TAAAATATATATA
1 TAAAATATATATT
* *
46403221 AAAAATATACATT
1 TAAAATATATATT
*
46403234 TAAAATGTATATTT
1 TAAAATATATA-TT
46403248 TAAAATATA
1 TAAAATATA
46403257 AAGAATATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
TAAAATATATATT
Found at i:46406453 original size:40 final size:40
Alignment explanation
Indices: 46406326--46406465 Score: 131
Period size: 40 Copynumber: 3.4 Consensus size: 40
46406316 ATATTTTGGG
* * * * * *
46406326 GCCTTTAGTGGCGTTTTTGACAAATCGCCGCTAATTCTC-C
1 GCCTTTAGCGGCGTTTTCG-TAAAGCGCCGCTAATGCTCTA
46406366 GACCTTTTAGCGGCGATTTTCGTAAAGCGCCGCTAATGCTCTA
1 G-CC-TTTAGCGGCG-TTTTCGTAAAGCGCCGCTAATGCTCTA
* * * *
46406409 GCCTTTAGCGGC-TTTTCTTATAAGCGCTGCTAATGTTCTG
1 GCCTTTAGCGGCGTTTTCGTA-AAGCGCCGCTAATGCTCTA
46406449 GCCTTTAGCGGCGTTTT
1 GCCTTTAGCGGCGTTTT
46406466 TTGGAAAAGC
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
39 7 0.08
40 29 0.35
41 15 0.18
42 27 0.32
43 6 0.07
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (40 bp):
GCCTTTAGCGGCGTTTTCGTAAAGCGCCGCTAATGCTCTA
Found at i:46407542 original size:27 final size:28
Alignment explanation
Indices: 46407498--46407557 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
46407488 ATAGAAAAAG
* * *
46407498 ATATA-TATGCAACGATATATATATGTT
1 ATATATTATGAAACGATATAAATATATT
46407525 ATATATTATGAAAC-ATATAAATATATT
1 ATATATTATGAAACGATATAAATATATT
46407552 A-ATATT
1 ATATATT
46407558 GTGTTAGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 5 0.17
27 17 0.59
28 7 0.24
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (28 bp):
ATATATTATGAAACGATATAAATATATT
Found at i:46408237 original size:115 final size:116
Alignment explanation
Indices: 46407985--46408248 Score: 282
Period size: 116 Copynumber: 2.3 Consensus size: 116
46407975 GCTTGGGGCT
* * * *
46407985 TTAGCGGCGGTTTTTCCTA-AAACGCCGCAAATATTTCTTTAATACGACATCGTTTAGTGTTATG
1 TTAGCGGC-GTTTTT-ATATAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATG
* * * *
46408049 CTCTGGTCGAAAAGTTCGACAAAATGACGTCGCTTTGATGATGTTTACCGGTA
64 ATCTGGTCGAAAAGTTAGACAAAAAGACATCGCTTTGATGATGTTTACCGGTA
* * * * *
46408102 TTAGCGGCGGTTTTACATAAACGCCGCAAAAATTTCTGTAATACGACGTCGTTTACTTTTATTAT
1 TTAGCGGCGTTTTTATATAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATGAT
* * * * **
46408167 TTGGTTG-AAAGTTAGACAAAAAGACATCGTTTTTAT-ACTGTTTATTGGTA
66 CTGGTCGAAAAGTTAGACAAAAAGACATCGCTTTGATGA-TGTTTACCGGTA
*
46408217 TTAGCGGCGTTTTTTTATAAAAACGCCGCAAA
1 TTAGCGGCG--TTTTTATATAAACGCCGCAAA
46408249 GGAAATAAAT
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
114 1 0.01
115 44 0.36
116 50 0.41
117 26 0.21
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (116 bp):
TTAGCGGCGTTTTTATATAAACGCCGCAAAAATTTCTGTAATACGACATCGTTTACTGTTATGAT
CTGGTCGAAAAGTTAGACAAAAAGACATCGCTTTGATGATGTTTACCGGTA
Found at i:46409717 original size:21 final size:20
Alignment explanation
Indices: 46409693--46409731 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
46409683 CAATTTCTCT
46409693 CTGAAATCCCTAAGTGTTTCA
1 CTGAAATCCCTAAG-GTTTCA
46409714 CTGAAATCCCTAAGGTTT
1 CTGAAATCCCTAAGGTTT
46409732 TTTCCTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
CTGAAATCCCTAAGGTTTCA
Found at i:46410261 original size:29 final size:28
Alignment explanation
Indices: 46410219--46410274 Score: 103
Period size: 29 Copynumber: 2.0 Consensus size: 28
46410209 TCTGAAGGTA
46410219 CAAATATATATGTAGGAAAATTTGATGTG
1 CAAATATATATGTAGGAAAATTT-ATGTG
46410248 CAAATATATATGTAGGAAAATTTATGT
1 CAAATATATATGTAGGAAAATTTATGT
46410275 TTTCTGCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.43, C:0.04, G:0.18, T:0.36
Consensus pattern (28 bp):
CAAATATATATGTAGGAAAATTTATGTG
Found at i:46410273 original size:14 final size:14
Alignment explanation
Indices: 46410227--46410274 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
46410217 TACAAATATA
46410227 TATGTAGGAAAATT
1 TATGTAGGAAAATT
* *
46410241 TGATGT-GCAAATATA
1 T-ATGTAGGAAA-ATT
46410256 TATGTAGGAAAATT
1 TATGTAGGAAAATT
46410270 TATGT
1 TATGT
46410275 TTTCTGCATC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (14 bp):
TATGTAGGAAAATT
Found at i:46412670 original size:21 final size:21
Alignment explanation
Indices: 46412645--46412709 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
46412635 CAACAACTTA
*
46412645 AAGCAGAGGCAGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
46412666 AAGCAGAGGCTA-CAGCGAGAG
1 AAGCAGAGGC-AGCAGCGAGAG
* *
46412687 AAGCAGAGGCTGCAGCAAGAG
1 AAGCAGAGGCAGCAGCGAGAG
46412708 AA
1 AA
46412710 ATAGCGAGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.38, C:0.18, G:0.40, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:46413244 original size:43 final size:42
Alignment explanation
Indices: 46413131--46413400 Score: 323
Period size: 43 Copynumber: 6.3 Consensus size: 42
46413121 TTTTTTAAAA
*
46413131 AAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACC-
1 AAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TCCT
* * * *
46413173 AAACGCTGCTATAGAACATTA-CTTTTAGCGGCGTTTTCTTCCT
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCT
*
46413216 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT-CCT
* *
46413259 AAGCACCGCTAGAGAACATGATCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
* *
46413301 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTCAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
* *
46413343 AAAGTGCCGCTAAAGAACATAATCTTTAGCGGCGTTTATTTCCT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCT
*
46413387 TAGCGCCGCTAAAG
1 AAGCGCCGCTAAAG
46413401 GCCTAAAAAA
Statistics
Matches: 198, Mismatches: 22, Indels: 15
0.84 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 74 0.37
43 117 0.59
44 6 0.03
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
Found at i:46413300 original size:85 final size:85
Alignment explanation
Indices: 46413131--46413400 Score: 341
Period size: 85 Copynumber: 3.2 Consensus size: 85
46413121 TTTTTTAAAA
* * * * *
46413131 AAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCG-TTTTTGACCAAACGCTGCTATAGAACATT
1 AAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTTTCACCAAGCGCCGCTAAAGAACATA
46413193 A-CTTTTAGCGGCGTTTTCTTCCT
64 ATC-TTTAGCGGCGTTTT-TTCCT
* * * *
46413216 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCCAAGCACCGCTAGAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCACCAAGCGCCGCTAAAGAACATAAT
46413281 CTTTAGCGGCGTTTTTTCCT
66 CTTTAGCGGCGTTTTTTCCT
* ** *
46413301 AAGCGCCGCTAAAGAACATGATCTTTAGCAGCGTTTTTTCATAAAGTGCCGCTAAAGAACATAAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCACCAAGCGCCGCTAAAGAACATAAT
46413366 CTTTAGCGGCGTTTATTTCCT
66 CTTTAGCGGCGTTT-TTTCCT
*
46413387 TAGCGCCGCTAAAG
1 AAGCGCCGCTAAAG
46413401 GCCTAAAAAA
Statistics
Matches: 164, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
84 1 0.01
85 104 0.63
86 58 0.35
87 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCACCAAGCGCCGCTAAAGAACATAAT
CTTTAGCGGCGTTTTTTCCT
Found at i:46413396 original size:128 final size:128
Alignment explanation
Indices: 46413131--46413400 Score: 327
Period size: 128 Copynumber: 2.1 Consensus size: 128
46413121 TTTTTTAAAA
* * *
46413131 AAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGACCAAACGCTGCTATAGAACATTACT
1 AAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGACCAAACGCCGCTAAAGAACATGACT
* * *
46413196 TTTAGCGGCGTTTTCTTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCCC
66 TTTAGCAGCGTTTTCTTCATAAGCGCCGCTAAAGAACATAATCTTTAGCGGCGTTTTTTCCCC
* * * *
46413259 AAGCACCGCTAGAGAACA-TGATCT-TTAGCGGCGTTTTT-TCCTAAGCGCCGCTAAAGAACATG
1 AAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACC-AAACGCCGCTAAAGAACATG
*
46413321 A-TCTTTAGCAGCGTTTT-TTCATAAAGTGCCGCTAAAGAACATAATCTTTAGCGGCGTTTATTT
63 ACT-TTTAGCAGCGTTTTCTTCAT-AAGCGCCGCTAAAGAACATAATCTTTAGCGGCGTTT-TTT
*
46413384 -CCT
125 CCCC
*
46413387 TAGCGCCGCTAAAG
1 AAGCGCCGCTAAAG
46413401 GCCTAAAAAA
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
127 8 0.07
128 108 0.89
129 5 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (128 bp):
AAGCGCCGCTAAAGAACACTACTGTTAGCGGCGTTTTTGACCAAACGCCGCTAAAGAACATGACT
TTTAGCAGCGTTTTCTTCATAAGCGCCGCTAAAGAACATAATCTTTAGCGGCGTTTTTTCCCC
Found at i:46414123 original size:25 final size:26
Alignment explanation
Indices: 46414081--46414135 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
46414071 TGCATCACAA
*
46414081 TATTTTTATAAAGATTTT-AATTAAT
1 TATTTTTATAAACATTTTAAATTAAT
* * *
46414106 TATTTTTATAATCCTTTTAAATTATT
1 TATTTTTATAAACATTTTAAATTAAT
46414132 TATT
1 TATT
46414136 ATATCAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
TATTTTTATAAACATTTTAAATTAAT
