Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 146 of 153
Found at i:45671908 original size:47 final size:47
Alignment explanation
Indices: 45671791--45672043 Score: 366
Period size: 47 Copynumber: 5.4 Consensus size: 47
45671781 CCCTTCGGGA
* * * * * * *
45671791 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45671838 CCT-GCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45671884 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45671931 CTTATTACATATATA-ATCTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACA-CTTTCACATTCATCACATCGGCCATTAGGC
45671978 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45672025 CTAATCACATATATACACT
1 CTTATCACATATATACACT
45672044 GTCTTGGCTG
Statistics
Matches: 185, Mismatches: 18, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
46 38 0.21
47 146 0.79
48 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45680913 original size:29 final size:29
Alignment explanation
Indices: 45680871--45680957 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
45680861 TTTCAAATAA
45680871 TTATTACAAA-TATAAAAAATATTTAAAAT
1 TTATTA-AAATTATAAAAAATATTTAAAAT
*
45680900 TTATTAAAATTATAATAAAT-TATTAAAAT
1 TTATTAAAATTATAAAAAATAT-TTAAAAT
** * *
45680929 CAATT-AAATTGATAAAAATTATTAAAAAT
1 TTATTAAAATT-ATAAAAAATATTTAAAAT
45680958 ACTTTCCGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 9 0.19
29 38 0.79
30 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.39
Consensus pattern (29 bp):
TTATTAAAATTATAAAAAATATTTAAAAT
Found at i:45680922 original size:19 final size:19
Alignment explanation
Indices: 45680900--45680950 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
45680890 TATTTAAAAT
45680900 TTATTAAAATTATAATAAA
1 TTATTAAAATTATAATAAA
* *
45680919 TTATTAAAATCA-ATTAAA
1 TTATTAAAATTATAATAAA
*
45680937 TTGATAAAAATTAT
1 TT-ATTAAAATTAT
45680951 TAAAAATACT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
TTATTAAAATTATAATAAA
Found at i:45680956 original size:10 final size:10
Alignment explanation
Indices: 45680869--45680957 Score: 50
Period size: 10 Copynumber: 9.3 Consensus size: 10
45680859 TTTTTCAAAT
*
45680869 AATTATTACA
1 AATTATTAAA
45680879 AA-TA-TAAA
1 AATTATTAAA
*
45680887 AAATATTTAAA
1 AATTA-TTAAA
*
45680898 ATTTATT-AA
1 AATTATTAAA
45680907 AATTA-TAATA
1 AATTATTAA-A
45680917 AATTATT-AA
1 AATTATTAAA
*
45680926 AATCAATT--A
1 AAT-TATTAAA
45680935 AATTGA-TAAA
1 AATT-ATTAAA
45680945 AATTATTAAA
1 AATTATTAAA
45680955 AAT
1 AAT
45680958 ACTTTCCGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
8 7 0.11
9 21 0.34
10 26 0.42
11 8 0.13
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (10 bp):
AATTATTAAA
Found at i:45686899 original size:28 final size:27
Alignment explanation
Indices: 45686841--45686938 Score: 117
Period size: 28 Copynumber: 3.6 Consensus size: 27
45686831 TTAGATGGTA
*
45686841 GCCACAAGGGCTTTCC-TTCAAGATTT
1 GCCACAAAGGCTTTCCTTTCAAGATTT
*
45686867 GCCACAAAGGCTATTCCTTTTAAGATTT
1 GCCACAAAGGCT-TTCCTTTCAAGATTT
* * *
45686895 TCCACAAAGGCTTTTCCATTCGAGATTT
1 GCCACAAAGGC-TTTCCTTTCAAGATTT
*
45686923 GACACAAAGGCTTTCC
1 GCCACAAAGGCTTTCC
45686939 CTTTTCTGAC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.18
27 9 0.15
28 40 0.66
29 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (27 bp):
GCCACAAAGGCTTTCCTTTCAAGATTT
Found at i:45689854 original size:16 final size:17
Alignment explanation
Indices: 45689822--45689854 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
45689812 GTTGCATACA
45689822 TTGCATTTAGGGATCATC
1 TTGCATTTA-GGATCATC
45689840 TTGCATTTA-GATCAT
1 TTGCATTTAGGATCAT
45689855 TTAAGTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (17 bp):
TTGCATTTAGGATCATC
Found at i:45692888 original size:3 final size:3
Alignment explanation
Indices: 45692880--45692920 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
45692870 ACAATTTAAG
* * *
45692880 AAT AAT AAT AAT AAT GAT AAT GAT GAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
45692921 CCTAAAGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45694195 original size:22 final size:23
Alignment explanation
Indices: 45694167--45694210 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
45694157 GGCCTTTAAT
45694167 TTTTGGG-ATGTAATTTTTATTG
1 TTTTGGGTATGTAATTTTTATTG
*
45694189 TTTTGGGTTTGTAATTTTTATT
1 TTTTGGGTATGTAATTTTTATT
45694211 TGTAAATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (23 bp):
TTTTGGGTATGTAATTTTTATTG
Found at i:45694551 original size:45 final size:45
Alignment explanation
Indices: 45694404--45694568 Score: 174
Period size: 45 Copynumber: 3.7 Consensus size: 45
45694394 TTTAATCTAT
* * * *
45694404 TCCACTGTAACTTCAGGGAAATAAAATTTGTTAT-TTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTT-AGTCTGC
* ** * * *
45694449 TCCACTTCATA-TTCAGGGAGATAAGACTTG-TGCCTTCAATTTGC
1 TCCACTGCA-ACTTCAGGGAGATAAGACTTGTTATCTTTAGTCTGC
* * *
45694493 TCCACTGTAACTTCAGGGAGATAAGATTTGTTATCTTTAGTCCGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTTAGTCTGC
45694538 TCCACTGCAACTTCAGGGAGATAAGACTTGT
1 TCCACTGCAACTTCAGGGAGATAAGACTTGT
45694569 GGTTTGTTGC
Statistics
Matches: 95, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
43 1 0.01
44 31 0.33
45 62 0.65
46 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTTATCTTTAGTCTGC
Found at i:45694555 original size:89 final size:89
Alignment explanation
Indices: 45694404--45694569 Score: 264
Period size: 89 Copynumber: 1.9 Consensus size: 89
45694394 TTTAATCTAT
* *
45694404 TCCACTGTAACTTCAGGGAAATAAAATTTGTTATTTTCAGTCTGCTCCACTTCATATTCAGGGAG
1 TCCACTGTAACTTCAGGGAAATAAAATTTGTTATTTTCAGTCCGCTCCACTGCATATTCAGGGAG
45694469 ATAAGACTTGTGCCTTCAATTTGC
66 ATAAGACTTGTGCCTTCAATTTGC
* *
45694493 TCCACTGTAACTTCAGGGAGATAAGATTTGTTATCTTT-AGTCCGCTCCACTGCA-ACTTCAGGG
1 TCCACTGTAACTTCAGGGAAATAAAATTTGTTAT-TTTCAGTCCGCTCCACTGCATA-TTCAGGG
45694556 AGATAAGACTTGTG
64 AGATAAGACTTGTG
45694570 GTTTGTTGCT
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
88 1 0.01
89 67 0.94
90 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (89 bp):
TCCACTGTAACTTCAGGGAAATAAAATTTGTTATTTTCAGTCCGCTCCACTGCATATTCAGGGAG
ATAAGACTTGTGCCTTCAATTTGC
Found at i:45694703 original size:186 final size:185
Alignment explanation
Indices: 45694360--45694705 Score: 439
Period size: 186 Copynumber: 1.9 Consensus size: 185
45694350 TTCTCTACTA
* *
45694360 CAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTATTCCACTGTAACTTCAGGGAAA
1 CAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATATATTCCACTGCAACTTCAGGGAAA
* * * *
45694425 TAAAATTTGTTATTTTCAGTCTGCTCCACTTCATATTCAGGGAGATAAGACTTGTGCCTTCAATT
66 TAAAATTCGTTATCTTCAGTCTGCTCCACTTCATATTCAGGGAGATAAGACTAGTGCCTTCAATC
* *
45694490 TGCTCCACTGTAACTTCAGGGAGATAAGATTTGTTATCTTTAGTCCGCTCCACTG
131 TGCTCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTTAGTCCGCTCCACTG
* ** * * *
45694545 CAACTTCAGGGAGATAAGA-CTTGTGGTTTGTTGCTTTTAATATATTCCACTGCAACTTCGGGGA
1 CAACTTCAGAGAGATAAGATC-TGTAATTTATAGC-TTTAATATATTCCACTGCAACTTCAGGGA
* * ** *
45694609 AATAAGATTCGTTGTCTTCAGTCTGCTCCA-TT-ATAACTTCAGGGAGATAAGGGTAGTGGCTTC
64 AATAAAATTCGTTATCTTCAGTCTGCTCCACTTCAT-A-TTCAGGGAGATAAGACTAGTGCCTTC
*
45694672 AATCTGCTCCACTGCAATTTC-GAGAAGATAAGAT
127 AATCTGCTCCACTGCAACTTCAG-GAAGATAAGAT
45694706 CTGCCATAAT
Statistics
Matches: 136, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
184 3 0.02
185 31 0.23
186 102 0.75
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (185 bp):
CAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATATATTCCACTGCAACTTCAGGGAAA
TAAAATTCGTTATCTTCAGTCTGCTCCACTTCATATTCAGGGAGATAAGACTAGTGCCTTCAATC
TGCTCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTTAGTCCGCTCCACTG
Found at i:45694954 original size:44 final size:44
Alignment explanation
Indices: 45694797--45695226 Score: 151
Period size: 44 Copynumber: 9.6 Consensus size: 44
45694787 GACCTACCCC
* * * * * * *
45694797 ACTGCAACTTCAGGGGGATA--ATTTGTAGTTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCCGCTCT
* * *
45694839 ACTGCAACTTCAGGGAGATAAGACTTGCTATGGTAGATTTAATCCGAC-CT
1 ACTGCAACTTCAGGGAGATAGGA--T--TA--GTAGCTTCAATCCG-CTCT
* * * * * * *
45694889 ACTGCAACCTCAGAGG-TATAGGATTCGTCGTTTTAATCCGCTTT
1 ACTGCAACTTCAG-GGAGATAGGATTAGTAGCTTCAATCCGCTCT
** *
45694933 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATTTGCTCC
1 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCCGCTCT
* * * * *
45694977 ACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAA-CCTACTCC
1 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCC-GCTCT
* * * * ** *
45695021 ACTGCAACTTAAGGGAGATAAGG-TTTGT-GAATTTAATCTACTCC
1 ACTGCAACTTCAGGGAGAT-AGGATTAGTAG-CTTCAATCCGCTCT
* * * * * *
45695065 ACTGTAACTTCAGGGAGATAAGATTGGTATCTTCAA-CCTACTCC
1 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCC-GCTCT
* * * * ** *
45695109 ACTGCAACTTAAGGGAGATAAGG-TTTGT-GAATTTAATCTACTCC
1 ACTGCAACTTCAGGGAGAT-AGGATTAGTAG-CTTCAATCCGCTCT
* * * * *
45695153 ACTGTAACTTCAGGGAGATAAGATTTGTATCTCGTCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAGGATTAGTA----G-CTTCAATCCGCTCT
* *
45695202 ACTGCAACTTCAGGGAAATAAGATT
1 ACTGCAACTTCAGGGAGATAGGATT
45695227 GATTTATTTT
Statistics
Matches: 299, Mismatches: 61, Indels: 49
0.73 0.15 0.12
Matches are distributed among these distances:
42 19 0.06
43 8 0.03
44 195 0.65
45 6 0.02
46 2 0.01
48 2 0.01
49 35 0.12
50 29 0.10
51 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCCGCTCT
Found at i:45695036 original size:88 final size:88
Alignment explanation
Indices: 45694933--45695914 Score: 508
Period size: 88 Copynumber: 10.8 Consensus size: 88
45694923 AATCCGCTTT
*
45694933 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATTTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
45694998 GATTGGTATCTTCAACCTACTCC
66 GATTGGTATCTTCAATCTGCTCC
* * * * * *
45695021 ACTGCAACTTAAGGGAGATAAGG-TTTGT-GAATTTAATCTACTCCACTGTAACTTCAGGGAGAT
1 ACTGCAACTTCAGGGAGAT-AGGATTAGTAG-CTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
* *
45695084 AAGATTGGTATCTTCAACCTACTCC
64 AAGATTGGTATCTTCAATCTGCTCC
* * * * * *
45695109 ACTGCAACTTAAGGGAGATAAGG-TTTGT-GAATTTAATCTACTCCACTGTAACTTCAGGGAGAT
1 ACTGCAACTTCAGGGAGAT-AGGATTAGTAG-CTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
*
45695172 AAGATTTGTATCTCGTCTTCAATCTGCTCC
64 AAGATTGGTA-----TCTTCAATCTGCTCC
* * * ** * * * *
45695202 ACTGCAACTTCAGGGAAATAAGATTGATTTATTTTTAACCTACTCCACTGCAACTTCAGGAAGAT
1 ACTGCAACTTCAGGGAGATAGGATT-A-GTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
* * * * * * *
45695267 AAGGTTTG-AT-AT-GATTTACTCT
64 AAGATTGGTATCTTCAATCTGCTCC
* * *
45695289 ACTGCAACTTCAGAGAGATAAGATTTGTAATTTA-TAGCTTCAATCTGTTCCACTGCAACTTTAG
1 ACTGCAACTTCAGGGAGAT-AG----G--A-TTAGTAGCTTCAATCTGCTCCACTGCAACTTCAG
* * *
45695353 GGAAATAAGATTCGCTATCTTCAGTCTGCTCC
58 GGAGATAAGATT-GGTATCTTCAATCTGCTCC
* * * * * * * *
45695385 ACTACAACTTCAGGGAGTTAAGACTT-GTAACTTTAATAGATTTGATCCGACCTTCTGTAACTTC
