Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 199 of 345
Found at i:56887237 original size:59 final size:58
Alignment explanation
Indices: 56887141--56887272 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
56887131 AAAATTGTAC
56887141 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
56887199 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
56887258 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56887273 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:56887261 original size:88 final size:89
Alignment explanation
Indices: 56887111--56887272 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
56887101 GACAAGATTG
* * *
56887111 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
56887176 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
56887200 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
56887264 AAGTGTGCG
66 AAGTGTGCG
56887273 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:56887284 original size:29 final size:29
Alignment explanation
Indices: 56887141--56887272 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
56887131 AAAATTGTAC
*
56887141 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
56887170 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
56887199 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
56887229 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
56887258 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56887273 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:56892085 original size:30 final size:30
Alignment explanation
Indices: 56892030--56892160 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
56892020 ATAGTGAATC
*
56892030 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
56892059 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
56892089 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
56892117 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
56892147 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56892161 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:56892140 original size:58 final size:58
Alignment explanation
Indices: 56892029--56892160 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
56892019 TATAGTGAAT
* * * * *
56892029 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
56892088 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
56892146 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
56892161 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:56899035 original size:11 final size:11
Alignment explanation
Indices: 56899019--56899043 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56899009 TAATTCTTTC
56899019 TGGATAATTTA
1 TGGATAATTTA
56899030 TGGATAATTTA
1 TGGATAATTTA
56899041 TGG
1 TGG
56899044 GAGACTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (11 bp):
TGGATAATTTA
Found at i:56902905 original size:13 final size:14
Alignment explanation
Indices: 56902887--56902920 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
56902877 GCACAAACGT
56902887 CAAAATTTTCA-AA
1 CAAAATTTTCATAA
56902900 CAAAATTTTCATAA
1 CAAAATTTTCATAA
*
56902914 AAAAATT
1 CAAAATT
56902921 CCATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (14 bp):
CAAAATTTTCATAA
Found at i:56907061 original size:46 final size:46
Alignment explanation
Indices: 56906926--56907099 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
56906916 CGGATTGTGA
* * * * *
56906926 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCAC-ATTATGAGA
1 GCTAGTGTAAAACATGTCTGGGACATGCATTGGCCTCGA-GACGAGT
* * * *
56906972 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACGAGT
1 GCTAGTGTAA-AACATGTCTGGGACAT-GCATTGGCCTCGAGACGAGT
* *
56907020 GCTAGTGTAAAACATGGCTGGGACATGCATTGGCCTCGAGACATAAGT
1 GCTAGTGTAAAACATGTCTGGGACATGCATTGGCCTCGAGAC--GAGT
* *
56907068 -C-AGTGTAAGACATGTCTAGGACATGCATTGGC
1 GCTAGTGTAAAACATGTCTGGGACATGCATTGGC
56907100 TATGAGATGT
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
46 51 0.49
47 29 0.28
48 24 0.23
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAAACATGTCTGGGACATGCATTGGCCTCGAGACGAGT
Found at i:56911995 original size:58 final size:59
Alignment explanation
Indices: 56911877--56912038 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
56911867 GTGACGAGAT
* *
56911877 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
***
56911935 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
* ** * **
56911993 TGGCACTGTGTGTGCGGGCT-TAAATCGCATGGCACTAAGTGTGCGA
1 TGGCACTGAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGCGA
56912039 AATCGAGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (59 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
Found at i:56911999 original size:29 final size:29
Alignment explanation
Indices: 56911877--56911978 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
56911867 GTGACGAGAT
56911877 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
56911906 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
56911935 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
56911964 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
56911979 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:56919821 original size:58 final size:59
Alignment explanation
Indices: 56919703--56919864 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
56919693 GTGACGAGAT
* *
56919703 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTGGAAAAATA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
***
56919761 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
* ** * **
56919819 TGGCACTGTGTGTGCGGGCT-TAAATCGCATGGCACTAAGTGTGCGA
1 TGGCACTGAGTGTGCATGCTGGAAAT-ATATGGCACTAAGTGTGCGA
56919865 AATCGAGTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (59 bp):
TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGATGCTCGAAAAATA
Found at i:56919825 original size:29 final size:29
Alignment explanation
Indices: 56919703--56919804 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
56919693 GTGACGAGAT
56919703 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
56919732 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
56919761 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
56919790 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
56919805 GAGCTCGAAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:56919902 original size:2 final size:2
Alignment explanation
Indices: 56919897--56919921 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
56919887 GTGCGTACTC
56919897 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
56919922 CTCCGATCGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56924429 original size:22 final size:22
Alignment explanation
Indices: 56924403--56924448 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
56924393 ATACAACAGT
* *
56924403 AATGGAGTTGTGCGGCAGCAAC
1 AATGGAGATGTGCAGCAGCAAC
* *
56924425 AATGGTGATGTGCAGCGGCAAC
1 AATGGAGATGTGCAGCAGCAAC
56924447 AA
1 AA
56924449 CAATGTACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.17, G:0.35, T:0.17
Consensus pattern (22 bp):
AATGGAGATGTGCAGCAGCAAC
Found at i:56935574 original size:43 final size:43
Alignment explanation
Indices: 56935428--56935586 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
56935418 TATGTGTTAT
* *
56935428 CATGTAAGACCACGTTTGGGACGTTGGCATCGAT-TTGTGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATT-T-AATTA
* * * * * * *
56935472 CGTGTAAGACCATGTCTAGGACATTGGCATC-ATATATGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTAATTA
**
56935514 TGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTAATTA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTAATTA
56935557 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
56935587 TGTATGAGCT
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
42 28 0.31
43 35 0.38
44 28 0.31
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTTAATTA
Found at i:56937567 original size:46 final size:46
Alignment explanation
Indices: 56937509--56937730 Score: 234
Period size: 46 Copynumber: 4.7 Consensus size: 46
56937499 ATTCATGTGT
* *
56937509 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGA
* * *
56937555 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGA
* * * *
56937603 GGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-A
** *
56937650 -AGCCAGTGTAAGACATGTCTATGACATGCATCGGCTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
* *
56937695 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
56937731 ACTTGAGATA
Statistics
Matches: 147, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 75 0.51
47 42 0.29
48 28 0.19
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
Found at i:56937729 original size:94 final size:93
Alignment explanation
Indices: 56937511--56937776 Score: 283
Period size: 94 Copynumber: 2.8 Consensus size: 93
56937501 TCATGTGTGA
* *
56937511 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA-AGCCAGTGTAAGA-CATG
* ** * *
56937574 TTTGGGACATGGCATCGGCATTGAGACGAGG
63 TCTATGACATGGCATCGGCATCGAGACGAAG
*
56937605 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCT
*
56937670 ATGACAT-GCATCGGC-TACGAGATGATAG
66 ATGACATGGCATCGGCAT-CGAGACGA-AG
* * * * * *
56937698 TC-AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATATAAGCAAGTGTAAGACTGTG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCCAGTGTAAGAC-ATG
56937761 TCTATGACATGGCATC
63 TCTATGACATGGCATC
56937777 AGCACCTTAC
Statistics
Matches: 148, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
91 1 0.01
92 23 0.16
93 49 0.33
94 68 0.46
95 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCT
ATGACATGGCATCGGCATCGAGACGAAG
Found at i:56937770 original size:140 final size:141
Alignment explanation