Found at i:46419120 original size:13 final size:13
Alignment explanation
Indices: 46419102--46419130 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
46419092 AGCCAAGTGT
46419102 ATCTGCTATAGTC
1 ATCTGCTATAGTC
46419115 ATCTGCTATAGTC
1 ATCTGCTATAGTC
46419128 ATC
1 ATC
46419131 AACAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (13 bp):
ATCTGCTATAGTC
Found at i:46427847 original size:16 final size:15
Alignment explanation
Indices: 46427804--46427850 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
46427794 ATTTAAGAAT
* *
46427804 AATAGAAATGTAT-A
1 AATATAAATATATAA
*
46427818 AATATATATATATAA
1 AATATAAATATATAA
46427833 AATATAAAGTATATAA
1 AATATAAA-TATATAA
46427849 AA
1 AA
46427851 GTTTAAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 10 0.37
15 8 0.30
16 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
AATATAAATATATAA
Found at i:46428044 original size:3 final size:3
Alignment explanation
Indices: 46428023--46428074 Score: 59
Period size: 3 Copynumber: 16.7 Consensus size: 3
46428013 TGTACATGAA
* * *
46428023 AAT AAT GAAT AAT ATT AAT AAT AAT AAT AAT AGAC AAT AAT AGT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
46428070 AAT AA
1 AAT AA
46428075 CAAGTAATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 36 0.88
4 5 0.12
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46428053 original size:25 final size:27
Alignment explanation
Indices: 46428023--46428084 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
46428013 TGTACATGAA
*
46428023 AATAAT-G-AATAATATTAATAATAAT
1 AATAATAGAAATAATAGTAATAATAAT
*
46428048 AATAATAGACAATAATAGTAATAATAAC
1 AATAATAGA-AATAATAGTAATAATAAT
46428076 AAGTAATAG
1 AA-TAATAG
46428085 TACCATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 6 0.19
26 1 0.03
28 18 0.58
29 6 0.19
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (27 bp):
AATAATAGAAATAATAGTAATAATAAT
Found at i:46428061 original size:19 final size:18
Alignment explanation
Indices: 46428023--46428083 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
46428013 TGTACATGAA
**
46428023 AATAATGAATAATATTAAT
1 AATAAT-AATAATAACAAT
46428042 AATAATAATAATAGACAAT
1 AATAATAATAATA-ACAAT
*
46428061 AATAGTAATAATAACAAGT
1 AATAATAATAATAACAA-T
46428080 AATA
1 AATA
46428084 GTACCATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 11 0.30
19 26 0.70
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (18 bp):
AATAATAATAATAACAAT
Found at i:46428084 original size:19 final size:19
Alignment explanation
Indices: 46428039--46428086 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
46428029 GAATAATATT
*
46428039 AATAATAATAATAATAGAC
1 AATAATAGTAATAATAGAC
46428058 AATAATAGTAATAATA-AC
1 AATAATAGTAATAATAGAC
46428076 AAGTAATAGTA
1 AA-TAATAGTA
46428087 CCATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.27
Consensus pattern (19 bp):
AATAATAGTAATAATAGAC
Found at i:46445442 original size:20 final size:20
Alignment explanation
Indices: 46445417--46445456 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
46445407 TAAAGGTCTT
46445417 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
46445437 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
46445457 ATGAGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:46449342 original size:28 final size:28
Alignment explanation
Indices: 46449311--46449366 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
46449301 AGAACATATA
*
46449311 TATATACTAGTAAAA-TAATAAAAAAATT
1 TATACACTAGTAAAAGTAA-AAAAAAATT
* *
46449339 TATACATTTGTAAAAGTAAAAAAAAATT
1 TATACACTAGTAAAAGTAAAAAAAAATT
46449367 AAACCGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (28 bp):
TATACACTAGTAAAAGTAAAAAAAAATT
Found at i:46449422 original size:3 final size:3
Alignment explanation
Indices: 46449407--46449484 Score: 77
Period size: 3 Copynumber: 24.7 Consensus size: 3
46449397 TGTACATGAA
* *
46449407 AAT AAT GAAT AAT AAT AAT AAT AAT AAT AAT AGAC AAT AAT AGT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
46449454 AAT AAC AAGT AAT AAT ACCAT AA- AAT AAT AA
1 AAT AAT AA-T AAT AAT A--AT AAT AAT AAT AA
46449485 CGTAAAAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
2 2 0.03
3 51 0.81
4 7 0.11
5 3 0.05
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:46449434 original size:22 final size:21
Alignment explanation
Indices: 46449407--46449484 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 21
46449397 TGTACATGAA
46449407 AATAATGAATAATAATAATAAT
1 AATAAT-AATAATAATAATAAT
* *
46449429 AATAATAATAGACAATAATAGT
1 AATAATAATA-ATAATAATAAT
*
46449451 AATAATAACAAGTAATAATACCAT
1 AATAATAATAA-TAATAATA--AT
46449475 AA-AATAATAA
1 AATAATAATAA
46449485 CGTAAAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 5 0.11
22 31 0.67
23 7 0.15
24 3 0.07
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (21 bp):
AATAATAATAATAATAATAAT
Found at i:46455799 original size:16 final size:15
Alignment explanation
Indices: 46455778--46455807 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46455768 AAAGAATAGC
46455778 AAATAAATAAACAACG
1 AAATAAAT-AACAACG
46455794 AAATAAATAACAAC
1 AAATAAATAACAAC
46455808 AAGGATGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.13
Consensus pattern (15 bp):
AAATAAATAACAACG
Found at i:46455862 original size:15 final size:15
Alignment explanation
Indices: 46455839--46455868 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46455829 AACAAGCCAA
*
46455839 TAAATAAATAAATAC
1 TAAACAAATAAATAC
46455854 TAAACAAATAAATAC
1 TAAACAAATAAATAC
46455869 ATACTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAACAAATAAATAC
Found at i:46457577 original size:44 final size:43
Alignment explanation
Indices: 46457529--46458016 Score: 194
Period size: 44 Copynumber: 11.2 Consensus size: 43
46457519 TACCTCGGGA
* *
46457529 AGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTCAGGG
1 AGATAAGA-TCACCATCTTCAATCTGCTCCACTACTGCTCAGGG
* * * * *
46457573 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGG
1 AGATAAGATC-ACCATCTTCAATCTGCTCCACTACTGCTCAGGG
*** *
46457617 AGATAAGACTGGTCA-CTTAAATCTGCTTCCTACTAC--CTC-GGG
1 AGATAAGA-TCACCATCTTCAATCTGC-TCC-ACTACTGCTCAGGG
* * * *
46457659 AAGATAAGATTCACCATTTTCGATCTGCTCCACTACTGCTTAAGG
1 -AGATAAGA-TCACCATCTTCAATCTGCTCCACTACTGCTCAGGG
* * * *
46457704 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGG
1 AGATAAGATC-ACCATCTTCAATCTGCTCCACTACTGCTCAGGG
** * * * **
46457748 AGAT-AGA--ACTGGTGGCTTAAATCTGTTTCTTACTA-T-CTC-GAAA
1 AGATAAGATCAC-CAT--CTTCAATCTG-CTC-CACTACTGCTCAG-GG
* * * * * *
46457791 AGATAAAACTCACCGTCTTCGATCTACTTCACTACTGCTTAGGG
1 AGATAAGA-TCACCATCTTCAATCTGCTCCACTACTGCTCAGGG
* * *
46457835 AGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGG
1 AGATAAGATC-ACCATCTTCAATCTGCTCCACTACTGCTCAGGG
* **** *
46457879 AGATAGGA-CTAGTGGCTTAAATCTGCTTCCTACTAC--CTC-GGG
1 AGATAAGATC-ACCATCTTCAATCTGC-TCC-ACTACTGCTCAGGG
** * * * * *
46457921 AAGATAAGATTCGTCATTTTCGATCTGCTCTACTACTTCTTAGGG
1 -AGATAAGA-TCACCATCTTCAATCTGCTCCACTACTGCTCAGGG
*** * * *
46457966 AGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGCTCAGGG
1 AGATAAGATC-ACCATCTTCAATCTGCTCCACTACTGCTCAGGG
46458010 AGATAAG
1 AGATAAG
46458017 GCTTGATATG
Statistics
Matches: 322, Mismatches: 89, Indels: 66
0.68 0.19 0.14
Matches are distributed among these distances:
40 2 0.01
41 1 0.00
42 20 0.06
43 75 0.23
44 200 0.62
45 20 0.06
46 2 0.01
47 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
AGATAAGATCACCATCTTCAATCTGCTCCACTACTGCTCAGGG
Found at i:46457654 original size:131 final size:131
Alignment explanation
Indices: 46457419--46458016 Score: 883
Period size: 131 Copynumber: 4.6 Consensus size: 131
46457409 CATGGTTTTA
* * *
46457419 ATCTGCTCCGCTACTGCTTTGGAAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * *
46457484 GGAGGTAGGACTGGTGGCTTAAATCTGCTTCCTATTACCTCGGGAAGATAAGATTCACCGTCTTC
66 GGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTTC
46457549 G
131 G
* *
46457550 ATCTGCTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
** *
46457615 GGAGATAAGACTGGTCACTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATTTTC
66 GGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTTC
46457680 G
131 G
*
46457681 ATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * * ** * * *
46457746 GGAGAT-AGAACTGGTGGCTTAAATCTGTTTCTTACTATCTCGAAAAGATAAAACTCACCGTCTT
66 GGAGATAAG-ACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTT
46457810 CG
130 CG
* * *
46457812 ATCTACTTCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
* * ** *
46457877 GGAGATAGGACTAGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCGTCATTTTC
66 GGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTTC
46457942 G
131 G
* * **
46457943 ATCTGCTCTACTACTTCTTAGGGAGATAAGATCTGTAATCTTCAACCTACTCCACTGCTGCTCAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
46458008 GGAGATAAG
66 GGAGATAAG
46458017 GCTTGATATG
Statistics
Matches: 414, Mismatches: 51, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
130 2 0.00
131 411 0.99
132 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (131 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAG
GGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCGGGAAGATAAGATTCACCATCTTC
G
Found at i:46470130 original size:4 final size:4
Alignment explanation
Indices: 46470121--46470167 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
46470111 TGAACAAGCC
* *
46470121 AATA AATA AATA AATA AATA AATA AATA AAT- ACTA AACA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
46470168 CATACTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 2 0.05
4 36 0.95
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:46471021 original size:12 final size:12
Alignment explanation
Indices: 46471004--46471041 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
46470994 ATAAAAAGAT
46471004 AAAAAGAATCAA
1 AAAAAGAATCAA
46471016 AAAAAGAA--AA
1 AAAAAGAATCAA
46471026 AAAAAGAATCAA
1 AAAAAGAATCAA
46471038 AAAA
1 AAAA
46471042 GAAAAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 10 0.42
12 14 0.58
ACGTcount: A:0.82, C:0.05, G:0.08, T:0.05
Consensus pattern (12 bp):
AAAAAGAATCAA
Found at i:46471028 original size:21 final size:20
Alignment explanation
Indices: 46471004--46471049 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 20
46470994 ATAAAAAGAT
46471004 AAAAAGAATCAAAAAAAGAAAA
1 AAAAAGAATC-AAAAAAG-AAA
46471026 AAAAAGAATCAAAAAAGAAA
1 AAAAAGAATCAAAAAAGAAA
46471046 AAAA
1 AAAA
46471050 TCACCTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.29
21 7 0.29
22 10 0.42
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (20 bp):
AAAAAGAATCAAAAAAGAAA
Found at i:46471032 original size:22 final size:21
Alignment explanation
Indices: 46471004--46471049 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 21
46470994 ATAAAAAGAT
46471004 AAAAAGAATCAAAAAAAGAAAA
1 AAAAAGAATC-AAAAAAGAAAA
46471026 AAAAAGAATCAAAAAAGAAAA
1 AAAAAGAATCAAAAAAGAAAA
46471047 AAA
1 AAA
46471050 TCACCTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (21 bp):
AAAAAGAATCAAAAAAGAAAA
Found at i:46473865 original size:18 final size:18
Alignment explanation
Indices: 46473827--46473862 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
46473817 TTATTATTTT
*
46473827 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
46473845 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
46473863 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:46474892 original size:17 final size:17
Alignment explanation
Indices: 46474841--46474892 Score: 86
Period size: 17 Copynumber: 3.0 Consensus size: 17
46474831 GGATCCAATG
*
46474841 GAAACACGAGAATTTTT
1 GAAACACGAAAATTTTT
46474858 GAAAACACGAAAATTTTT
1 G-AAACACGAAAATTTTT
46474876 GAAACACGAAAATTTTT
1 GAAACACGAAAATTTTT
46474893 ATAAATTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 17 0.52
18 16 0.48
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (17 bp):
GAAACACGAAAATTTTT
Found at i:46475660 original size:7 final size:7
Alignment explanation
Indices: 46475646--46475715 Score: 65
Period size: 7 Copynumber: 10.0 Consensus size: 7
46475636 ATTTTTTTCC
46475646 TTTC-TT
1 TTTCTTT
46475652 TTTCTTT
1 TTTCTTT
46475659 TTTC-TT
1 TTTCTTT
46475665 TTTCTTT
1 TTTCTTT
*
46475672 CCTTTTTTT
1 --TTTCTTT
46475681 TTTCTTT
1 TTTCTTT
*
46475688 TTT-TTCC
1 TTTCTT-T
*
46475695 TTTCTTC
1 TTTCTTT
46475702 TTTCTTT
1 TTTCTTT
46475709 TTTCTTT
1 TTTCTTT
46475716 CCTTTTCCGT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
6 12 0.22
7 34 0.63
8 2 0.04
9 6 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTCTTT
Found at i:46475672 original size:28 final size:27
Alignment explanation
Indices: 46475637--46475715 Score: 105
Period size: 28 Copynumber: 3.1 Consensus size: 27
46475627 CTCCTTTTTA
46475637 TTTTTTTCCTTTCTTTTTCTTTTTTC-
1 TTTTTTTCCTTTCTTTTTCTTTTTTCT
*
46475663 --TTTTT-CTTTCCTTTT-TTTTTTCT
1 TTTTTTTCCTTTCTTTTTCTTTTTTCT
46475686 TTTTTTTCCTTTCTTCTTTCTTTTTTCT
1 TTTTTTTCCTTTCTT-TTTCTTTTTTCT
46475714 TT
1 TT
46475716 CCTTTTCCGT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
22 7 0.16
23 9 0.20
24 5 0.11
25 5 0.11
26 6 0.13
27 3 0.07
28 10 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTTTCCTTTCTTTTTCTTTTTTCT
Found at i:46475730 original size:24 final size:23
Alignment explanation
Indices: 46475638--46475722 Score: 97
Period size: 23 Copynumber: 3.7 Consensus size: 23
46475628 TCCTTTTTAT
*
46475638 TTTTTTCCTTTCTTTTTCTTTTT-
1 TTTTTT-CTTTCCTTTTCTTTTTC
*
46475661 TCTTTTTCTTTCCTTTTTTTTTTC
1 T-TTTTTCTTTCCTTTTCTTTTTC
46475685 -TTTTT-TTTCC-TTTCTTCTTTC
1 TTTTTTCTTTCCTTTTCTT-TTTC
46475706 TTTTTTCTTTCCTTTTC
1 TTTTTTCTTTCCTTTTC
46475723 CGTTTTCTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
20 5 0.09
21 9 0.17
22 10 0.19
23 20 0.38
24 9 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTTTTCTTTCCTTTTCTTTTTC
Found at i:46475730 original size:31 final size:29
Alignment explanation
Indices: 46475645--46475740 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 29
46475635 TATTTTTTTC
*
46475645 CTTTC-TTTTTC-TT-TTTTCTTTTTCTTT
1 CTTTCTTTTTTCTTTCTTTTCCTTTTC-TT
* *
46475672 CCTTTTTTTTTTCTTTTTTTTCC-TTTCTT
1 -CTTTCTTTTTTCTTTCTTTTCCTTTTCTT
*
46475701 CTTTCTTTTTTCTTTCCTTTTCCGTTTTCTC
1 CTTTCTTTTTTCTTT-CTTTTCC-TTTTCTT
46475732 CTTTCTTTT
1 CTTTCTTTT
46475741 CCGTTCAGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
28 18 0.32
29 14 0.25
30 6 0.11
31 19 0.33
ACGTcount: A:0.00, C:0.23, G:0.01, T:0.76
Consensus pattern (29 bp):
CTTTCTTTTTTCTTTCTTTTCCTTTTCTT
Found at i:46476284 original size:29 final size:29
Alignment explanation
Indices: 46476230--46476304 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
46476220 GAAAAATATG
* * *
46476230 GGGCCAAAATGTAATTTATGGAAAGTTTAA
1 GGGCTAAAATATAA-TTATGAAAAGTTTAA
* *
46476260 GGGCTCAAATATAATTATGAAAAGTTTAG
1 GGGCTAAAATATAATTATGAAAAGTTTAA
*
46476289 GGGTTAAAATATAATT
1 GGGCTAAAATATAATT
46476305 TTTTTAAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 27 0.71
30 11 0.29
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.32
Consensus pattern (29 bp):
GGGCTAAAATATAATTATGAAAAGTTTAA
Found at i:46476743 original size:75 final size:75
Alignment explanation
Indices: 46476664--46477475 Score: 951
Period size: 75 Copynumber: 10.7 Consensus size: 75
46476654 GTGATTTAAA
* * * *
46476664 GCTCAATTCACCTCTCGGATTATGAGTTGATATTTGAGAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
*
46476729 GTGACTCGAG
66 GTGACCCGAG
* * *
46476739 GCTCAACTCACCTCCCGGATTATGAGTTGATTTTTGAAAAACATAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
46476804 GTGA-CCGAAG
66 GTGACCCG-AG
* * *** * *
46476814 GCTCAACTCACCACTCGCATTATGAGTTAATTTTTTTTAAA-TGAAATTGAAAAATACCTCAGCA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTG-AAAATACCTCAGCG
*
46476878 TGTG-TCCGAG
65 TGTGACCCGAG
*
46476888 GCTCGACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
46476953 GTGACCCGAG
66 GTGACCCGAG
* *
46476963 GCTCAACTCACCTCTCGCATTATGAGTTAATTTTTGAAAAAACAGAAATTGAAAAATACCAC-G-
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAAACAGAAATTG-AAAATACCTCAGC
* *
46477026 GTGTGCGCCCGTG
64 GTGTG-ACCCGAG
* * * * *
46477039 GCTCAA-TCACGTCTCGCATTATGAGTTGATTTTTTTTAAAAAAATGAAATTGAAAAATGCCTCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGA--TTTTTGAAAAACA-GAAATTG-AAAATACCTCA
* * *
46477103 GCATGTG-TCTGAG
62 GCGTGTGACCCGAG
* *
46477116 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAATACAGAAATTGAAAATACCTCAGCAT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
*
46477181 GTGACCTGAG
66 GTGACCCGAG
* ** * * *
46477191 GCTCAACTCACCTCTCCCATTATGAGTTGATTTTAAAAAAAAATAGAAATTGAAAAATGCCTCGG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTT--TGAAAAACAGAAATTG-AAAATACCTCAG
46477256 CGTGT--CCCTGAG
63 CGTGTGACCC-GAG
* *
46477268 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAAATAGAAATTGAAAATACCTCGG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG---AAAAACAGAAATTGAAAATACCTCAG
46477333 CGTGTG-CCCGAG
63 CGTGTGACCCGAG
* * * *
46477345 GCTCAACTCATCTCTAGCATTATGAGTTGATTTTTGAAAAAACAAAAATTGAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAGCG
46477410 TGTGACCCGAG
65 TGTGACCCGAG
* * ** *