1 ACTGCAACTTCAGGGAGATAGGA-TTAGTAGC-TT--CA-ATCTGCTCC-A----CTGCAACTTC
* * * * * *
45695449 AGAGG-TATAGGGTT--CATCGTTTTAATCCGCTCC
56 AG-GGAGATAAGATTGGTATC--TTCAATCTGCTCC
* * * ** *
45695482 ACTGTATCTTCAGGGAGATAGGAGTAGTAAATTCAATCTGCTCCACTGTAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
45695547 GATTGGTATCTTCAACCTGC-CTT
66 GATTGGTATCTTCAATCTGCTC-C
* * * *
45695570 ACTGCAACTTCAGGGAGATAAGG-TTTGTAGCTAT-GATCTGCTCTACTGCAACTTCAGAGAGAT
1 ACTGCAACTTCAGGGAGAT-AGGATTAGTAGCT-TCAATCTGCTCCACTGCAACTTCAGGGAGAT
* * * * *
45695633 AAGGTTTGTAGCTAT-GATCTGCTCT
64 AAGATTGGTATCT-TCAATCTGCTCC
* ** * * * *
45695658 ACTGCAAATTCAGACAGATAAGATCTGTAATTTA-TAGCTTTAATCTGTTCTACTGCAAGTTCAG
1 ACTGCAACTTCAGGGAGAT-AG----G--A-TTAGTAGCTTCAATCTGCTCCACTGCAACTTCAG
* * * * *
45695722 GGAAATAAGATCCGCTATCTTCAGTTTGCTCC
58 GGAGATAAGAT-TGGTATCTTCAATCTGCTCC
* * * * *
45695754 ACTGCAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTACTCCACTACAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
45695819 TATTCGCCATAATCTTCAATCT-ATCCC
66 GATT-G--GT-ATCTTCAATCTGCT-CC
* * * *
45695846 ACTACAACTTCAAGGG-GATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTC-AGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
45695910 AGATT
65 AGATT
45695915 CGCCATGATC
Statistics
Matches: 692, Mismatches: 139, Indels: 122
0.73 0.15 0.13
Matches are distributed among these distances:
87 27 0.04
88 258 0.37
89 50 0.07
90 5 0.01
91 4 0.01
92 109 0.16
93 50 0.07
94 8 0.01
95 79 0.11
96 52 0.08
97 32 0.05
98 16 0.02
99 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (88 bp):
ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
GATTGGTATCTTCAATCTGCTCC
Found at i:45695359 original size:138 final size:137
Alignment explanation
Indices: 45694933--45695394 Score: 415
Period size: 132 Copynumber: 3.4 Consensus size: 137
45694923 AATCCGCTTT
* * * * ** * * *
45694933 ACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATTTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAAATAAGATTGGTATCTTCAACCTACTCCACTGCAACTTAAGGAAGATAA
* * * * * * * *
45694998 -GATTG-GTATCTTCAACCTACTCCACTGCAACTTAAGGGAGATAAGGTTTGT-GA-A-T-TT-A
66 GGTTTGTGAAT-AT-AATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTATATAGTCTTCA
*
45695056 ATCTACTCC
129 ATCTGCTCC
* * *
45695065 ACTGTAACTTCAGGGAGATAAGATTGGTATCTTCAACCTACTCCACTGCAACTTAAGGGAGATAA
1 ACTGCAACTTCAGGGAAATAAGATTGGTATCTTCAACCTACTCCACTGCAACTTAAGGAAGATAA
* * * * *
45695130 GGTTTGTGAATTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTTGTATCTCGTCTTCAAT
66 GGTTTGTGAATATAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTATATAGTCTTCAAT
45695195 CTGCTCC
131 CTGCTCC
* * * *
45695202 ACTGCAACTTCAGGGAAATAAGATTGATTTATTTTTAACCTACTCCACTGCAACTTCAGGAAGAT
1 ACTGCAACTTCAGGGAAATAAGATTG--GTATCTTCAACCTACTCCACTGCAACTTAAGGAAGAT
* * *
45695267 AAGG-TT-TG-ATATGATTTACTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAG-CT
64 AAGGTTTGTGAATATAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGT-A--TATAGTCT
*
45695328 TCAATCTGTTCC
126 TCAATCTGCTCC
* * ** * *
45695340 ACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTACAACTT
1 ACTGCAACTTCAGGGAAATAAGATT-GGTATCTTCAACCTACTCCACTGCAACTT
45695395 CAGGGAGTTA
Statistics
Matches: 275, Mismatches: 42, Indels: 21
0.81 0.12 0.06
Matches are distributed among these distances:
132 91 0.33
133 6 0.02
134 3 0.01
135 1 0.00
136 38 0.14
137 57 0.21
138 39 0.14
139 40 0.15
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (137 bp):
ACTGCAACTTCAGGGAAATAAGATTGGTATCTTCAACCTACTCCACTGCAACTTAAGGAAGATAA
GGTTTGTGAATATAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTATATAGTCTTCAAT
CTGCTCC
Found at i:45695561 original size:44 final size:44
Alignment explanation
Indices: 45695472--45695914 Score: 266
Period size: 44 Copynumber: 9.8 Consensus size: 44
45695462 TCATCGTTTT
* * * * * * **
45695472 AATCCGCTCCACTGTATCTTCAGGGAGATAGGAGTAGTAAATTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAGCTTC
* *
45695516 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAGCTTC
* * * *
45695560 AACCTGC-CTTACTGCAACTTCAGGGAGATAAGGTTTGTAGCTAT-
1 AATCTGCTC-CACTGCAACTTCAGGGAGATAAGATTGGTAGCT-TC
* * * * *
45695604 GATCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGTAGCTAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAGCT-TC
* * * ** * *
45695648 GATCTGCTCTACTGCAAATTCAGACAGATAAGATCTGTAATTTATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TG------GTAGCTTC
* * * * * * *
45695699 AATCTGTTCTACTGCAAGTTCAGGGAAATAAGATCCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTAGCTTC
* * * * *
45695744 AGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAGCTTC
* * * * *
45695788 AATCTACTCCACTACAACTTCAGGGAGATAATATTCGCCATAATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G--GT-AGCTTC
* * * * *
45695836 AATCT-ATCCCACTACAACTTCAAGGG-GATAAGACTAGTGGCTTC
1 AATCTGCT-CCACTGCAACTTC-AGGGAGATAAGATTGGTAGCTTC
45695880 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
45695915 CGCCATGATC
Statistics
Matches: 317, Mismatches: 63, Indels: 38
0.76 0.15 0.09
Matches are distributed among these distances:
43 5 0.02
44 204 0.64
45 37 0.12
47 2 0.01
48 29 0.09
49 4 0.01
50 1 0.00
51 35 0.11
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTAGCTTC
Found at i:45695855 original size:48 final size:48
Alignment explanation
Indices: 45695717--45695952 Score: 169
Period size: 44 Copynumber: 5.1 Consensus size: 48
45695707 CTACTGCAAG
* * * *
45695717 TTCAGGGAAATAAGATCCG-C-TATCTTCAGT-T-TGCTCCACTGCAAC
1 TTCAGGGAGATAAGATTCGCCATATCTTCAATCTAT-CTCCACTACAAC
* * **
45695762 TTCAGGGAGATAAGACTAG---TGGCTTCAATCTA-CTCCACTACAAC
1 TTCAGGGAGATAAGATTCGCCATATCTTCAATCTATCTCCACTACAAC
*
45695806 TTCAGGGAGATAATATTCGCCATAATCTTCAATCTATC-CCACTACAAC
1 TTCAGGGAGATAAGATTCGCCAT-ATCTTCAATCTATCTCCACTACAAC
* * ** * *
45695854 TTCAAGGG-GATAAGACTAG---TGGCTTCAATCT-GCTCCACTGCAAC
1 TTC-AGGGAGATAAGATTCGCCATATCTTCAATCTATCTCCACTACAAC
* **
45695898 TTCAGGGAGATAAGATTCGCCATGATCTTCAATATATC-CCACTGTAAC
1 TTCAGGGAGATAAGATTCGCCAT-ATCTTCAATCTATCTCCACTACAAC
45695946 TTCAGGG
1 TTCAGGG
45695953 GTATAGGATC
Statistics
Matches: 149, Mismatches: 27, Indels: 27
0.73 0.13 0.13
Matches are distributed among these distances:
43 5 0.03
44 64 0.43
45 17 0.11
47 2 0.01
48 55 0.37
49 6 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (48 bp):
TTCAGGGAGATAAGATTCGCCATATCTTCAATCTATCTCCACTACAAC
Found at i:45695866 original size:92 final size:91
Alignment explanation
Indices: 45695752--45695953 Score: 323
Period size: 92 Copynumber: 2.2 Consensus size: 91
45695742 TCAGTTTGCT
45695752 CCACTGCAACTTCAGGGAGATAAGACTAGTGGCTTCAATCTACTCCACTACAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGG-GATAAGACTAGTGGCTTCAATCTACTCCACTACAACTTCAGGGAGAT
* *
45695817 AATATTCGCCATAATCTTCAATCTATC
65 AAGATTCGCCATAATCTTCAATATATC
* * *
45695844 CCACTACAACTTCAAGGGGATAAGACTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTC-AGGGGATAAGACTAGTGGCTTCAATCTACTCCACTACAACTTCAGGGAGAT
*
45695909 AAGATTCGCCATGATCTTCAATATATC
65 AAGATTCGCCATAATCTTCAATATATC
*
45695936 CCACTGTAACTTCAGGGG
1 CCACTGCAACTTCAGGGG
45695954 TATAGGATCT
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
91 5 0.05
92 92 0.91
93 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (91 bp):
CCACTGCAACTTCAGGGGATAAGACTAGTGGCTTCAATCTACTCCACTACAACTTCAGGGAGATA
AGATTCGCCATAATCTTCAATATATC
Found at i:45696811 original size:5 final size:5
Alignment explanation
Indices: 45696801--45696843 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
45696791 GGGCTCTCCT
*
45696801 TTTTC TTTTC TCTTTT TTTTC TTTTC TTTTC -TTT- TTTTC TTTT
1 TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
45696844 TTCTGTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.18
5 23 0.70
6 4 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:45696823 original size:9 final size:9
Alignment explanation
Indices: 45696806--45696845 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
45696796 CTCCTTTTTC
*
45696806 TTTTCTCTT
1 TTTTTTCTT
45696815 TTTTTTCTT
1 TTTTTTCTT
45696824 TTCTTTTC-T
1 TT-TTTTCTT
45696833 TTTTTTCTT
1 TTTTTTCTT
45696842 TTTT
1 TTTT
45696846 CTGTTCATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 5 0.18
9 18 0.64
10 5 0.18
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:45696826 original size:21 final size:20
Alignment explanation
Indices: 45696800--45696847 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
45696790 TGGGCTCTCC
45696800 TTTTTCTTTTCTCTTTTTT-T
1 TTTTTCTTTTCT-TTTTTTCT
45696820 TCTTTTCTTTTCTTTTTTTCT
1 T-TTTTCTTTTCTTTTTTTCT
45696841 TTTTTCT
1 TTTTTCT
45696848 GTTCATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTCTTTTCTTTTTTTCT
Found at i:45700149 original size:3 final size:3
Alignment explanation
Indices: 45700135--45700187 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
45700125 ACAATTTAAG
* * * * *
45700135 AAT AAT ATT AAT AAT AAT AAT GAT GAT GAT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
45700183 AAT AA
1 AAT AA
45700188 CCTAAAGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:45704803 original size:25 final size:25
Alignment explanation
Indices: 45704775--45704828 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
45704765 TGTAGTGGCA
*
45704775 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGACAAGG
* * *
45704800 AGGTGGTGTCACAGGTGTGATAAGG
1 AGGTGGCGACACAGGTGTGACAAGG
45704825 AGGT
1 AGGT
45704829 CAGAGGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.46, T:0.19
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGACAAGG
Found at i:45706102 original size:54 final size:54
Alignment explanation
Indices: 45706014--45706242 Score: 262
Period size: 54 Copynumber: 4.2 Consensus size: 54
45706004 AAATACTCTC
* * * *
45706014 GATGGGTAAAATTACCAAAATACTCTCGAAGGGTAAAATTTTCGAAGTACCCCT
1 GATGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCT
* * * *
45706068 GATGGGTAAAATTACTAAAATACCTTCGATGGGTAAAATTATCTAAATACCCTT
1 GATGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCT
* * * *
45706122 GATGGGTAAAATTACTGAAATACCCTCGATGGGAAAAATTACCGAAATACCCCT
1 GATGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCT
* * * * * *
45706176 GAAGGGAAAAATTCCTGAAATACCCCCCGAAGGGTAAAATTATCGTAATACCCC-
1 GATGGGTAAAATTACTAAAATA-CCCTCGAAGGGTAAAATTATCGAAATACCCCT
*
45706230 GTTAGGGTAAAAT
1 GAT-GGGTAAAAT
45706243 GAATGCTAGG
Statistics
Matches: 148, Mismatches: 25, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
54 114 0.77
55 34 0.23
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (54 bp):
GATGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATTATCGAAATACCCCT
Found at i:45706173 original size:27 final size:27
Alignment explanation
Indices: 45705998--45706242 Score: 210
Period size: 27 Copynumber: 9.0 Consensus size: 27
45705988 CCATGGGCAT
* *
45705998 TTACCAAAATACTCTCGATGGGTAAAA