Indices: 56937514--56937776 Score: 336
Period size: 140 Copynumber: 1.9 Consensus size: 141
56937504 TGTGTGAGCT
* * *
56937514 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* ** * *
56937579 GACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCGACATTGAGACGAAAGCAAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCG
56937643 AGACGTAAGCC
131 AGACGTAAGCC
* * * *
56937654 AGTGTAAGACATGTCTATGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTG
* * *
56937718 GGACATGGCATCGAC-TTGAGA-TATAAGCAAGTGTAAGACTGTGTCTATGACATGGCATC
65 GGACATGGCATCGACATTGAGACGA-AAGCAAGTGTAAGAC-ATGTCTAGGACATGGCATC
56937777 AGCACCTTAC
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 79 0.76
141 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (141 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACGAAAGCAAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCG
AGACGTAAGCC
Found at i:56938954 original size:21 final size:22
Alignment explanation
Indices: 56938915--56938955 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
56938905 TTGGAATGCT
56938915 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
56938937 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
56938956 GTGTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.44, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:56945244 original size:46 final size:46
Alignment explanation
Indices: 56945191--56945412 Score: 218
Period size: 46 Copynumber: 4.7 Consensus size: 46
56945181 ATTCGTGTGT
56945191 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATAATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-AATGA
* *
56945237 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAAATGA
* * * * *
56945285 GGGCTAGTGTAAGACATGTCTGGGACGTGCATTGGCCTCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAAATG-A
* * * * * *
56945332 -AACCAGTGTAAGATATGTCTGGGACATGCATCGACTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAAATGA
*
56945377 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCG
56945413 ACTTGAGATA
Statistics
Matches: 147, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 71 0.48
47 44 0.30
48 30 0.20
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAAATGA
Found at i:56945421 original size:47 final size:46
Alignment explanation
Indices: 56945194--56945461 Score: 212
Period size: 47 Copynumber: 5.7 Consensus size: 46
56945184 CGTGTGTGAG
* *
56945194 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-A-ATGAGAG-
1 CTAGTGTAAGACATGTCTGGGACATGCATC-G--ACTTGAGATGATAGC
* * *
56945240 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGA-GGG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TTGAGATGATAGC
* * * * *
56945288 CTAGTGTAAGACATGTCTGGGACGTGCATTGGCCTCGAGATG-TAAAC
1 CTAGTGTAAGACATGTCTGGGACATGCA-TCGACTTGAGATGAT-AGC
* * *
56945335 C-AGTGTAAGATATGTCTGGGACATGCATCGACTACGAGATGATAGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGACT-TGAGATGATAGC
56945381 C-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-AT-GAC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTTGAGATGATAG-C
* *
56945427 CAAGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
56945462 ACCTTACCCT
Statistics
Matches: 187, Mismatches: 20, Indels: 29
0.79 0.08 0.12
Matches are distributed among these distances:
45 6 0.03
46 67 0.36
47 85 0.45
48 29 0.16
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGACTTGAGATGATAGC
Found at i:56946725 original size:21 final size:22
Alignment explanation
Indices: 56946686--56946726 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
56946676 TTGGAATGAG
56946686 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
56946708 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
56946727 GTGTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.44, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:56952497 original size:26 final size:27
Alignment explanation
Indices: 56952468--56952519 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
56952458 CAATGATAAA
*
56952468 TAATTAAATAATACTTTTTTG-ACTAT
1 TAATTAAATAATACTTTATTGTACTAT
56952494 TAATTAAATAATACTTTATTGTACTA
1 TAATTAAATAATACTTTATTGTACTA
56952520 CCCAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (27 bp):
TAATTAAATAATACTTTATTGTACTAT
Found at i:56954735 original size:49 final size:49
Alignment explanation
Indices: 56954608--56954908 Score: 470
Period size: 49 Copynumber: 6.3 Consensus size: 49
56954598 CCCTTCGGGA
* *
56954608 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56954655 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56954702 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56954751 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56954798 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56954847 CTTATCACATATATATATACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56954896 CCTATCACATATA
1 CTTATCACATATA
56954909 AATATCTCAT
Statistics
Matches: 235, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 92 0.39
49 142 0.60
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56954770 original size:96 final size:96
Alignment explanation
Indices: 56954608--56954908 Score: 498
Period size: 96 Copynumber: 3.1 Consensus size: 96
56954598 CCCTTCGGGA
* *
56954608 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
56954671 ACCTTCACATTCATCACATCGGCCATTAGGC
66 ACCTTCACATTCATCACATCGGCCATTAGGC
56954702 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
56954767 ACCTTCACATTCATCACATCGGCCATTAGGC
66 ACCTTCACATTCATCACATCGGCCATTAGGC
* *
56954798 CTTATCACATATATATACACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATAT
* * *
56954863 ATACTTTCACATTCTTCACATCGGCCATTAGGC
64 ACACCTTCACATTCATCACATCGGCCATTAGGC
*
56954896 CCTATCACATATA
1 CTTATCACATATA
56954909 AATATCTCAT
Statistics
Matches: 195, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
94 10 0.05
95 1 0.01
96 136 0.70
98 48 0.25
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
ACCTTCACATTCATCACATCGGCCATTAGGC
Found at i:56955773 original size:22 final size:22
Alignment explanation
Indices: 56955745--56955790 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
56955735 GGTCGACGAC
56955745 TAGATATCCACGGCTATTCGTT
1 TAGATATCCACGGCTATTCGTT
56955767 TAGATATCCACGGCTATTCGTT
1 TAGATATCCACGGCTATTCGTT
56955789 TA
1 TA
56955791 CTTCCTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (22 bp):
TAGATATCCACGGCTATTCGTT
Found at i:56960799 original size:125 final size:122
Alignment explanation
Indices: 56960613--56960847 Score: 305
Period size: 125 Copynumber: 1.9 Consensus size: 122
56960603 AATCTCTTGT
* *
56960613 GAGGTAAGAAGAAACTTGAAATTTGACCAAATTTCACTCTTTTCATTAATTAGTCTCGAAATGTG
1 GAGGGAAGAAGAAACTTGAAATTTGACCAAATTTCACTCTTTTCATTAATTAGTCTAGAAATGTG
* * * *
56960678 TACTATGCTATTATTAGGATGGGATGCTCTCGCCCACTTCGTCATCGTTTAATTTTATGC
66 TACCATGC---TACTAGGACGGGATGCTCTCACCCACTTCGTCATCGTTTAATTTTATGC
* *
56960738 GAGGGAAGAAGAAACTTGAATTTTGACC-AATCTTCACTC-TTTCATTAATTA-TAATTAGAAAT
1 GAGGGAAGAAGAAACTTGAAATTTGACCAAAT-TTCACTCTTTTCATTAATTAGT--CTAGAAAT
* *
56960800 GTGTACCATGCTACTAGTACGGGATGCTCTCACCCAGTTCGTCATCGT
63 GTGTACCATGCTACTAGGACGGGATGCTCTCACCCACTTCGTCATCGT
56960848 ATTTTGGGGT
Statistics
Matches: 97, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
122 32 0.33
123 1 0.01
124 15 0.15
125 49 0.51
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (122 bp):
GAGGGAAGAAGAAACTTGAAATTTGACCAAATTTCACTCTTTTCATTAATTAGTCTAGAAATGTG
TACCATGCTACTAGGACGGGATGCTCTCACCCACTTCGTCATCGTTTAATTTTATGC
Found at i:56960949 original size:12 final size:12
Alignment explanation
Indices: 56960924--56960961 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
56960914 ATTACACCCC
56960924 ATAATATT-AAA
1 ATAATATTAAAA
* *
56960935 ATAATTTTCAAA
1 ATAATATTAAAA
56960947 ATAATATTAAAA
1 ATAATATTAAAA
56960959 ATA
1 ATA
56960962 TTAAACTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAATATTAAAA
Found at i:56961827 original size:52 final size:53
Alignment explanation
Indices: 56961656--56961841 Score: 174
Period size: 52 Copynumber: 3.5 Consensus size: 53
56961646 ATTTGAACTT
* * *
56961656 AATTCTAAAAAATTTAAAAATACATT-AATATTTTC-AAAATTATATAATAATAA
1 AATT-TAAAATATATAAAAATA-ATTAAATATTTTCAAAAAATATATAATAATAA
* *
56961709 AATTTAAAAATATATATAAATAA--AAATTATTGTTGACAAAAAATA-AT-AT-GTAA
1 AATTT-AAAATATATAAAAATAATTAAA-TATT-TT--CAAAAAATATATAATAATAA
56961762 AATTTAAAATATATAAAAATAATTAAATATTTTCAAAAAATATATAATAAT-A
1 AATTTAAAATATATAAAAATAATTAAATATTTTCAAAAAATATATAATAATAA
* **
56961814 AATTTAAATTATATATTAAT-ATTAAATA
1 AATTTAAAATATATAAAAATAATTAAATA
56961842 ATATAATTAT
Statistics
Matches: 111, Mismatches: 10, Indels: 26
0.76 0.07 0.18
Matches are distributed among these distances:
50 9 0.08
51 12 0.11
52 44 0.40
53 32 0.29
54 5 0.05
55 3 0.03
56 6 0.05
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (53 bp):
AATTTAAAATATATAAAAATAATTAAATATTTTCAAAAAATATATAATAATAA
Found at i:56961835 original size:31 final size:31
Alignment explanation
Indices: 56961800--56961870 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
56961790 ATTTTCAAAA
56961800 AATATATAATAATA-AATTTAAATTATATATT-
1 AATATATAATAATATAA-TTAAATTA-ATATTG
*
56961831 AATAT-TAAATAATATAATTATATTAATATTG
1 AATATAT-AATAATATAATTAAATTAATATTG
*
56961862 AATAAATAA
1 AATATATAA
56961871 AAATCTCCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
30 6 0.18
31 25 0.74
32 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (31 bp):
AATATATAATAATATAATTAAATTAATATTG
Found at i:56961840 original size:18 final size:18
Alignment explanation
Indices: 56961817--56961856 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
56961807 AATAATAAAT
*
56961817 TTAAATTATAT-ATTAATA
1 TTAAATAATATAATT-ATA
56961835 TTAAATAATATAATTATA
