Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 85 of 345
Found at i:23233222 original size:125 final size:125
Alignment explanation
Indices: 23233000--23233233 Score: 303
Period size: 125 Copynumber: 1.9 Consensus size: 125
23232990 AAAAAACCTC
* * *
23233000 TTAAAACGAGGCAATATTTCGTATTTGGAAGTTTGACAGATCGTGCCCAATCGTGCTGGGTTTCA
1 TTAAAACGAGGCAATATTTCGTATTTGGAAATTCGACAAATCGTGCCCAATCGTGCTGGGTTTCA
** * *
23233065 ATTTTTCATTCGACTAAAATACAGAATATCCTTTTGAAATTTCATCCATGTTTTCTTAAA
66 ATTTACCATTAGACTAAAATACAGAATATCCTTTTAAAATTTCATCCATGTTTTCTTAAA
* * * *
23233125 TTAAAATGAGGCAATATTTCGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGTTGGGTTTCG
1 TTAAAACGAGGCAATATTTCGTATTTGGAAATTCGACAAATCGTGCCCAATCGTGCTGGGTTTCA
* *
23233190 ATTTACCGTTTAG-C-CAAATAGCCA-AATATCCTTTTAAAATTTCA
66 ATTTACC-ATTAGACTAAAATA--CAGAATATCCTTTTAAAATTTCA
23233234 AATGCATGAG
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
124 5 0.05
125 83 0.89
126 5 0.05
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (125 bp):
TTAAAACGAGGCAATATTTCGTATTTGGAAATTCGACAAATCGTGCCCAATCGTGCTGGGTTTCA
ATTTACCATTAGACTAAAATACAGAATATCCTTTTAAAATTTCATCCATGTTTTCTTAAA
Found at i:23233514 original size:15 final size:15
Alignment explanation
Indices: 23233494--23233523 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23233484 CTGACTCCCG
23233494 AATCTATTTTTTAGT
1 AATCTATTTTTTAGT
23233509 AATCTATTTTTTAGT
1 AATCTATTTTTTAGT
23233524 TTTTCGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (15 bp):
AATCTATTTTTTAGT
Found at i:23236447 original size:25 final size:27
Alignment explanation
Indices: 23236389--23236449 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
23236379 TAAAAACCAT
23236389 ATGA-AAAATTTGCAAATGAATAATAC
1 ATGATAAAATTTGCAAATGAATAATAC
*
23236415 ATGCTAAAATTTG-AAAT-AAT-ATAC
1 ATGATAAAATTTGCAAATGAATAATAC
*
23236439 ATATATAAAAT
1 AT-GATAAAAT
23236450 AAAATCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 6 0.20
25 9 0.30
26 7 0.23
27 8 0.27
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (27 bp):
ATGATAAAATTTGCAAATGAATAATAC
Found at i:23236698 original size:2 final size:2
Alignment explanation
Indices: 23236691--23236727 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23236681 TTGAAAGGAA
23236691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23236728 AAAGACAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23238780 original size:44 final size:45
Alignment explanation
Indices: 23238678--23239106 Score: 258
Period size: 44 Copynumber: 9.6 Consensus size: 45
23238668 TATAGCTTGA
* * ** *
23238678 TCTGCTCCATTACAACTTCAAGGAGATAAGA-TCTGTTTTCTTC-AG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACT-TG-TAACTTCAAC
*
23238723 TCCGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAAC
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAAC
* ** **
23238768 T-TGCCCCACTGCAACTTCAGAGG-GATAAGGTTTGTGGCTTCAA-
1 TCTGCTCCACTGCAACTTCA-AGGAGATAAGACTTGTAACTTCAAC
* * * * ** *
23238811 TCTACTCCACTACAACTTCAGGGAGATAAGA-TTCATCATTTTCGA-
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTT-GT-AACTTCAAC
* * * * * *
23238856 TCCGCTCCACTGTAACTTTAGGGAGATAGGACTCGTAACTTCAAC
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAAC
* ** * * *
23238901 -CTGCCCCACTGCAACTTCAAGGAGATAAGGTTTATAGCTTTAAC
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAAC
* ** * *
23238945 TCTGCTCTACTGCAA-TTTTAGAGAGATAAGA-TTCGCT-A-TTCTCAG
1 TCTGCTCCACTGCAACTTCAAG-GAGATAAGACTT-G-TAACTTC-AAC
* * * *
23238990 TCTGGTCCGCTGCAACTTCAGGGAGATAAGACTTGTGACTTCAAC
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAAC
* ** **
23239035 -CTGCTCCACTACAACTTC-AGGAAGATAAGGTTTGTGGCTTCAA-
1 TCTGCTCCACTGCAACTTCAAGG-AGATAAGACTTGTAACTTCAAC
*
23239078 TCTACTCCACTGCAACTTCAAGGAGATAA
1 TCTGCTCCACTGCAACTTCAAGGAGATAA
23239107 AATTGGTATA
Statistics
Matches: 291, Mismatches: 72, Indels: 43
0.72 0.18 0.11
Matches are distributed among these distances:
43 7 0.02
44 160 0.55
45 113 0.39
46 11 0.04
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAAC
Found at i:23239033 original size:134 final size:133
Alignment explanation
Indices: 23238723--23239106 Score: 445
Period size: 134 Copynumber: 2.9 Consensus size: 133
23238713 TTTTCTTCAG
* *
23238723 TCCGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAACTTGCCCCACTGCAACTTCAG
1 TCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTGCAACTTCA-
* * * *
23238788 AGG-GATAAGGTTTGTGGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCATCATTT
65 AGGAGATAAGGTTTATAGCTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTCATCATTC
23238852 TCGA
130 TCGA
* * * *
23238856 TCCGCTCCACTGTAACTTTAGGGAGATAGGACTCGTAACTTCAACCTGCCCCACTGCAACTTCAA
1 TCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTGCAACTTCAA
* * * * * * *
23238921 GGAGATAAGGTTTATAGCTTTAACTCTGCTCTACTGCAATTTTAGAGAGATAAGATTC-GCTATT
66 GGAGATAAGGTTTATAGCTTCAA-TCTACTCCACTACAACTTCAGAGAGATAAGATTCATC-ATT
23238985 CTC-A
129 CTCGA
* * * * * *
23238989 GTCTGGTCCGCTGCAACTTCAGGGAGATAAGACTTGTGACTTCAACCTGCTCCACTACAACTTC-
1 -TCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTGCAACTTCA
* * *
23239053 AGGAAGATAAGGTTTGTGGCTTCAATCTACTCCACTGCAACTTCA-AGGAGATAA
65 AGG-AGATAAGGTTTATAGCTTCAATCTACTCCACTACAACTTCAGA-GAGATAA
23239107 AATTGGTATA
Statistics
Matches: 211, Mismatches: 34, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
132 4 0.02
133 103 0.49
134 104 0.49
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (133 bp):
TCCGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTGCAACTTCAA
GGAGATAAGGTTTATAGCTTCAATCTACTCCACTACAACTTCAGAGAGATAAGATTCATCATTCT
CGA
Found at i:23239169 original size:88 final size:86
Alignment explanation
Indices: 23239077--23239369 Score: 304
Period size: 88 Copynumber: 3.3 Consensus size: 86
23239067 TGTGGCTTCA
* * * *
23239077 ATCTACTCCACTGCAACTTCAAGGAGATA-AAAT-TGGTATATTCAGTCTGCTCCAATACCATTT
1 ATCTACTCCGCTGAAACTTCAAGGAGATACAAATGTGG--T-TTCAG-CCGCTCCAATGCCATTT
** *
23239140 CATTGAGAAGAGACTTGTAGCCTCG
62 CAAGGAGAAGAGATTTGTAGCCTCG
* * * * *
23239165 ATCTACTTCGCTGAAACTTCAAGGAGATACGAACTGTGGCTCTGAGCCGCTCCCAA-GCCATCTC
1 ATCTACTCCGCTGAAACTTCAAGGAGATAC-AAATGTGG-TTTCAGCCGCT-CCAATGCCATTTC
*
23239229 AGGGAGAAGAGATTTGTAGCCTCG
63 AAGGAGAAGAGATTTGTAGCCTCG
* * *
23239253 ATCTACTCCGCTGAAACTTCAAGGAGATACGAACTGTGGTTTCGAGCCGCTCTAATGTCATTTCA
1 ATCTACTCCGCTGAAACTTCAAGGAGATAC-AAATGTGGTTTC-AGCCGCTCCAATGCCATTTCA
*
23239318 AGGAGAAGAGATTTGTAGCTTCG
64 AGGAGAAGAGATTTGTAGCCTCG
* * *
23239341 ATCTTCTTCGCTGGAACTTCAAGGAGATA
1 ATCTACTCCGCTGAAACTTCAAGGAGATA
23239370 AGAATTGTTG
Statistics
Matches: 175, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
87 5 0.03
88 156 0.89
89 7 0.04
90 4 0.02
91 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (86 bp):
ATCTACTCCGCTGAAACTTCAAGGAGATACAAATGTGGTTTCAGCCGCTCCAATGCCATTTCAAG
GAGAAGAGATTTGTAGCCTCG
Found at i:23239411 original size:88 final size:88
Alignment explanation
Indices: 23238995--23239411 Score: 303
Period size: 88 Copynumber: 4.7 Consensus size: 88
23238985 CTCAGTCTGG
* * * * * * *
23238995 TCCGCTGCAACTTCAGGGAGATAAGACTTGTGACTTCAACCTGCTCCACTACAACTTCAGGAAGA
1 TCCGCTGAAACTTCAAGGAGATAAGAATTGTGATTTCAGCCTGCTCCACTACTACTTCAGGGAGA
* * * *
23239060 TA-AGGTTTGTGGCTTCAATCTAC
66 -AGAGATTTGTAGCCTCGATCTAC
* * * * * * **
23239083 TCCACTGCAACTTCAAGGAGATAA-AATTG-GTATATTCAGTCTGCTCCAATACCATTTCATTGA
1 TCCGCTGAAACTTCAAGGAGATAAGAATTGTG-AT-TTCAGCCTGCTCCACTACTACTTCAGGGA
*
23239146 GAAGAGACTTGTAGCCTCGATCTAC
64 GAAGAGATTTGTAGCCTCGATCTAC
* * * * * * * *
23239171 TTCGCTGAAACTTCAAGGAGATACGAACTGTGGCTCTGAGCC-GCTCC-CAAGCCA-TCTCAGGG
1 TCCGCTGAAACTTCAAGGAGATAAGAATTGT-GATTTCAGCCTGCTCCACTA-CTACT-TCAGGG
23239233 AGAAGAGATTTGTAGCCTCGATCTAC
63 AGAAGAGATTTGTAGCCTCGATCTAC
* * * * * * * *
23239259 TCCGCTGAAACTTCAAGGAGATACGAACTGTGGTTTCGAGCC-GCTCTAAT-GTCATTTCAAGGA
1 TCCGCTGAAACTTCAAGGAGATAAGAATTGTGATTTC-AGCCTGCTCCACTACT-ACTTCAGGGA
* *
23239322 GAAGAGATTTGTAGCTTCGATCTTC
64 GAAGAGATTTGTAGCCTCGATCTAC
* * * * *
23239347 TTCGCTGGAACTTCAAGGAGATAAGAATTGTTGATTTTAACCTGCTCCACTACTGCTT-AGGGAG
1 TCCGCTGAAACTTCAAGGAGATAAGAATTG-TGATTTCAGCCTGCTCCACTACTACTTCAGGGAG
23239411 A
65 A
23239412 TAGGATGATG
Statistics
Matches: 258, Mismatches: 56, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
86 1 0.00
87 11 0.04
88 221 0.86
89 22 0.09
90 2 0.01
91 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (88 bp):
TCCGCTGAAACTTCAAGGAGATAAGAATTGTGATTTCAGCCTGCTCCACTACTACTTCAGGGAGA
AGAGATTTGTAGCCTCGATCTAC
Found at i:23239411 original size:176 final size:174
Alignment explanation
Indices: 23238997--23239413 Score: 380
Period size: 176 Copynumber: 2.4 Consensus size: 174
23238987 CAGTCTGGTC
* * * * * *
23238997 CGCTGCAACTTCAGGGAGATAAGACTTG-TGACTTCAACCTGCTCCACTACAACTTCAGGAAGAT
1 CGCTGAAACTTCAAGGAGATAAGAATTGTTGATTTCAACCTGCTCCACTAC-TCTT-AGGGAGAT
* * * * *
23239061 AAGGTTTGTGGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAAATTGGTATATTCAGTCTG
64 AAGATTTGTAGCCTCAATCTACTCCACTGAAACTTCAAGGAGATAAAATTGG-ATATTCAGTCCG
**
23239126 CTCCAATACCATTTCATTGAGAAGAGACTTGTAGCCTCGATCTACTT
128 CTCCAATACCATTTCAAGGAGAAGAGACTTGTAGCCTCGATCTACTT
* * * * * * * * *
23239173 CGCTGAAACTTCAAGGAGATACGAACTGTGGCTCTGAGCC-GCTCC-CAAGCCATCTCAGGGAGA
1 CGCTGAAACTTCAAGGAGATAAGAATTGTTGATTTCAACCTGCTCCACTA--C-TCTTAGGGAGA
* * *
23239236 -AGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAACTGTGG-T-TTCGA
63 TA-AGATTTGTAGCCTCAATCTACTCCACTGAAACTTCAAGGAGATA--AAAT-TGGATATTC-A
* ** * * *
23239298 G-CCGCTCTAATGTCATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTTCTT
123 GTCCGCTCCAATACCATTTCAAGGAGAAGAGACTTGTAGCCTCGATCTACTT
* *
23239349 CGCTGGAACTTCAAGGAGATAAGAATTGTTGATTTTAACCTGCTCCACTACTGCTTAGGGAGATA
1 CGCTGAAACTTCAAGGAGATAAGAATTGTTGATTTCAACCTGCTCCACTACT-CTTAGGGAGATA
23239414 GGATGATGGG
Statistics
Matches: 188, Mismatches: 41, Indels: 23
0.75 0.16 0.09
Matches are distributed among these distances:
175 4 0.02
176 158 0.84
177 18 0.10
178 5 0.03
179 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (174 bp):
CGCTGAAACTTCAAGGAGATAAGAATTGTTGATTTCAACCTGCTCCACTACTCTTAGGGAGATAA
GATTTGTAGCCTCAATCTACTCCACTGAAACTTCAAGGAGATAAAATTGGATATTCAGTCCGCTC
CAATACCATTTCAAGGAGAAGAGACTTGTAGCCTCGATCTACTT
Found at i:23239568 original size:81 final size:83
Alignment explanation
Indices: 23239472--23239669 Score: 220
Period size: 88 Copynumber: 2.3 Consensus size: 83
23239462 GTTATCTTTT
* * * *
23239472 ATCTGCTCTACTACTGCTTAGAGAGATAAGATC-TTT-AGCTTGTTACCCTACTACTTAGGGGGT
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCATTTCAGCCTGTTACCCTACTACTTAGGGGGT
23239535 TAAGCCTCACCATCTTCG
66 TAAGCCTCACCATCTTCG
* * *
23239553 ATCTACTCCGCTACTGCTTAGGGAGATAAGATCTGAAATTTTCAGCCTGTTACCCTATTGCTTAG
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATC----A-TTTCAGCCTGTTACCCTACTACTTAG
* * * *
23239618 GGGGTTAAGGCTCATCGTCTTTG
61 GGGGTTAAGCCTCACCATCTTCG
* *
23239641 ATCTGCTCTACTACTGCTTAGGGAGATAA
1 ATCTACTCCACTACTGCTTAGGGAGATAA
23239670 TTTCTGCAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
81 29 0.30
87 3 0.03
88 64 0.67
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (83 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAGATCATTTCAGCCTGTTACCCTACTACTTAGGGGGT
TAAGCCTCACCATCTTCG
Found at i:23239661 original size:88 final size:88
Alignment explanation
Indices: 23239502--23239706 Score: 241
Period size: 88 Copynumber: 2.3 Consensus size: 88
23239492 GAGAGATAAG
* * *
23239502 ATCTTTAGCTTGTTACCCTACTACTTAGGGGGTTAAGCCTCACCATCTTCGATCTACTCCGCTAC
1 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGCCTCACCATCTTCGATCTACTCCACTAC
23239567 TGCTTAGGGAGATAAGATCTGAA
66 TGCTTAGGGAGATAAGATCTGAA
* * * * * * * * *
23239590 ATTTTCAGCCTGTTACCCTATTGCTTAGGGGGTTAAGGCTCATCGTCTTTGATCTGCTCTACTAC
1 ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGCCTCACCATCTTCGATCTACTCCACTAC
** *
23239655 TGCTTAGGGAGATAATTTCTGCA
66 TGCTTAGGGAGATAAGATCTGAA
**
23239678 ATCTTCAGCCTACT-CCACTACTACTTAGG
1 ATCTTCAGCCTGTTACC-CTACTACTTAGG
23239707 AAGATAAGAT
Statistics
Matches: 96, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 2 0.02
88 94 0.98
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (88 bp):
ATCTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGCCTCACCATCTTCGATCTACTCCACTAC
TGCTTAGGGAGATAAGATCTGAA
Found at i:23239828 original size:131 final size:131
Alignment explanation
Indices: 23239672--23240071 Score: 647
Period size: 131 Copynumber: 3.1 Consensus size: 131
23239662 GGAGATAATT
* * * *
23239672 TCTGCAATCTTCAGCCTACTCCACTACTACTTAGGAAGATAAGATGGTGGATTAAATCTGGTCCA
1 TCTGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCA
* *
23239737 CTACTGGTTAGGGAGACAAGATCCACCATCTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAG
66 CTACTGGTTAGGGAGACAAGATTCACCGTCTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAG
23239802 A
131 A
* *
23239803 TCTGCAATCATCAGCCTACTTCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCA
1 TCTGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCA
* * *
23239868 CTACTGGTTAGGGAGACAAGATTCACTGTCTTCGATCTGTTCCACTGCAACTTTAGGGAGACAAG
66 CTACTGGTTAGGGAGACAAGATTCACCGTCTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAG
23239933 A
131 A
* * * *
23239934 TCTGCAATCTTCAGCCTACTCCATTACTGCTTAGGGAGATAGGATGGTAGCTTAAATATGCTCCA
1 TCTGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCA
* *
23239999 CTACTGGTTAGGGAAACAAGATTCGCCGTCTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAG
66 CTACTGGTTAGGGAGACAAGATTCACCGTCTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAG
23240064 A
131 A
23240065 TCTGCAA
1 TCTGCAA
23240072 ATTCACCGAT
Statistics
Matches: 247, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 247 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (131 bp):
TCTGCAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCA
CTACTGGTTAGGGAGACAAGATTCACCGTCTTCGATCTGTTCCACTGTAACTTCAGGGAGACAAG
A
Found at i:23239945 original size:45 final size:45
Alignment explanation
Indices: 23239744--23239945 Score: 102
Period size: 45 Copynumber: 4.6 Consensus size: 45
23239734 CCACTACTGG
** * *
23239744 TTAGGGAGACAAGATCCACCATCTTCGATCTGTTCCACTGTAACT
1 TTAGGGAGACAAGATCTGCAATCTTCGATCTGTTCCACTGCAACT
* * * * * *
23239789 TCAGGGAGACAAGATCTGCAATCATC-AGCCTACTT-CACTACTAC-
1 TTAGGGAGACAAGATCTGCAATCTTCGA-TCT-GTTCCACTGCAACT
* * * * ** *
23239833 TTAGGGAGATAGGATGGTG---GCTTAAATCTGCTCCACT---ACT
1 TTAGGGAGACAAGAT-CTGCAATCTTCGATCTGTTCCACTGCAACT
*
23239873 GGTTAGGGAGACAAGAT-T-CACTGTCTTCGATCTGTTCCACTGCAACT
1 --TTAGGGAGACAAGATCTGCA--ATCTTCGATCTGTTCCACTGCAACT
23239920 TTAGGGAGACAAGATCTGCAATCTTC
1 TTAGGGAGACAAGATCTGCAATCTTC
23239946 AGCCTACTCC
Statistics
Matches: 112, Mismatches: 27, Indels: 36
0.64 0.15 0.21
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 1 0.01
42 21 0.19
43 1 0.01
44 27 0.24
45 51 0.46
46 3 0.03
47 5 0.04
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
TTAGGGAGACAAGATCTGCAATCTTCGATCTGTTCCACTGCAACT
Found at i:23241304 original size:25 final size:27
Alignment explanation
Indices: 23241246--23241306 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
23241236 TAAAAACCAT
23241246 ATGA-AAAATTTGCAAATGAATAATAC
1 ATGATAAAATTTGCAAATGAATAATAC
*
23241272 ATGCTAAAATTTG-AAAT-AAT-ATAC
1 ATGATAAAATTTGCAAATGAATAATAC
*
23241296 ATATATAAAAT
1 AT-GATAAAAT
23241307 AAAATCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 6 0.20
25 9 0.30
26 7 0.23
27 8 0.27
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (27 bp):
ATGATAAAATTTGCAAATGAATAATAC
Found at i:23241554 original size:2 final size:2
Alignment explanation
Indices: 23241547--23241583 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23241537 TTGAAAGGAA
23241547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23241584 AAAGACAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23250777 original size:27 final size:25
Alignment explanation
Indices: 23250746--23250797 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
23250736 ATTTATTTAG
23250746 GGTTTAAGAATTTTAAAAACAAATTAA
1 GGTTT-AGAATTTTAAAAA-AAATTAA
* *
23250773 GGTTTAGAGTTTTTAAAAAAATTAA
1 GGTTTAGAATTTTAAAAAAAATTAA
23250798 TTAAATTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.37
Consensus pattern (25 bp):
GGTTTAGAATTTTAAAAAAAATTAA
Found at i:23250804 original size:34 final size:34
Alignment explanation
Indices: 23250766--23250898 Score: 162
Period size: 34 Copynumber: 3.9 Consensus size: 34
23250756 TTTTAAAAAC
23250766 AAATTAAGGTTTAGAGTTTTTAAAAAAATTAATT
1 AAATTAAGGTTTAGAGTTTTTAAAAAAATTAATT
* *
23250800 AAATT-AGGTTTTA-AGGGTTTTAAATAAATTAATT
1 AAATTAAGG-TTTAGA-GTTTTTAAAAAAATTAATT
* *
23250834 AAATTAGGGTTTAGAGTTTTTAAGAAAATTAATT
1 AAATTAAGGTTTAGAGTTTTTAAAAAAATTAATT
* * *
23250868 AAATTAGGGTTTAGGGTTTTTTAAAATAATT
1 AAATTAAGGTTTAGAG-TTTTTAAAAAAATT
23250899 TTGTGTTTAG
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
33 4 0.05
34 66 0.78
35 15 0.18
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (34 bp):
AAATTAAGGTTTAGAGTTTTTAAAAAAATTAATT
Found at i:23251161 original size:125 final size:127
Alignment explanation
Indices: 23250980--23251470 Score: 676
Period size: 125 Copynumber: 3.9 Consensus size: 127
23250970 TCAGATAAAT
* * * * *
23250980 TAATTTTGAGAAGACAGTTCTGAAAAGATA-ATGTC-AAAACGCTTCAAGCAGAATGCACTGTTA
1 TAATTTTGAGAAGACGGTTCTGAAAAAATAGATGTCAAAAAAGCTTCAAGCAGGATGCACTGTCA
* * *
23251043 GCAAAATTAATGAAAAAAGTTCCCACGTGGACGCTCTTTTTCTACAGTAATTCCT-AAAAAA
66 GCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAA
* * * * *
23251104 TAATTTTAAGAAGACGGCTCTAAAAAAATAGAT-TCAAAAAAGCTTTAAGCAGGATGCATTGTCA
1 TAATTTTGAGAAGACGGTTCTGAAAAAATAGATGTCAAAAAAGCTTCAAGCAGGATGCACTGTCA
*
23251168 GCAAAATTACTGAAAAATGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAA
66 GCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAA
* * * *
23251230 TAA--TTGAGAAAACGGTTCTGAAAAAATAG-TGTAAAAAAACGCTTCAAGCATGATACACTGTC
1 TAATTTTGAGAAGACGGTTCTGAAAAAATAGATGTCAAAAAA-GCTTCAAGCAGGATGCACTGTC
23251292 AGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAA
65 AGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAA
* * * * *
23251355 TAATTTTGAGAAGACGGTTCTG-AAAAAT-GGTGTCAAAAACGCTTTAAGCAGGATGCACTATTA
1 TAATTTTGAGAAGACGGTTCTGAAAAAATAGATGTCAAAAAAGCTTCAAGCAGGATGCACTGTCA
* * *
23251418 GCAAAATTACTGAAAAAAACTCCTACGTGGACGCTTTTTTTCTACAGTAGTTC
66 GCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
23251471 TTATTTGACC
Statistics
Matches: 324, Mismatches: 35, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
123 1 0.00
124 56 0.17
125 228 0.70
126 23 0.07
127 16 0.05
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (127 bp):
TAATTTTGAGAAGACGGTTCTGAAAAAATAGATGTCAAAAAAGCTTCAAGCAGGATGCACTGTCA
GCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTGAAAAAA
Found at i:23254738 original size:21 final size:21
Alignment explanation
Indices: 23254714--23254754 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23254704 TGGTTTAGCT
23254714 TCCGGC-GGAGGTTGTAGTTGC
1 TCCGGCTGG-GGTTGTAGTTGC
*
23254735 TCCGGCTGGGGTTGTGGTTG