46477421 ACTCAACTCACCTCTCGCATTATGAGTTCATTTTAAAAAAAATAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTT-TGAAAAACAGAAATTGAAAA
46477476 ATAATTCTTG
Statistics
Matches: 640, Mismatches: 72, Indels: 49
0.84 0.09 0.06
Matches are distributed among these distances:
74 78 0.12
75 268 0.42
76 96 0.15
77 140 0.22
78 54 0.08
79 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
GTGACCCGAG
Found at i:46477186 original size:228 final size:229
Alignment explanation
Indices: 46476664--46477478 Score: 1119
Period size: 228 Copynumber: 3.6 Consensus size: 229
46476654 GTGATTTAAA
* * * *
46476664 GCTCAATTCACCTCTCGGATTATGAGTTGATATTTGAGAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
* * * ** *
46476729 GTGACTCGAGGCTCAACTCACCTCCCGGATTATGAGTTGATTTT-TGAAAAACATAAATTG-AAA
66 GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAAACAGAAATTGAAAA
* * * * *
46476792 ATACCTCAGCGTGTGACCGAAGGCTCAACTCACCACTCGCATTATGAGTTAATTTTTTTT----A
131 ATACCTCGGCGTGCGCCCG-AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTAAAAA
*
46476853 AATGAAATTGAAAAATACCTCAGCATGTGTCCGAG
195 AATGAAATTGAAAAATACCTCGGCATGTGTCCGAG
*
46476888 GCTCGACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
* **
46476953 GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTAATTTTTGAAAAAACAGAAATTGAAAA
66 GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAAACAGAAATTGAAAA
* * * *
46477018 ATACCACGGTGTGCGCCCGTGGCTCAA-TCACGTCTCGCATTATGAGTTGATTTTTTTTAAAAAA
131 ATACCTCGGCGTGCGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTAAAAAA
* *
46477082 ATGAAATTGAAAAATGCCTCGGCATGTGTCTGAG
196 ATGAAATTGAAAAATACCTCGGCATGTGTCCGAG
* *
46477116 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAATACAGAAATTGAAAATACCTCAGCAT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
* * *
46477181 GTGACCTGAGGCTCAACTCACCTCTCCCATTATGAGTTGATTTTAAAAAAAAATAGAAATTGAAA
66 GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTT-AAAAAAAACAGAAATTGAAA
* * **
46477246 AATGCCTCGGCGTGTC-CCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAA
130 AATACCTCGGCGTG-CGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTAAAA
* *
46477309 AAATAGAAATTG-AAAATACCTCGGCGTGTGCCCGAG
194 AAAT-GAAATTGAAAAATACCTCGGCATGTGTCCGAG
* * * *
46477345 GCTCAACTCATCTCTAGCATTATGAGTTGATTTTTGAAAAAACAAAAATTGAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCAGCG
* * *
46477410 TGTGACCCGAGACTCAACTCACCTCTCGCATTATGAGTTCATTTTAAAAAAAATAGAAATTGAAA
65 TGTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAAACAGAAATTGAAA
46477475 AATA
130 AATA
46477479 ATTCTTGAAA
Statistics
Matches: 524, Mismatches: 56, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
224 128 0.24
225 20 0.04
226 17 0.03
228 136 0.26
229 128 0.24
230 95 0.18
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (229 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGT
GTGACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTAAAAAAAACAGAAATTGAAAA
ATACCTCGGCGTGCGCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTAAAAAA
ATGAAATTGAAAAATACCTCGGCATGTGTCCGAG
Found at i:46489633 original size:20 final size:19
Alignment explanation
Indices: 46489592--46489636 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
46489582 AGAATGGGCA
*
46489592 TTTTTC-TCCTTTTTCTTT
1 TTTTTCTTCCTTTTTCCTT
46489610 TTTTTCTTCCTTTCTTCCTT
1 TTTTTCTTCCTTT-TTCCTT
46489630 TTTTTCT
1 TTTTTCT
46489637 GGCTGGGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 6 0.25
20 12 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTCTTCCTTTTTCCTT
Found at i:46490147 original size:21 final size:21
Alignment explanation
Indices: 46490101--46490148 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
46490091 CTTTCTTCTT
*
46490101 TGCTGTTCTTTTTTGTTATTTT
1 TGCT-TTCTTTTTTGTTATTTA
*
46490123 TGCTTTCTATTTTT-TTGTTTA
1 TGCTTTCT-TTTTTGTTATTTA
46490144 TGCTT
1 TGCTT
46490149 GTTTGGCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.06, C:0.10, G:0.12, T:0.71
Consensus pattern (21 bp):
TGCTTTCTTTTTTGTTATTTA
Found at i:46490565 original size:29 final size:29
Alignment explanation
Indices: 46490518--46490592 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
46490508 GAAAAATATA
* *
46490518 GGGCCAAAATACAATTTATG-ATAAGTTTAG
1 GGGCTAAAATATAA-TTATGAAT-AGTTTAG
* *
46490548 GGGCTTAAATATAATTATGAATCGTTTAG
1 GGGCTAAAATATAATTATGAATAGTTTAG
46490577 GGGCTAAAATATAATT
1 GGGCTAAAATATAATT
46490593 TTTTTAAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 26 0.67
30 13 0.33
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (29 bp):
GGGCTAAAATATAATTATGAATAGTTTAG
Found at i:46507880 original size:21 final size:21
Alignment explanation
Indices: 46507855--46507948 Score: 61
Period size: 21 Copynumber: 4.5 Consensus size: 21
46507845 TGTGTTTGCT
*
46507855 TTTAGTTTAGCTCTTATGAGC
1 TTTAGTTTAACTCTTATGAGC
* *
46507876 TTTAG-CTAACTCATATGAG-
1 TTTAGTTTAACTCTTATGAGC
* *
46507895 TTTCAGTTTAAC-CCTACT-AGG
1 TTT-AGTTTAACTCTTA-TGAGC
* *
46507916 TTTCAGTTTAGCTCTTTTGAGC
1 TTT-AGTTTAACTCTTATGAGC
*
46507938 TTCAGTTTAAC
1 TTTAGTTTAAC
46507949 CCTTGTGGGT
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
19 3 0.05
20 18 0.32
21 29 0.52
22 6 0.11
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.44
Consensus pattern (21 bp):
TTTAGTTTAACTCTTATGAGC
Found at i:46507994 original size:42 final size:43
Alignment explanation
Indices: 46507889--46507994 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 43
46507879 AGCTAACTCA
* * *
46507889 TATGAGTTTCAGTTTAACCCTACTAGGTTTCAGTTTAGCTCTT
1 TATGAGCTTCAGTTTAACCCTTCTAGGTTTCAGTTCAGCTCTT
* * *
46507932 T-TGAGCTTCAGTTTAACCCTTGTGGGTTTCCGTTCAGCT-TT
1 TATGAGCTTCAGTTTAACCCTTCTAGGTTTCAGTTCAGCTCTT
*
46507973 TATGAGCTTCTGTTTAACCCTT
1 TATGAGCTTCAGTTTAACCCTT
46507995 AAGGGTTTTC
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
41 3 0.05
42 51 0.93
43 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (43 bp):
TATGAGCTTCAGTTTAACCCTTCTAGGTTTCAGTTCAGCTCTT
Found at i:46508001 original size:42 final size:43
Alignment explanation
Indices: 46507889--46508007 Score: 129
Period size: 42 Copynumber: 2.8 Consensus size: 43
46507879 AGCTAACTCA
* * *
46507889 TATGAGTTTCAGTTTAACCC-TACTA-GGTTTCAGTTTAGCTCTT
1 TATGAGCTTCAGTTTAACCCTTA--AGGGTTTCCGTTCAGCTCTT
**
46507932 T-TGAGCTTCAGTTTAACCCTTGTGGGTTTCCGTTCAGCT-TT
1 TATGAGCTTCAGTTTAACCCTTAAGGGTTTCCGTTCAGCTCTT
* *
46507973 TATGAGCTTCTGTTTAACCCTTAAGGGTTTTCGTT
1 TATGAGCTTCAGTTTAACCCTTAAGGGTTTCCGTT
46508008 TAACACTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 3 0.05
42 59 0.92
43 2 0.03
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.45
Consensus pattern (43 bp):
TATGAGCTTCAGTTTAACCCTTAAGGGTTTCCGTTCAGCTCTT
Found at i:46515760 original size:44 final size:43
Alignment explanation
Indices: 46515671--46515764 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 43
46515661 ACAGTCGCAC
46515671 ATTAGTAATTAACGATTCTTCCCTACTGTAAACTTCCTACAAT
1 ATTAGTAATTAACGATTCTTCCCTACTGTAAACTTCCTACAAT
* *
46515714 ATTAGTAATTAACGATTTTGTTCCC-ACTGTAAACTTCCTACCAT
1 ATTAGTAATTAACGA--TTCTTCCCTACTGTAAACTTCCTACAAT
46515758 ATTAGTA
1 ATTAGTA
46515765 CACCATCAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 15 0.32
44 25 0.53
45 7 0.15
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (43 bp):
ATTAGTAATTAACGATTCTTCCCTACTGTAAACTTCCTACAAT
Found at i:46518023 original size:24 final size:24
Alignment explanation
Indices: 46517996--46518043 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
46517986 TTTTGCAAAC
46517996 TAAACCAAACCA-AAAATAAATAAA
1 TAAA-CAAACCAGAAAATAAATAAA
* *
46518020 TAAATAAACCAGAAAATTAATAAA
1 TAAACAAACCAGAAAATAAATAAA
46518044 AGTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.69, C:0.12, G:0.02, T:0.17
Consensus pattern (24 bp):
TAAACAAACCAGAAAATAAATAAA
Found at i:46519656 original size:26 final size:26
Alignment explanation
Indices: 46519627--46519683 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
46519617 TGACTTTTAG
46519627 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
46519653 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
46519679 TCTTT
1 TCTTT
46519684 CTTCGTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (26 bp):
TCTTTATTCCGACTTGATTTTCATTT
Found at i:46523638 original size:19 final size:20
Alignment explanation
Indices: 46523598--46523641 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
46523588 GTTTCTTTTG
* *
46523598 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
46523617 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
46523636 GCATTA
1 GCATTA