1 TTAAATAATATAATTATA
56961853 TTAA
1 TTAA
56961857 TATTGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATAATATAATTATA
Found at i:56961852 original size:24 final size:23
Alignment explanation
Indices: 56961825--56961870 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
56961815 ATTTAAATTA
56961825 TATATTAATATTAAATAATATAAT
1 TATATTAATATTAAATAA-ATAAT
*
56961849 TATATTAATATTGAATAAATAA
1 TATATTAATATTAAATAAATAA
56961871 AAATCTCCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TATATTAATATTAAATAAATAAT
Found at i:56968866 original size:29 final size:29
Alignment explanation
Indices: 56968833--56968891 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
56968823 CGTGAAATAC
56968833 ATAATATAATTGGTCCCAAAAGGTAACCA
1 ATAATATAATTGGTCCCAAAAGGTAACCA
56968862 ATAATATAATTGGTCCCAAAAGGTAACCA
1 ATAATATAATTGGTCCCAAAAGGTAACCA
56968891 A
1 A
56968892 AGTAATATCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.24
Consensus pattern (29 bp):
ATAATATAATTGGTCCCAAAAGGTAACCA
Found at i:56971628 original size:31 final size:31
Alignment explanation
Indices: 56971590--56971651 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
56971580 TAGGAGTCAA
56971590 TATACTCCTCTTGGGATATCTTCAGGGGTAT
1 TATACTCCTCTTGGGATATCTTCAGGGGTAT
*
56971621 TATACTCCTTTTGGGATATCTTCAGGGGTAT
1 TATACTCCTCTTGGGATATCTTCAGGGGTAT
56971652 GTCATGACAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.18, G:0.23, T:0.40
Consensus pattern (31 bp):
TATACTCCTCTTGGGATATCTTCAGGGGTAT
Found at i:56973741 original size:46 final size:46
Alignment explanation
Indices: 56973691--56973857 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 46
56973681 AGCATCCGAA
*
56973691 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCTGAG
* * * * * *
56973737 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCTTAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCTGAG
* * ** *
56973784 CTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACACCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCTGAG
*
56973830 CTTGTTGAGTTGAGTCCGAGTTCACTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
56973858 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 53 0.55
47 27 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCTGAG
Found at i:56977355 original size:18 final size:18
Alignment explanation
Indices: 56977332--56977366 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56977322 GCTGAAAACT
56977332 AATTAACTTATTTAATTA
1 AATTAACTTATTTAATTA
*
56977350 AATTAATTTATTTAATT
1 AATTAACTTATTTAATT
56977367 CTAGCAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTAACTTATTTAATTA
Found at i:56985455 original size:15 final size:15
Alignment explanation
Indices: 56985431--56985475 Score: 74
Period size: 15 Copynumber: 3.0 Consensus size: 15
56985421 TGAGTTCACT
56985431 TGTGTGTATGTATAC
1 TGTGTGTATGTATAC
56985446 TG-GATGTATGTATAC
1 TGTG-TGTATGTATAC
56985461 TGTGTGTATGTATAC
1 TGTGTGTATGTATAC
56985476 ATGGTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (15 bp):
TGTGTGTATGTATAC
Found at i:56994334 original size:11 final size:12
Alignment explanation
Indices: 56994264--56994335 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
56994254 TTAAACTTAA
56994264 TAAATTTAATAT
1 TAAATTTAATAT
56994276 TAAATTT-ATAT
1 TAAATTTAATAT
* *
56994287 AATAATTATCAAGA-
1 TA-AATT-T-AATAT
*
56994301 TAAATATT-AGAT
1 TAAAT-TTAATAT
56994313 TAAATTTAATAT
1 TAAATTTAATAT
56994325 TAAA-TTAATAT
1 TAAATTTAATAT
56994336 ACTAACTATT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
11 17 0.35
12 23 0.47
13 5 0.10
14 2 0.04
15 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (12 bp):
TAAATTTAATAT
Found at i:56994984 original size:11 final size:12
Alignment explanation
Indices: 56994954--56994986 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
56994944 ATCACAAGTG
56994954 AATTAATTCACA
1 AATTAATTCACA
*
56994966 AATGAATTCA-A
1 AATTAATTCACA
56994977 AATTAATTCA
1 AATTAATTCA
56994987 TCTTGGGTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (12 bp):
AATTAATTCACA
Found at i:56998910 original size:27 final size:27
Alignment explanation
Indices: 56998868--56998919 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
56998858 CCTCAAACCT
*
56998868 TGACTTGTTTAAAGTGTGGGCTCTAAC
1 TGACTTGCTTAAAGTGTGGGCTCTAAC
*
56998895 TGACTTGCTTAGAGTGTGGGCTCTA
1 TGACTTGCTTAAAGTGTGGGCTCTA
56998920 TTTTCAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.37
Consensus pattern (27 bp):
TGACTTGCTTAAAGTGTGGGCTCTAAC
Found at i:57000745 original size:37 final size:37
Alignment explanation
Indices: 57000686--57000791 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
57000676 AGCTCAGACG
* *
57000686 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
57000723 AAATCTCCACACGTAGTCATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
57000760 TAATCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
57000792 AGAATATATT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:57001060 original size:47 final size:47
Alignment explanation
Indices: 57001009--57001194 Score: 300
Period size: 47 Copynumber: 4.0 Consensus size: 47
57000999 TTTCACAGTA
* *
57001009 GCCATTCGGCTTTATCACATATATGCATGTTCATATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
57001056 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
57001103 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * **
57001150 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
57001195 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:57001122 original size:22 final size:22
Alignment explanation
Indices: 57001047--57001165 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
57001037 GTTCATATTC
57001047 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
57001069 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
57001093 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
57001116 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
57001140 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
57001163 ATC
1 ATC
57001166 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:57006360 original size:39 final size:39
Alignment explanation
Indices: 57006279--57006441 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
57006269 TATGGTAACC
* *
57006279 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
57006319 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57006358 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57006397 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
57006436 CGCACA
1 CGCACA
57006442 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:57013012 original size:40 final size:40
Alignment explanation
Indices: 57012946--57013112 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
57012936 AAATTGAATG
* * *
57012946 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
57012985 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
57013025 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
57013065 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
57013105 ATATCCGG
1 ATATCCGG
57013113 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:57016757 original size:40 final size:40
Alignment explanation
Indices: 57016693--57016805 Score: 138
Period size: 40 Copynumber: 2.9 Consensus size: 40
57016683 GCTACTCATT
* * * ***
57016693 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
57016733 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
57016773 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
57016806 TTCGCACATT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 18 0.29
40 45 0.71
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.20
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:57019025 original size:40 final size:40
Alignment explanation
Indices: 57018978--57019329 Score: 497
Period size: 40 Copynumber: 8.8 Consensus size: 40
57018968 CCAGCATGAT
* * * * * *
57018978 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAC
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* ** * *
57019018 TGTTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
57019058 TGCTCTTTGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
57019098 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
57019138 TGCTCTTTGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
57019178 TGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
57019218 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** *
57019258 TGCTCTTCGGGACTTAGTTCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
57019298 TGCTCTTCGGGACTTAGCCCGGGTATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
57019330 CTCAATTCTC
Statistics
Matches: 278, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 278 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:57020661 original size:37 final size:37
Alignment explanation
Indices: 57020602--57020710 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
57020592 AACTCAGACG
* * *
57020602 AAATCTCCACACGAAGTTATCGGGTCGTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
57020639 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
57020676 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
57020711 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:57020969 original size:47 final size:47
Alignment explanation
Indices: 57020917--57021110 Score: 255
Period size: 47 Copynumber: 4.1 Consensus size: 47
57020907 CATACATATT
* * * *
57020917 TCACATTAGCCATTCGACTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
** * *
57020964 TCACATTGGCCATTAAACCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
*
57021011 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
* * **