1 TCCGGCTGGGGTTGTAGTTG
23254755 TTTTGGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.05, C:0.17, G:0.46, T:0.32
Consensus pattern (21 bp):
TCCGGCTGGGGTTGTAGTTGC
Found at i:23264916 original size:81 final size:83
Alignment explanation
Indices: 23264790--23264947 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 83
23264780 TTTGAACGGA
* * * * *
23264790 TATTCTTTCATTCTTTTCATTCGTAATTACACTATGCAAATAATTATTCTTAGACTCTTTTGTCC
1 TATTCTTTCATTC-TTTCATTCATAATCACACCATGCAAATAATTATTCTTAGACTATTTCGTCC
23264855 TTTGGA-CTTTTTTTCAAC
65 TTTGGATCTTTTTTTCAAC
* * * *
23264873 TATTCTTTTATTC-TTCATTCATAATCATACCATGCAAATAATTATTCTTAGATTATTTCGTTCT
1 TATTCTTTCATTCTTTCATTCATAATCACACCATGCAAATAATTATTCTTAGACTATTTCGTCCT
23264937 TTGGATCTTTT
66 TTGGATCTTTT
23264948 ATTCGCTTCT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 48 0.74
82 5 0.08
83 12 0.18
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (83 bp):
TATTCTTTCATTCTTTCATTCATAATCACACCATGCAAATAATTATTCTTAGACTATTTCGTCCT
TTGGATCTTTTTTTCAAC
Found at i:23272803 original size:16 final size:16
Alignment explanation
Indices: 23272772--23272808 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
23272762 ATGTGAATAA
23272772 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
23272788 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
23272804 TATTA
1 TATTA
23272809 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:23273624 original size:18 final size:17
Alignment explanation
Indices: 23273594--23273636 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
23273584 TGGGCCGGGC
23273594 AATAAAAGAAAAAGAAG
1 AATAAAAGAAAAAGAAG
23273611 AATAAAACGAAAAAGAAG
1 AATAAAA-GAAAAAGAAG
*
23273629 AAGAAAAG
1 AATAAAAG
23273637 GAGGAGGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (17 bp):
AATAAAAGAAAAAGAAG
Found at i:23274764 original size:28 final size:26
Alignment explanation
Indices: 23274708--23274765 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
23274698 ATTTACTCTA
* * *
23274708 AATTTAATTAAAAAAACTTAGATAGT
1 AATTTAATTAAAAAAAATTAAATAAT
*
23274734 AATTTTATTAAAAAAAAATTGAAATAAT
1 AATTTAATT-AAAAAAAATT-AAATAAT
23274762 AATT
1 AATT
23274766 GAAAAGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 8 0.31
27 9 0.35
28 9 0.35
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (26 bp):
AATTTAATTAAAAAAAATTAAATAAT
Found at i:23280974 original size:24 final size:25
Alignment explanation
Indices: 23280919--23280974 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 25
23280909 TTTTAGATCT
* **
23280919 TATGAGCTTACCGTTATTCGGCTTG
1 TATGAGCTTACCGTTATACAACTTG
* *
23280944 GAGGAGCTTACCGTT-TACAACTTG
1 TATGAGCTTACCGTTATACAACTTG
23280968 TATGAGC
1 TATGAGC
23280975 ATACATGTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (25 bp):
TATGAGCTTACCGTTATACAACTTG
Found at i:23281147 original size:26 final size:26
Alignment explanation
Indices: 23281116--23281167 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
23281106 CACAGGTATT
23281116 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
* *
23281142 TACATGATATATAGATACATGATTTG
1 TACATGAGATATAGATAAATGATTTG
23281168 GGAAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:23284243 original size:46 final size:47
Alignment explanation
Indices: 23284093--23284454 Score: 219
Period size: 46 Copynumber: 7.7 Consensus size: 47
23284083 TTTGTGTGCT
* * * * *
23284093 AGTGTAAGA-CATGTTTGAGACATGCATCGGC-C-ACATTATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGA-TGT-AGAGCC
* * * * *
23284139 AGTGTAAGACCATATCTGGGACATGACATCGGTATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATG-CATCGG-CTCGAGATGTAGAGCC
* * *
23284187 AGTGTCAGA-CATGTTTGGGACATGCATCAGTCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GGCTCGAGATGTAGAGCC
* *
23284233 AGTGTAAGA-CATGTTTGGGACATGCATCGGCTACGAGATGT---GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCT-CGAGATGTAGAGCC
* * * *
23284277 AGTGTAAGACCATGTCTGGGATATGGCATCGGCACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTC-GAGATGT-AGAGCC
* ** * * *
23284327 AGTGTAAGACCATGTCTGGGACATGGCGTCGGC-CTTGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGATGT--AGAGCC
* * * * * *
23284376 AATGTAAAAGCATGTCTGGGACATGACATCGACT--TGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCTCGAGATGTA-GAGCC
23284423 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGG
23284455 TATTATACCC
Statistics
Matches: 247, Mismatches: 49, Indels: 39
0.74 0.15 0.12
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 72 0.29
47 56 0.23
48 27 0.11
49 31 0.13
50 32 0.13
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGATGTAGAGCC
Found at i:23285227 original size:30 final size:30
Alignment explanation
Indices: 23285193--23285259 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
23285183 TAGACATATG
23285193 GGCATGTGTCTACACACGGCCAGCCCTATA
1 GGCATGTGTCTACACACGGCCAGCCCTATA
23285223 GGCATGTGTCTACACACGGCCAGCCCTATA
1 GGCATGTGTCTACACACGGCCAGCCCTATA
23285253 GGCATGT
1 GGCATGT
23285260 TGCTCGGCCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.21
Consensus pattern (30 bp):
GGCATGTGTCTACACACGGCCAGCCCTATA
Found at i:23287639 original size:15 final size:15
Alignment explanation
Indices: 23287619--23287648 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23287609 ACTTTCATTC
*
23287619 ATTGATTCACTTATT
1 ATTGATTCACATATT
23287634 ATTGATTCACATATT
1 ATTGATTCACATATT
23287649 GAAACAAGGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (15 bp):
ATTGATTCACATATT
Found at i:23287862 original size:9 final size:9
Alignment explanation
Indices: 23287848--23287899 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
23287838 AATAGAAATA
23287848 AAAATATAT
1 AAAATATAT
*
23287857 AAAATATTT
1 AAAATATAT
*
23287866 AGAATATAT
1 AAAATATAT
23287875 AAAA-A-AT
1 AAAATATAT
*
23287882 AAAATAGAT
1 AAAATATAT
*
23287891 ATAATATAT
1 AAAATATAT
23287900 CAATAAATTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 6 0.17
8 2 0.06
9 27 0.77
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (9 bp):
AAAATATAT
Found at i:23287892 original size:20 final size:20
Alignment explanation
Indices: 23287832--23287893 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
23287822 TATATAATGG
* *
23287832 ATAAAAAATAGAAATAAAAAT
1 ATAAAAAATA-AAATAGATAT
* **
23287853 ATATAAAAT-ATTTAGAATAT
1 ATAAAAAATAAAATAG-ATAT
23287873 ATAAAAAATAAAATAGATAT
1 ATAAAAAATAAAATAGATAT
23287893 A
1 A
23287894 ATATATCAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
19 3 0.10
20 16 0.52
21 12 0.39
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
ATAAAAAATAAAATAGATAT
Found at i:23298342 original size:8 final size:8
Alignment explanation
Indices: 23298328--23298357 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
23298318 GGTTGTACTG
23298328 CTTTTTTT
1 CTTTTTTT
23298336 -TTTTTTT
1 CTTTTTTT
23298343 CTTTTTTT
1 CTTTTTTT
23298351 CTTTTTT
1 CTTTTTT
23298358 AGTTTAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
CTTTTTTT
Found at i:23298346 original size:15 final size:16
Alignment explanation
Indices: 23298328--23298357 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23298318 GGTTGTACTG
23298328 CTTTTTTT-TTTTTTT
1 CTTTTTTTCTTTTTTT
23298343 CTTTTTTTCTTTTTT
1 CTTTTTTTCTTTTTT
23298358 AGTTTAAGTT
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:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (16 bp):
CTTTTTTTCTTTTTTT
Found at i:23298968 original size:18 final size:20
Alignment explanation
Indices: 23298945--23298983 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
23298935 TTAAAAATTA
23298945 AAAAATAAATA-AT-CTTTT
1 AAAAATAAATATATACTTTT
*
23298963 AAAAATTAATATATACTTTT
1 AAAAATAAATATATACTTTT
23298983 A
1 A
23298984 TCTAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 2 0.11
20 6 0.33
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATAAATATATACTTTT
Found at i:23300586 original size:33 final size:32
Alignment explanation
Indices: 23300549--23300628 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 32
23300539 ATTAACAATG
**
23300549 AAAATAGATTTATAAATTCTTAAAAAAAATTTA-
1 AAAATAGAAATATAAATTC-T-AAAAAAATTTAT
* *
23300582 AAAATATAAATATAAATTCTAAAATAATTTAT
1 AAAATAGAAATATAAATTCTAAAAAAATTTAT
*
23300614 AAAATAAAAATATAA
1 AAAATAGAAATATAA
23300629 TATAAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 10 0.24
32 15 0.37
33 16 0.39
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (32 bp):
AAAATAGAAATATAAATTCTAAAAAAATTTAT
Found at i:23300618 original size:32 final size:33
Alignment explanation
Indices: 23300559--23300628 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 33
23300549 AAAATAGATT
*
23300559 TATAAATTCTTAAAAAAAATTTAAAAATATAAA
1 TATAAATTCTTAAAAAAAATTTAAAAATAAAAA
*
23300592 TATAAATTC-T-AAAATAATTTATAAAATAAAAA
1 TATAAATTCTTAAAAAAAATTTA-AAAATAAAAA
23300624 TATAA
1 TATAA
23300629 TATAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 10 0.29
32 15 0.44
33 9 0.26
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (33 bp):
TATAAATTCTTAAAAAAAATTTAAAAATAAAAA
Found at i:23300632 original size:18 final size:18
Alignment explanation
Indices: 23300580--23300636 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
23300570 AAAAAAAATT
*
23300580 TAAAAATATAAATATAAAT
1 TAAAAATAT-AATATAAAA
* *
23300599 TCTAAAATA-ATTTATAAAA
1 T-AAAAATATA-ATATAAAA
23300618 TAAAAATATAATATAAAA
1 TAAAAATATAATATAAAA
23300636 T
1 T
23300637 TTAGAAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
18 15 0.50
19 9 0.30
20 6 0.20