1 TTACCGAAATACCCTCGATGGGTAAAA
* * *
45706025 TTACCAAAATACTCTCGAAGGGTAAAA
1 TTACCGAAATACCCTCGATGGGTAAAA
** *
45706052 TTTTCGAAGTACCC-CTGATGGGTAAAA
1 TTACCGAAATACCCTC-GATGGGTAAAA
** *
45706079 TTACTAAAATACCTTCGATGGGTAAAA
1 TTACCGAAATACCCTCGATGGGTAAAA
* * *
45706106 TTATCTAAATACCCTTGATGGGTAAAA
1 TTACCGAAATACCCTCGATGGGTAAAA
* *
45706133 TTACTGAAATACCCTCGATGGGAAAAA
1 TTACCGAAATACCCTCGATGGGTAAAA
* *
45706160 TTACCGAAATACCC-CTGAAGGGAAAAA
1 TTACCGAAATACCCTC-GATGGGTAAAA
* *
45706187 TT-CCTGAAATACCCCCCGAAGGGTAAAA
1 TTACC-GAAATA-CCCTCGATGGGTAAAA
* * *
45706215 TTATCGTAATACCC-CGTTAGGGTAAAA
1 TTACCGAAATACCCTCGAT-GGGTAAAA
45706242 T
1 T
45706243 GAATGCTAGG
Statistics
Matches: 180, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
26 6 0.03
27 151 0.84
28 21 0.12
29 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (27 bp):
TTACCGAAATACCCTCGATGGGTAAAA
Found at i:45706400 original size:27 final size:27
Alignment explanation
Indices: 45706350--45706414 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
45706340 TGTTATGAAG
* *
45706350 TACTGTTTCTAGTGGCTCTACCACA-A
1 TACTGTTACTGGTGGCTCTACCACATA
* *
45706376 TCACTGTTACTGGTGGCTTTGCCACATA
1 T-ACTGTTACTGGTGGCTCTACCACATA
45706404 TACTG-TACTGG
1 TACTGTTACTGG
45706415 CAGCTCTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 7 0.21
27 24 0.73
28 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTCTACCACATA
Found at i:45712187 original size:25 final size:25
Alignment explanation
Indices: 45712159--45712212 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
45712149 TGTAGTGGCA
45712159 AGGTGGCGACACAAGTGTGGCAAGG
1 AGGTGGCGACACAAGTGTGGCAAGG
* * * *
45712184 AGGTGGCGTCATAGGTGTGGTAAGG
1 AGGTGGCGACACAAGTGTGGCAAGG
45712209 AGGT
1 AGGT
45712213 TAGAGGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.11, G:0.46, T:0.19
Consensus pattern (25 bp):
AGGTGGCGACACAAGTGTGGCAAGG
Found at i:45712361 original size:24 final size:21
Alignment explanation
Indices: 45712328--45712374 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
45712318 TCAAATGAGT
*
45712328 GATTTAAGGAGTGGATCATGGAG
1 GATTTAAGGAGAGGAT--TGGAG
45712351 GATTTCAAGGAGAGGATTGGAG
1 GATTT-AAGGAGAGGATTGGAG
45712373 GA
1 GA
45712375 GTGATTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 10 0.45
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.23
Consensus pattern (21 bp):
GATTTAAGGAGAGGATTGGAG
Found at i:45713426 original size:27 final size:28
Alignment explanation
Indices: 45713388--45713556 Score: 188
Period size: 27 Copynumber: 6.2 Consensus size: 28
45713378 GTAATGGACC
*
45713388 TAAAAATACCGAAATACCCTCGATA-GG
1 TAAAATTACCGAAATACCCTCGATAGGG
45713415 TAAAATTACCGAAATACCC-CTGA-AGGG
1 TAAAATTACCGAAATACCCTC-GATAGGG
** *
45713442 TAAAATTATTGAAATACCCTCAAT-GGG
1 TAAAATTACCGAAATACCCTCGATAGGG
**
45713469 TAAAATTATTGAAATACCCTCGAT-GGG
1 TAAAATTACCGAAATACCCTCGATAGGG
* *
45713496 TAAAATTATCGAAATACCCCCGA-AGGG
1 TAAAATTACCGAAATACCCTCGATAGGG
* * *
45713523 TAAAATTACCGTAATACCCCCGTTAGGG
1 TAAAATTACCGAAATACCCTCGATAGGG
45713551 TAAAAT
1 TAAAAT
45713557 GACTGCTAGG
Statistics
Matches: 126, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
26 2 0.02
27 113 0.90
28 11 0.09
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.24
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTCGATAGGG
Found at i:45720322 original size:24 final size:24
Alignment explanation
Indices: 45720294--45720341 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
45720284 TTTTGGATTA
45720294 GACTTGTAATTGTTAATATTTGGT
1 GACTTGTAATTGTTAATATTTGGT
45720318 GACTTGTAATTGTTAATATTTGGT
1 GACTTGTAATTGTTAATATTTGGT
45720342 AGAAACACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (24 bp):
GACTTGTAATTGTTAATATTTGGT
Found at i:45724000 original size:68 final size:68
Alignment explanation
Indices: 45723891--45724025 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 68
45723881 AAAATTAAGC
* * *
45723891 TGTTCGAATGTGTTAGATTCACTGATCAAAGCACCATCATTTATGTTGTTTTATTTAGTAAATGT
1 TGTTCGAATGTGTTAAATTCACTGATCAAAGCACCAGCATTTATGTTGTTTTATTTAATAAATGT
45723956 AGT
66 AGT
* * *
45723959 TGTTCGAATGTGTTAAATTCACTGTTCAATGCACTAGCATTTATGTTGTTTTATTTAATAAATGT
1 TGTTCGAATGTGTTAAATTCACTGATCAAAGCACCAGCATTTATGTTGTTTTATTTAATAAATGT
45724024 AG
66 AG
45724026 CTATCTGAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (68 bp):
TGTTCGAATGTGTTAAATTCACTGATCAAAGCACCAGCATTTATGTTGTTTTATTTAATAAATGT
AGT
Found at i:45724451 original size:43 final size:43
Alignment explanation
Indices: 45724387--45724541 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 43
45724377 TTGTGATTTT
* * *
45724387 GTGTAAGACCGTGTCTAGGACATTGGCATCAATATGAGATTAC
1 GTGTAAGACCATATCTGGGACATTGGCATCAATATGAGATTAC
* ** *
45724430 GTGTAAGACCATGTCTGGGACATTGGCA-CCGTAT-ATGATT-T
1 GTGTAAGACCATATCTGGGACATTGGCATCAATATGA-GATTAC
* ** * * *
45724471 GTGTAAGACCCTATCTGGGACAGAGGCATCGATATGTGATAAC
1 GTGTAAGACCATATCTGGGACATTGGCATCAATATGAGATTAC
* *
45724514 ATGTAAGACCATATCTGGGATA-TGGCAT
1 GTGTAAGACCATATCTGGGACATTGGCAT
45724542 TGTATGTGAT
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 25 0.28
42 20 0.22
43 45 0.50
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGACATTGGCATCAATATGAGATTAC
Found at i:45729878 original size:13 final size:13
Alignment explanation
Indices: 45729862--45729924 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
45729852 TTTAAACCAA
*
45729862 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
*
45729875 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* * *
45729888 ACTTTTCCACAGT
1 ACTTTTCAAAAGC
*
45729901 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
45729914 ACTTTTCAAAA
1 ACTTTTCAAAA
45729925 AGAATGAAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:45731617 original size:22 final size:22
Alignment explanation
Indices: 45731589--45731654 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
45731579 CTCTCTGATT
* *
45731589 ATTAGCACGTTGGTGCTCTCTG
1 ATTAGCACATTAGTGCTCTCTG
* * *
45731611 ATTAGCATATTTGTGCTCTATG
1 ATTAGCACATTAGTGCTCTCTG
*
45731633 -TATAGCACTTTAGTGCTCTCTG
1 AT-TAGCACATTAGTGCTCTCTG
45731655 TTCATTGGTG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (22 bp):
ATTAGCACATTAGTGCTCTCTG
Found at i:45733838 original size:176 final size:177
Alignment explanation
Indices: 45733529--45733903 Score: 456
Period size: 176 Copynumber: 2.1 Consensus size: 177
45733519 ATCAAAATAA
* * *
45733529 GTACTT-AACTATGCAACTTTTCTTATTTAGGTACTGAAAGTTTTTTTTTTATCAAAGTAGGTAC
1 GTACTTAAACTATGCAACTTTTCCTATTTAAGTACT-AAAGCTTTTTTTTTATCAAAGTAGGTAC
* * *
45733593 CTAAAGTTTTATTCTATTATCACTTTAGGTATAAACTATTAACTCTTGTTAAAAAAAATTTTCAA
65 CTAAAGTTTTATTCTATTATCACTTTAGGTACAAACTATTAACTCTTGTTAAAAAAAATATTAAA
* * * *
45733658 ACCAATCAAATTATGATACATGACGGTTTTAATTTGTTACCACTTTAG
130 ACCAATCAAATTATGACACATGACAGTTTTAATCTATTACCACTTTAG
* *
45733706 GTACTTAAACTATGTAACTTTTCCTATTTAAGTACCT-AA-CTTTTTTTTTATTAAAGTAGGTAC
1 GTACTTAAACTATGCAACTTTTCCTATTTAAGTA-CTAAAGCTTTTTTTTTATCAAAGTAGGTAC
* * * * * *
45733769 CTGAAA-TTTTCTTCTGTTATCACTTTAGGTACCAATTGTTAACT-TTCTTTAAAAACAAA-ATT
65 CT-AAAGTTTTATTCTATTATCACTTTAGGTACAAACTATTAACTCTT-GTTAAAAA-AAATATT
* * * *
45733831 AAAACCAATCAAATTCTGACACGTGACATTTTTAATCTATTACCATTTTAG
127 AAAACCAATCAAATTATGACACATGACAGTTTTAATCTATTACCACTTTAG
*
45733882 GTACTTAAATTATGCAACTTTT
1 GTACTTAAACTATGCAACTTTT
45733904 TCAGAGCAGG
Statistics
Matches: 169, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
175 2 0.01
176 127 0.75
177 14 0.08
178 24 0.14
179 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (177 bp):
GTACTTAAACTATGCAACTTTTCCTATTTAAGTACTAAAGCTTTTTTTTTATCAAAGTAGGTACC
TAAAGTTTTATTCTATTATCACTTTAGGTACAAACTATTAACTCTTGTTAAAAAAAATATTAAAA
CCAATCAAATTATGACACATGACAGTTTTAATCTATTACCACTTTAG
Found at i:45733929 original size:176 final size:176
Alignment explanation
Indices: 45733571--45734038 Score: 434
Period size: 176 Copynumber: 2.7 Consensus size: 176
45733561 ACTGAAAGTT
*
45733571 TTTTTTTTATCAAAGTAGGTACCTAAAGTTTTATTCTATTATCACTTTAGGTATAAACTATTAAC
1 TTTTTTTTATCAAAGTAGGTACCTAAAGTTTTATTCTATTATCACTTTAGGTACAAACTATTAAC
* * * * * *
45733636 TCTTGTTAAAAAAAATTTTCAAACCAATCAAATTATGATACATGACGGTTTTAATTTGTTACCAC
66 TCTTGTTAAAAAAAATATTAAAACCAATCAAATTATGACACATGACAGTTTTAATCTATTACCAC
* *** **
45733701 TTTAGGTACTTAAACTATGTAACTTTTCCTATTTAAGTACCTAACT
131 TTTAGGTACTTAAACTATGCAACTTTTCCTAAGCAAGTACCTAAAG
* * * * * *
45733747 TTTTTTTTATTAAAGTAGGTACCTGAAA-TTTTCTTCTGTTATCACTTTAGGTACCAATTGTTAA
1 TTTTTTTTATCAAAGTAGGTACCT-AAAGTTTTATTCTATTATCACTTTAGGTACAAACTATTAA
* * * *
45733811 CT-TTCTTTAAAAACAAA-ATTAAAACCAATCAAATTCTGACACGTGACATTTTTAATCTATTAC
65 CTCTT-GTTAAAAA-AAATATTAAAACCAATCAAATTATGACACATGACAGTTTTAATCTATTAC
* * * * *
45733874 CATTTTAGGTACTTAAATTATGCAACTTTTTC-AGAGCAGGTGCCTAAAG
128 CACTTTAGGTACTTAAACTATGCAACTTTTCCTA-AGCAAGTACCTAAAG
* * * * * ** *
45733923 -TTTTTTT-TCAGAGCAGGTGCCTAAAGTTTTATT-TAGTTACCATTTTAGGTATC-AACCGTCA
1 TTTTTTTTATCAAAGTAGGTACCTAAAGTTTTATTCTA-TTATCACTTTAGGTA-CAAACTATTA
* * * *
45733984 ACTCTTGGTAAACAAAGA-ATTCAAACCAAAT-AAATTATGACACATGACATTTTTA
64 ACTCTTGTTAAA-AAAAATATTAAAACC-AATCAAATTATGACACATGACAGTTTTA
45734039 CTTAAAAATT
Statistics
Matches: 237, Mismatches: 45, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
173 4 0.02
174 74 0.31
175 18 0.08
176 135 0.57
177 6 0.03
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (176 bp):
TTTTTTTTATCAAAGTAGGTACCTAAAGTTTTATTCTATTATCACTTTAGGTACAAACTATTAAC
TCTTGTTAAAAAAAATATTAAAACCAATCAAATTATGACACATGACAGTTTTAATCTATTACCAC
TTTAGGTACTTAAACTATGCAACTTTTCCTAAGCAAGTACCTAAAG
Found at i:45733933 original size:26 final size:26
Alignment explanation
Indices: 45733900--45733952 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
45733890 ATTATGCAAC
45733900 TTTTTCAGAGCAGGTGCCTAAAGTTT
1 TTTTTCAGAGCAGGTGCCTAAAGTTT
45733926 TTTTTCAGAGCAGGTGCCTAAAGTTT
1 TTTTTCAGAGCAGGTGCCTAAAGTTT
45733952 T
1 T
45733953 ATTTAGTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (26 bp):
TTTTTCAGAGCAGGTGCCTAAAGTTT
Found at i:45750279 original size:30 final size:31
Alignment explanation
Indices: 45750229--45750286 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
45750219 CGGAAGCTTA
*
45750229 ATTTAAAACAATTGATTTGCGAAAACGTGAT
1 ATTTAAAACAATTGAGTTGCGAAAACGTGAT
* *
45750260 ATTTTAAA-AATTGAGTTGCGGAAACGT
1 ATTTAAAACAATTGAGTTGCGAAAACGT
45750287 AGTGTTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (31 bp):
ATTTAAAACAATTGAGTTGCGAAAACGTGAT
Found at i:45751185 original size:27 final size:27
Alignment explanation
Indices: 45751155--45751485 Score: 337
Period size: 27 Copynumber: 12.3 Consensus size: 27
45751145 TATAACAGTC
* *
45751155 ATTTTAACCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * * *
45751182 ATTTTACCCTTCAAGGGTATTTAGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
45751209 ATTTTACCCTTCGAGGGTATTTCAATC
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