57021058 TCACATTGGCCATTC-AGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGA-CCTTATCACATATATGCATGTTCACATTCA
57021105 TCACAT
1 TCACAT
57021111 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
Found at i:57021111 original size:25 final size:25
Alignment explanation
Indices: 57021032--57021111 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
57021022 ATTCGGCCTT
**
57021032 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* *
57021057 ATCACAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATGCACATTCA-CATTC
* *
57021079 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
57021104 ATCACATA
1 ATCACATA
57021112 AAATCCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 5 0.12
25 20 0.49
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:57024640 original size:16 final size:16
Alignment explanation
Indices: 57024607--57024650 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
57024597 TGCACGTGGT
57024607 TATTTTTAAATCATAAAA
1 TATTTTTAAA--ATAAAA
57024625 TATTTTTAAAATAAAA
1 TATTTTTAAAATAAAA
*
57024641 -ATTATTAAAA
1 TATTTTTAAAA
57024651 AATTCAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 6 0.24
18 10 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTTTTAAAATAAAA
Found at i:57024677 original size:18 final size:18
Alignment explanation
Indices: 57024632--57024678 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
57024622 AAATATTTTT
57024632 AAAAT-AAAAATTATTAA
1 AAAATAAAAAATTATTAA
57024649 AAAATTCAAAAGAATTA-TAA
1 AAAA-T-AAAA-AATTATTAA
57024669 AAAATAAAAA
1 AAAATAAAAA
57024679 TCATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 1 0.04
20 10 0.38
21 5 0.19
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAATAAAAAATTATTAA
Found at i:57024907 original size:2 final size:2
Alignment explanation
Indices: 57024844--57024887 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
57024834 TGGTAGAATA
* * *
57024844 AT AT AA AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57024886 AT
1 AT
57024888 GCTAAGAGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:57025183 original size:31 final size:30
Alignment explanation
Indices: 57025134--57025200 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
57025124 TAATTATTTT
*
57025134 ATTTTTTAAAATTATTTAATAACA-TTTATG
1 ATTTTTTAAAATTATTTAA-AACATTTTATA
* * *
57025164 ATTTTTTAATTATTTTTTAAAATATTTTATA
1 ATTTTTTAA-AATTATTTAAAACATTTTATA
57025195 ATTTTT
1 ATTTTT
57025201 AAATAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (30 bp):
ATTTTTTAAAATTATTTAAAACATTTTATA
Found at i:57025191 original size:21 final size:21
Alignment explanation
Indices: 57025175--57025228 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
57025165 TTTTTTAATT
57025175 ATTTTTTAA-AATATTTTATA
1 ATTTTTTAATAATATTTTATA
* * *
57025195 ATTTTTAAATAATAATTTATG
1 ATTTTTTAATAATATTTTATA
57025216 ATTTTTTAATAAT
1 ATTTTTTAATAAT
57025229 CACGTCTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTTTAATAATATTTTATA
Found at i:57029576 original size:21 final size:21
Alignment explanation
Indices: 57029550--57029590 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57029540 AGACAAGCGA
* *
57029550 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
57029571 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
57029591 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:57032727 original size:6 final size:6
Alignment explanation
Indices: 57032716--57032742 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
57032706 TACATATGTA
57032716 TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTT
57032743 TATAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:57033219 original size:28 final size:30
Alignment explanation
Indices: 57033148--57033219 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 30
57033138 ATTAGTAAAA
* *
57033148 ATAAAATTATATTTTAATTTTTTTAAAATT
1 ATAAAATTATAATTTAATTTATTTAAAATT
*
57033178 ATAAAATT-TGATTTAA-TTATTTAAAATT
1 ATAAAATTATAATTTAATTTATTTAAAATT
*
57033206 A-AAAATTAAAATTT
1 ATAAAATTATAATTT
57033220 CATTCGACCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.17
28 16 0.44
29 6 0.17
30 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
ATAAAATTATAATTTAATTTATTTAAAATT
Found at i:57036346 original size:18 final size:19
Alignment explanation
Indices: 57036305--57036346 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
57036295 TCAACCAATT
*
57036305 CAAAAACATCAAAATTATAT
1 CAAAAACATC-AAATTATAA
*
57036325 CAAAAACATC-ATTTATAA
1 CAAAAACATCAAATTATAA
57036343 CAAA
1 CAAA
57036347 CAACCTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.24
Consensus pattern (19 bp):
CAAAAACATCAAATTATAA
Found at i:57037976 original size:21 final size:21
Alignment explanation
Indices: 57037951--57038010 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
57037941 AAGCAGACAG
**
57037951 GGGCAACATGCCCGTGTGGAA
1 GGGCAACACACCCGTGTGGAA
*
57037972 GGGCAACACACTCGTGTGGAA
1 GGGCAACACACCCGTGTGGAA
* *
57037993 GGTCAACACACCCTTGTG
1 GGGCAACACACCCGTGTG
57038011 TTTTCTTAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.32, T:0.17
Consensus pattern (21 bp):
GGGCAACACACCCGTGTGGAA
Found at i:57039726 original size:47 final size:45
Alignment explanation
Indices: 57039616--57039876 Score: 211
Period size: 46 Copynumber: 5.6 Consensus size: 45
57039606 GTTATTTTTG
* * *** *
57039616 GCTAGTGTAAGACATGTCTGGGACATCCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTGA-GATGAGA
* * * *
57039662 GCCAGTGTAAGTCCATGTCTGGGACATGGCATCAGCATTGAGACGAGA
1 GCTAGTGTAAG-ACATGTCTGGGACAT-GCATCGGC-TTGAGATGAGA
* *
57039710 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTTGAGATG-AGA
* * *
57039756 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-TGAGATGAGA
* * *
57039802 G-TCAGCGTAAGAGCATGTCTGGGACATGGCATTGGCTTGAGATGTGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTGAGATGAGA
* * * *
57039849 GCCAATGTAAGACCCTGTTTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
57039877 GCATTGGCAC
Statistics
Matches: 178, Mismatches: 26, Indels: 22
0.79 0.12 0.10
Matches are distributed among these distances:
45 4 0.02
46 73 0.41
47 70 0.39
48 30 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTTGAGATGAGA
Found at i:57039872 original size:140 final size:140
Alignment explanation
Indices: 57039616--57039876 Score: 328
Period size: 140 Copynumber: 1.9 Consensus size: 140
57039606 GTTATTTTTG
* * * *
57039616 GCTAGTGTAAGACATGTCTGGGACATCCATCAGCCACATTATGAGAGCCAGTGTAAGTCCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATCCATCAGCCACATGATGAGAGCCAGCGTAAGACCATGTC
* *
57039681 TGGGACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT
66 TGGGACATGGCATCAGCATTGAGACGAGAGCCAATGTAAGACATGTCTGGGACATGCATCGGCCT
57039746 CGAGACGTAA
131 CGAGACGTAA
* * * * * *
57039756 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GATGATAGTCAGCGTAAGAGCATGT
1 GCTAGTGTAAGACATGTCTAGGACATCCATCAGCCAC-ATGATGAGAGCCAGCGTAAGACCATGT
** * * * *
57039820 CTGGGACATGGCATTGGC-TTGAGATGTGAGCCAATGTAAGACCCTGTTTGGGACATG
65 CTGGGACATGGCATCAGCATTGAGACGAGAGCCAATGTAAGA-CATGTCTGGGACATG
57039877 GCATTGGCAC
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
139 19 0.19
140 81 0.80
141 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (140 bp):
GCTAGTGTAAGACATGTCTAGGACATCCATCAGCCACATGATGAGAGCCAGCGTAAGACCATGTC
TGGGACATGGCATCAGCATTGAGACGAGAGCCAATGTAAGACATGTCTGGGACATGCATCGGCCT
CGAGACGTAA
Found at i:57041059 original size:20 final size:21
Alignment explanation
Indices: 57041021--57041059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57041011 TCAAGTTGGT
57041021 CACACGGGCATGTTGCCCTTC
1 CACACGGGCATGTTGCCCTTC
*
57041042 CACACGGGCGTG-TGCCCT
1 CACACGGGCATGTTGCCCT
57041060 ATTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGGGCATGTTGCCCTTC
Found at i:57042315 original size:97 final size:97
Alignment explanation
Indices: 57042082--57042404 Score: 283
Period size: 96 Copynumber: 3.4 Consensus size: 97
57042072 GAGGGTAAAT
* * * * * *** * * **
57042082 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCACATGTTGAGGCCAATGTCATGGCCC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGACTCTCACAATGTGGCCAATGCCATGTTCC
* * * *
57042147 AGACATGGTCTTAC-ACTAGCTCTCGTCTCAA
66 AGACATGGTCTTACAACTAGCGCACATATCAA
** * * * * *
57042178 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCCATGTTCC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGACTCTCACAATGTGGCCAATGCCATGTTCC
*
57042243 GGACATGGTCTTACAACTAGCGCACATATCAA
66 AGACATGGTCTTACAACTAGCGCACATATCAA
* * * * *
57042275 TGCCAATGCCATGTCCCAAACATGGTTTTAGATTGACTCTCACAGTGTTGCCAATGCCATGTTCC
1 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGACTCTCACAATGTGGCCAATGCCATGTTCC
* * * *
57042340 AAACATGGTCTTAC-ACTGGCTCTCATATC-A
66 AGACATGGTCTTACAACTAGCGCACATATCAA
** * *
57042370 TGGCTGACGCCATGTCCCAGACATGGTCTTACACT
1 T-GCCAATGCCATGTCCCAAACATGGTCTTACACT
57042405 AGTGCACATA
Statistics
Matches: 185, Mismatches: 40, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
95 2 0.01
96 105 0.57
97 78 0.42
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (97 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACACTGACTCTCACAATGTGGCCAATGCCATGTTCC
AGACATGGTCTTACAACTAGCGCACATATCAA
Found at i:57042415 original size:48 final size:46
Alignment explanation
Indices: 57042082--57042417 Score: 197
Period size: 48 Copynumber: 7.0 Consensus size: 46
57042072 GAGGGTAAAT
* * * * *
57042082 TGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTCACATGTTGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAG-TCACAT-ATCA
* * * * * *
57042130 GGCCAATGTCATGGCCCAGACATGGTCTTACACTAGCTCTCGTCTCAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAG-TCACATATC-A
** * * *
57042178 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAG-TCACAT-ATCA
* * * * *