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATATAATATAAAA
Found at i:23302393 original size:13 final size:14
Alignment explanation
Indices: 23302360--23302398 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
23302350 AATTTTATAC
23302360 AAATAATATATTTA
1 AAATAATATATTTA
*
23302374 ATA-AATA-ATTTA
1 AAATAATATATTTA
23302386 AAATAATATATTT
1 AAATAATATATTT
23302399 TTTATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 7 0.33
13 8 0.38
14 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATAATATATTTA
Found at i:23302708 original size:43 final size:44
Alignment explanation
Indices: 23302648--23302739 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 44
23302638 TGTTGTGGCA
* * * *
23302648 TTTGTAGCTAGAAGCGCC-TTAAAAGATCATGTTCTTTAGCGGCG
1 TTTGTAGCTAAAAGCGCCGCT-AAAGATCATGTTCTATAGCGACG
*
23302692 TTTGTAG-TAAAAGCGCCGCTAAGGATCATGTTCTATAGCGACG
1 TTTGTAGCTAAAAGCGCCGCTAAAGATCATGTTCTATAGCGACG
23302735 TTTGT
1 TTTGT
23302740 GGGAAAACGC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 34 0.81
44 8 0.19
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
TTTGTAGCTAAAAGCGCCGCTAAAGATCATGTTCTATAGCGACG
Found at i:23311071 original size:25 final size:25
Alignment explanation
Indices: 23311037--23311095 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
23311027 AACAGACGGA
* * *
23311037 TGGGAAAAAAATTATGTTAGGGAAT
1 TGGGGAAAAAACTAAGTTAGGGAAT
*
23311062 TGGGGAAAAAACTAAGTTAGGGATT
1 TGGGGAAAAAACTAAGTTAGGGAAT
23311087 TGGGGAAAA
1 TGGGGAAAA
23311096 CGATTTGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.42, C:0.02, G:0.32, T:0.24
Consensus pattern (25 bp):
TGGGGAAAAAACTAAGTTAGGGAAT
Found at i:23311243 original size:40 final size:41
Alignment explanation
Indices: 23311168--23311359 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 41
23311158 AAAAATATTC
* * *
23311168 GCAGCGTTTATAGGCAAAACACCGCAATTG-CTTTACCTTTA
1 GCAGCGTTTAT-GGGAAAACGCCGCTATTGTCTTTACCTTTA
* * *
23311209 ACAGCGTTTATGGGAAAACGCTGCTATTGT-TTTACCTTTT
1 GCAGCGTTTATGGGAAAACGCCGCTATTGTCTTTACCTTTA
* * ** *
23311249 GCGGTGTTTATGGGAAAAACATCGCTATTGTTGTTATACCTTTA
1 GCAGCGTTTATGGG-AAAACGCCGCTATTG-TCTT-TACCTTTA
* * * * * *
23311293 GCTGCGTTTAGGGGAAAATGCCACTATT-TCTTCACCTTTC
1 GCAGCGTTTATGGGAAAACGCCGCTATTGTCTTTACCTTTA
* *
23311333 GCAACGTTTATGGGAAAAATGCCGCTA
1 GCAGCGTTTATGGG-AAAACGCCGCTA
23311360 ACGCTACTCC
Statistics
Matches: 118, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
40 51 0.43
41 36 0.31
42 1 0.01
43 12 0.10
44 18 0.15
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (41 bp):
GCAGCGTTTATGGGAAAACGCCGCTATTGTCTTTACCTTTA
Found at i:23313101 original size:20 final size:20
Alignment explanation
Indices: 23313041--23313107 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
23313031 GAATAATAAA
*
23313041 ATAAATA-ATATAGAAATAT
1 ATAAATATAAATAGAAATAT
* ** *
23313060 AGATTTATAAATCGAAATAT
1 ATAAATATAAATAGAAATAT
*
23313080 ATTAATATAAATAG-AATAAT
1 ATAAATATAAATAGAAAT-AT
23313100 ATAAATAT
1 ATAAATAT
23313108 TATTAATTAC
Statistics
Matches: 35, Mismatches: 11, Indels: 3
0.71 0.22 0.06
Matches are distributed among these distances:
19 7 0.20
20 28 0.80
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.34
Consensus pattern (20 bp):
ATAAATATAAATAGAAATAT
Found at i:23316928 original size:126 final size:127
Alignment explanation
Indices: 23316738--23317171 Score: 464
Period size: 126 Copynumber: 3.4 Consensus size: 127
23316728 AAATGGCAAA
* * * * * * * * *
23316738 TCGAAACCCAGCACTATTGGGCACGATTTATCGAA-TTTCCAAATACGAAACATTTCCTTATTTT
1 TCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAACACGAAATATTGCCTCATTTT
* ** * * * * *
23316802 AATTTGAGAAAACATAAATGAAATTTCAAAAGGATATTTTGTATTTTAGTCGAATG-CAAAG
66 AATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTCAGTTGAATGAAAAAG
* * * *
23316863 TCGAAACCCAGCACGATTGGGCACGATCTCCCAAACTCACCAAATACGAAATACTGCCTCATTTT
1 TCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAACACGAAATATTGCCTCATTTT
* * * * * *
23316928 AATTTTAA-AAAGCATGGACGAAAATTCCAAAGGATATTCTATATTTCAGTTGAACGAAAAAAAA
66 AA-TTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTCAGTTGAATG--AAAAAG
* * * *
23316992 TCGAAACTCAGCACAATTGGGCACGATCTCTCAAGCTC-CCAAACACGAAATATTGCCTCGTTTT
1 TCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAACACGAAATATTGCCTCATTTT
* * * *
23317056 AATTTAAGAAAACATGGATGAAATCTCACAAGGATATTCCATAGTTCAGTTGAATGAAAAAG
66 AATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTCAGTTGAATGAAAAAG
** *
23317118 TCCTAACCCAGCACGATTGGGCACGATTTCTCAAACT-TCCAAACACGAAATATT
1 TCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAACACGAAATATT
23317172 TCCTTATGTT
Statistics
Matches: 254, Mismatches: 48, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
125 30 0.12
126 114 0.45
127 9 0.04
128 64 0.25
129 37 0.15
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (127 bp):
TCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCTCCAAACACGAAATATTGCCTCATTTT
AATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTCAGTTGAATGAAAAAG
Found at i:23319277 original size:65 final size:65
Alignment explanation
Indices: 23319148--23319277 Score: 190
Period size: 65 Copynumber: 2.0 Consensus size: 65
23319138 TTAGTTTCCT
* * ** *
23319148 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGAATGTA
1 ATGCTTATGACAAATAACTAGGATGCTATGATAAAAATGAATCAAATGCTCCTAACTAGAATGTA
*
23319213 ATGCTTATGACAAATAACTAGGATTCTATGATAAAAAATGAATCAAATGCTCCTAACTAG-ATGT
1 ATGCTTATGACAAATAACTAGGATGCTATGAT-AAAAATGAATCAAATGCTCCTAACTAGAATGT
23319277 A
65 A
23319278 TCATGAATGC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 34 0.59
66 24 0.41
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (65 bp):
ATGCTTATGACAAATAACTAGGATGCTATGATAAAAATGAATCAAATGCTCCTAACTAGAATGTA
Found at i:23330707 original size:128 final size:126
Alignment explanation
Indices: 23330365--23330800 Score: 468
Period size: 126 Copynumber: 3.4 Consensus size: 126
23330355 CTCAAACGGT
* * * * * * * * *
23330365 AAATCGAAACCCAGCACGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGCATTATT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACGAAATATTGCCTCATT
* * * * * * *
23330430 TTAATTTGAGAAAACATGGATGAAATTTCAAAAGGATATTTTGTATTTTAGTCGAATG-GA
66 TTAATTTAAGAAAACATGGATGAAAATTCCAAAGGATATTTCGTATTTCAGTTGAATGAAA
** * * * *
23330490 AAATCGAAACAAAGCACGATCGGGCACGATCTCCCAAACTCCCCAAATACGAAATACT-CTCTCA
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACT-CCCAAACACGAAATATTGC-CTCA
* *
23330554 TTTTAATTTAA-AAAAGCATGGATGAAAATTCCAAAGGATATTCCGTATTTCAGTTGAACGAAAA
64 TTTTAATTTAAGAAAA-CATGGATGAAAATTCCAAAGGATATTTCGTATTTCAGTTGAATG--AA
23330618 A
126 A
* * *
23330619 AAATCAAAACCCAGCACGATTGGGCACGATCTCTCAAGCTCCCAAACACGAAATATTGCCTCGTT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACGAAATATTGCCTCATT
* *
23330684 TTAATTTAAGAAAACATTGATG-AAA-TCGCACAAGGATATTTCGTAGTTCAGTTGAATGAAA
66 TTAATTTAAGAAAACATGGATGAAAATTC-CA-AAGGATATTTCGTATTTCAGTTGAATGAAA
* * * * *
23330745 AAGTCGTAACCCAGTACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATAT
1 AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACGAAATAT
23330801 GTCCTTATGT
Statistics
Matches: 259, Mismatches: 42, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
125 37 0.14
126 117 0.45
127 5 0.02
128 60 0.23
129 40 0.15
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (126 bp):
AAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACGAAATATTGCCTCATT
TTAATTTAAGAAAACATGGATGAAAATTCCAAAGGATATTTCGTATTTCAGTTGAATGAAA
Found at i:23333253 original size:22 final size:22
Alignment explanation
Indices: 23333206--23333254 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
23333196 CCTTTGTTGG
* *
23333206 CCACCCCCCTTGGCCACCAACT
1 CCACCACCCTTGGCCACCAACA
23333228 CCACCACCCTTGGCCACCTAA-A
1 CCACCACCCTTGGCCACC-AACA
23333250 CCACC
1 CCACC
23333255 CCAACCACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.22, C:0.57, G:0.08, T:0.12
Consensus pattern (22 bp):
CCACCACCCTTGGCCACCAACA
Found at i:23333381 original size:22 final size:22
Alignment explanation
Indices: 23333301--23333393 Score: 84
Period size: 23 Copynumber: 4.2 Consensus size: 22
23333291 CATTCAAGAC
* * *
23333301 TTTGTTTTATGGAGGTGGGGTTT
1 TTTGTTTTTTGGAGG-AGGTTTT
*
23333324 TTGGTTTTTTGGAGGAGGATTGTT
1 TTTGTTTTTTGGAGGAGG-TT-TT
23333348 CTTTG--TTTTGGAGGAGGTTTT
1 -TTTGTTTTTTGGAGGAGGTTTT
*
23333369 TTTGTTTTTTGGAGG-TGTTTT
1 TTTGTTTTTTGGAGGAGGTTTT
23333390 TTTG
1 TTTG
23333394 GAAAGAAGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
20 4 0.07
21 11 0.19
22 13 0.22
23 26 0.44
24 2 0.03
25 3 0.05
ACGTcount: A:0.09, C:0.01, G:0.34, T:0.56
Consensus pattern (22 bp):
TTTGTTTTTTGGAGGAGGTTTT
Found at i:23333738 original size:3 final size:3
Alignment explanation
Indices: 23333724--23333812 Score: 71
Period size: 3 Copynumber: 29.3 Consensus size: 3
23333714 GAGCTTTGTT
* *
23333724 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
23333768 TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA
1 TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
23333812 T
1 T
23333813 ATATGCCCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
2 7 0.10
3 55 0.77
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:23333768 original size:30 final size:30
Alignment explanation
Indices: 23333724--23333816 Score: 102
Period size: 30 Copynumber: 3.0 Consensus size: 30
23333714 GAGCTTTGTT
*
23333724 TTATTATTTTATTATTTTTACTATTATTTA
1 TTATTATTTTATTATTTTTACTATTATATA
23333754 -TATTATTATTATTATTATTT-CTCATGTATATA