45751236 ATTTTACGCTTCGAGGGTATTTC-AGTT
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
*
45751263 ATTTTACCCTTCAAGGGTATTTC-AGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
* * *
45751290 ATTTTACCCTTTGAGGATATTTTGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
45751317 ATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
45751344 ATTTTACCTTTCGAGGGTATTTTCG-TC
1 ATTTTACCCTTCGAGGGTA-TTTCGATA
* * *
45751371 ATTTTACCCTTCAAAGGTATTTC-AGCA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
* *
45751398 ATTTTACCCTTCGAGGGTATTTTGATC
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * * *
45751425 ATTTTATCCTTCGAAGATATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
45751452 ATTTTACCCTTCAAGGGTATTTCGGTC
1 ATTTTACCCTTCGAGGGTATTTCGATA
45751479 ATTTTAC
1 ATTTTAC
45751486 AACCTTTCTG
Statistics
Matches: 252, Mismatches: 46, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.02
27 240 0.95
28 7 0.03
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:45751225 original size:54 final size:54
Alignment explanation
Indices: 45751152--45751485 Score: 384
Period size: 54 Copynumber: 6.2 Consensus size: 54
45751142 AGGTATAACA
* * * *
45751152 GTCATTTTAACCTTTGAGGGTATTTCGATAATTTTACCCTTCAAGGGTATTTAG
1 GTCATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTTG
* * * **
45751206 GTCATTTTACCCTTCGAGGGTATTTCAATCATTTTACGCTTCGAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTTG
* * * *
45751260 GTTATTTTACCCTTCAAGGGTATTTC-AGTAATTTTACCCTTTGAGGATATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCGA-TAATTTTACCCTTCGAGGGTATTTTG
* * * * *
45751314 ATAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCTTTCGAGGGTATTTTC
1 GTCATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTTG
* * *
45751368 GTCATTTTACCCTTCAAAGGTATTTC-AGCAATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCGA-TAATTTTACCCTTCGAGGGTATTTTG
* * * * * * *
45751422 ATCATTTTATCCTTCGAAGATATTTCGGTAATTTTACCCTTCAAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTTG
45751476 GTCATTTTAC
1 GTCATTTTAC
45751486 AACCTTTCTG
Statistics
Matches: 234, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
53 1 0.00
54 233 1.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTTG
Found at i:45752414 original size:25 final size:25
Alignment explanation
Indices: 45752377--45752430 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
45752367 TGAACCTCTG
*
45752377 ACCTCTTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTGTGACGCC
* *
45752402 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACGCC
45752427 ACCT
1 ACCT
45752431 TGCCACTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.46, G:0.13, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACGCC
Found at i:45752434 original size:22 final size:23
Alignment explanation
Indices: 45752386--45752436 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 23
45752376 GACCTCTTTA
45752386 CCACACCTGTGACGCCACCTCCTTG
1 CCACACCTGTGACGCCA-C-CCTTG
*
45752411 CCACACCTGTGTCGCCA-CCTTG
1 CCACACCTGTGACGCCACCCTTG
45752433 CCAC
1 CCAC
45752437 TACACCATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 9 0.36
25 16 0.64
ACGTcount: A:0.16, C:0.49, G:0.16, T:0.20
Consensus pattern (23 bp):
CCACACCTGTGACGCCACCCTTG
Found at i:45753041 original size:29 final size:29
Alignment explanation
Indices: 45752999--45753056 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
45752989 AGGCGACTGT
* *
45752999 TGAGCATGTAGGTATGTTGTTCATTTTTA
1 TGAGCACGCAGGTATGTTGTTCATTTTTA
45753028 TGAGCACGCAGGTATGTTGTTCATTTTTA
1 TGAGCACGCAGGTATGTTGTTCATTTTTA
45753057 GGTCATGGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.45
Consensus pattern (29 bp):
TGAGCACGCAGGTATGTTGTTCATTTTTA
Found at i:45753091 original size:20 final size:20
Alignment explanation
Indices: 45753058--45753095 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
45753048 TCATTTTTAG
*
45753058 GTCATGGACTCAATTGTTAA
1 GTCATGGACCCAATTGTTAA
*
45753078 GTCATTGACCCAATTGTT
1 GTCATGGACCCAATTGTT
45753096 TATGAGCACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (20 bp):
GTCATGGACCCAATTGTTAA
Found at i:45761938 original size:17 final size:18
Alignment explanation
Indices: 45761916--45761958 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
45761906 TAGAGTTATA
*
45761916 AAAAGAGGAGAAG-AGAG
1 AAAAGAGAAGAAGAAGAG
45761933 AAAAGA-AAGAAGAAGAG
1 AAAAGAGAAGAAGAAGAG
45761950 ATAAAGAGA
1 A-AAAGAGA
45761959 GAGGAAAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 11 0.50
18 5 0.23
19 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (18 bp):
AAAAGAGAAGAAGAAGAG
Found at i:45766933 original size:90 final size:90
Alignment explanation
Indices: 45766831--45767038 Score: 416
Period size: 90 Copynumber: 2.3 Consensus size: 90
45766821 ATAAAGAATG
45766831 ATAATATATAGGATCTTATATTTCTTTATCTTCGTTCTCAAGATGGTTCTTAAGTTGTTAATAGG
1 ATAATATATAGGATCTTATATTTCTTTATCTTCGTTCTCAAGATGGTTCTTAAGTTGTTAATAGG
45766896 TTTCATTTGCGCACTTCTGATAATA
66 TTTCATTTGCGCACTTCTGATAATA
45766921 ATAATATATAGGATCTTATATTTCTTTATCTTCGTTCTCAAGATGGTTCTTAAGTTGTTAATAGG
1 ATAATATATAGGATCTTATATTTCTTTATCTTCGTTCTCAAGATGGTTCTTAAGTTGTTAATAGG
45766986 TTTCATTTGCGCACTTCTGATAATA
66 TTTCATTTGCGCACTTCTGATAATA
45767011 ATAATATATAGGATCTTATATTTCTTTA
1 ATAATATATAGGATCTTATATTTCTTTA
45767039 GTTATTGTCG
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 118 1.00
ACGTcount: A:0.28, C:0.12, G:0.13, T:0.46
Consensus pattern (90 bp):
ATAATATATAGGATCTTATATTTCTTTATCTTCGTTCTCAAGATGGTTCTTAAGTTGTTAATAGG
TTTCATTTGCGCACTTCTGATAATA
Found at i:45772726 original size:139 final size:144
Alignment explanation
Indices: 45772478--45772749 Score: 412
Period size: 139 Copynumber: 1.9 Consensus size: 144
45772468 AGGTTCATTG
45772478 TACATGCAAAATAAAAACAAATAAATTTCCTAATTCTTAATTTCTAAAAAAAAAATTAATATTTC
1 TACATGCAAAATAAAAACAAATAAA-TTCCTAATTCTTAATTTCTAAAAAAAAAATTAATATTTC
*
45772543 ATGTCACGTGTCAACATTATAGGATGTCAGCTTAAAATCTCATGGTATTAGTC-AGATACCAATA
65 ATATCACGTGTCAACATTATAGGATGTCAGCTTAAAATCTCATGGTATTAGTCAAG-TACCAATA
45772607 AAAACCAAGTTCACTA
129 AAAACCAAGTTCACTA
* *
45772623 TACATGCAAAAT-AAAA-AAA-AAA-TCCTAATTCTTAATTT-TCAAAAAGAAATTAATATTTCA
1 TACATGCAAAATAAAAACAAATAAATTCCTAATTCTTAATTTCTAAAAAAAAAATTAATATTTCA
* * * * *
45772683 TATCTCGTGTTAACATTATATGATGTCAGCTTAAAATCTCATGGTGTTAGTTAAGTACCAATAAA
66 TATCACGTGTCAACATTATAGGATGTCAGCTTAAAATCTCATGGTATTAGTCAAGTACCAATAAA
45772748 AA
131 AA
45772750 GTACCAACTT
Statistics
Matches: 118, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
139 78 0.66
140 18 0.15
142 3 0.03
143 3 0.03
144 4 0.03
145 12 0.10
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (144 bp):
TACATGCAAAATAAAAACAAATAAATTCCTAATTCTTAATTTCTAAAAAAAAAATTAATATTTCA
TATCACGTGTCAACATTATAGGATGTCAGCTTAAAATCTCATGGTATTAGTCAAGTACCAATAAA
AACCAAGTTCACTA
Found at i:45776097 original size:14 final size:14
Alignment explanation
Indices: 45776078--45776109 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
45776068 ATTGGTTATA
45776078 TATATATATTCTAG
1 TATATATATTCTAG
45776092 TATATATATTCTAG
1 TATATATATTCTAG
45776106 TATA
1 TATA
45776110 GTTTTGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (14 bp):
TATATATATTCTAG
Found at i:45779983 original size:23 final size:23
Alignment explanation
Indices: 45779957--45780020 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 23
45779947 TGTACGGGCT
45779957 AATTAGATTAGTTTG-TTGAGTTG
1 AATTAGATTA-TTTGTTTGAGTTG
*
45779980 AATTAGTTTATTTGTTTGAGTTG
1 AATTAGATTATTTGTTTGAGTTG
45780003 AATTA-AGTTATTTAGTTT
1 AATTAGA-TTATTT-GTTT
45780021 AGTGCTTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 4 0.11
23 28 0.78
24 4 0.11
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (23 bp):
AATTAGATTATTTGTTTGAGTTG
Found at i:45784036 original size:21 final size:21
Alignment explanation
Indices: 45784002--45784052 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
45783992 CGTTGTTTCT
** *
45784002 AATCTCACTGCTACAGCACCC
1 AATCTCACCACTACAGCAACC
* *
45784023 AATCTCACCACTACAGTAACT
1 AATCTCACCACTACAGCAACC
45784044 AATCTCACC
1 AATCTCACC
45784053 GCCACCGCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.39, G:0.06, T:0.22
Consensus pattern (21 bp):
AATCTCACCACTACAGCAACC
Found at i:45785104 original size:28 final size:28
Alignment explanation
Indices: 45785062--45785119 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
45785052 ATAAATATTA
* *
45785062 AAAATTAAAATTTGAAGATTGGAGATTG
1 AAAATTAAAATTTGAAAAATGGAGATTG
*
45785090 AAAATATAAAA-TTGAAAAATGGGGATTG
1 AAAAT-TAAAATTTGAAAAATGGAGATTG
45785118 AA
1 AA
45785120 GATTGAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.28
Consensus pattern (28 bp):
AAAATTAAAATTTGAAAAATGGAGATTG
Found at i:45789486 original size:43 final size:42
Alignment explanation
Indices: 45789438--45789636 Score: 202
Period size: 43 Copynumber: 4.6 Consensus size: 42
45789428 AAAAAAACAT
* *
45789438 CGCTAAAGACCATAACCTTTAGTTGCGCTTTCCCGACAAATGC
1 CGCTAAAGACCATGACCTTTAGTGGCGCTTT-CCGACAAATGC
*
45789481 CGCTAAAGACCATGACCTTTAGTGGCGCTTATCTGACAAATGC
1 CGCTAAAGACCATGACCTTTAGTGGCGCTT-TCCGACAAATGC
* ** *
45789524 CGCTAAAGACCATGACCTTTAGCGGCGCTTTTCAAACAAACGC
1 CGCTAAAGACCATGACCTTTAGTGGCGC-TTTCCGACAAATGC
** * * ** * * *
45789567 TACTAAACACCCTGGTCTTTAGCGGCGCTTTTCCCACAAACGC
1 CGCTAAAGACCATGACCTTTAGTGGCGC-TTTCCGACAAATGC
45789610 CGC-ATAAGACCATGACCTTTAGTGGCG
1 CGCTA-AAGACCATGACCTTTAGTGGCG
45789637 TTTTTTTTAA
Statistics
Matches: 131, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 127 0.97
44 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (42 bp):
CGCTAAAGACCATGACCTTTAGTGGCGCTTTCCGACAAATGC
Found at i:45790007 original size:21 final size:21
Alignment explanation
Indices: 45789978--45790023 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
45789968 TTCTACGCTG
*
45789978 CTCTGCTTCCCTCACTGCAGC
1 CTCTACTTCCCTCACTGCAGC
*
45789999 CTCTACTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCACTGCAGC
45790020 CTCT
1 CTCT
45790024 GCTTTAAGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.48, G:0.13, T:0.30
Consensus pattern (21 bp):
CTCTACTTCCCTCACTGCAGC
Found at i:45790115 original size:66 final size:66
Alignment explanation
Indices: 45790004--45790165 Score: 200
Period size: 66 Copynumber: 2.5 Consensus size: 66
45789994 GCAGCCTCTA
* * * * *
45790004 CTTCCCTCGCTGCAGCCTCTGCTTTAAGCTACAGTTGGAGTTCTTCATA-CTTTCGTTGAACCTC
1 CTTCTCTCGCTGCTGCCTCTGCTTTAAGTTACAGCTAGAGTTCTTCATATCTTT-GTTGAACCTC
45790068 AG
65 AG
* ** *
45790070 CTTCTCTCGCTGCTGCATCTGCTTTAAGTTTTAGCTAGAGTTCTTCATATCTTTTTTGAACCTCA
1 CTTCTCTCGCTGCTGCCTCTGCTTTAAGTTACAGCTAGAGTTCTTCATATCTTTGTTGAACCTCA
45790135 G
66 G
** *
45790136 CTTCTCTCAATGCTGCCTCCGCTTTAAGTT
1 CTTCTCTCGCTGCTGCCTCTGCTTTAAGTT
45790166 GTGTAATTTG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 78 0.95
67 4 0.05
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.40