57042225 TGGTCGATGCCATGTTCCGGACATGGTCTTACAACTAGCGCACATATCAA
1 T-GCCAATGCCATGTCCCAGACATGGTCTTAC-ACTAG-TCACATATC-A
* * * * * * * **
57042275 TGCCAATGCCATGTCCCAAACATGGTTTTAGATTGACTCTCACAGTGT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACT-AGTCACATA-TCA
* * * *
57042323 TGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAG-TCACATATCA
** *
57042370 TGGCTGACGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCA
1 T-GCCAATGCCATGTCCCAGACATGGTCTTACACTAGT-CACATATCA
57042418 CCCAAATGTC
Statistics
Matches: 222, Mismatches: 55, Indels: 22
0.74 0.18 0.07
Matches are distributed among these distances:
47 5 0.02
48 181 0.82
49 35 0.16
50 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGTCACATATCA
Found at i:57044182 original size:50 final size:50
Alignment explanation
Indices: 57044128--57044277 Score: 203
Period size: 50 Copynumber: 3.0 Consensus size: 50
57044118 TATATGTAGC
*
57044128 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAGT
* * * *
57044178 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACGGATAAT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAGT
* * * * *
57044228 T-GGTCGCATGTCTAGTACTAAGTGCAGGCTAGTATGCGTACCAGATAGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAGT
57044277 T
1 T
57044278 TGGCTACATA
Statistics
Matches: 86, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 40 0.47
50 46 0.53
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (50 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATAGT
Found at i:57052780 original size:35 final size:35
Alignment explanation
Indices: 57052740--57052807 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
57052730 TATTTTATGA
57052740 TTATTTTGAGGTCTATGATATGATTGCATGATTTT
1 TTATTTTGAGGTCTATGATATGATTGCATGATTTT
57052775 TTATTTTGAGGTCTATGATATGATTGCATGATT
1 TTATTTTGAGGTCTATGATATGATTGCATGATT
57052808 GTGTGAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.50
Consensus pattern (35 bp):
TTATTTTGAGGTCTATGATATGATTGCATGATTTT
Found at i:57054427 original size:50 final size:50
Alignment explanation
Indices: 57054373--57054519 Score: 170
Period size: 50 Copynumber: 3.0 Consensus size: 50
57054363 TATATGTAGC
* * * * *
57054373 TAGGTCGCATGTGTAGTATTAAGTGCAGGCTGCTACGTGTATCATATAGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
* * * *
57054423 TAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAAT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
* * * *
57054473 T-GGTTGTATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
57054520 GTTTGGCTAC
Statistics
Matches: 80, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 38 0.47
50 42 0.52
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT
Found at i:57062508 original size:21 final size:21
Alignment explanation
Indices: 57062484--57062529 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
57062474 CACACGCCCA
**
57062484 TGTGGAAGGACAACACGTCTG
1 TGTGGAAGGACAACACACCTG
*
57062505 TGTGGAAGGGCAACACACCTG
1 TGTGGAAGGACAACACACCTG
57062526 TGTG
1 TGTG
57062530 TTTTCTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.35, T:0.20
Consensus pattern (21 bp):
TGTGGAAGGACAACACACCTG
Found at i:57063255 original size:17 final size:17
Alignment explanation
Indices: 57063233--57063265 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57063223 GCCCATACAA
57063233 AAACCAAAAAACAAAAT
1 AAACCAAAAAACAAAAT
*
57063250 AAACCAAAATACAAAA
1 AAACCAAAAAACAAAA
57063266 ACCAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.18, G:0.00, T:0.06
Consensus pattern (17 bp):
AAACCAAAAAACAAAAT
Found at i:57063273 original size:14 final size:14
Alignment explanation
Indices: 57063227--57063273 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
57063217 GCCCGGGCCC
57063227 ATACAAAAACCAAA
1 ATACAAAAACCAAA
*
57063241 AAACAAAATAAACCAAA
1 ATAC--AA-AAACCAAA
57063258 ATACAAAAACCAAA
1 ATACAAAAACCAAA
57063272 AT
1 AT
57063274 TAAAGTCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 13 0.46
15 2 0.07
16 2 0.07
17 11 0.39
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (14 bp):
ATACAAAAACCAAA
Found at i:57066774 original size:48 final size:48
Alignment explanation
Indices: 57066702--57067320 Score: 630
Period size: 48 Copynumber: 12.9 Consensus size: 48
57066692 GTAAATCGTT
* * * * * *
57066702 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCC
* * * * *
57066750 AATGCCATGTCCCCGACATGGTCTTACACTTGCTCTCATCTCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCC
* *
57066798 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA--ATATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA-AT-GCC
** *
57066846 GATGCCATGTCCGGGACATGGTCTTACACTAG-TGCACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTCATATCAATGCC
* *
57066894 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCC
* *
57066942 GATGCCATGACCCAGACATGGTCTTACACTGGCTCTCA-A--AATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAA--T-GCC
* * ** * * **
57066990 AATACCATGTCCTGGACATGGTCTTACACTAGCGCACATATCAATGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCC
*
57067038 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCC
* * *
57067086 GATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATA--ATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA-AT-GCC
* * *
57067134 GATGCCATGTCCCGGACATGGTCTTACACTAGCGCACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCC
* *
57067182 GATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCACAAT-ATTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCA-TATCAATGCC
* * * * * **
57067230 GATGTCATGTTCCAAACATGGTCTTACGCTGGCTCTCATAT-TGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT-GCC
* * * *
57067278 AACGCCATGTCCTAGACATGGTCTTACACTAGCGCTCATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
57067321 CCCAAATGTC
Statistics
Matches: 472, Mismatches: 78, Indels: 41
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.00
46 2 0.00
47 9 0.02
48 446 0.94
49 9 0.02
50 2 0.00
51 2 0.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCC
Found at i:57066962 original size:144 final size:144
Alignment explanation
Indices: 57066702--57067320 Score: 893
Period size: 144 Copynumber: 4.3 Consensus size: 144
57066692 GTAAATCGTT
* * * * * * * *
57066702 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCAATGCCATGTCCCCGAC
1 GATGCCATGTCCTGGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
* * *
57066767 ATGGTCTTACACTTGCTCTCATCTCAATGTCAATGCCATGTCCCAGACATGGTCTTACACTGGCT
66 ATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
*
57066832 CTCATAATATGGCC
131 CTCATAATGTGGCC
* *
57066846 GATGCCATGTCCGGGACATGGTCTTACACTAGTGCACATATCAATGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCTGGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
* *
57066911 ATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGACCCAGACATGGTCTTACACTGGCT
66 ATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
*
57066976 CTCAAAATGTGGCC
131 CTCATAATGTGGCC
* * **
57066990 AATACCATGTCCTGGACATGGTCTTACACTAGCGCACATATCAATGTTGATGCCATGTCCCAGAC
1 GATGCCATGTCCTGGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
*
57067055 ATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCAAGACATGGTCTTACACTGGCT
66 ATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
57067120 CTCATAATGTGGCC
131 CTCATAATGTGGCC
*
57067134 GATGCCATGTCCCGGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCTGGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
* * * * *
57067199 ATGGTCTTACACT-GACTCTCA-CAAT-ATTGCCGATGTCATGTTCCAAACATGGTCTTACGCTG
66 ATGGTCTTACACTAG-CTCTCATC--TCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
*
57067261 GCTCTCATATTGTGGCC
128 GCTCTCATAATGTGGCC
* * * *
57067278 AACGCCATGTCCTAGACATGGTCTTACACTAGCGCTCATATCA
1 GATGCCATGTCCTGGACATGGTCTTACACTAGCGCACATATCA
57067321 CCCAAATGTC
Statistics
Matches: 428, Mismatches: 44, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
143 2 0.00
144 425 0.99
145 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (144 bp):
GATGCCATGTCCTGGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
CTCATAATGTGGCC
Found at i:57070698 original size:21 final size:21
Alignment explanation
Indices: 57070659--57070698 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57070649 TGTGAATTAA
*
57070659 ATTAAATTGAGTATGAAATGG
1 ATTAAATTGAGTATAAAATGG
57070680 ATTAAATTGATGT-TAAAAT
1 ATTAAATTGA-GTATAAAAT
57070699 CATTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (21 bp):
ATTAAATTGAGTATAAAATGG
Found at i:57071255 original size:24 final size:24
Alignment explanation
Indices: 57071214--57071299 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
57071204 CTAGCTTGAA
* *
57071214 CTTCCCGTTATTGGTTTTCTG-GAG
1 CTTCCCGATA-TGGTTTTTTGTGAG
57071238 CTTCCCGATATGGTTTTTTGTGAG
1 CTTCCCGATATGGTTTTTTGTGAG
* * * * *
57071262 CTTTCTGATATGGTTCTTTATGAA
1 CTTCCCGATATGGTTTTTTGTGAG
*
57071286 CTTCTCGATTATGG
1 CTTCCCGA-TATGG
57071300 CTCTTATGAG
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 9 0.18
24 36 0.72
25 5 0.10
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (24 bp):
CTTCCCGATATGGTTTTTTGTGAG
Found at i:57071313 original size:24 final size:25
Alignment explanation
Indices: 57071235--57071313 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 25
57071225 TGGTTTTCTG
* * * *
57071235 GAGCTTC-CCGATATGGTTTTTTGT
1 GAGCTTCTCTGATATGGCTCTTTAT
*
57071259 GAGCTT-TCTGATATGGTTCTTTAT
1 GAGCTTCTCTGATATGGCTCTTTAT
*
57071283 GAACTTCTC-GATTATGGCTC-TTAT
1 GAGCTTCTCTGA-TATGGCTCTTTAT
57071307 GAGCTTC
1 GAGCTTC
57071314 CCATTATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
24 37 0.80
25 9 0.20
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (25 bp):
GAGCTTCTCTGATATGGCTCTTTAT
Found at i:57081702 original size:22 final size:22