46523642 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:46527813 original size:44 final size:43
Alignment explanation
Indices: 46527757--46527886 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 43
46527747 AAAATCGAAG
46527757 ACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGAT
1 ACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGAT
* * * * * *
46527800 AGCAAATCTTGCCT-TC-CTGCATTGACAGC-GAAGCAGATCGAAG--
1 A-CAAACCTTGCCTCTCTC-G-TTTG-TAGCAG-AGCTGGTTGAAGAT
*
46527843 ACAAACCTTGCCTCTCTTGTTTGTAGCAGAGCTGGTTGAAGAT
1 ACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGAT
46527886 A
1 A
46527887 ATAGATCTTG
Statistics
Matches: 64, Mismatches: 13, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
41 12 0.19
42 16 0.25
43 9 0.14
44 15 0.23
45 12 0.19
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (43 bp):
ACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGAT
Found at i:46527895 original size:86 final size:87
Alignment explanation
Indices: 46527750--46527930 Score: 301
Period size: 86 Copynumber: 2.1 Consensus size: 87
46527740 ATCAGTAAAA
*
46527750 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAAATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAAATCTTGCCTT
46527815 CCTGCA-TTGACAGCGAAGCAG
66 CCTGCATTTGACAGCGAAGCAG
* * *
46527836 ATCGAAGACAAACCTTGCCTCTCTTGTTTGTAGCAGAGCTGGTTGAAGATAATAGATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAAATCTTGCCTT
* *
46527901 CCTGTATTTGGCAGCGAAGCAG
66 CCTGCATTTGACAGCGAAGCAG
46527923 ATCGAAGA
1 ATCGAAGA
46527931 TGGCATATTT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 66 0.75
87 22 0.25
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (87 bp):
ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAAATCTTGCCTT
CCTGCATTTGACAGCGAAGCAG
Found at i:46527899 original size:44 final size:42
Alignment explanation
Indices: 46527763--46527899 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 42
46527753 GAAGACAAAC
*
46527763 CTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAAAT
1 CTTGCCTCTCTTGTTTGTAGCAGAGCTGGTTGAAGATA--AAAT
* * * * * * * *
46527807 CTTGCCT-TCCTGCATTGACAGC-GAAGCAGATCGAAGA-CAAAC
1 CTTGCCTCTCTTG-TTTG-TAGCAG-AGCTGGTTGAAGATAAAAT
46527849 CTTGCCTCTCTTGTTTGTAGCAGAGCTGGTTGAAGATAATAGAT
1 CTTGCCTCTCTTGTTTGTAGCAGAGCTGGTTGAAGATAA-A-AT
46527893 CTTGCCT
1 CTTGCCT
46527900 TCCTGTATTT
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
41 13 0.19
42 15 0.22
43 8 0.12
44 19 0.28
45 13 0.19
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (42 bp):
CTTGCCTCTCTTGTTTGTAGCAGAGCTGGTTGAAGATAAAAT
Found at i:46528119 original size:134 final size:134
Alignment explanation
Indices: 46527889--46529493 Score: 3048
Period size: 134 Copynumber: 12.0 Consensus size: 134
46527879 TGAAGATAAT
* *
46527889 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCATATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
46527954 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46528019 TTGC
131 TTGC
* *
46528023 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAAATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
46528088 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46528153 TTGC
131 TTGC
* *
46528157 AGATCTTACCTTCTTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
* *
46528222 ACAGTGAAGTACATTGAAGTCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46528287 TTGC
131 TTGC
46528291 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
46528356 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46528421 TTGC
131 TTGC
46528425 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
46528490 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46528555 TTGC
131 TTGC
46528559 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
46528624 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGAAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46528689 TTGC
131 TTGC
46528693 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
46528758 ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46528823 TTGC
131 TTGC
46528827 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
46528892 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46528957 TTGC
131 TTGC
* *
46528961 AGATCTTACCTTCTTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
* *
46529026 ACAGTGAAGTACATTGAAGTCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46529091 TTGC
131 TTGC
46529095 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
46529160 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46529225 TTGC
131 TTGC
46529229 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
*
46529294 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGAAATAGATTGAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46529359 TTGC
131 TTGC
46529363 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
1 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
* *
46529428 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGCATTTGGCAGTGGAATAGATTAAAGA
66 ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
46529493 T
131 T
46529494 CAAAGATGGC
Statistics
Matches: 1443, Mismatches: 28, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 1443 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACT
ACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGA
TTGC
Found at i:46528140 original size:45 final size:46
Alignment explanation
Indices: 46527955--46529721 Score: 364
Period size: 46 Copynumber: 39.4 Consensus size: 46
46527945 TCCCTGACTA
* *
46527955 CAGTGGAGTACATTGAAG-CCG-ATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * *
46528000 CAGTGGAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * * ** * * * *
46528046 CAGCGAAGCAGATCGAAGATGGCAAATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
*
46528089 CAGTGGAGTACATTGAAG-CCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * * * *
46528134 CAGTGGAATAGATTGAAGATTGCAGA-TCTTACCTTCTTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTC-TATCTCCCTGTATTTGG
* * * ** ** * * * * *
46528180 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
* * *
46528223 CAGTGAAGTACATTGAAG-TCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * *
46528268 CAGTGGAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * ** ** * * * * *
46528314 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
*
46528357 CAGTGGAGTACATTGAAG-CCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * *
46528402 CAGTGGAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * ** ** * * * * *
46528448 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
*
46528491 CAGTGGAGTACATTGAAG-CCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * *
46528536 CAGTGGAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * ** ** * * * * *
46528582 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
*
46528625 CAGTGGAGTACATTGAAG-CCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* * ** * *
46528670 CAGTGAAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * ** ** * * * * *
46528716 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
* *
46528759 CAGTGGAGTACATTGAAG-CCG-ATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * *
46528804 CAGTGGAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * ** ** * * * * *
46528850 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
*
46528893 CAGTGGAGTACATTGAAG-CCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * * * *
46528938 CAGTGGAATAGATTGAAGATTGCAGA-TCTTACCTTCTTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTC-TATCTCCCTGTATTTGG
* * * ** ** * * * * *
46528984 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
* * *
46529027 CAGTGAAGTACATTGAAG-TCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * *
46529072 CAGTGGAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * ** ** * * * * *
46529118 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
*
46529161 CAGTGGAGTACATTGAAG-CCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * *
46529206 CAGTGGAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * ** ** * * * * *
46529252 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
*
46529295 CAGTGGAGTACATTGAAG-CCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* * ** * *
46529340 CAGTGAAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * ** ** * * * * *
46529386 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
* *
46529429 CAGTGGAGTACATTGAAG-CCG-ATAATTCTATCTCCCTGCATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * * * * *
46529474 CAGTGGAATAGATTAAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATT---G----AAGACCGCAAATTCTATCTCCCTGTATTTGG