Consensus pattern (66 bp):
CTTCTCTCGCTGCTGCCTCTGCTTTAAGTTACAGCTAGAGTTCTTCATATCTTTGTTGAACCTCA
G
Found at i:45795579 original size:25 final size:24
Alignment explanation
Indices: 45795523--45795632 Score: 90
Period size: 25 Copynumber: 4.8 Consensus size: 24
45795513 GGAAATTTAT
* *
45795523 GTATTATATAAGTTATGTAAGTTA
1 GTATTATGTAAGCTATGTAAGTTA
45795547 CGTATTATGTAAGCTATGTAAGTT-
1 -GTATTATGTAAGCTATGTAAGTTA
* * *
45795571 GTATT-T-TATGTTA-GTTA-TT-
1 GTATTATGTAAGCTATGTAAGTTA
*
45795590 -TATTATGTAAGCTATGTAAGTTGT
1 GTATTATGTAAGCTATGTAAGTT-A
*
45795614 GTATCATGTAAGCTATGTA
1 GTATTATGTAAGCTATGTA
45795633 TTATGTTAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
18 4 0.06
19 3 0.04
20 8 0.12
21 8 0.12
22 3 0.04
23 5 0.07
25 38 0.55
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (24 bp):
GTATTATGTAAGCTATGTAAGTTA
Found at i:45795580 original size:41 final size:41
Alignment explanation
Indices: 45795535--45795673 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
45795525 ATTATATAAG
* *
45795535 TTATGTAAGTTACGTATTATGTAAGCTATGTAAGTTGTATT
1 TTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTATA
* * *
45795576 TTATGTTAGTTATTTATTATGTAAGCTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTATA
* * * * * * *
45795617 TCATGTAAGCTATGTATTATGTTAGTTATGTCAGTTATGTA
1 TTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTATA
* *
45795658 TTATGTATGTCATGTA
1 TTATGTAAGTTATGTA
45795674 AGTTGTGTAG
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.48
Consensus pattern (41 bp):
TTATGTAAGTTATGTATTATGTAAGCTATGTAAGTTGTATA
Found at i:45795624 original size:16 final size:17
Alignment explanation
Indices: 45795603--45795713 Score: 70
Period size: 16 Copynumber: 6.6 Consensus size: 17
45795593 TATGTAAGCT
*
45795603 ATGTAAGTTGTGTA-TC
1 ATGTAAGTTATGTAGTC
* *
45795619 ATGTAAGCTATGTA-TT
1 ATGTAAGTTATGTAGTC
* *
45795635 ATGTTAGTTATGTCAGTT
1 ATGTAAGTTATGT-AGTC
45795653 ATGT-A-TTATGTATGTC
1 ATGTAAGTTATGTA-GTC
* *
45795669 ATGTAAGTTGTGTAG-A
1 ATGTAAGTTATGTAGTC
* *
45795685 ATGTAAGCTATGTAAGTT
1 ATGTAAGTTATGT-AGTC
*
45795703 ATGTGAGTTAT
1 ATGTAAGTTAT
45795714 ATATAAGTTA
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
15 1 0.01
16 47 0.63
17 6 0.08
18 21 0.28
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (17 bp):
ATGTAAGTTATGTAGTC
Found at i:45795630 original size:66 final size:65
Alignment explanation
Indices: 45795519--45795702 Score: 210
Period size: 66 Copynumber: 2.8 Consensus size: 65
45795509 GCCTGGAAAT
* ** * * *
45795519 TTATGTATTATATAAGTTATGTAAGTTACGTATTATGTAAGCTATGTAAGTTG-TATTTTATGTT
1 TTATGTATTATGTAAG-TATGTAAGTTGTGTATAATGTAAGCTATGTAAGTTGTTA-GTTATGTC
45795583 AG
64 AG
* * *
45795585 TTATTTATTATGTAAGCTATGTAAGTTGTGTATCATGTAAGCTATGT-ATTATGTTAGTTATGTC
1 TTATGTATTATGTAAG-TATGTAAGTTGTGTATAATGTAAGCTATGTAAGT-TGTTAGTTATGTC
45795649 AG
64 AG
* *
45795651 TTATGTATTATGTATGTCATGTAAGTTGTGTAGAATGTAAGCTATGTAAGTT
1 TTATGTATTATGTAAGT-ATGTAAGTTGTGTATAATGTAAGCTATGTAAGTT
45795703 ATGTGAGTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
65 3 0.03
66 93 0.93
67 4 0.04
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (65 bp):
TTATGTATTATGTAAGTATGTAAGTTGTGTATAATGTAAGCTATGTAAGTTGTTAGTTATGTCAG
Found at i:45795672 original size:25 final size:25
Alignment explanation
Indices: 45795617--45795706 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
45795607 AAGTTGTGTA
*
45795617 TCATGTAAGCTATGTATTATGTTAG
1 TCATGTAAGTTATGTATTATGTTAG
* *
45795642 TTATGTCAGTTATGTATTATG-TATG
1 TCATGTAAGTTATGTATTATGTTA-G
* ** *
45795667 TCATGTAAGTTGTGTAGAATGTAAG
1 TCATGTAAGTTATGTATTATGTTAG
45795692 -CTATGTAAGTTATGT
1 TC-ATGTAAGTTATGT
45795707 GAGTTATATA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
24 3 0.06
25 48 0.92
26 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (25 bp):
TCATGTAAGTTATGTATTATGTTAG
Found at i:45795793 original size:25 final size:25
Alignment explanation
Indices: 45795733--45795822 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
45795723 ATCTTAATAA
* *
45795733 TTATATAAGCTATGTATTATGT-TAG
1 TTATGTAAGTTATGTATTATGTAT-G
**
45795758 TTATGCCAGTTATGTATTATGTATG
1 TTATGTAAGTTATGTATTATGTATG
* ** **
45795783 TTATGTAAGTTGTGTAGAATGTAAC
1 TTATGTAAGTTATGTATTATGTATG
*
45795808 CTATGTAAGTTATGT
1 TTATGTAAGTTATGT
45795823 TAGAAATTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 50 0.98
26 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTATG
Found at i:45795859 original size:20 final size:20
Alignment explanation
Indices: 45795831--45795941 Score: 115
Period size: 20 Copynumber: 5.8 Consensus size: 20
45795821 GTTAGAAATT
*
45795831 TTATATTAATATTATATAAG
1 TTATCTTAATATTATATAAG
45795851 TTATCTTAATAATTATATAAG
1 TTATCTTAAT-ATTATATAAG
* *
45795872 TTAT-GTAA-A-TAGA-AA-
1 TTATCTTAATATTATATAAG
* *
45795887 TTGTCTTAATACTATATAAG
1 TTATCTTAATATTATATAAG
*
45795907 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
45795927 TTATCTTAATTTTAT
1 TTATCTTAATATTAT
45795942 GTAATTAGAA
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
15 3 0.04
16 5 0.07
17 4 0.05
18 4 0.05
19 2 0.03
20 42 0.57
21 14 0.19
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:45795955 original size:66 final size:66
Alignment explanation
Indices: 45795909--45796995 Score: 1982
Period size: 66 Copynumber: 16.3 Consensus size: 66
45795899 TATATAAGTA
45795909 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45795974 T
66 T
45795975 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796040 T
66 T
45796041 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796106 T
66 T
45796107 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796172 T
66 T
45796173 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796238 T
66 T
45796239 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796304 T
66 T
45796305 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796370 T
66 T
45796371 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796436 T
66 T
45796437 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796502 T
66 T
45796503 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796568 T
66 T
45796569 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796634 T
66 T
45796635 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796700 T
66 T
* * * *
45796701 ATCTTAATATTATATAAGTTATCTTAATAATTATATAAGTTATGTAAATAGAAAT-TGT-CTTA-
1 ATCTTAATATTATATAAGTTATCTTAAT-TTTATGTAA-TTA-G-AAATTG--ATGTGTGGTTAG
*
45796763 ATACTATATAAGTA
60 A-A--AT-T---TT
45796777 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796842 T
66 T
45796843 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796908 T
66 T
45796909 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
45796974 T
66 T
*
45796975 ATCTTAATATTATAAAAGTTA
1 ATCTTAATATTATATAAGTTA
45796996 AAAAAGTGTC
Statistics
Matches: 994, Mismatches: 11, Indels: 32
0.96 0.01 0.03
Matches are distributed among these distances:
66 907 0.91
67 7 0.01
68 3 0.00
69 3 0.00
70 13 0.01
71 6 0.01
72 13 0.01
73 3 0.00
74 3 0.00
75 7 0.01
76 29 0.03
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (66 bp):
ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
T
Found at i:45796724 original size:20 final size:20
Alignment explanation
Indices: 45796699--45796809 Score: 124
Period size: 20 Copynumber: 5.8 Consensus size: 20
45796689 GTTAGAAATT
45796699 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
45796719 TTATCTTAATAATTATATAAG
1 TTATCTTAAT-ATTATATAAG
* *
45796740 TTAT-GTAA-A-TAGA-AA-
1 TTATCTTAATATTATATAAG
* *
45796755 TTGTCTTAATACTATATAAG
1 TTATCTTAATATTATATAAG
*
45796775 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
45796795 TTATCTTAATTTTAT
1 TTATCTTAATATTAT
45796810 GTAATTAGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
15 3 0.04
16 5 0.07
17 4 0.05
18 4 0.05
19 2 0.03
20 43 0.57
21 14 0.19
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:45797316 original size:15 final size:15
Alignment explanation
Indices: 45797296--45797329 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
45797286 TAATTACGTA
45797296 AATTAAATAACTTTG
1 AATTAAATAACTTTG
45797311 AATTAAATAACTTTG
1 AATTAAATAACTTTG
45797326 AATT
1 AATT
45797330 CCGTCGTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (15 bp):
AATTAAATAACTTTG
Found at i:45805349 original size:15 final size:16
Alignment explanation
Indices: 45805319--45805354 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
45805309 ATTTTTTTAA
*
45805319 ATATTAATTTATATTT
1 ATATTAATTTACATTT
45805335 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
45805350 ATATT
1 ATATT
45805355 CTAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:45805453 original size:16 final size:16
Alignment explanation
Indices: 45805432--45805464 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45805422 ATAAAATACA
45805432 ATTAATTGTATCTTTT
1 ATTAATTGTATCTTTT
45805448 ATTAATTGTATCTTTT
1 ATTAATTGTATCTTTT
45805464 A
1 A
45805465 ATTACTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
ATTAATTGTATCTTTT
Found at i:45806178 original size:41 final size:41
Alignment explanation
Indices: 45806121--45806355 Score: 276
Period size: 41 Copynumber: 5.6 Consensus size: 41
45806111 TTTGCAGTGT
* * *
45806121 TTCTTTAAAAACGCCGCTAAAGGCCCCAGCATTAACAGCGA
1 TTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGA
*
45806162 TTCTTTAAAAACGCCGCTAACA-GCCCGAGCATTAGCGGCGC
1 TTCTTTAAAAACGCCGCTAA-AGGCCCGAGCATTAGCGGCGA
* * * *
45806203 TTCGTCAAAAACACCGCTAAAGGCCCGAGCATTAGCGGCGT
1 TTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGA
* * *
45806244 TTCTATAAAAACGAACACTGCTAAAGGACCAAGCATTAGCGGCGCA
1 TTCTTTAAAAACG--C-C-GCTAAAGGCCCGAGCATTAGCGGCG-A
* * *
45806290 TT-TTCAAAAACGCCGCTAAATGCCCGAGCATTAGCGGCGC
1 TTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGA
45806330 TTCTTTAAAAACGCCGCTAAAGGCCC
1 TTCTTTAAAAACGCCGCTAAAGGCCC
45806356 CAAAAACTCA
Statistics
Matches: 163, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
40 3 0.02
41 122 0.75
42 2 0.01
43 2 0.01
44 1 0.01
45 31 0.19
46 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.19
Consensus pattern (41 bp):
TTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGA
Found at i:45806306 original size:86 final size:82
Alignment explanation
Indices: 45806127--45806349 Score: 279
Period size: 86 Copynumber: 2.7 Consensus size: 82
45806117 GTGTTTCTTT
* * * * *
45806127 AAAAACGCCGCTAAAGGCCCCAGCATTAACAGCGATTCTTTAAAAACGCCGCTAACAGCCCGAGC
1 AAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGATTCTTTAAAAACGCCGCTAACAGACCAAGC
45806192 ATTAGCGGCGCTTCGTC
66 ATTAGCGGCGCTTCGTC
* * *
45806209 AAAAACACCGCTAAAGGCCCGAGCATTAGCGGCGTTTCTATAAAAACGAACACTGCTAA-AGGAC
1 AAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGATTCTTTAAAAACG--C-C-GCTAACA-GAC
*
45806273 CAAGCATTAGCGGCGCATT-TTC
61 CAAGCATTAGCGGCGC-TTCGTC
* *