Alignment explanation
Indices: 57081677--57081720 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
57081667 ATCTATATAA
*
57081677 ATGAATTTGTTCATCAATTTAT
1 ATGAATTTATTCATCAATTTAT
57081699 ATGAATTTATTCATCAATTTAT
1 ATGAATTTATTCATCAATTTAT
57081721 CACATTTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (22 bp):
ATGAATTTATTCATCAATTTAT
Found at i:57081719 original size:12 final size:12
Alignment explanation
Indices: 57081680--57081720 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
57081670 TATATAAATG
*
57081680 AATTTGTTCATC
1 AATTTATTCATC
*
57081692 AATTTA-T-ATG
1 AATTTATTCATC
57081702 AATTTATTCATC
1 AATTTATTCATC
57081714 AATTTAT
1 AATTTAT
57081721 CACATTTCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 8 0.33
11 2 0.08
12 14 0.58
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (12 bp):
AATTTATTCATC
Found at i:57082658 original size:19 final size:20
Alignment explanation
Indices: 57082622--57082659 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
57082612 CCTATAGTCC
* *
57082622 AAAATTTTCAACTTTTTCCT
1 AAAATTTTCAAATATTTCCT
57082642 AAAA-TTTCAAATATTTCC
1 AAAATTTTCAAATATTTCC
57082660 ATTATAGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.37, C:0.18, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATTTTCAAATATTTCCT
Found at i:57096233 original size:40 final size:40
Alignment explanation
Indices: 57096174--57096315 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
57096164 AAATTGAATG
* * *
57096174 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
57096214 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
57096254 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
57096294 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
57096316 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:57096316 original size:40 final size:39
Alignment explanation
Indices: 57096213--57096341 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
57096203 TGCTGGAAAT
* * *
57096213 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
57096253 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
57096293 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
57096333 TATATCCGG
1 TATATCCGG
57096342 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:57105580 original size:40 final size:40
Alignment explanation
Indices: 57105521--57105662 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
57105511 AAATTGAATG
* * *
57105521 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
57105561 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
57105601 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
57105641 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
57105663 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:57105663 original size:40 final size:39
Alignment explanation
Indices: 57105560--57105688 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
57105550 TGCTGGAAAT
* * *
57105560 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
57105600 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
57105640 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
57105680 TATATCCGG
1 TATATCCGG
57105689 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:57113590 original size:40 final size:40
Alignment explanation
Indices: 57113524--57113690 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
57113514 AAATTGAATG
* * *
57113524 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
57113563 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
57113603 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
57113643 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
57113683 ATATCCGG
1 ATATCCGG
57113691 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:57120231 original size:30 final size:30
Alignment explanation
Indices: 57120197--57120258 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
57120187 TAAGTAGCCG
57120197 AAGCTAGCTTAAATCGCACACTTAGTGCCA
1 AAGCTAGCTTAAATCGCACACTTAGTGCCA
*
57120227 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGCTTAAATCGCACACTTAGTGCCA
57120257 AA
1 AA
57120259 ACTTCCGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (30 bp):
AAGCTAGCTTAAATCGCACACTTAGTGCCA
Found at i:57133529 original size:79 final size:79
Alignment explanation
Indices: 57133382--57133564 Score: 233
Period size: 79 Copynumber: 2.3 Consensus size: 79
57133372 TGTTCAAACA
* * * * * *
57133382 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
1 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGGACAAATGCCTTCGGGACTTAACCCGGATATCA
57133447 CAACTCGCACAATTG
65 CAACTCGCACAATTG
* * * * * *
57133462 CCTTCGGAGTTTATCCTGGATATCATAGCTCGGACAATTGCCTTTGGG-CTTAGCCCGGATATCA
1 CCTTCGG-GCTTAGCCCGGATATCATAGCTCGGACAAATGCCTTCGGGACTTAACCCGGATATCA
57133526 CAACTCGCACAATTG
65 CAACTCGCACAATTG
57133541 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
57133565 CAATTCGCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 14 0.16
79 37 0.43
80 35 0.40
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (79 bp):
CCTTCGGGCTTAGCCCGGATATCATAGCTCGGACAAATGCCTTCGGGACTTAACCCGGATATCAC
AACTCGCACAATTG
Found at i:57133538 original size:39 final size:39
Alignment explanation
Indices: 57133382--57133575 Score: 226
Period size: 40 Copynumber: 4.9 Consensus size: 39
57133372 TGTTCAAACA
* * * * * *
57133382 CCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
*
57133422 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTG
* * * * * *
57133462 CCTTCGGAGTTTATCCTGGATATCATAGCTCGGACAATTG
1 CCTTCGG-GCTTAGCCCGGATATCACAACTCGCACAATTG
*
57133502 CCTTTGGGCTTAGCCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
*
57133541 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
57133576 TTCATACACA
Statistics
Matches: 131, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 59 0.45
40 71 0.54
41 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTG
Found at i:57137553 original size:30 final size:30
Alignment explanation
Indices: 57137517--57137578 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
57137507 CAAGTAGCCG
57137517 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
57137547 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
57137577 AA
1 AA
57137579 ACTTCCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:57155751 original size:40 final size:39
Alignment explanation
Indices: 57155707--57155865 Score: 158
Period size: 40 Copynumber: 4.0 Consensus size: 39
57155697 AAGTCCACAT
* * *
57155707 TTATGCTAGTAGTTAAATCCGGGTTAAGTCCCGAAGGCAA
1 TTATGCAAGT-GTTAAATCCGGGCTAAGACCCGAAGGCAA
* *
57155747 TTATGCTAGTGACTAAATCCGGGCTAAGACCCGAAGGC-A
1 TTATGCAAGTG-TTAAATCCGGGCTAAGACCCGAAGGCAA
* * * *
57155786 TTCGTGCAAGTTGTTAAATCCAGGCTAATACCCGAAGGCAT
1 TT-ATGCAAG-TGTTAAATCCGGGCTAAGACCCGAAGGCAA
* **
57155827 TTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGCA
1 TTATGCAAGT-GTTAAATCCGGGCTAAGACCCGAAGGCA
57155866 TTCGTGCATG
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
39 5 0.05
40 92 0.91
41 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (39 bp):
TTATGCAAGTGTTAAATCCGGGCTAAGACCCGAAGGCAA
Found at i:57155820 original size:80 final size:80
Alignment explanation
Indices: 57155718--57155873 Score: 210
Period size: 80 Copynumber: 1.9 Consensus size: 80
57155708 TATGCTAGTA
* * *
57155718 GTTAAATCCGGGTTAAGTCCCGAAGGCAATTATGCTAGT-G-ACTAAATCCGGGCTAAGACCCGA
1 GTTAAATCCAGGCTAAGTCCCGAAGGCAATTATGCAAGTCGTACT--ATCCGGGCTAAGACCCGA
57155781 AGGCATTCGTGCAAGTT
64 AGGCATTCGTGCAAGTT
* * *
57155798 GTTAAATCCAGGCTAA-TACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAA
1 GTTAAATCCAGGCTAAGT-CCCGAAGGCAATTATGCAAGTCGTACTATCCGGGCTAAGACCCGAA
57155862 GGCATTCGTGCA
65 GGCATTCGTGCA
57155874 TGTGGTTATA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
79 1 0.01
80 63 0.94
81 1 0.01
82 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
GTTAAATCCAGGCTAAGTCCCGAAGGCAATTATGCAAGTCGTACTATCCGGGCTAAGACCCGAAG
GCATTCGTGCAAGTT
Found at i:57155866 original size:40 final size:40
Alignment explanation
Indices: 57155763--57155888 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
57155753 TAGTGACTAA
* *
57155763 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
* * * *
57155803 ATCCAGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
* *
57155843 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
57155883 ATCCGG
1 ATCCGG
57155889 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
Found at i:57161571 original size:40 final size:40
Alignment explanation
Indices: 57161526--57161693 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
57161516 CGGAATACAA
57161526 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
57161566 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
57161606 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
57161646 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
57161686 CCGGATAT
1 CCGGATAT
57161694 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:57169492 original size:79 final size:79
Alignment explanation
Indices: 57169342--57169512 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
57169332 ATACCCGGGC
* * * * *
57169342 TAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
*
57169407 TTGTTATATCCGGT
66 TGGTTATATCCGGT
* * * **
57169421 TAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATT-GTGCTT
1 TAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGA
57169485 GTGGTTATATCCGGT
65 GTGGTTATATCCGGT
57169500 TAA-ATCCCGAAGG
1 TAAGA-CCCGAAGG
57169513 TACGTGACTC
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 75 0.95
80 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (79 bp):
TAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