*
46529524 CAGTGGAGTACATTGAAG-CCG-ATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
* ** * * *
46529569 CAGTGGAATAGATTGAAGATTGCAGA-TCT-TGCCTTCCTATATTTGG
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTAT--CTCCCTGTATTTGG
* * * ** ** * * * * *
46529615 CAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
* *
46529658 CAGTGGAGTACATTGAAG-CCG-ATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAGTAGATTGAAGACCGCA-AATTCTATCTCCCTGTATTTGG
*
46529703 CAGTGGAATAGATTGAAGA
1 CAGTGGAGTAGATTGAAGA
46529722 TTACAGATCT
Statistics
Matches: 1198, Mismatches: 394, Indels: 259
0.65 0.21 0.14
Matches are distributed among these distances:
41 13 0.01
42 170 0.14
43 163 0.14
44 35 0.03
45 262 0.22
46 488 0.41
47 35 0.03
48 1 0.00
50 12 0.01
51 1 0.00
52 4 0.00
53 13 0.01
54 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (46 bp):
CAGTGGAGTAGATTGAAGACCGCAAATTCTATCTCCCTGTATTTGG
Found at i:46529504 original size:95 final size:95
Alignment explanation
Indices: 46529395--46529588 Score: 370
Period size: 95 Copynumber: 2.0 Consensus size: 95
46529385 GCAGCGAAGC
46529395 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
46529460 CTCCCTGCATTTGGCAGTGGAATAGATTAA
66 CTCCCTGCATTTGGCAGTGGAATAGATTAA
46529490 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
* *
46529555 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTAA
46529585 AGAT
1 AGAT
46529589 TGCAGATCTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGCATTTGGCAGTGGAATAGATTAA
Found at i:46529517 original size:229 final size:229
Alignment explanation
Indices: 46529261--46529722 Score: 879
Period size: 229 Copynumber: 2.0 Consensus size: 229
46529251 GCAGCGAAGC
46529261 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
*
46529326 CTCCCTGTATTTGGCAGTGAAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGAAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAGCG
*
46529391 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
46529456 CTATCTCCCTGCATTTGGCAGTGGAATAGATTAA
196 CTATCTCCCTGCATTTGGCAGTGGAATAGATTAA
46529490 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
*
46529555 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGAAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAGCG
46529620 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
* *
46529685 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGCATTTGGCAGTGGAATAGATTAA
46529719 AGAT
1 AGAT
46529723 TACAGATCTT
Statistics
Matches: 228, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 228 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (229 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGTATTTGGCAGTGAAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAGCG
AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
CTATCTCCCTGCATTTGGCAGTGGAATAGATTAA
Found at i:46529644 original size:134 final size:134
Alignment explanation
Indices: 46529490--46529732 Score: 468
Period size: 134 Copynumber: 1.8 Consensus size: 134
46529480 AATAGATTAA
*
46529490 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
46529555 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTATATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTGCCTTCCTATATTTGGCAGCG
46529620 AAGC
131 AAGC
46529624 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
46529689 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTT
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTT
46529733 ATCTCCCTAA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 107 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (134 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTGCCTTCCTATATTTGGCAGCG
AAGC
Found at i:46529889 original size:43 final size:40
Alignment explanation
Indices: 46529836--46530003 Score: 124
Period size: 40 Copynumber: 4.1 Consensus size: 40
46529826 TGGAAAACAG
*
46529836 TGGAATAGATCGAAGATTACAATCTTATCTCCCTAAGCAGTAA
1 TGGAGTAGATCG--GATTA-AATCTTATCTCCCTAAGCAGTAA
* * *
46529879 TGGAGTAGATCGTATTAAGTCTTATCTCCCTAAGCAGTAG
1 TGGAGTAGATCGGATTAAATCTTATCTCCCTAAGCAGTAA
* * ** * * *
46529919 TGGAGCAGA-C-AACCACAGATCTTATTTCCCTAAGCAATAG
1 TGGAGTAGATCGGATTA-A-ATCTTATCTCCCTAAGCAGTAA
* * * * * *
46529959 TGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGTAG
1 TGGAGTAGATCGGATTAAATCTTATCTCCCTAAGCAGTAA
46529999 TGGAG
1 TGGAG
46530004 CAGACTAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 2 0.02
40 80 0.77
41 6 0.06
42 3 0.03
43 11 0.11
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (40 bp):
TGGAGTAGATCGGATTAAATCTTATCTCCCTAAGCAGTAA
Found at i:46529909 original size:40 final size:40
Alignment explanation
Indices: 46529858--46530007 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
46529848 AAGATTACAA
* * * *
46529858 TCTTATCTCCCTAAGCAGTAATGGAGTAGATCGTATTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
46529898 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-C-AACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCA-AG
* * *
46529937 ATCTTATTTCCCTAAGCAATAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
*
46529978 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA
46530008 CTAAAAACAC
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 83 0.88
41 3 0.03
42 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATCAAG
Found at i:46529949 original size:80 final size:80
Alignment explanation
Indices: 46529857--46530008 Score: 241
Period size: 80 Copynumber: 1.9 Consensus size: 80
46529847 GAAGATTACA
* * * *
46529857 ATCTTATCTCCCTAAGCAGTAATGGAGTAGATCGTATTAAGTCTTATCTCCCTAAGCAGTAGTGG
1 ATCTTATCTCCCTAAGCAATAATGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGG
46529922 AGCAGACAACCACAG
66 AGCAGACAACCACAG
* * *
46529937 ATCTTATTTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGTAGTGG
1 ATCTTATCTCCCTAAGCAATAATGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGG
46530002 AGCAGAC
66 AGCAGAC
46530009 TAAAAACACA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (80 bp):
ATCTTATCTCCCTAAGCAATAATGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGG
AGCAGACAACCACAG
Found at i:46530726 original size:26 final size:26
Alignment explanation
Indices: 46530697--46530753 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
46530687 TGACTTTTAG
46530697 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
46530723 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
46530749 TCTTT
1 TCTTT
46530754 CTTCGTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (26 bp):
TCTTTATTCCGACTTGATTTTCATTT
Found at i:46540893 original size:27 final size:26
Alignment explanation
Indices: 46540830--46540898 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 26
46540820 AACAATAGCA
* *
46540830 TTTTTACCAAAATAAAATAAATAAAT
1 TTTTTATCAAAATAATATAAATAAAT
* *
46540856 ATTTT-TC-AAATAATATAAATAATCT
1 TTTTTATCAAAATAATATAAATAA-AT
46540881 TTTTTATCAAAATAATAT
1 TTTTTATCAAAATAATAT
46540899 GTTTAAAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 14 0.40
25 6 0.17
26 6 0.17
27 9 0.26
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (26 bp):
TTTTTATCAAAATAATATAAATAAAT
Found at i:46542574 original size:6 final size:6
Alignment explanation
Indices: 46542550--46542593 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
46542540 TGCCTTCTTC
* * *
46542550 TCCCCTT TCCCCT TTCCCT TCCCCT TCCCTT TTCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
46542594 GGATTGCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (6 bp):
TCCCCT
Found at i:46542577 original size:18 final size:18
Alignment explanation
Indices: 46542550--46542593 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
46542540 TGCCTTCTTC
46542550 TCCCCTTTCCCCTTTCCCT
1 TCCCC-TTCCCCTTTCCCT
*
46542569 TCCCCTTCCCTTTTCCCT
1 TCCCCTTCCCCTTTCCCT
46542587 TCCCCTT
1 TCCCCTT
46542594 GGATTGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
TCCCCTTCCCCTTTCCCT
Found at i:46542687 original size:25 final size:25
Alignment explanation
Indices: 46542653--46542702 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
46542643 CAGGTAAGGC
46542653 TCCTTCTTCTTCTTCCGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
46542678 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
46542703 CTTCTCTTCT
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:0.04, C:0.32, G:0.04, T:0.60
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:46542905 original size:11 final size:11
Alignment explanation
Indices: 46542889--46542914 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
46542879 TTGCTGGATG