45806295 AAAAACGCCGCTAAATGCCCGAGCATTAGCGGCGCTTCTTTAAAAACGCCGCTAA
1 AAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGATTCTTTAAAAACGCCGCTAA
45806350 AGGCCCCAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
82 47 0.39
83 1 0.01
84 2 0.02
85 2 0.02
86 68 0.56
87 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.18
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGATTCTTTAAAAACGCCGCTAACAGACCAAGC
ATTAGCGGCGCTTCGTC
Found at i:45806440 original size:39 final size:39
Alignment explanation
Indices: 45806391--45806465 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
45806381 GGGTTTAGGC
*
45806391 TTTTTGCGGCGCTTTCCAAAAAACGCCGCTAATGCTTAA
1 TTTTAGCGGCGCTTTCCAAAAAACGCCGCTAATGCTTAA
* * * * *
45806430 TTTTAGCGGCGTTTTTCAACAATCGCCGTTAATGCT
1 TTTTAGCGGCGCTTTCCAAAAAACGCCGCTAATGCT
45806466 CGACCTTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (39 bp):
TTTTAGCGGCGCTTTCCAAAAAACGCCGCTAATGCTTAA
Found at i:45813152 original size:15 final size:16
Alignment explanation
Indices: 45813125--45813154 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45813115 GATAACAATT
45813125 AATATATATTATATAA
1 AATATATATTATATAA
45813141 AATATA-ATTATATA
1 AATATATATTATATA
45813155 TTAGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:45819485 original size:40 final size:40
Alignment explanation
Indices: 45819436--45819584 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 40
45819426 CGGAATTTAA
** *
45819436 CCGGATATAGCT-ACTCGTTCAAATGCCTTCCGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCCGGACATAAC
* * *
45819476 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCCGGACATAAC
* * * * *
45819516 CCGGATTTAGTAACTCGCACCAATGCCTT-CGGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCCGGACATAAC
*
45819555 CCGGA-ATTAGTATCTCGCACAAATGCCTTC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTC
45819585 GGATCTTAGT
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
39 33 0.36
40 58 0.64
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCCGGACATAAC
Found at i:45819572 original size:39 final size:39
Alignment explanation
Indices: 45819455--45819639 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
45819445 GCTACTCGTT
* *
45819455 CAAATGCCTTCCGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTT-CGGGCTTAGCCCGGATT-TAGTAACTCGCA
*
45819495 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
* * *
45819535 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * * * * * *
45819574 CAAATGCCTTCGGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGTAAC-TCGCA
45819615 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
45819640 CATCATTCGA
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 37 0.31
40 73 0.61
41 10 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:45819623 original size:79 final size:80
Alignment explanation
Indices: 45819455--45819639 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
45819445 GCTACTCGTT
* * *
45819455 CAAATGCCTTCCGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
45819519 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * ** *
45819536 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
45819599 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
45819615 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
45819640 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 24 0.28
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:45820836 original size:56 final size:56
Alignment explanation
Indices: 45820769--45820888 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
45820759 TATTAGTTTA
45820769 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
45820825 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
45820881 TTGCCCAT
1 TTGCCCAT
45820889 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:45821529 original size:16 final size:16
Alignment explanation
Indices: 45821508--45821540 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45821498 TAAGTTTTCT
45821508 AAATTTATTTGTATTA
1 AAATTTATTTGTATTA
45821524 AAATTTATTTGTATTA
1 AAATTTATTTGTATTA
45821540 A
1 A
45821541 TTTTATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
AAATTTATTTGTATTA
Found at i:45821703 original size:95 final size:99
Alignment explanation
Indices: 45821600--45821793 Score: 315
Period size: 101 Copynumber: 2.0 Consensus size: 99
45821590 ACAAAACTTA
* *
45821600 TATAATACATAACTTATATTTAAGCTTGCATAACTTACAT-AA-T-AAT-TTACATAACTTATAT
1 TATAATACATAACTTATATATAAGCTTGCATAACTTACATAAATTAAATCTTACATAACTTACAT
45821661 ATAATAACATAATAAATTACATAATACTTTATGT
66 ATAATAACATAATAAATTACATAATACTTTATGT
*
45821695 TATAATACATAACTTGTATATAAGCTTGCATAACTTACATAAATTAAATACCTTACATAACTTAC
1 TATAATACATAACTTATATATAAGCTTGCATAACTTACATAAATTAAAT--CTTACATAACTTAC
45821760 ATATAATAACATAATAAATTACATAATACTTTAT
64 ATATAATAACATAATAAATTACATAATACTTTAT
45821794 ATAATAACAT
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
95 38 0.42
96 2 0.02
97 1 0.01
98 3 0.03
101 46 0.51
ACGTcount: A:0.46, C:0.13, G:0.03, T:0.38
Consensus pattern (99 bp):
TATAATACATAACTTATATATAAGCTTGCATAACTTACATAAATTAAATCTTACATAACTTACAT
ATAATAACATAATAAATTACATAATACTTTATGT
Found at i:45821760 original size:9 final size:9
Alignment explanation
Indices: 45821700--45821762 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
45821690 TATGTTATAA
45821700 TACATAACTT
1 TACATAAC-T
*
45821710 GTATATAAGCT
1 -TACATAA-CT
*
45821721 TGCATAACT
1 TACATAACT
*
45821730 TACATAAAT
1 TACATAACT
* *
45821739 TAAATACCT
1 TACATAACT
45821748 TACATAACT
1 TACATAACT
45821757 TACATA
1 TACATA
45821763 TAATAACATA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
9 28 0.68
10 5 0.12
11 7 0.17
12 1 0.02
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:45821796 original size:32 final size:29
Alignment explanation
Indices: 45821760--45821837 Score: 104
Period size: 32 Copynumber: 2.6 Consensus size: 29
45821750 CATAACTTAC
45821760 ATATAATAACATAATAAATTACA-TAATACTTT
1 ATATAATAACATAATAAATTA-AGT-A-AC-TT
*
45821792 ATATAATAACATAATAACTTAAGTAACTT
1 ATATAATAACATAATAAATTAAGTAACTT
45821821 ATATAATAACATAATAA
1 ATATAATAACATAATAA
45821838 CTAACATACA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
29 19 0.43
30 2 0.05
31 2 0.05
32 21 0.48
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.35
Consensus pattern (29 bp):
ATATAATAACATAATAAATTAAGTAACTT
Found at i:45821822 original size:29 final size:32
Alignment explanation
Indices: 45821760--45821845 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 32
45821750 CATAACTTAC
*
45821760 ATATAATAACATAATAAATTACATAATACTTT
1 ATATAATAACATAATAACTTACATAATACTTT
45821792 ATATAATAACATAATAACTTA-AGT-A-AC-TT
1 ATATAATAACATAATAACTTACA-TAATACTTT
*
45821821 ATATAATAACATAATAACTAACATA
1 ATATAATAACATAATAACTTACATA
45821846 CAATATATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
29 23 0.47
30 3 0.06
31 2 0.04
32 21 0.43
ACGTcount: A:0.55, C:0.10, G:0.01, T:0.34
Consensus pattern (32 bp):
ATATAATAACATAATAACTTACATAATACTTT
Found at i:45821842 original size:24 final size:25
Alignment explanation
Indices: 45821749--45821842 Score: 64
Period size: 29 Copynumber: 3.3 Consensus size: 25
45821739 TAAATACCTT
45821749 ACATAACTTACATATAATAACATAATAAA
1 ACATAACTT--ATATAATAACATAAT--A
45821778 TTACATAATACTTTATATAATAACATAATA
1 --ACAT-A-AC-TTATATAATAACATAATA
45821808 ACTTAAGTAACTTATATAATAACATAATA
1 AC---A-TAACTTATATAATAACATAATA
45821837 AC-TAAC
1 ACATAAC
45821843 ATACAATATA
Statistics
Matches: 56, Mismatches: 0, Indels: 21
0.73 0.00 0.27
Matches are distributed among these distances:
24 4 0.07
28 2 0.04
29 20 0.36
30 3 0.05
31 6 0.11
32 17 0.30
33 2 0.04
34 2 0.04
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (25 bp):
ACATAACTTATATAATAACATAATA
Found at i:45821852 original size:29 final size:29
Alignment explanation
Indices: 45821760--45821855 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 29
45821750 CATAACTTAC
* * *
45821760 ATATAATAACATAATAAATTACATAATACTTT
1 ATATAATAACATAATAACTAACAT-A-AC-AT
* *
45821792 ATATAATAACATAATAACTTAA-GTAACTT
1 ATATAATAACATAATAAC-TAACATAACAT
45821821 ATATAATAACATAATAACTAACAT-ACAAT
1 ATATAATAACATAATAACTAACATAAC-AT
45821850 ATATAA
1 ATATAA
45821856 ACATATATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
28 5 0.09
29 28 0.50
30 2 0.04
31 1 0.02
32 18 0.32
33 2 0.04
ACGTcount: A:0.55, C:0.10, G:0.01, T:0.33
Consensus pattern (29 bp):
ATATAATAACATAATAACTAACATAACAT
Found at i:45821895 original size:9 final size:9
Alignment explanation
Indices: 45821867--45821990 Score: 167
Period size: 9 Copynumber: 13.8 Consensus size: 9
45821857 CATATATAGA
45821867 AACTTACAT
1 AACTTACAT
* *
45821876 AAATTAAAT
1 AACTTACAT
45821885 AACTTACAT
1 AACTTACAT
45821894 AACTTACAT
1 AACTTACAT
*
45821903 AACCTACAT
1 AACTTACAT
* *
45821912 AAATTAAAT
1 AACTTACAT
45821921 AACTTACAT
1 AACTTACAT
45821930 AACTTACAT
1 AACTTACAT
* *
45821939 AAATTAAAT
1 AACTTACAT
45821948 AACTTACAT
1 AACTTACAT
45821957 AACTTACAT
1 AACTTACAT
45821966 AACTTACAT
1 AACTTACAT
* *
45821975 AAATTAAAT
1 AACTTACAT
45821984 AACTTAC
1 AACTTAC
45821991 CCGTGCAAAT
Statistics
Matches: 97, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 97 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:45827902 original size:32 final size:32
Alignment explanation
Indices: 45827859--45827919 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
45827849 GCGTTTTTGT
*
45827859 AAAAAAGCGCCGCTAAAGAACATGTTCTTAGA
1 AAAAAAACGCCGCTAAAGAACATGTTCTTAGA
45827891 AAAAAAACGCCGCTAAAGAACATGTTCTT
1 AAAAAAACGCCGCTAAAGAACATGTTCTT
45827920 TAGCGGCGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (32 bp):
AAAAAAACGCCGCTAAAGAACATGTTCTTAGA
Found at i:45827995 original size:42 final size:43
Alignment explanation
Indices: 45827892--45828006 Score: 178
Period size: 43 Copynumber: 2.7 Consensus size: 43
45827882 GTTCTTAGAA
* *
45827892 AAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTCATAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCATAG
* *
45827935 AAAAAACGTCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-AG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCATAG
*
45827977 GAAAAACGCCGCTAAAGATCATGTTCTTTA
1 AAAAAACGCCGCTAAAGATCATGTTCTTTA
45828007 ACGATGTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 29 0.44
43 37 0.56
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTCATAG
Found at i:45829044 original size:29 final size:29
Alignment explanation
Indices: 45828982--45829073 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 29
45828972 TCCGTATTTA
* *
45828982 TGGAAAGTCAAATATATGGTTATCAAATAG
1 TGGAAAGTCAAAGATATGG-TATCAAATAT
45829012 TGGAAAGTCAAAGATATGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGTATCAAATAT
* *
45829041 TGGAAAATCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATAT-GGTATC-AAATAT
45829072 TG
1 TG
45829074 ACATAAGAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