TGGTTATATCCGGT
Found at i:57169512 original size:39 final size:40
Alignment explanation
Indices: 57169336--57169512 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
57169326 TGAATGATAC
* * * *
57169336 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
57169376 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * *
57169416 CC-GGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
57169455 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
57169495 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
57169513 TACGTGACTC
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 44 0.38
40 68 0.59
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:57171025 original size:93 final size:93
Alignment explanation
Indices: 57170866--57171036 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
57170856 TGTTACAAGT
* *
57170866 GAACTCGGACTCAACTCAATGAGCTCGGGCATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
57170931 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
57170959 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
*
57171024 CGAGTTCGGATGC
66 CGAGCTCGGATGC
57171037 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGAATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:57171033 original size:46 final size:46
Alignment explanation
Indices: 57170862--57171033 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
57170852 GGGGTGTTAC
* * *
57170862 AAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGAATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT
* *
57170908 AAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTACAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCCAT
*** *
57170954 CTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT
*
57171001 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGA
57171034 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
44 4 0.04
46 65 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAT
Found at i:57179566 original size:58 final size:57
Alignment explanation
Indices: 57179464--57179574 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 57
57179454 AAAAGGGGGG
* * ***
57179464 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGACCTTCTCAAAAAATAAAAAAAAAGGC
1 CAAGGTGAAAACACGCAAAGGGCACTTTGAGACCCAATCAAAAAA-AAAAAAAAAGGC
* *
57179522 CAAGGTGAAAACACGCAAAGGGCACTTTGAGACCCAAT-ATAAAAAAATAAAAA
1 CAAGGTGAAAACACGCAAAGGGCACTTTGAGACCCAATCAAAAAAAAAAAAAAA
57179575 TAAATGAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
56 8 0.17
57 5 0.11
58 33 0.72
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.14
Consensus pattern (57 bp):
CAAGGTGAAAACACGCAAAGGGCACTTTGAGACCCAATCAAAAAAAAAAAAAAAGGC
Found at i:57181226 original size:176 final size:177
Alignment explanation
Indices: 57180803--57181326 Score: 637
Period size: 176 Copynumber: 3.0 Consensus size: 177
57180793 GTGAATTTAG
* *
57180803 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGGTTTTAGCCACCAGCCTTATCTCTCTGAGGAAGC
1 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
* * * * *
57180868 AAGAGAGTAGGTTGAAA-ATTGTAGTCTTATCTT-TCTGAGGTAGTATGGAAGCAAACTGAGGAT
66 AAGAGAGCAGGTT-AAAGATTGTAGTCTTATCTTCT-TGAGGTAGCAAGGAAGCAGACTGAAGAT
* * * * * * *
57180931 TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAGATAGTGA
129 TGAAGAACTTATCTCCCTGAGCAGCAGTGGAGCAGATCAAAGATAGCGA
* * * * * * *
57180980 ATCTTATCTTCCCGATGTGGTAGGGAAGCAAATTTTAGCTACCAGCCTTATCTC-CTTGAGGTAA
1 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTC-TGAGGTAG
* * *
57181044 CAAGAGAGCATGTTAAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGTAGACTGAAGATC
65 CAAGAGAGCAGGTTAAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATT
*
57181109 GAAGAACTTATCTCCCTGAG-AGCAGTGGAGCAGATCAAAGATGGCGA
130 GAAGAACTTATCTCCCTGAGCAGCAGTGGAGCAGATCAAAGATAGCGA
* * *
57181156 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGTGCTAGC
1 ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
* * *
57181221 AAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGC-AGGAAAGGAGACT-AAGGAT
66 AAGAGAGCAGGTTAAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGG-AAGCAGACTGAA-GAT
* * **
57181284 TGAATACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAG
129 TGAAGAACTTATCTCCCTG-AGCAGCAGTGGAGCAGATCAAAG
57181327 CAAGTCTTAT
Statistics
Matches: 296, Mismatches: 43, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
175 5 0.02
176 147 0.50
177 124 0.42
178 20 0.07
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (177 bp):
ATCTTATCTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTAAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTG
AAGAACTTATCTCCCTGAGCAGCAGTGGAGCAGATCAAAGATAGCGA
Found at i:57182932 original size:15 final size:16
Alignment explanation
Indices: 57182912--57182947 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
57182902 CGCTTTGGTC
57182912 ATTATTTCAATT-TCA
1 ATTATTTCAATTATCA
*
57182927 ATTATTTCATTTATCA
1 ATTATTTCAATTATCA
57182943 ATTAT
1 ATTAT
57182948 CCCTTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATTTCAATTATCA
Found at i:57185354 original size:46 final size:46
Alignment explanation
Indices: 57185172--57185388 Score: 192
Period size: 46 Copynumber: 4.7 Consensus size: 46
57185162 TTAATTGTGT
** * **
57185172 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGAGA
**
57185218 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTTAA-ATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-TACAAGATGAGA
* * * *
57185266 GCTAGTGTAAGACATGTCTAGAACATGCATCGGCCT-CGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTACAAGATG-AGA
* * *
57185312 GCTAGTGTAAGAAATGTCTGGGACATGCATCAACTACAAGATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGAGA
* *
57185357 TC-AGTGTAAAACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
57185389 GGCATAGATA
Statistics
Matches: 140, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
44 8 0.06
45 17 0.12
46 62 0.44
47 28 0.20
48 24 0.17
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACAAGATGAGA
Found at i:57191318 original size:13 final size:12
Alignment explanation
Indices: 57191293--57191322 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
57191283 AAATTTAAAG
57191293 TAATAATATATA
1 TAATAATATATA
57191305 TAATAATAATATA
1 TAATAAT-ATATA
57191318 TAATA
1 TAATA
57191323 TTAAATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TAATAATATATA
Found at i:57191427 original size:11 final size:11
Alignment explanation
Indices: 57191367--57191436 Score: 61
Period size: 11 Copynumber: 6.2 Consensus size: 11
57191357 TTATAATAAT
* *
57191367 AAAAGAAATAG
1 AAAAGAAAGAA
57191378 AAAAGAAAGAA
1 AAAAGAAAGAA
* *
57191389 AGAACAAACGAA
1 AAAAGAAA-GAA
*
57191401 ATAGAAGGAA-AA
1 A-A-AAGAAAGAA
57191413 AAAAGAAAGAA
1 AAAAGAAAGAA
57191424 AAAAGAAAGAA
1 AAAAGAAAGAA
57191435 AA
1 AA
57191437 GGAGAAAGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
10 5 0.11
11 31 0.66
12 7 0.15
14 4 0.09
ACGTcount: A:0.76, C:0.03, G:0.19, T:0.03
Consensus pattern (11 bp):
AAAAGAAAGAA
Found at i:57192119 original size:24 final size:24
Alignment explanation
Indices: 57192092--57192138 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
57192082 ATTGAAATGG
57192092 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
57192116 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
57192139 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:57192165 original size:11 final size:11
Alignment explanation
Indices: 57192115--57192173 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
57192105 GTGATGAATT
57192115 TATTGAATT-TA
1 TATTG-ATTATA
*
57192126 TATTGATT-GA
1 TATTGATTATA
57192136 -ATTGA-TATA
1 TATTGATTATA
57192145 TA-T-A-TATA
1 TATTGATTATA
57192153 TATTGATTATA
1 TATTGATTATA
57192164 TATTGATTAT
1 TATTGATTAT
57192174 TTGAATTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 8 0.20
9 8 0.20
10 6 0.15
11 19 0.46
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (11 bp):
TATTGATTATA
Found at i:57195782 original size:46 final size:47
Alignment explanation
Indices: 57195595--57195902 Score: 224
Period size: 46 Copynumber: 6.5 Consensus size: 47
57195585 TTTCCAAAGC
* *
57195595 CATGTCCCTGACATGGTCTTACACTGGC-TATCATCATCGAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTA-CATC-TCGAGGCCGATG
* * * * * *
57195643 CCATGTCTCAGACATGGTCTTACACTAGCTCTCGCATATCCG-TGCCGATTC
1 -CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGAGGCCGA-TG
* * * *
57195694 CATGTCCTAGACATGGTCTTACACTGAC--ATATCTCCTA-GCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCT-CGAGGCCGATG
57195739 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATG
* * * * *
57195785 CATGTCCCAGACAT-GTCTTACACTAGCACT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCGAGGCCGATG
** * * *
57195831 CCATGTAACAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAGGCCGATG
*
57195879 CATATCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
57195903 AGCTCACACC
Statistics
Matches: 206, Mismatches: 39, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
44 12 0.06
45 16 0.08
46 71 0.34
47 24 0.12
48 21 0.10
49 26 0.13
50 29 0.14
51 7 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATG
Found at i:57195851 original size:94 final size:92
Alignment explanation
Indices: 57195732--57195905 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 92
57195722 ATATCTCCTA
** * *
57195732 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCGAGGCCGATGCATGTCCCAG
1 GCCGATGCATGTAACAGACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATATCCCAG
57195795 ACATGTCTTACACTAGCACTCGTCTCAAT
64 ACATGTCTTACACTAGCACTCGTCTCAAT
* *
57195824 GCCGATGCCATGTAACAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCATATCCCAG
1 GCCGATG-CATGTAACAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATATCCCAG
57195889 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
57195906 TCACACCAGT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
92 7 0.10
93 12 0.17
94 51 0.71
95 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTAACAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATATCCCAGAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:57195893 original size:140 final size:142
Alignment explanation
Indices: 57195599--57195902 Score: 352
Period size: 140 Copynumber: 2.1 Consensus size: 142
57195589 CAAAGCCATG
* * *
57195599 TCCCTGACATGGTCTTACACTGGCTATCATCATCGAGGCTGATGCCATGTCTCAGACATGGTCTT
1 TCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGACATGGTCTT
* ** * *
57195664 ACACTAGCTCTCGCATATCCGTGCCGATTCCATGTCCTAGACATGGTCTTACACTGACATATCTC
65 ACACTAGCACTCG-ATATCAATGCCGATGCCATGTACTAGACATGGTCTTACACTGACATATCTC
*
57195729 CTAGCCGATGCATG
129 CTAGCCGATGCATA
57195743 TCCCAGACATGTCTTACACTGGCT-TACATC-TCGAGGCCGATG-CATGTCCCAGACAT-GTCTT
1 TCCCAGACATGTCTTACACTGGCTAT-CATCATCGAGGCCGATGCCATGTCCCAGACATGGTCTT
* * *
57195804 ACACTAGCACTCG-TCTCAATGCCGATGCCATGTAAC-AGACATGGTCTTACACTGGC-TCTCAT
65 ACACTAGCACTCGATATCAATGCCGATGCCATGT-ACTAGACATGGTCTTACACTGACATATC-T
** * *
57195866 AATGTGGCTGATGCATA
128 --CCTAGCCGATGCATA
57195883 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
57195903 AGCTCACACC
Statistics
Matches: 139, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
137 3 0.02
138 36 0.26
139 1 0.01
140 47 0.34
141 13 0.09
142 12 0.09
143 18 0.13
144 9 0.06
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (142 bp):
TCCCAGACATGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGACATGGTCTTA
CACTAGCACTCGATATCAATGCCGATGCCATGTACTAGACATGGTCTTACACTGACATATCTCCT
AGCCGATGCATA
Found at i:57198237 original size:37 final size:37
Alignment explanation
Indices: 57198187--57198261 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
57198177 ATATGCTTAG
57198187 TAAGTTCGTATAACAGAAACTAAACTTACCAATTCCA
1 TAAGTTCGTATAACAGAAACTAAACTTACCAATTCCA
57198224 TAAGTTCGTATAACAGAAACTAAACTTACCAATTCCA
1 TAAGTTCGTATAACAGAAACTAAACTTACCAATTCCA
57198261 T
1 T
57198262 TTATTAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (37 bp):
TAAGTTCGTATAACAGAAACTAAACTTACCAATTCCA
Found at i:57206475 original size:18 final size:17
Alignment explanation
Indices: 57206442--57206477 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
57206432 GAAAGCCTAT
57206442 ATATTCATCGGAATTCA
1 ATATTCATCGGAATTCA
*
57206459 ATATTCAATCGGGATTCA
1 ATATTC-ATCGGAATTCA
57206477 A
1 A
57206478 CCCTTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (17 bp):
ATATTCATCGGAATTCA
Found at i:57208604 original size:22 final size:22
Alignment explanation
Indices: 57208579--57208625 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
57208569 CACTATCTCA
57208579 TTAAATGATCTATTTACCATAC
1 TTAAATGATCTATTTACCATAC
*
57208601 TTAAATGGTCTATTTACCATAC
1 TTAAATGATCTATTTACCATAC
57208623 TTA
1 TTA
57208626 GTTTAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (22 bp):
TTAAATGATCTATTTACCATAC
Found at i:57210594 original size:48 final size:47
Alignment explanation
Indices: 57210539--57210853 Score: 193
Period size: 48 Copynumber: 6.6 Consensus size: 47
57210529 TGTGCCAGCA
* *
57210539 TAAGACCATGTTTAGGACATGGCGTCGGCCACGATATGAGAGCCAATG
1 TAAGACCATGTCT-GGACATGGCATCGGCCACGATATGAGAGCCAATG
* ** * * * *
57210587 TAAGACCATGTTTGGAACATGGCATCGGTGATGTTGTAAGAGCCAATG
1 TAAGACCATGTCTGG-ACATGGCATCGGCCACGATATGAGAGCCAATG
* * * * * *
57210635 TAAGACCATGTCCGGGACATGGCATCGG-CATTGATATGTGCGCTAGTG
1 TAAGACCATGT-CTGGACATGGCATCGGCCA-CGATATGAGAGCCAATG
* ** * * *
57210683 TAACACCATGTCTGAGACATGGCATCAACCACAACATGAGAGCCAGTG
1 TAAGACCATGTCTG-GACATGGCATCGGCCACGATATGAGAGCCAATG
* * * * * * *
57210731 TAAGACCATGTCTGGGGCATGGCATC-GACATTGAGACGAGAGCTAGTG
1 TAAGACCATGTCT-GGACATGGCATCGGCCA-CGATATGAGAGCCAATG
* * ** * * * * *
57210779 TAAGACCATGTGTGGGACATGGAATCAACCTCGACATGTGAGCTAGTG
1 TAAGACCATGTCT-GGACATGGCATCGGCCACGATATGAGAGCCAATG
*
57210827 TAAGACCATGTTTGGAACATGGCATCG
1 TAAGACCATGTCTGG-ACATGGCATCG
57210854 ACAATTCACC
Statistics
Matches: 209, Mismatches: 49, Indels: 18
0.76 0.18 0.07
Matches are distributed among these distances:
47 9 0.04
48 194 0.93
49 6 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
TAAGACCATGTCTGGACATGGCATCGGCCACGATATGAGAGCCAATG
Found at i:57210725 original size:96 final size:96
Alignment explanation
Indices: 57210625--57210856 Score: 302
Period size: 96 Copynumber: 2.4 Consensus size: 96
57210615 TGATGTTGTA
* * * * * * *
57210625 AGAGCCAATGTAAGACCATGTCCGGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAACACC
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAACACC
*
57210690 ATGTCTGAGACATGGCATCAACCACAACATG
66 ATGTCTGAGACATGGAATCAACCACAACATG
* *
57210721 AGAGCCAGTGTAAGACCATGTCTGGGGCATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACC
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAACACC
* * * *
57210786 ATGTGTGGGACATGGAATCAACCTCGACATG
66 ATGTCTGAGACATGGAATCAACCACAACATG
* * * *
57210817 TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACA
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACA
57210857 ATTCACCCTT
Statistics
Matches: 117, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 117 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (96 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAACACC
ATGTCTGAGACATGGAATCAACCACAACATG
Found at i:57217517 original size:49 final size:49
Alignment explanation
Indices: 57217460--57217670 Score: 327
Period size: 49 Copynumber: 4.3 Consensus size: 49
57217450 ATGTATGAGA
57217460 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
57217509 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
57217558 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * * *
57217607 TATATATATGTGATAGGGCCGAGTGGCCAAAGTGATGGATGTGGAA--G
1 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
57217654 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
57217671 TCCTGAAGGG
Statistics
Matches: 151, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 15 0.10
49 136 0.90
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:57217520 original size:27 final size:27
Alignment explanation
Indices: 57217489--57217571 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
57217479 CTAATGGCCG
57217489 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* *** ***
57217516 ATGTGAT-AAGGCCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTGTATAT
57217539 -TGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
57217565 ATGTGAT
1 ATGTGAT
57217572 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:57222132 original size:43 final size:43
Alignment explanation
Indices: 57222071--57222157 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
57222061 GTAACAACAA
57222071 TTGCTAAGTTGCTAACTACTACACAAAATGAAGGAAATGAAGG
1 TTGCTAAGTTGCTAACTACTACACAAAATGAAGGAAATGAAGG
57222114 TTGCTAAGTTGCTAACTACTACACAAAATGAAGGAAATGAAGG
1 TTGCTAAGTTGCTAACTACTACACAAAATGAAGGAAATGAAGG
57222157 T
1 T
57222158 AAGGATATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (43 bp):
TTGCTAAGTTGCTAACTACTACACAAAATGAAGGAAATGAAGG
Found at i:57224171 original size:9 final size:9
Alignment explanation
Indices: 57224159--57224235 Score: 57
Period size: 9 Copynumber: 8.6 Consensus size: 9
57224149 AAAAGTATAA
57224159 AATTAACCG
1 AATTAACCG
*
57224168 AATTAATCG
1 AATTAACCG
**
57224177 AATTAGTCG
1 AATTAACCG
**
57224186 AATTAACTA
1 AATTAACCG
57224195 AATT-ACTCG
1 AATTAAC-CG
* *
57224204 AATTACCCA
1 AATTAACCG
*
57224213 AATTAACTG
1 AATTAACCG
*
57224222 AATTAAACG
1 AATTAACCG
57224231 AATTA
1 AATTA
57224236 TTTGAATAAA
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
8 2 0.04
9 48 0.94
10 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (9 bp):
AATTAACCG
Found at i:57224189 original size:27 final size:27
Alignment explanation
Indices: 57224158--57224235 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
57224148 AAAAAGTATA
* **
57224158 AAATTAACCGAATTAATCGAATTAGTC
1 AAATTAACTGAATTAATCGAATTACCC
* * *
57224185 GAATTAACTAAATTACTCGAATTACCC
1 AAATTAACTGAATTAATCGAATTACCC
*
57224212 AAATTAACTGAATTAAACGAATTA
1 AAATTAACTGAATTAATCGAATTA
57224236 TTTGAATAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTAACTGAATTAATCGAATTACCC
Found at i:57224215 original size:18 final size:18
Alignment explanation
Indices: 57224166--57224227 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
57224156 TAAAATTAAC
* * *
57224166 CGAATTAATCGAATTAGT
1 CGAATTAACCAAATTACT
*
57224184 CGAATTAACTAAATTACT
1 CGAATTAACCAAATTACT
*
57224202 CGAATTACCCAAATTAACT
1 CGAATTAACCAAATT-ACT
57224221 -GAATTAA
1 CGAATTAA
57224228 ACGAATTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 33 0.92
19 3 0.08
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.31
Consensus pattern (18 bp):
CGAATTAACCAAATTACT
Found at i:57224537 original size:18 final size:18
Alignment explanation
Indices: 57224514--57224561 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
57224504 ATTAATTCGA
*
57224514 TTAACCGTATTTCATCGG
1 TTAACCGAATTTCATCGG
*
57224532 TTAACCGAATTTGATCGG
1 TTAACCGAATTTCATCGG
57224550 TTAACCGAATTT
1 TTAACCGAATTT
57224562 TTTCAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (18 bp):
TTAACCGAATTTCATCGG
Found at i:57229510 original size:17 final size:19
Alignment explanation
Indices: 57229468--57229511 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
57229458 ATGAAATTTT
*
57229468 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
57229487 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
57229505 AA-TATTA
1 AATTATTA
57229512 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Done.