46542889 ATATTTTGGTT
1 ATATTTTGGTT
46542900 ATATTTTGGTT
1 ATATTTTGGTT
46542911 ATAT
1 ATAT
46542915 ACAGATGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (11 bp):
ATATTTTGGTT
Found at i:46546322 original size:22 final size:20
Alignment explanation
Indices: 46546279--46546317 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
46546269 TAATTTAAAA
46546279 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
46546299 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
46546318 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:46546431 original size:20 final size:20
Alignment explanation
Indices: 46546406--46546445 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46546396 AATATTTTCC
*
46546406 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46546426 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
46546446 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:46546451 original size:34 final size:35
Alignment explanation
Indices: 46546394--46546460 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
46546384 CAAACACCAA
*
46546394 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
46546429 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
46546461 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:46546452 original size:14 final size:14
Alignment explanation
Indices: 46546429--46546468 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
46546419 ACAGAAAAGT
*
46546429 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
46546443 AAATCATTTTACGG
1 AAAACATTTTACAG
46546457 AAAACATTTTAC
1 AAAACATTTTAC
46546469 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:46546530 original size:28 final size:28
Alignment explanation
Indices: 46546486--46546609 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
46546476 CAAACAGACC
*
46546486 CTAAGTGTGCGAATTTAATTGTAAAGCA
1 CTAAGTGTGCGAGTTTAATTGTAAAGCA
46546514 CTAAGTGTGCGAGTTTAATTGTAAAGCA
1 CTAAGTGTGCGAGTTTAATTGTAAAGCA
* *
46546542 CTAAGTGTGCGAGTTTAATGGCAAAGCA
1 CTAAGTGTGCGAGTTTAATTGTAAAGCA
* * **
46546570 CTAAGTGTGCGAGTTTTATTATTGAGCA
1 CTAAGTGTGCGAGTTTAATTGTAAAGCA
46546598 CTAAGTGTGCGA
1 CTAAGTGTGCGA
46546610 ACTTATTAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTAATTGTAAAGCA
Found at i:46546789 original size:2 final size:2
Alignment explanation
Indices: 46546784--46546808 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46546774 GGAAAAAAAA
46546784 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
46546809 GTATGATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46547381 original size:23 final size:23
Alignment explanation
Indices: 46547354--46547977 Score: 390
Period size: 23 Copynumber: 26.6 Consensus size: 23
46547344 TTATGCTTAA
*
46547354 ATGCTGTCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
*
46547377 ATGCTG-CCAAAATTGTTGTATAT
1 ATGCTGTCC-AATTTGTTGTATAT
* *
46547400 ATGCTGTCCAATTTTGATGTA-AA
1 ATGCTGTCCAA-TTTGTTGTATAT
* * *
46547423 ATGCTG-CTCAATTTGGTATATGT
1 ATGCTGTC-CAATTTGTTGTATAT
* * * *
46547446 ATGCTGCCCAAATTGTTGCACAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
46547469 ATGCTGTCAAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
*
46547493 ATGCTGTCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* *
46547516 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* *
46547539 ATGCTGTCCAATTTTGATGTA-AA
1 ATGCTGTCCAA-TTTGTTGTATAT
*
46547562 ATGCTG-CTCAATTTGGTATATATAT
1 ATGCTGTC-CAATTT-GT-TGTATAT
* * * *
46547587 ATGCTGCCCAAATTGTTGCACAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
46547610 ATGCTGTCAAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
* *
46547634 ATGTTGTCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* * * *
46547657 ATGCTGCCCAAATTGGTGCATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * * *
46547680 ATGTTGTCAAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
*
46547704 ATGCTGTCCAATTTGTTGTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
46547727 ATGCTGCCCAAATTGTTGCATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * *
46547750 ATGTTGTCCAATTTTTATGCT-TAA
1 ATGCTGTCCAATTTGT-TG-TATAT
* * *
46547774 ATGCTGCCCAATTTGTTTTATTT
1 ATGCTGTCCAATTTGTTGTATAT
* *
46547797 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
* * * *
46547820 ATGTTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAA-TTTGTTGTATAT
*
46547844 ATGCTG-CTCAATTTGATATATATAT
1 ATGCTGTC-CAATTTG-T-TGTATAT
* *
46547869 ATAGGCTGCCCAAATTGTTGTATAT
1 AT--GCTGTCCAATTTGTTGTATAT
* * *
46547894 ATGCTGTCTAATTTTTATGCTA-AA
1 ATGCTGTCCAATTTGT-TG-TATAT
*
46547918 ATGCTG-CTCAATTTGATGTATAT
1 ATGCTGTC-CAATTTGTTGTATAT
* *
46547941 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGTTGTATAT
46547964 ATGCTGTCCAATTT
1 ATGCTGTCCAATTT
46547978 TTGGTGTGAA
Statistics
Matches: 451, Mismatches: 114, Indels: 72
0.71 0.18 0.11
Matches are distributed among these distances:
22 23 0.05
23 265 0.59
24 119 0.26
25 31 0.07
26 2 0.00
27 10 0.02
28 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.42
Consensus pattern (23 bp):
ATGCTGTCCAATTTGTTGTATAT
Found at i:46547519 original size:70 final size:69
Alignment explanation
Indices: 46547339--46547979 Score: 838
Period size: 70 Copynumber: 9.1 Consensus size: 69
46547329 ATGTTCATGT
* *
46547339 AATTTTTATGCTTAAATGCTGTCCAATTTGTTGTATTTATGCTGCCAAAATTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTG-CCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
46547404 TGTCC
65 TGTCC
* * * * * *
46547409 AATTTTGATG-TAAAATGCTGCTCAATTTGGTATATGTATGCTGCCCAAATTGTTGCACATATGC
1 AATTTTTATGCTAAAATGCTGC-CAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
*
46547473 TGTCA
65 TGTCC
46547478 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTG-CCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
46547543 TGTCC
65 TGTCC
* * * * *
46547548 AATTTTGATG-TAAAATGCTGCTCAATTTGGTATATATATATGCTGCCCAAATTGTTGCACATAT
1 AATTTTTATGCTAAAATGCTGC-CAATTT-GT-TGTATTTATGCTGCCCAAATTGTTGTATATAT
*
46547612 GCTGTCA
63 GCTGTCC
* * * *
46547619 AATTTTTATGCTAAAATGTTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGGTGCATATATGT
1 AATTTTTATGCTAAAATGCTG-CCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
*
46547684 TGTCA
65 TGTCC
* *
46547689 AATTTTTATGCTAAAATGCTGTCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGCATATATGT
1 AATTTTTATGCTAAAATGCTG-CCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
46547754 TGTCC
65 TGTCC
* * *
46547759 AATTTTTATGCTTAAATGCTGCCCAATTTGTTTTATTTATGCTGCCCAAATTGTTGTATATATGT
1 AATTTTTATGCTAAAATGCTG-CCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
46547824 TGTCC
65 TGTCC
* * *
46547829 AATTTTGATG-TAAAAATGCTGCTCAATTTGATATATATATATAGGCTGCCCAAATTGTTGTATA
1 AATTTTTATGCT-AAAATGCTGC-CAATTTG-T-TGTAT-T-TATGCTGCCCAAATTGTTGTATA
*
46547893 TATGCTGTCT
60 TATGCTGTCC
* *
46547903 AATTTTTATGCTAAAATGCTGCTCAATTTGATGTATATATGCTGCCCAAATTGTTGTATATATGC
1 AATTTTTATGCTAAAATGCTGC-CAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGC
46547968 TGTCC
65 TGTCC
46547973 AATTTTT
1 AATTTTT
46547980 GGTGTGAAAA
Statistics
Matches: 508, Mismatches: 48, Indels: 30
0.87 0.08 0.05
Matches are distributed among these distances:
68 2 0.00
69 76 0.15
70 300 0.59
71 47 0.09
72 23 0.05
73 2 0.00
74 57 0.11
75 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (69 bp):
AATTTTTATGCTAAAATGCTGCCAATTTGTTGTATTTATGCTGCCCAAATTGTTGTATATATGCT
GTCC
Found at i:46549198 original size:20 final size:18
Alignment explanation
Indices: 46549142--46549200 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
46549132 TTAATTTAAA
* * *
46549142 TTTAATATGCATAATTAA
1 TTTAATATACACAATTAT
*
46549160 ATTAATATACACAATTAT
1 TTTAATATACACAATTAT
*
46549178 TTTAATATTCAC-ATTAT
1 TTTAATATACACAATTAT
46549195 TATTAA
1 T-TTAA
46549201 ATTAAATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 6 0.18
18 28 0.82
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (18 bp):
TTTAATATACACAATTAT
Found at i:46549200 original size:18 final size:19
Alignment explanation
Indices: 46549160--46549200 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
46549150 GCATAATTAA
46549160 ATTAATATACACAATTATT
1 ATTAATATACACAATTATT
*
46549179 -TTAATATTCAC-ATTATT
1 ATTAATATACACAATTATT
46549196 ATTAA
1 ATTAA
46549201 ATTAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTAATATACACAATTATT
Found at i:46550522 original size:35 final size:35
Alignment explanation
Indices: 46550469--46550568 Score: 105
Period size: 35 Copynumber: 2.8 Consensus size: 35
46550459 TTATGCTGCC
* *
46550469 TATTGTCCTTTTTATGTTTTTTATTTGTTTTTTCTT