29 25 0.45
30 24 0.43
31 7 0.12
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (29 bp):
TGGAAAGTCAAAGATATGGTATCAAATAT
Found at i:45833680 original size:15 final size:15
Alignment explanation
Indices: 45833660--45833743 Score: 64
Period size: 15 Copynumber: 5.5 Consensus size: 15
45833650 TTATGGAAAG
*
45833660 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
45833675 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
45833689 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
45833705 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
* *
45833720 TCAAAGATATGGGTA
1 TCAAATATATGGATA
45833735 TCAAGATAT
1 TCAA-ATAT
45833744 TGGCATAAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
14 8 0.15
15 33 0.63
16 11 0.21
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:45833688 original size:30 final size:30
Alignment explanation
Indices: 45833652--45833738 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
45833642 ATCCGTATTT
* *
45833652 ATGGAAAGTCAAATATATGGTTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
45833682 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
45833712 TTGGAAAATCAAAGATATGGGTATCAA
1 ATGGAAAGTCAAAGATATGGGTATCAA
45833739 GATATTGGCA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:45833742 original size:14 final size:14
Alignment explanation
Indices: 45833693--45833743 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
45833683 TGGAAAGTCA
45833693 AAGATATGGGTATC
1 AAGATATGGGTATC
**
45833707 AA-ATATTGGAAAATC
1 AAGATA-TGG-GTATC
45833722 AAAGATATGGGTATC
1 -AAGATATGGGTATC
45833737 AAGATAT
1 AAGATAT
45833744 TGGCATAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 3 0.10
14 12 0.41
15 6 0.21
16 5 0.17
17 3 0.10
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.27
Consensus pattern (14 bp):
AAGATATGGGTATC
Found at i:45835181 original size:20 final size:20
Alignment explanation
Indices: 45835158--45835204 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
45835148 GGGTTAAGAT
*
45835158 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
45835178 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
45835198 TGAGCTG
1 TGAGCTG
45835205 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:45838532 original size:20 final size:20
Alignment explanation
Indices: 45838475--45838535 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
45838465 CATTACAACA
*
45838475 AAAATTACTAAAATTT-TGAC
1 AAAATTAC-AAAATTTCTTAC
** *
45838495 AAAATTATTAAATCTCTTAC
1 AAAATTACAAAATTTCTTAC
45838515 AAAATTACAAAATTTCTTAC
1 AAAATTACAAAATTTCTTAC
45838535 A
1 A
45838536 GCTTTATTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATTACAAAATTTCTTAC
Found at i:45838627 original size:20 final size:20
Alignment explanation
Indices: 45838575--45838628 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
45838565 ACTTTGAATA
*
45838575 TCTTATAACATTATTAAACT
1 TCTTATAACATTGTTAAACT
*
45838595 TCTTATAAGATTGTT-AACTT
1 TCTTATAACATTGTTAAAC-T
*
45838615 TCTTACAACATTGT
1 TCTTATAACATTGT
45838629 AAAGCTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (20 bp):
TCTTATAACATTGTTAAACT
Found at i:45845769 original size:71 final size:72
Alignment explanation
Indices: 45845664--45845807 Score: 227
Period size: 71 Copynumber: 2.0 Consensus size: 72
45845654 TTTACTCTTT
* *
45845664 CCCACTTTCCCCCCAAAACATTTACTCCCCTCCCCTCCCAACCCCACAATCTACTCAAAATTCAC
1 CCCACTTTCCCCCCAAAACATTTACTCCCCTCCCCTCCCAACCCCACAATCTACCCAAAATCCAC
45845729 TTCCCAC
66 TTCCCAC
* * * *
45845736 CCCACTTT-CCCCCAAAACTTTTACTCCCTTCCCCTCCCAACCCCCCAATCTACCCAAAATCCAT
1 CCCACTTTCCCCCCAAAACATTTACTCCCCTCCCCTCCCAACCCCACAATCTACCCAAAATCCAC
45845800 TTCCCAC
66 TTCCCAC
45845807 C
1 C
45845808 AAAATTTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
71 58 0.88
72 8 0.12
ACGTcount: A:0.25, C:0.52, G:0.00, T:0.23
Consensus pattern (72 bp):
CCCACTTTCCCCCCAAAACATTTACTCCCCTCCCCTCCCAACCCCACAATCTACCCAAAATCCAC
TTCCCAC
Found at i:45855362 original size:20 final size:20
Alignment explanation
Indices: 45855339--45855381 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
45855329 TAAAATATTT
*
45855339 ATACCTCAA-GAAAGGTATCG
1 ATACCTCAATCAAA-GTATCG
*
45855359 ATACTTCAATCAAAGTATCG
1 ATACCTCAATCAAAGTATCG
45855379 ATA
1 ATA
45855382 TTATAGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (20 bp):
ATACCTCAATCAAAGTATCG
Found at i:45855409 original size:20 final size:20
Alignment explanation
Indices: 45855349--45855422 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
45855339 ATACCTCAAG
*
45855349 AAAGGTATCGATACTTCAAT
1 AAAGGTATCGATACTTCAGT
*
45855369 CAAA-GTATCGATA-TTATAGT
1 -AAAGGTATCGATACTT-CAGT
*
45855389 AAAGGTGTCGATACTTCAGT
1 AAAGGTATCGATACTTCAGT
*
45855409 ATAGGTATCGATAC
1 AAAGGTATCGATAC
45855423 ATGTTGAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 5 0.11
20 34 0.77
21 5 0.11
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (20 bp):
AAAGGTATCGATACTTCAGT
Found at i:45863694 original size:13 final size:15
Alignment explanation
Indices: 45863676--45863707 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
45863666 CCTTTATTTC
45863676 CTTTCCC-TCT-TCT
1 CTTTCCCGTCTCTCT
45863689 CTTTCCCGTCTCTCT
1 CTTTCCCGTCTCTCT
45863704 CTTT
1 CTTT
45863708 TTATAATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.53
Consensus pattern (15 bp):
CTTTCCCGTCTCTCT
Found at i:45866795 original size:15 final size:17
Alignment explanation
Indices: 45866758--45866796 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
45866748 GAAGTTTGAG
45866758 ATATTTTTTAATACTTT
1 ATATTTTTTAATACTTT
45866775 ATTATTTTTT-ATA-TTT
1 A-TATTTTTTAATACTTT
45866791 ATATTT
1 ATATTT
45866797 CTAAGGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 4 0.19
18 8 0.38
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTTAATACTTT
Found at i:45867478 original size:39 final size:39
Alignment explanation
Indices: 45867343--45867479 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 39
45867333 CATTTGGATA
* *
45867343 AAAAATGCCGCTAAAAATCGAGCATTAGCGGCGCTTTACG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTA-G
* * * **
45867383 TAAAACGCCACTAAAGATCGAGCATTAGCGGCGCTTCCAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG-TTTTAG
* * *
45867423 GAAAGCGCCGCGAAAAAT-GAGCATTAGCGGCGTTTTTTAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCG--TTTTAG
* *
45867463 AAAAATGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
45867480 CCTAAGCCCA
Statistics
Matches: 76, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
39 14 0.18
40 60 0.79
41 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTAG
Found at i:45871130 original size:28 final size:28
Alignment explanation
Indices: 45871098--45871237 Score: 165
Period size: 28 Copynumber: 5.0 Consensus size: 28
45871088 AACCGTGTGT
* *
45871098 CCACTACTTTTCAGATTTTACACTTTTG
1 CCACTATTTTTCAGATTTTACAGTTTTG
* * *
45871126 CCACTTTTTTTTCAAATTTTACAATTTTG
1 CCAC-TATTTTTCAGATTTTACAGTTTTG
* *
45871155 CCATTATTTTTTAGATTTTACAGTTTTG
1 CCACTATTTTTCAGATTTTACAGTTTTG
*
45871183 CCACTGGTTTTT-AGATTTTACAGTTTTG
1 CCACT-ATTTTTCAGATTTTACAGTTTTG
* *
45871211 ACACTATTTTTCAGATTTTATAGTTTT
1 CCACTATTTTTCAGATTTTACAGTTTT
45871238 ATCCTATTTT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 5 0.05
28 62 0.65
29 28 0.29
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (28 bp):
CCACTATTTTTCAGATTTTACAGTTTTG
Found at i:45876598 original size:41 final size:41
Alignment explanation
Indices: 45876520--45876666 Score: 195
Period size: 41 Copynumber: 3.5 Consensus size: 41
45876510 GAAGTAATCT
*
45876520 AGACATTACGTCTAGCAGGAGGCTTGATGCCGATGAAACATACC
1 AGACATTACGTCTAGC---AGGCTTGATGCCGGTGAAACATACC
*
45876564 AGACATTACGTCTAGTAGGCTTGATGCCGGTGAAACATACC
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
* * * *
45876605 AAACTTTACGTCTAGCAGGCTTGTTGCCGGTGAAACATATC
1 AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
* *
45876646 AGACTTTATGTCTAGCAGGCT
1 AGACATTACGTCTAGCAGGCT
45876667 AAGTGTCGGT
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
41 79 0.84
44 15 0.16
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (41 bp):
AGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACC
Found at i:45877397 original size:13 final size:13
Alignment explanation
Indices: 45877379--45877403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45877369 ATTTATATGA
45877379 TATTTATGTGTTT
1 TATTTATGTGTTT
45877392 TATTTATGTGTT
1 TATTTATGTGTT
45877404 GTTTTAGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
TATTTATGTGTTT
Found at i:45880356 original size:3 final size:3
Alignment explanation
Indices: 45880348--45880392 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
45880338 GTCATCGGGA
*
45880348 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
45880393 CACTTCTCTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:45885605 original size:18 final size:18
Alignment explanation
Indices: 45885555--45885597 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
45885545 TCGGTAAAAA
*
45885555 TGGGTCCATACGCCCGTG
1 TGGGCCCATACGCCCGTG
45885573 TGGGCCCATACGCCCGTG
1 TGGGCCCATACGCCCGTG
45885591 T-GGCCCA
1 TGGGCCCA
45885598 CTTAGCCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.12, C:0.37, G:0.33, T:0.19
Consensus pattern (18 bp):
TGGGCCCATACGCCCGTG
Found at i:45889395 original size:28 final size:28
Alignment explanation
Indices: 45889364--45889421 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
45889354 TAATCAGAAA
* *
45889364 CAGAAGCAAAGTATATCAGATACAGATT
1 CAGAAGCAAAGCATACCAGATACAGATT
* *
45889392 CAGATGCAGAGCATACCAGATACAGATT
1 CAGAAGCAAAGCATACCAGATACAGATT
45889420 CA
1 CA
45889422 AAGTCCTACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (28 bp):
CAGAAGCAAAGCATACCAGATACAGATT
Found at i:45890071 original size:54 final size:53
Alignment explanation
Indices: 45889972--45890190 Score: 183
Period size: 54 Copynumber: 4.1 Consensus size: 53
45889962 CCATGCGGCT
* * * * * **
45889972 CACATGGCCTAGAACATGACTGTGTGGCTCATGTCA-ATGCCTTACACGGTTTG
1 CACATGGCCTAGCACACGACCGTGTGACTCAAGTCAGA-GAGTTACACGGTTTG
* **
45890025 TCATATGGCCTAGCACACGACCGTGTGACTCAAGTCAGAGAGTTACACGGTCAG
1 -CACATGGCCTAGCACACGACCGTGTGACTCAAGTCAGAGAGTTACACGGTTTG
* * *
45890079 ACACATGGCCT-GACATACGCCCGTGTGACTCAAGTCAGAGAGTTACACTGTTTG
1 -CACATGGCCTAG-CACACGACCGTGTGACTCAAGTCAGAGAGTTACACGGTTTG
* * * * * * *
45890133 GACACGGCTTAGCACGC-ACCCATGTGACTCAAGACAAAGAGTTACACGGTTTG
1 CACATGGCCTAGCACACGA-CCGTGTGACTCAAGTCAGAGAGTTACACGGTTTG
45890186 ACACA
1 -CACA
45890191 CAGCCTGTCA
Statistics
Matches: 132, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
53 41 0.31
54 90 0.68
55 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.22
Consensus pattern (53 bp):
CACATGGCCTAGCACACGACCGTGTGACTCAAGTCAGAGAGTTACACGGTTTG
Found at i:45890748 original size:19 final size:20
Alignment explanation