1 TTATTATT-TTATTATT-TTTACT-AT-TATATA
*
23333786 TTATTATTTATATTATTATTA-TATTATATA
1 TTATTATTT-TATTATTTTTACTATTATATA
23333816 T
1 T
23333817 GCCCTCTCCA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
29 7 0.13
30 17 0.31
31 7 0.13
32 9 0.17
33 14 0.26
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (30 bp):
TTATTATTTTATTATTTTTACTATTATATA
Found at i:23333860 original size:15 final size:15
Alignment explanation
Indices: 23333837--23333870 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23333827 TATTTATTTA
23333837 TATTATTACTATCAT
1 TATTATTACTATCAT
* *
23333852 TATTGTTACTTTCAT
1 TATTATTACTATCAT
23333867 TATT
1 TATT
23333871 TTTATTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.12, G:0.03, T:0.59
Consensus pattern (15 bp):
TATTATTACTATCAT
Found at i:23339613 original size:18 final size:18
Alignment explanation
Indices: 23339590--23339625 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23339580 TCCTTGAGTT
23339590 GTCCCGCTGCGTTTAATG
1 GTCCCGCTGCGTTTAATG
23339608 GTCCCGCTGCGTTTAATG
1 GTCCCGCTGCGTTTAATG
23339626 TTTCCGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.28, G:0.28, T:0.33
Consensus pattern (18 bp):
GTCCCGCTGCGTTTAATG
Found at i:23346943 original size:19 final size:20
Alignment explanation
Indices: 23346911--23346950 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
23346901 TGGCAATTTT
23346911 ATTTAAAATAAAAATT-TAA
1 ATTTAAAATAAAAATTATAA
23346930 ATTT-AAATAAAAAATTATAA
1 ATTTAAAAT-AAAAATTATAA
23346950 A
1 A
23346951 CACTTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTTAAAATAAAAATTATAA
Found at i:23347130 original size:23 final size:23
Alignment explanation
Indices: 23347091--23347138 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
23347081 TATAATGTAT
23347091 AAATATATTTTTGAAAAGTT-TAA
1 AAATATATTTTTGAAAA-TTATAA
*
23347114 AAATAT-TTTTTATAAAATTATAA
1 AAATATATTTTT-GAAAATTATAA
23347137 AA
1 AA
23347139 TTTATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
AAATATATTTTTGAAAATTATAA
Found at i:23347134 original size:8 final size:8
Alignment explanation
Indices: 23347123--23347164 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
23347113 AAAATATTTT
23347123 TTATAAAA
1 TTATAAAA
23347131 TTATAAAA
1 TTATAAAA
*
23347139 TT-TATAA
1 TTATAAAA
*
23347146 TTATAAAT
1 TTATAAAA
*
23347154 TTAAAAAA
1 TTATAAAA
23347162 TTA
1 TTA
23347165 AAACTAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
TTATAAAA
Found at i:23347262 original size:20 final size:23
Alignment explanation
Indices: 23347237--23347290 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
23347227 CAAAAAATTT
23347237 GAAATTTA-AA-TATAT-TTTTA
1 GAAATTTATAATTATATATTTTA
23347257 GAAATTTATAATTATATATTTTA
1 GAAATTTATAATTATATATTTTA
* *
23347280 TAATTTTATAA
1 GAAATTTATAA
23347291 AAATTTACGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 8 0.28
21 2 0.07
22 5 0.17
23 14 0.48
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
GAAATTTATAATTATATATTTTA
Found at i:23347347 original size:8 final size:9
Alignment explanation
Indices: 23347309--23347355 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
23347299 GTTAAATTTT
23347309 TTTTTATAA
1 TTTTTATAA
23347318 TTTTTGTATAA
1 -TTTT-TATAA
*
23347329 TTTTTACAA
1 TTTTTATAA
23347338 TTTTT-TAA
1 TTTTTATAA
*
23347346 TTTTTGTAA
1 TTTTTATAA
23347355 T
1 T
23347356 AATATTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
8 7 0.21
9 13 0.39
10 8 0.24
11 5 0.15
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:23350266 original size:2 final size:2
Alignment explanation
Indices: 23350259--23350294 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23350249 GACACCATAC
23350259 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23350295 AAGTGGCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23355794 original size:44 final size:46
Alignment explanation
Indices: 23355740--23355831 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
23355730 AAATATATAC
23355740 AAAGGTGATTCCCTTTTAA-TTT-TTTTGTCTCATTTAAAAAAAAT
1 AAAGGTGATTCCCTTTTAATTTTATTTTGTCTCATTTAAAAAAAAT
*
23355784 AAAGGTGATTCCCTTTTAATTTTATTTTGTCTCATTTTAAAAAAAT
1 AAAGGTGATTCCCTTTTAATTTTATTTTGTCTCATTTAAAAAAAAT
23355830 AA
1 AA
23355832 TAAATAAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.42
45 3 0.07
46 23 0.51
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (46 bp):
AAAGGTGATTCCCTTTTAATTTTATTTTGTCTCATTTAAAAAAAAT
Found at i:23356994 original size:5 final size:5
Alignment explanation
Indices: 23356984--23357019 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
23356974 TATCTAATTA
*
23356984 TTATT TTATT TTATT TTATT TTTTT GTTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT -TTATT TTATT
23357020 ATTCCTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:23357006 original size:16 final size:16
Alignment explanation
Indices: 23356984--23357019 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
23356974 TATCTAATTA
*
23356984 TTATTTTATT-TTATT
1 TTATTTTTTTGTTATT
23356999 TTATTTTTTTGTTATT
1 TTATTTTTTTGTTATT
23357015 TTATT
1 TTATT
23357020 ATTCCTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTATTTTTTTGTTATT
Found at i:23357013 original size:26 final size:29
Alignment explanation
Indices: 23356984--23357038 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 29
23356974 TATCTAATTA
23356984 TTATTTTATT-TT-ATTTTATT-TTTTTG
1 TTATTTTATTATTCATTTTATTGTTTTTG
*
23357010 TTATTTTATTATTCCTTTTATTGTTTTTG
1 TTATTTTATTATTCATTTTATTGTTTTTG
23357039 GCATTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
27 2 0.08
28 7 0.28
29 6 0.24
ACGTcount: A:0.15, C:0.04, G:0.05, T:0.76
Consensus pattern (29 bp):
TTATTTTATTATTCATTTTATTGTTTTTG
Found at i:23363949 original size:20 final size:20
Alignment explanation
Indices: 23363906--23363949 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
23363896 AAACTATTAT
* *
23363906 TATTATTATTATTTAATAGG
1 TATTATTATTAGTTAATAGA
23363926 TATTATTATTAAGTTAA-AGA
1 TATTATTATT-AGTTAATAGA
23363946 TATT
1 TATT
23363950 TACTAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (20 bp):
TATTATTATTAGTTAATAGA
Found at i:23364360 original size:11 final size:12
Alignment explanation
Indices: 23364330--23364363 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
23364320 GTATGTTTAC
23364330 TTATTATATAAG
1 TTATTATATAAG
23364342 TATATTAT-TAAG
1 T-TATTATATAAG
23364354 TTATTATATA
1 TTATTATATA
23364364 TATATAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (12 bp):
TTATTATATAAG
Found at i:23365791 original size:18 final size:19
Alignment explanation
Indices: 23365770--23365810 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
23365760 AATGAAATGA
23365770 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
23365788 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
23365807 GAAA
1 GAAA
23365811 CATGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:23370383 original size:44 final size:44
Alignment explanation
Indices: 23370320--23371052 Score: 462
Period size: 44 Copynumber: 15.9 Consensus size: 44
23370310 CGTTATGGTG
* * * *
23370320 AATCTTATCTCTCTTAAGTTGCAGTGGAGTAGATTGAAGCCATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
* * * * * ** *
23370364 AATCTAATCTCTCTGAAGTTGCAGTGGTGTAGATTTAAGATAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
* * * * * * * *
23370408 ATATTTTATCTCTCTGAAATTACAGTAGAGGAGATTAAAGCTATA
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
* * * *
23370453 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTGAAGTTATCATCGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----C--CATA
* * * ** *
23370503 AATTTTATCTCCCTGAAGTTACAGTGGAGCAGATTTAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCATA
* * * * * * * **
23370548 AATCTTCTCTCTCTAAAATTGCAGTAGAGGAGATTAAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
** * *
23370592 AATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAGTTAACATGATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----C--CATA
* * *
23370642 AATTTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
* * *
23370686 AATCTTATTTCCCTGCAGTTGCAGTGAAGCAGATTGAAGCCATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
* * *
23370730 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGTTATCATGGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---CCAT---A
** * * * * *
23370780 AATCTTATCTCGATGAAGTTACAGTAGAGCATATTGAAGTTATCATGGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---CCAT---A
* * * *
23370830 AATCTTATCTCCCTGAAGTGGCAGTGGAGCATATTCAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
*
23370874 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG--ATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
** * * *
23370916 GCAAGTCTTATCTCCCTGAAGTTGCAGTGGAATAAACTAAAGCCTAAAGCTA
1 --AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC---A--TA
* * * *
23370968 CTAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACA
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
*
23371014 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
23371053 TTACTAATAT
Statistics
Matches: 544, Mismatches: 116, Indels: 58
0.76 0.16 0.08
Matches are distributed among these distances:
42 2 0.00
44 249 0.46
45 95 0.17
46 2 0.00
47 5 0.01
48 2 0.00
50 152 0.28
51 33 0.06
52 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATA
Found at i:23370537 original size:94 final size:90
Alignment explanation
Indices: 23370320--23371055 Score: 498