1 TATT-TCCTTTTTATGTTTTTTATTTGTTTTGTCCT
*
46550505 TATTTCCTTTTTCTGTTTTTTATTT-TTTTGTCCT
1 TATTTCCTTTTTATGTTTTTTATTTGTTTTGTCCT
* * *
46550539 T-TTTCTGTTTTTTTATTTGTTTATTTGTTT
1 TATTTC-CTTTTTATGTTT-TTTATTTGTTT
46550569 ATAATATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.07
34 17 0.31
35 27 0.49
36 7 0.13
ACGTcount: A:0.07, C:0.09, G:0.08, T:0.76
Consensus pattern (35 bp):
TATTTCCTTTTTATGTTTTTTATTTGTTTTGTCCT
Found at i:46550525 original size:26 final size:25
Alignment explanation
Indices: 46550494--46550552 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
46550484 GTTTTTTATT
* *
46550494 TGTTTTTTCTTTATT-TCCTTTTTC
1 TGTTTTTTTTTTTTTGTCCTTTTTC
46550518 TGTTTTTTATTTTTTTGTCCTTTTTC
1 TGTTTTTT-TTTTTTTGTCCTTTTTC
46550544 TGTTTTTTT
1 TGTTTTTTT
46550553 ATTTGTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 8 0.26
25 6 0.19
26 17 0.55
ACGTcount: A:0.03, C:0.12, G:0.07, T:0.78
Consensus pattern (25 bp):
TGTTTTTTTTTTTTTGTCCTTTTTC
Found at i:46551512 original size:25 final size:25
Alignment explanation
Indices: 46551466--46551522 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
46551456 ACAATCCATG
*** * *
46551466 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAACCATATAACATT
46551491 TAAATCATGTAAACCATATAACATT
1 TAAATCATGTAAACCATATAACATT
*
46551516 TATATCA
1 TAAATCA
46551523 ATTCTTTCCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (25 bp):
TAAATCATGTAAACCATATAACATT
Found at i:46551814 original size:23 final size:22
Alignment explanation
Indices: 46551761--46551852 Score: 112
Period size: 23 Copynumber: 3.9 Consensus size: 22
46551751 GAGCCATGAC
46551761 CGGTAAGCTCATTCTGAGCTGATAAA
1 CGGTAAGCTCA-TC-GAGCTG--AAA
46551787 CGGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTC-ATCGAGCTGAAA
*
46551810 CGGTAAGCTCCATAGAGCTGAAA
1 CGGTAAGCT-CATCGAGCTGAAA
46551833 CGGTAAGCTCATACGAGCTG
1 CGGTAAGCTCAT-CGAGCTG
46551853 TGGTGAGTCC
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
22 3 0.05
23 38 0.62
24 1 0.02
25 6 0.10
26 12 0.20
27 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
CGGTAAGCTCATCGAGCTGAAA
Found at i:46552876 original size:30 final size:30
Alignment explanation
Indices: 46552836--46552902 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
46552826 TGGCCGAATG
*
46552836 TAAAAGCCATGACTTTGGCTTTCTAAACTT
1 TAAAATCCATGACTTTGGCTTTCTAAACTT
46552866 TAAAATCCATGACTTTGGCTTTCTAAACTT
1 TAAAATCCATGACTTTGGCTTTCTAAACTT
46552896 TAAAATC
1 TAAAATC
46552903 TTGCATAAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (30 bp):
TAAAATCCATGACTTTGGCTTTCTAAACTT
Found at i:46558875 original size:25 final size:25
Alignment explanation
Indices: 46558829--46558885 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
46558819 ACAATCCATG
*** * *
46558829 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAACCATATAACATT
46558854 TAAATCATGTAAACCATATAACATT
1 TAAATCATGTAAACCATATAACATT
*
46558879 TATATCA
1 TAAATCA
46558886 ATTCTTTCCT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (25 bp):
TAAATCATGTAAACCATATAACATT
Found at i:46559180 original size:23 final size:22
Alignment explanation
Indices: 46559123--46559213 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 22
46559113 GAGCCATGAT
46559123 CGGTAAGCTCATTCTGAGCTGATAAA
1 CGGTAAGCTCA-TC-GAGCTG--AAA
*
46559149 TGGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTC-ATCGAGCTGAAA
*
46559172 CGGTAAGCTCCATAGAGCT-AAA
1 CGGTAAGCT-CATCGAGCTGAAA
*
46559194 CGATAAGCTCATACGAGCTG
1 CGGTAAGCTCAT-CGAGCTG
46559214 TGGTGAGTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
21 3 0.05
22 16 0.29
23 18 0.32
24 1 0.02
25 6 0.11
26 11 0.20
27 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (22 bp):
CGGTAAGCTCATCGAGCTGAAA
Found at i:46559200 original size:22 final size:23
Alignment explanation
Indices: 46559152--46559213 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
46559142 TGATAAATGG
* * *
46559152 TAAGCTCTATCGAGCTGAAACGG
1 TAAGCTCCATAGAGCTGAAACGA
46559175 TAAGCTCCATAGAGCT-AAACGA
1 TAAGCTCCATAGAGCTGAAACGA
46559197 TAAGCT-CATACGAGCTG
1 TAAGCTCCATA-GAGCTG
46559214 TGGTGAGTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.12
22 16 0.47
23 14 0.41
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (23 bp):
TAAGCTCCATAGAGCTGAAACGA
Found at i:46566767 original size:210 final size:210
Alignment explanation
Indices: 46566405--46566788 Score: 705
Period size: 210 Copynumber: 1.8 Consensus size: 210
46566395 ATCTATTTAG
46566405 ATTCGCTCGAATTAACCCTTCTCATAATGAGAATTTATATAGCCCTATTTCGGTATGGAATAAAC
1 ATTCGCTCGAATTAACCCTTCTCATAATGAGAATTTATATAGCCCTATTTCGGTATGGAATAAAC
*
46566470 TTAAAATAATGGAATTGACTCGCTCATCAAGTTATAGATTATAAGTTGATAACCCCAGCCCATTC
66 TTAAAATAATGGAATTGACTCGCTCATCAAGTTATAGATTATAAGTTGATAACCCCAACCCATTC
46566535 CCATTTTGGGTGAAATAGATCTACTAATTCTTTCATTCCAGTTAAAGCAGGAACTAAAAAATAGA
131 CCATTTTGGGTGAAATAGATCTACTAATTCTTTCATTCCAGTTAAAGCAGGAACTAAAAAATAGA
46566600 TCTACTAATTCTTTC
196 TCTACTAATTCTTTC
* * *
46566615 ATTCGCTCGAATTAACCCTTCTCATAATGAGAATTTATATAGCGCTGTTTTGGTATGGAATAAAC
1 ATTCGCTCGAATTAACCCTTCTCATAATGAGAATTTATATAGCCCTATTTCGGTATGGAATAAAC
* *
46566680 TTAAAATAATGGAATTGACTCGCTCATCAAGTTATAGATTATAAGTTTATAACCCTAACCCATTC
66 TTAAAATAATGGAATTGACTCGCTCATCAAGTTATAGATTATAAGTTGATAACCCCAACCCATTC
*
46566745 CCATTTTGGGTGAAATAGATCTATTAATTCTTTCATTCCAGTTA
131 CCATTTTGGGTGAAATAGATCTACTAATTCTTTCATTCCAGTTA
46566789 GTAAAGCAGG
Statistics
Matches: 167, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
210 167 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (210 bp):
ATTCGCTCGAATTAACCCTTCTCATAATGAGAATTTATATAGCCCTATTTCGGTATGGAATAAAC
TTAAAATAATGGAATTGACTCGCTCATCAAGTTATAGATTATAAGTTGATAACCCCAACCCATTC
CCATTTTGGGTGAAATAGATCTACTAATTCTTTCATTCCAGTTAAAGCAGGAACTAAAAAATAGA
TCTACTAATTCTTTC
Found at i:46569868 original size:22 final size:23
Alignment explanation
Indices: 46569815--46569870 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
46569805 TTTAATTAAA
* * *
46569815 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
46569838 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
46569860 ATTAAAATTAA
1 ATTAAAATTAA
46569871 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:46569883 original size:16 final size:16
Alignment explanation
Indices: 46569846--46569885 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
46569836 TTAATAAAAT
* *
46569846 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
46569862 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
46569878 TAAAATTA
1 TAAAATTA
46569886 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:46569964 original size:59 final size:59
Alignment explanation
Indices: 46569896--46570065 Score: 304
Period size: 59 Copynumber: 2.9 Consensus size: 59
46569886 TCAAATTATT
* *
46569896 AATTGTTAATTGTATTAATTCTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
46569955 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
**
46570014 AATTATTAATTGTATTAATTGTTGTAACCAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
46570066 ACAAACTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 107 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:46570607 original size:24 final size:24
Alignment explanation
Indices: 46570575--46570625 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
46570565 AATTTAACCT
46570575 AGAAAATGTTGTGCATTGTGAATG
1 AGAAAATGTTGTGCATTGTGAATG
46570599 AGAAAATGTTGTGCATTGTGAATG
1 AGAAAATGTTGTGCATTGTGAATG
46570623 AGA
1 AGA
46570626 TTGAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.31
Consensus pattern (24 bp):
AGAAAATGTTGTGCATTGTGAATG
Found at i:46589141 original size:23 final size:22
Alignment explanation
Indices: 46589094--46589144 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
46589084 GGAGAGGTAG
46589094 AAAAAGCTTACTTTAATGGACAGA
1 AAAAAGCTTACTTTAA--GACAGA
46589118 AAAAAGCTTACTTTGAA-ACAAGA
1 AAAAAGCTTACTTT-AAGAC-AGA
46589141 AAAA
1 AAAA
46589145 TAAAATGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.08
23 7 0.28
24 14 0.56
25 2 0.08
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.22
Consensus pattern (22 bp):
AAAAAGCTTACTTTAAGACAGA
Found at i:46595342 original size:28 final size:28
Alignment explanation
Indices: 46595289--46595343 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
46595279 AATAAATAAA
**
46595289 TATTTTTTAATTTTAAAATATTTTTTTT
1 TATTTTTTAATTTTAAAATAAATTTTTT
* *
46595317 TATTTTTTTATTTTTAAATAAATTTTT
1 TATTTTTTAATTTTAAAATAAATTTTT
46595344 AGTGTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (28 bp):
TATTTTTTAATTTTAAAATAAATTTTTT
Done.