Indices: 45890706--45890753 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
45890696 GCGGTAGGAA
45890706 ATAA-AAGAAAAAGGTAAAC
1 ATAAGAAGAAAAAGGTAAAC
45890725 A-AAGAAGAAAAA-G-AAAC
1 ATAAGAAGAAAAAGGTAAAC
45890742 GATAAGAAGAAA
1 -ATAAGAAGAAA
45890754 GATAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.15
18 4 0.15
19 18 0.69
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (20 bp):
ATAAGAAGAAAAAGGTAAAC
Found at i:45907858 original size:21 final size:20
Alignment explanation
Indices: 45907834--45907876 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
45907824 ATTTAATTAC
*
45907834 AATAAATTAAATAATATTTCA
1 AATAAACTAAATAAT-TTTCA
* *
45907855 AATAGACTAAATTATTTTCA
1 AATAAACTAAATAATTTTCA
45907875 AA
1 AA
45907877 GTTTTCTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (20 bp):
AATAAACTAAATAATTTTCA
Found at i:45909155 original size:22 final size:22
Alignment explanation
Indices: 45909125--45909167 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
45909115 ACACCAAAAC
* *
45909125 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCCCTTTTTT
45909147 AGGCCTTTAGCGGCCCTTTTT
1 AGGCCTTTAGCGGCCCTTTTT
45909168 AATTTTCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.23, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCCCTTTTTT
Found at i:45910042 original size:26 final size:27
Alignment explanation
Indices: 45909997--45910048 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
45909987 TTATTTAATC
*
45909997 AATTAATTTATTTAATTAAATAAACTA
1 AATTAATTTACTTAATTAAATAAACTA
45910024 AATTAATTT-CTTAATTAAATAAACT
1 AATTAATTTACTTAATTAAATAAACT
45910049 TCTCAACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (27 bp):
AATTAATTTACTTAATTAAATAAACTA
Found at i:45912429 original size:28 final size:27
Alignment explanation
Indices: 45912385--45912438 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
45912375 GAAGTAGGGA
* *
45912385 AGAAAAAGAGGGAAAATATAAAAAGGAG
1 AGAAAAAAAGGGAAAAT-GAAAAAGGAG
*
45912413 AGAAAAAAAGGGGAAATGAAAAAGGA
1 AGAAAAAAAGGGAAAATGAAAAAGGA
45912439 AATAGCAGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.06
Consensus pattern (27 bp):
AGAAAAAAAGGGAAAATGAAAAAGGAG
Found at i:45914484 original size:18 final size:19
Alignment explanation
Indices: 45914461--45914499 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
45914451 TTGCTCTCCC
* *
45914461 ATTCTCTTTGTTTT-TTTT
1 ATTCTCTATCTTTTATTTT
45914479 ATTCTCTATCTTTTATTTT
1 ATTCTCTATCTTTTATTTT
45914498 AT
1 AT
45914500 AACACGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.72
Consensus pattern (19 bp):
ATTCTCTATCTTTTATTTT
Found at i:45914888 original size:6 final size:6
Alignment explanation
Indices: 45914877--45914909 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
45914867 ATTTGGGGGA
45914877 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
45914910 CTTTGTTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:45915729 original size:18 final size:18
Alignment explanation
Indices: 45915706--45915742 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45915696 TCATCATTAT
45915706 TATTAGTATTAT-TATTTA
1 TATTAGT-TTATATATTTA
45915724 TATTAGTTTATATATTTA
1 TATTAGTTTATATATTTA
45915742 T
1 T
45915743 CTACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTTTATATATTTA
Found at i:45920754 original size:26 final size:27
Alignment explanation
Indices: 45920704--45920754 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
45920694 ATTCAATAAA
*
45920704 AAAATTCAAAATCAAAAAATCAAAATC
1 AAAATTCAAAATCAAAAAATAAAAATC
*
45920731 AAAA-TCAAAATCAAAATATAAAAA
1 AAAATTCAAAATCAAAAAATAAAAA
45920755 AATGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (27 bp):
AAAATTCAAAATCAAAAAATAAAAATC
Found at i:45920762 original size:6 final size:6
Alignment explanation
Indices: 45920704--45920747 Score: 61
Period size: 6 Copynumber: 6.8 Consensus size: 6
45920694 ATTCAATAAA
45920704 AAAATTC AAAATC AAAAAATC AAAATC AAAATC AAAATC AAAAT
1 AAAA-TC AAAATC --AAAATC AAAATC AAAATC AAAATC AAAAT
45920748 ATAAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
6 25 0.71
7 4 0.11
8 6 0.17
ACGTcount: A:0.68, C:0.14, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATC
Found at i:45921664 original size:15 final size:15
Alignment explanation
Indices: 45921644--45921672 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45921634 CAAAAAAATG
45921644 ATGAAAAATGAAAAC
1 ATGAAAAATGAAAAC
45921659 ATGAAAAATGAAAA
1 ATGAAAAATGAAAA
45921673 AATAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (15 bp):
ATGAAAAATGAAAAC
Found at i:45921674 original size:8 final size:8
Alignment explanation
Indices: 45921636--45921690 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 8
45921626 CTTTGAGTCA
45921636 AAAAAATG
1 AAAAAATG
45921644 ATGAAAAATG
1 A--AAAAATG
*
45921654 AAAACATG
1 AAAAAATG
45921662 -AAAAATG
1 AAAAAATG
45921669 AAAAAAT-
1 AAAAAATG
45921676 AAAAAA-G
1 AAAAAATG
*
45921683 TAAAAATG
1 AAAAAATG
45921691 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
7 17 0.44
8 14 0.36
10 8 0.21
ACGTcount: A:0.71, C:0.02, G:0.13, T:0.15
Consensus pattern (8 bp):
AAAAAATG
Found at i:45921680 original size:15 final size:15
Alignment explanation
Indices: 45921647--45921681 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
45921637 AAAAATGATG
* *
45921647 AAAAATGAAAACATG
1 AAAAATGAAAAAATA
45921662 AAAAATGAAAAAATA
1 AAAAATGAAAAAATA
45921677 AAAAA
1 AAAAA
45921682 GTAAAAATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (15 bp):
AAAAATGAAAAAATA
Found at i:45923134 original size:46 final size:45
Alignment explanation
Indices: 45923067--45923318 Score: 155
Period size: 46 Copynumber: 5.7 Consensus size: 45
45923057 TAGATCGCAT
*
45923067 CAGATTTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAA-TA
* * ** ** *
45923113 CAGATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAG---C
1 CAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATA
* * * * ** **
45923155 CAGTAATCCTATTTCCTTGAGATTACAGTAGAACGGA-TTAA-AATA
1 CAG--ATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATA
* * * * * *
45923200 AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCAT-
1 CA-GATCTTATCTCCCTGAGA-TTACAGTGGAATAGACCGAAGAATA
* * *
45923242 CAGGTCTTATCTCCCTGATATTACAGTGGAATAGACCGAATAATTA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAA-TA
45923288 CAGATCTTATCTCCCTGAGATTACAGTGGAA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAA
45923319 CAGATTAAAG
Statistics
Matches: 153, Mismatches: 38, Indels: 30
0.69 0.17 0.14
Matches are distributed among these distances:
41 28 0.18
42 5 0.03
43 6 0.04
44 48 0.31
45 2 0.01
46 64 0.42
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (45 bp):
CAGATCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATA
Found at i:45923232 original size:175 final size:175
Alignment explanation
Indices: 45922941--45923324 Score: 669
Period size: 175 Copynumber: 2.2 Consensus size: 175
45922931 AAAATCGTGA
45922941 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
*
45923006 AGTGGAACGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
66 AGTAGAACGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
*
45923071 TTTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
* *
45923116 ATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
* * *
45923181 AGTAGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTAGAACGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
* *
45923246 TCTTATCTCCCTGATATTACAGTGGAATAGACCGAATAATTACAG
131 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
* *
45923291 ATCTTATCTCCCTGAGATTACAGTGGAACAGATT
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
45923325 AAAGTCACAT
Statistics
Matches: 197, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 197 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
AGTAGAACGAATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGA
TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
Found at i:45923568 original size:100 final size:100
Alignment explanation
Indices: 45923311--45924128 Score: 1230
Period size: 100 Copynumber: 8.2 Consensus size: 100
45923301 CCTGAGATTA
* * * *
45923311 CAGTGGAACAGATTAAAGTCACATCGATGAATCTCGCTTCCCCGACGTTGCAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
*
45923376 AAGCCACAGCGGCAAATCCTACTTC-CTTAGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCTC-TAGCGGTG
* *
45923411 CAGT-GAGCAGATTAAAGCCACATCGGTGAATCTCACTTCCCCGACATTGCAGTTAAAAAGGTTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* *
45923475 AAGCCACAGCGACGAATCCTACTTCTCTAGCGATG
66 AAGCCACAGCGGCGAATCCTACTTCTCTAGCGGTG
* *
45923510 CAGTGGAGCAGATTAAAGCCACATCGATGAATCTCGCTTCCCTGACATTGCAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
45923575 AAGCCACAGCGGCGAATCCTACTTCTCT-GTCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCTCTAG-CGGTG
* * *
45923610 CAGTGGAGCAGATTAAAGCCATATCGGTGAATTTCGCTTCCCCGACATTGCAGTTAAAAAGGTTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* *
45923675 AAGCCACAGCGACGAATCCTACTTCTCTAGCGATG
66 AAGCCACAGCGGCGAATCCTACTTCTCTAGCGGTG
* *
45923710 CAGTGGAGCAGATTAAAGCCACATCGATGAATCTCGCTTCCCTGACATTGCAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
*
45923775 AAGCCACAGCGGCGAATCCTACTTC-CTTGGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCTC-TAGCGGTG
* * * *
45923810 TAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGATATTGTAGTTAAAAAGGTTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
*
45923875 AAGCCATAGCGGCGAATCCTACTTCTCTAGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCTCTAGCGGTG
* *
45923910 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCTCCGACATTGCAGTTCAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* * *
45923975 AAGCCACAGTGGCGAATCCTACTTCCCTGGCGGTG
66 AAGCCACAGCGGCGAATCCTACTTCTCTAGCGGTG
* * *
45924010 CAGTGGAGTAGATTAAAGCCACATCGGTAAATCTCGCTTCCCCAACATTGCAGTTAAAAAGATTA
1 CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
* * * * *
45924075 AAGCCACAGCGGCAAATCTTACTTCCCTGGCAGTG
66 AAGCCACAGCGGCGAATCCTACTTCTCTAGCGGTG
* *
45924110 CAGTGGAACAGATTGAAGC
1 CAGTGGAGCAGATTAAAGC
45924129 TACAACAGTA
Statistics
Matches: 652, Mismatches: 60, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
99 90 0.14
100 560 0.86
101 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (100 bp):
CAGTGGAGCAGATTAAAGCCACATCGGTGAATCTCGCTTCCCCGACATTGCAGTTAAAAAGATTA
AAGCCACAGCGGCGAATCCTACTTCTCTAGCGGTG
Found at i:45924739 original size:13 final size:13
Alignment explanation
Indices: 45924721--45924750 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
45924711 GGGGATTTGA
45924721 TTTTTATTTTTAT
1 TTTTTATTTTTAT
*
45924734 TTTTTATTTTTCT
1 TTTTTATTTTTAT
45924747 TTTT
1 TTTT
45924751 CTTTGTTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.03, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTATTTTTAT
Done.