Period size: 94 Copynumber: 8.0 Consensus size: 90
23370310 CGTTATGGTG
* * * * * * * *
23370320 AATCTTATCTCTCTTAAGTTGCAGTGGAGTAGATTGAAGCCATTAATCTAATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAATCTTATCTCCCTGAAGTTG
* * * * * *
23370385 CAGTGGTGTAGATTTAAGATA-GA-
66 CAGTGGAGCATATTGAAGTTATCAC
* * * * * *
23370408 ATATTTTATCTCTCTGAAATTACAGTAGAGGAGATTAAAGCTATAAATCTTATCTCCCTGAAGTT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAATCTTATCTCCCTGAAGTT
* *
23370473 GCAGTGGAACAAATTGAAGTTATCATC
65 GCAGTGGAGCATATTGAAGTTATCA-C
* * * * * * * *
23370500 GTGAATTTTATCTCCCTGAAGTTACAGTGGAGCAGATTTAAGATAACAAATCTTCTCTCTCTAAA
1 ---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ATAAATCTTATCTCCCTGAA
* * * * *
23370565 ATTGCAGTAGAGGAGATTAAAGTTAT-A-
62 GTTGCAGTGGAGCATATTGAAGTTATCAC
** *
23370592 AATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAGTTAACATGATAAATTTTATCTCCCTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG----C-T-ATAAATCTTATCTCCCTG
**
23370657 AAGTTGCAGTGGAGCATATTGAAGCCA-CA-
60 AAGTTGCAGTGGAGCATATTGAAGTTATCAC
* * * * *
23370686 AATCTTATTTCCCTGCAGTTGCAGTGAAGCAGATTGAAGCCATAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAATCTTATCTCCCTGAAGTTG
23370751 CAGTGGAGCATATTGAAGTTATCATGGC
66 CAGTGGAGCATATTGAAGTTATCA---C
** * * * * *
23370779 GAATCTTATCTCGATGAAGTTACAGTAGAGCATATTGAAGTTATCATGGCGAATCTTATCTCCCT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAT-A-----AATCTTATCTCCCT
* * **
23370844 GAAGTGGCAGTGGAGCATATTCAAGCCA-CA-
59 GAAGTTGCAGTGGAGCATATTGAAGTTATCAC
* * * * *
23370874 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAGTCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-TAAATCTTATCTCCCTGAAGTT
** * * * * *
23370939 GCAGTGGAATAAACTAAAGCCTAAAGCTAC
65 GCAGTGGAGCATATTGAAG--T-TATC-AC
* * * *
23370969 TAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAATCTTATCTCCCTGAAGTT
* *
23371034 GCAGTGGAGTAGATTGAAGTTA
65 GCAGTGGAGCATATTGAAGTTA
23371056 CTAATATCTC
Statistics
Matches: 508, Mismatches: 106, Indels: 64
0.75 0.16 0.09
Matches are distributed among these distances:
88 43 0.08
89 136 0.27
90 2 0.00
92 2 0.00
93 2 0.00
94 173 0.34
95 74 0.15
96 36 0.07
99 2 0.00
100 38 0.07
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (90 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCATATTGAAGTTATCAC
Found at i:23370537 original size:139 final size:136
Alignment explanation
Indices: 23370320--23371055 Score: 612
Period size: 139 Copynumber: 5.3 Consensus size: 136
23370310 CGTTATGGTG
* * * * * *
23370320 AATCTTATCTCTCTTAAGTTGCAGTGGAGTAGATTGAAG---CCAT-T-AATCTAATCTCTCTGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATCATGTGAATCTTATCTCCCTGA
* * * * * * *
23370380 AGTTGCAGTGGTGTAGATTTAAGATAGAATATTTTATCTCTCTGAAATTACAGTAGAGGAGATTA
66 AGTTGCAGTGGAGCAGATTGAAGATA-AA-ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTA
*
23370445 AAGCTATA
129 AAGCCATA
* * *
23370453 AATCTTATCTCCCTGAAGTTGCAGTGGAACAAATTGAAGTTATCATCGTGAATTTTATCTCCCTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATCAT-GTGAATCTTATCTCCCTG
* * * * * *
23370518 AAGTTACAGTGGAGCAGATTTAAGATAACAAATCTTCTCTCTCTAAAATTGCAGTAGAGGAGATT
65 AAGTTGCAGTGGAGCAGATTGAAGAT-A-AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT
**
23370583 AAAGTTATA
128 AAAGCCATA
** * * * *
23370592 AATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAGTTAACATGATAAATTTTATCTCCCTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATCATG-TGAATCTTATCTCCCTG
* ** * * *
23370657 AAGTTGCAGTGGAGCATATTGAAGCCACAAATCTTATTTCCCTGCAGTTGCAGT-GAAGCAGATT
65 AAGTTGCAGTGGAGCAGATTGAAGATA-AAATCTTATCTCTCTGAAGTTGCAGTAG-AGCAGATT
*
23370721 GAAGCCATA
128 AAAGCCATA
* * **
23370730 AATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAGTTATCATGGCGAATCTTATCTCGATG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATCAT-GTGAATCTTATCTCCCTG
* * * * * * *
23370795 AAGTTACAGTAGAGCATATTGAAGTTATCATGGCGAATCTTATCTCCCTGAAGTGGCAGTGGAGC
65 AAGTTGCAGTGGAGCAGATTGAAG--AT-A----AAATCTTATCTCTCTGAAGTTGCAGTAGAGC
* * *
23370860 ATATTCAAGCCACA
123 AGATTAAAGCCATA
* *
23370874 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG--AT-A-G-CAAGTCTTATCTCCCTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATCATGTGAA-TCTTATCTCCCTG
* ** * * *
23370934 AAGTTGCAGTGGAATAAACTAAAGCCTAAAGCTACTAATCTTATCTCTCTGAAGTTGCAGTAGAG
65 AAGTTGCAGTGG----AGC---AGATTGAAGATA-AAATCTTATCTCTCTGAAGTTGCAGTAGAG
*
23370999 CAGATTAAAGCCACA
122 CAGATTAAAGCCATA
*
23371014 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
23371056 CTAATATCTC
Statistics
Matches: 494, Mismatches: 82, Indels: 45
0.80 0.13 0.07
Matches are distributed among these distances:
133 34 0.07
136 3 0.01
137 1 0.00
138 114 0.23
139 173 0.35
140 80 0.16
141 2 0.00
142 3 0.01
143 3 0.01
144 75 0.15
145 1 0.00
146 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (136 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTATCATGTGAATCTTATCTCCCTGA
AGTTGCAGTGGAGCAGATTGAAGATAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
GCCATA
Found at i:23370790 original size:277 final size:279
Alignment explanation
Indices: 23370413--23371055 Score: 690
Period size: 277 Copynumber: 2.3 Consensus size: 279
23370403 ATAGAATATT
* * * * *
23370413 TTATCTCTCTGAAATTACAGTAGAGGAGATTAAAGCTATAAATCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAATCTTATCTCCCTGAAGTTGCAGT
* * * * * *
23370478 GGAACAAATTGAAGTTATCATCGTGAATTTTATCTCCCTGAAGTTACAGTGGAGCAGATTTAAG-
66 GGAGCAAATTGAAGTTATCATCGCGAATCTTATCTCCATGAAGTTACAGTAGAGCAGATTGAAGT
* * * * ** * **
23370542 AT-A-ACAAATCTTCTCTCTCTAAAATTGCAGTAGAGGAGATTAAAGTTATAAATCTTATCTCTT
131 ATCAGACAAATCTTATCTCCCTAAAATGGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCC
* *
23370605 TGAAGTTGCAGTGGAGCAGATTAAAGTTAACATGATAAATTTTATCTCCCTGAAGTTGCAGTGGA
196 TGAAGTTGCAGTGGAGCAGATTAAAG---ACA-G-CAAATCTTATCTCCCTGAAGTTGCAGTGGA
* * * *
23370670 GCATATTGAAGCC-A-C-A-AATC
256 ACAAACTAAAGCCAAGCTACAATC
* * *
23370690 TTATTTCCCTGCAGTTGCAGT-GAAGCAGATTGAAGCCATAAATCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAGCCATAAATCTTATCTCCCTGAAGTTGCAG
* * * *
23370754 TGGAGCATATTGAAGTTATCATGGCGAATCTTATCTCGATGAAGTTACAGTAGAGCATATTGAAG
65 TGGAGCAAATTGAAGTTATCATCGCGAATCTTATCTCCATGAAGTTACAGTAGAGCAGATTGAAG
* * * * * * *
23370819 TTATCATGGCGAATCTTATCTCCCTGAAGTGGCAGTGGAGCATATTCAAGCCACAAATCTTATCT
130 -TATCA-GACAAATCTTATCTCCCTAAAATGGCAGTAGAGCAGATTAAAGCCACAAATCTTATCT
* * * * *
23370884 CCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAAT
193 CCCTGAAGTTGCAGTGGAGCAGATTAAAGACAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAAC
23370949 AAACTAAAGCCTAAAGCTACTAATC
258 AAACTAAAGCC--AAGCTAC-AATC
* *
23370974 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAATCTTATCTCCCTGAAGTTGCAGT
* *
23371039 GGAGTAGATTGAAGTTA
66 GGAGCAAATTGAAGTTA
23371056 CTAATATCTC
Statistics
Matches: 300, Mismatches: 52, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
276 1 0.00
277 144 0.48
278 1 0.00
279 4 0.01
280 2 0.01
281 1 0.00
282 69 0.23
284 77 0.26
285 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (279 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAATCTTATCTCCCTGAAGTTGCAGT
GGAGCAAATTGAAGTTATCATCGCGAATCTTATCTCCATGAAGTTACAGTAGAGCAGATTGAAGT
ATCAGACAAATCTTATCTCCCTAAAATGGCAGTAGAGCAGATTAAAGCCACAAATCTTATCTCCC
TGAAGTTGCAGTGGAGCAGATTAAAGACAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAAA
CTAAAGCCAAGCTACAATC
Found at i:23371299 original size:13 final size:13
Alignment explanation
Indices: 23371276--23371308 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
23371266 AACAGTAGCA
23371276 AAAAAATAAAAA-
1 AAAAAATAAAAAC
*
23371288 TAAAAATAAAAAC
1 AAAAAATAAAAAC
23371301 AAAAAATA
1 AAAAAATA
23371309 TGTATAAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAC
Found at i:23372465 original size:128 final size:127
Alignment explanation
Indices: 23372152--23372482 Score: 400
Period size: 127 Copynumber: 2.6 Consensus size: 127
23372142 GTCCAACAAA
** * * *
23372152 AAATCGAAACCCAGCAC-AGTAGGGTGCAATTCCTCGAATTTCCAAACATTGAACCTTGCCTCGC
1 AAATCGAAACCCAGCACGA-TAGGGCACAATTCCTCGAATTTCCAAACATTGAACATTGCCTTGT
*
23372216 TTT-AGAATTTAGAAAACACAAGTGAAATTCAAAAGGAATATTCAATTATTTTTGAACAACGGG
65 TTTAAGAA-TTAGAAAACACAAGTGAAATTCAAAAGGAATATTCAATTATTTTTAAACAACGGG
* * * *
23372279 AAATCGAAACCCAGTATGATAAGGCACAATTCCTCGAATTTCCAAACATTGAATATTGCCTTGTT
1 AAATCGAAACCCAGCACGATAGGGCACAATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTT
* * ** * *
23372344 TTAAGAATTGGGAAACATGAGTGAAATTCTAAAGGAATATTCGATTA-TTTTAAACAAACGGGG
66 TTAAGAATTAGAAAACACAAGTGAAATTCAAAAGGAATATTCAATTATTTTTAAAC-AAC-GGG
* **
23372407 AAATCGAAACCCAGCACGATAGGGCACGATTTCC-CGAATTTCCAAACATCAAACATTGCCTTCG
1 AAATCGAAACCCAGCACGATAGGGCAC-AATTCCTCGAATTTCCAAACATTGAACATTGCCTT-G
23372471 TTTTAAGGAATT
64 TTTTAA-GAATT
23372483 TTCAAACGAA
Statistics
Matches: 174, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
126 7 0.04
127 93 0.53
128 57 0.33
129 12 0.07
130 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGATAGGGCACAATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTT
TTAAGAATTAGAAAACACAAGTGAAATTCAAAAGGAATATTCAATTATTTTTAAACAACGGG
Found at i:23372724 original size:14 final size:14
Alignment explanation
Indices: 23372707--23372734 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23372697 CCAAAAACAT
23372707 ATCAAAGCAAACTA
1 ATCAAAGCAAACTA
23372721 ATCAAAGCAAACTA
1 ATCAAAGCAAACTA
23372735 CAGTAAGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.21, G:0.07, T:0.14
Consensus pattern (14 bp):
ATCAAAGCAAACTA
Found at i:23375207 original size:216 final size:215
Alignment explanation
Indices: 23374872--23375337 Score: 675
Period size: 216 Copynumber: 2.2 Consensus size: 215
23374862 CCCACTCCAG
* * * *
23374872 AGGATCCGCGTGTTTTCAACAAAGGGTCTATTTACGAGATCAGTTCTTCTTCTTTCACAGCGCGT
1 AGGATCCACGTGTTTTCAACAAAGGGTCTATTTACGAGATCAGTCCTTCTGCTTTCACAGCGCAT
*
23374937 TTAATTTAGTCCTATCTCATTTTTCTATTTTTTAAAATTTTACCACAAACTTGTAGTTTTGTTTT
66 TTAATTTAGTCCTATCTCATTTTTCTATTTTTTAAAATTTTACCACAAACTTGTAGTTTTGTTTC
* * * *
23375002 AGTTTGGTCCTTGAGTCGTTTTAATGGGTAAGCAACTGAAACGGTGCCGTTTTGAGCT-GACCCA
131 AATTTGGTCCTTGAGCCGTTTTAATGGATAAGCAACTGAAACGGTGCCGTTTTG-GCTCAACCCA
23375066 TGATCCGACCCGACCCATTCC
195 TGATCCGACCCGACCCATTCC
* * * *
23375087 AGGATCCACGTGTTTTTAACAAAGGGTCTATTTGCGAGATCAGTCCTTCTGCTTTTATAGCGCAT
1 AGGATCCACGTGTTTTCAACAAAGGGTCTATTTACGAGATCAGTCCTTCTGCTTTCACAGCGCAT
* *
23375152 TTCAATTTAGTCCTATCTCATTTTTCTATTTTTTTAAATTTTACCATAAACTTGTAGTTTTGTTT
66 TT-AATTTAGTCCTATCTCATTTTTCTATTTTTTAAAATTTTACCACAAACTTGTAGTTTTGTTT
* ** *
23375217 CAATTTGGTCCTTGAGCCGTTTTAATGGATAAGCACCTGAAACGGTGTTGTTTTGGGTCAACCCA
130 CAATTTGGTCCTTGAGCCGTTTTAATGGATAAGCAACTGAAACGGTGCCGTTTTGGCTCAACCCA
* *
23375282 TGATCTGACCTGACCCATTCC
195 TGATCCGACCCGACCCATTCC
* **
23375303 AGGATCCTCGTGTTTTGGACTAAA-GGTCTATTTAC
1 AGGATCCACGTGTTTTCAAC-AAAGGGTCTATTTAC
23375338 CCTTTTAATC
Statistics
Matches: 223, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
215 61 0.27
216 159 0.71
217 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (215 bp):
AGGATCCACGTGTTTTCAACAAAGGGTCTATTTACGAGATCAGTCCTTCTGCTTTCACAGCGCAT
TTAATTTAGTCCTATCTCATTTTTCTATTTTTTAAAATTTTACCACAAACTTGTAGTTTTGTTTC
AATTTGGTCCTTGAGCCGTTTTAATGGATAAGCAACTGAAACGGTGCCGTTTTGGCTCAACCCAT
GATCCGACCCGACCCATTCC
Found at i:23375819 original size:16 final size:16
Alignment explanation
Indices: 23375800--23375846 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
23375790 TTATTATCTC
23375800 ATTTTTATTTTATTTG
1 ATTTTTATTTTATTTG
* * *
23375816 ATTTTTGTGTTATTTT
1 ATTTTTATTTTATTTG
23375832 ATTATTTATTTTATT
1 ATT-TTTATTTTATT
23375847 GTTTTTGGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (16 bp):
ATTTTTATTTTATTTG
Found at i:23383397 original size:26 final size:26
Alignment explanation
Indices: 23383368--23383475 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
23383358 TGATACAAAT
23383368 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
23383394 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23383420 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23383446 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23383472 TGAT
1 TGAT
23383476 GGCCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23384989 original size:26 final size:26
Alignment explanation
Indices: 23384960--23385012 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
23384950 TTTACAGTTT
*
23384960 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
23384986 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
23385012 T
1 T
23385013 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:23389613 original size:12 final size:12
Alignment explanation
Indices: 23389598--23389695 Score: 62
Period size: 12 Copynumber: 8.2 Consensus size: 12
23389588 CTATTATTTA
23389598 TATTATTACTAT
1 TATTATTACTAT
*
23389610 TATTATTATTAT
1 TATTATTACTAT
*
23389622 TATTATT-TTATT
1 TATTATTACTA-T
23389634 TATTATGTTA-TATT
1 TATTA--TTACTA-T
* * *
23389648 TAGTATTATTTT
1 TATTATTACTAT
*
23389660 TAATATTAC-AT
1 TATTATTACTAT
*
23389671 T-TTTTTACTAT
1 TATTATTACTAT
23389682 TA-TATTACTAT
1 TATTATTACTAT
23389693 TAT
1 TAT
23389696 CTTTGTTATT
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
10 5 0.07
11 18 0.26
12 35 0.51
13 1 0.01
14 10 0.14
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:23389657 original size:3 final size:3
Alignment explanation
Indices: 23389575--23389639 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
23389565 GATTAAGTTT
* * *
23389575 TTA TTA TATA TTG CTA TTA TT- TATA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
23389621 TTA TTA TT- TTA TTTA TTA T
1 TTA TTA TTA TTA -TTA TTA T
23389640 GTTATATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
2 3 0.06
3 41 0.80
4 7 0.14
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:23390417 original size:24 final size:23
Alignment explanation
Indices: 23390371--23390482 Score: 99
Period size: 22 Copynumber: 4.8 Consensus size: 23
23390361 AATGTATATG
*
23390371 TATA-TATCGTATATGTTTT-ATA
1 TATATTAT-GTATATATTTTCATA
23390393 TATATTATGTATATATTTTCA-A
1 TATATTATGTATATATTTTCATA
*
23390415 TATTATTA-GT-TATATTTTTATA
1 TA-TATTATGTATATATTTTCATA
*
23390437 TACTATTCCATGTACATATTTTCATA
1 TA-TATT--ATGTATATATTTTCATA
*
23390463 TCATCTTATGTATATATTTT
1 T-ATATTATGTATATATTTT
23390483 TAAACACTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 16
0.76 0.07 0.16
Matches are distributed among these distances:
21 9 0.12
22 26 0.35
23 9 0.12
24 13 0.18
25 2 0.03
26 14 0.19
27 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.05, T:0.55
Consensus pattern (23 bp):
TATATTATGTATATATTTTCATA
Found at i:23390495 original size:24 final size:24
Alignment explanation
Indices: 23390395--23390495 Score: 66
Period size: 24 Copynumber: 4.2 Consensus size: 24
23390385 GTTTTATATA
* * *
23390395 TATTATGTATATA-TTTTCAATAT
1 TATTATGTATATATTTTTAAACAC
* *
23390418 TATTA-GT-TATATTTTTATATAC
1 TATTATGTATATATTTTTAAACAC
* * *
23390440 TATTCCATGTACATATTTTCATATCA-
1 TATT--ATGTATATATTTTTA-AACAC
*
23390466 TCTTATGTATATATTTTTAAACAC
1 TATTATGTATATATTTTTAAACAC
23390490 TATTAT
1 TATTAT
23390496 ATGTATATGT
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
21 4 0.07
22 13 0.22
23 8 0.14
24 19 0.33
25 2 0.03
26 11 0.19
27 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (24 bp):
TATTATGTATATATTTTTAAACAC
Found at i:23390589 original size:23 final size:24
Alignment explanation
Indices: 23390553--23390598 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
23390543 ACATTTATTT
23390553 TATTCCTACTATAT-TTATTATTAA
1 TATTCCTACTATATATT-TTATTAA
*
23390577 TATTGCTAC-ATATATTTTATTA
1 TATTCCTACTATATATTTTATTA
23390599 TACTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (24 bp):
TATTCCTACTATATATTTTATTAA
Found at i:23390942 original size:32 final size:32
Alignment explanation
Indices: 23390906--23391002 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
23390896 TGTATGCATT
23390906 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
* *
23390938 TTAGCATTTTAATAGTTAATGAATTATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
23390970 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
23391002 T
1 T
23391003 GATAAGCATT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:23391472 original size:75 final size:75
Alignment explanation
Indices: 23391349--23391499 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
23391339 AAAAATGGAA
23391349 GATAGGTGAAGTTGAGCCAAACAAATGATCATGCATGTGCCTTAGATGCTAAAGGGAAAAATCGG
1 GATAGGTGAAGTTGAGCCAAACAAATGATCATGCATGTGCCTTAGATGCTAAAGGGAAAAATCGG
23391414 CTAACATGTT
66 CTAACATGTT
23391424 GATAGGTGAAGTTGAGCCAAACAAATGATCATGCATGTGCCTTAGATGCTAAAGGGAAAAATCGG
1 GATAGGTGAAGTTGAGCCAAACAAATGATCATGCATGTGCCTTAGATGCTAAAGGGAAAAATCGG
23391489 CTAACATGTT
66 CTAACATGTT
23391499 G
1 G
23391500 TGCTTTAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.24
Consensus pattern (75 bp):
GATAGGTGAAGTTGAGCCAAACAAATGATCATGCATGTGCCTTAGATGCTAAAGGGAAAAATCGG
CTAACATGTT
Found at i:23392585 original size:26 final size:26
Alignment explanation
Indices: 23392556--23392608 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
23392546 TTTACAGTTT
23392556 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
23392582 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
23392608 T
1 T
23392609 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:23393843 original size:11 final size:11
Alignment explanation
Indices: 23393821--23393851 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
23393811 ATATTCATTT
23393821 TATATATATATG
1 TATATAT-TATG
23393833 TATATATTATG
1 TATATATTATG
23393844 TATATATT
1 TATATATT
23393852 TTAACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
TATATATTATG
Found at i:23399440 original size:15 final size:16
Alignment explanation
Indices: 23399419--23399467 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 16
23399409 TAAACTACAA
23399419 AATATTTATTATTAAT
1 AATATTTATTATTAAT
*
23399435 -ATATTTATAATTGTAAT
1 AATATTTATTA-T-TAAT
23399452 AAATATTTATTATTAA
1 -AATATTTATTATTAA
23399468 ATTAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 9 0.33
16 1 0.04
17 7 0.26
18 1 0.04
19 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
AATATTTATTATTAAT
Found at i:23399509 original size:33 final size:30
Alignment explanation
Indices: 23399451--23399525 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 30
23399441 ATAATTGTAA
*
23399451 TAAAT-ATTTATTATTAAATTAAAATTGAAATAT
1 TAAATAATTTATTA-TAAATAAAAATT---ATAT
23399484 TAAATAATTTATTA-AAATAATAAATTATAT
1 TAAATAATTTATTATAAATAA-AAATTATAT
23399514 T-AATAATTTATT
1 TAAATAATTTATT
23399526 GTATGAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
29 11 0.28
30 5 0.13
32 5 0.13
33 10 0.26
34 8 0.21
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
TAAATAATTTATTATAAATAAAAATTATAT
Found at i:23399630 original size:6 final size:6
Alignment explanation
Indices: 23399619--23399649 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
23399609 TAAATATTTT
23399619 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
23399650 TATTATCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:23399990 original size:26 final size:26
Alignment explanation
Indices: 23399960--23400009 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
23399950 CTTAAACAAA
23399960 ACTTTTCAAAA-ATACTTTTCAAAATC
1 ACTTTTCAAAAGA-ACTTTTCAAAATC
*
23399986 ACTTTTTAAAAGAACTTTTCAAAA
1 ACTTTTCAAAAGAACTTTTCAAAA
23400010 GTAATGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (26 bp):
ACTTTTCAAAAGAACTTTTCAAAATC
Found at i:23400010 original size:13 final size:13
Alignment explanation
Indices: 23399959--23400010 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
23399949 TCTTAAACAA
23399959 AACTTTTCAAAA-
1 AACTTTTCAAAAG
*
23399971 ATACTTTTCAAAAT
1 A-ACTTTTCAAAAG
* *
23399985 CACTTTTTAAAAG
1 AACTTTTCAAAAG
23399998 AACTTTTCAAAAG
1 AACTTTTCAAAAG
23400011 TAATGTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
12 1 0.03
13 32 0.97
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (13 bp):
AACTTTTCAAAAG
Found at i:23411214 original size:39 final size:39
Alignment explanation
Indices: 23411163--23411251 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
23411153 AAAAATTATA
* * *
23411163 TTTAATACAATAAAATATTTATTATATTTAT-TTATGTT
1 TTTAATATAATAAAACATTTATTATATTTATGTAATGTT
23411201 TTCTAATATAATAAAACATTTATTATATTTATGGTAATGTT
1 TT-TAATATAATAAAACATTTATTATATTTAT-GTAATGTT
23411242 TTTAATATAA
1 TTTAATATAA
23411252 ATATTTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 2 0.04
39 27 0.60
40 8 0.18
41 8 0.18
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATGTAATGTT
Found at i:23412213 original size:6 final size:6
Alignment explanation
Indices: 23412202--23412239 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
23412192 ATTCTCTATT
* *
23412202 TTTATC TTTATC TTTATC TTTATC TTCATC TTCATC TT
1 TTTATC TTTATC TTTATC TTTATC TTTATC TTTATC TT
23412240 GATTTTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTATC
Found at i:23413831 original size:19 final size:19
Alignment explanation
Indices: 23413807--23413854 Score: 51
Period size: 23 Copynumber: 2.3 Consensus size: 19
23413797 ATGTGTACTC
23413807 ATGTATTCAATATATTCAT
1 ATGTATTCAATATATTCAT
*
23413826 ATGTATAACTTTAATATATTCAT
1 ATG--T-A-TTCAATATATTCAT
23413849 ATGTAT
1 ATGTAT
23413855 AACTAACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 2 0.08
22 1 0.04
23 16 0.67
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (19 bp):
ATGTATTCAATATATTCAT
Found at i:23413863 original size:27 final size:23
Alignment explanation
Indices: 23413815--23413858 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
23413805 TCATGTATTC
23413815 AATATATTCATATGTATAACTTT
1 AATATATTCATATGTATAACTTT
23413838 AATATATTCATATGTATAACT
1 AATATATTCATATGTATAACT
23413859 AACTTATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (23 bp):
AATATATTCATATGTATAACTTT
Found at i:23418761 original size:5 final size:5
Alignment explanation
Indices: 23418751--23418788 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
23418741 AACACTCATA
23418751 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
23418789 CTAGTCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:23421341 original size:22 final size:22
Alignment explanation
Indices: 23421313--23421356 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23421303 CGTGAGATTG
23421313 CGTATTCTGTGGGGGACTTTAT
1 CGTATTCTGTGGGGGACTTTAT
23421335 CGTATTCTGTGGGGGACTTTAT
1 CGTATTCTGTGGGGGACTTTAT
23421357 TTTTTTAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.32, T:0.41
Consensus pattern (22 bp):
CGTATTCTGTGGGGGACTTTAT
Found at i:23424421 original size:19 final size:20
Alignment explanation
Indices: 23424378--23424423 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
23424368 GTAAAGGATA
23424378 TTATAAAATATAAATTATGTG
1 TTATAAAATATAAA-TATGTG
23424399 TTATAAAATACTAAA-AT-TG
1 TTATAAAATA-TAAATATGTG
23424418 TTATAA
1 TTATAA
23424424 TAGTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.33
20 2 0.08
21 10 0.42
22 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (20 bp):
TTATAAAATATAAATATGTG
Found at i:23443802 original size:5 final size:5
Alignment explanation
Indices: 23443792--23443820 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
23443782 TGTATATGTG
23443792 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
23443821 AACACACAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:23450934 original size:27 final size:27
Alignment explanation
Indices: 23450904--23450965 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
23450894 GATGTGCCAA
**
23450904 AGGCGGCAATGGTGAAGCCTCTGGT-AG
1 AGGCGGCAATCATGAAGCCTCT-GTCAG
*
23450931 AGGCGGCACTCATGAAGCCTCTGTCAG
1 AGGCGGCAATCATGAAGCCTCTGTCAG
23450958 AGGCGGCA
1 AGGCGGCA
23450966 CCAGTTGCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.23, C:0.24, G:0.37, T:0.16
Consensus pattern (27 bp):
AGGCGGCAATCATGAAGCCTCTGTCAG
Found at i:23452681 original size:46 final size:44
Alignment explanation
Indices: 23452577--23452684 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
23452567 TGTTTTTGAC
** * * *
23452577 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
23452621 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
23452667 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
23452685 TTTATGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:23457260 original size:22 final size:22
Alignment explanation
Indices: 23457232--23457283 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
23457222 TATGGTGAAG
23457232 TGGCAAGGTGGCATCATAGAAT
1 TGGCAAGGTGGCATCATAGAAT
23457254 TGGCAAGGTGGCATCATAGAAT
1 TGGCAAGGTGGCATCATAGAAT
23457276 TGGCAAGG
1 TGGCAAGG
23457284 AGGTCTAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (22 bp):
TGGCAAGGTGGCATCATAGAAT
Found at i:23457902 original size:27 final size:27
Alignment explanation
Indices: 23457856--23458076 Score: 293
Period size: 27 Copynumber: 8.2 Consensus size: 27
23457846 CAATTTGTAA
*
23457856 AATTACTG-TTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
23457882 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
23457909 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
23457936 AATTATCATTTTACCCTCGATCTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
23457963 AATTACCGTTTTACCTTTGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
23457990 AATTACCGTTTTATCCTCAATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
23458017 ACTTACCATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
23458044 AATTACCGTTTTACCCTTC-ATTTACAA
1 AATTACCGTTTTACCC-TCGATTTACAG
23458071 AATTAC
1 AATTAC
23458077 TAAAATACCC
Statistics
Matches: 171, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 7 0.04
27 162 0.95
28 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:23458102 original size:54 final size:54
Alignment explanation
Indices: 23457866--23458104 Score: 201
Period size: 54 Copynumber: 4.4 Consensus size: 54
23457856 AATTACTGTT
* * * * ***
23457866 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAA
* * * * * * * ****
23457920 TACCCTCGATTTATAGAATTATCATTTTACCCTCGATCTACAGAATTACCGTTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAA
* * * * ***
23457974 TACCTTTGATTTACAGAATTACCGTTTTATCCTCAATTTACAGACTTACCATTT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAA
* *
23458028 TACCCTCGATTTACAGAATTACCGTTTTACCCTTC-ATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACCGTTTTACCC-TCAATTTACAAAATTACCAAAA
* *
23458082 TACCCTTGGTTTACAAAATTACC
1 TACCCTTGATTTACAGAATTACC
23458105 AAAATACCCT
Statistics
Matches: 156, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
54 154 0.99
55 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAA
Found at i:23458179 original size:54 final size:54
Alignment explanation
Indices: 23458069--23458262 Score: 192
Period size: 54 Copynumber: 3.6 Consensus size: 54
23458059 CTTCATTTAC
* * ** * **
23458069 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCT-GATTTGT
*
23458123 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGATTTGT
* * * * * *
23458177 AAAATTACCAAAACACCCCTAGCTTCTAAAATTACTAAAGTACCCTTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGATTTGT
* * * * * *
23458231 GAAATTATCGAAATACTCTTGATTTGTAAAAT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAAT
23458263 ATCGAAATAC
Statistics
Matches: 114, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
54 110 0.96
55 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGATTTGT
Found at i:23458195 original size:27 final size:27
Alignment explanation
Indices: 23458069--23458262 Score: 174
Period size: 27 Copynumber: 7.2 Consensus size: 27
23458059 CTTCATTTAC
* * **
23458069 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
23458096 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
23458123 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
23458150 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
23458177 AAAATTACCAAAACACCCCTAGCTTCT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
23458204 AAAATTACTAAAGTACCCTTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * * * *
23458231 GAAATTATCGAAATACTCTTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
23458258 AAAAT
1 AAAAT
23458263 ATCGAAATAC
Statistics
Matches: 134, Mismatches: 31, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
26 3 0.02
27 127 0.95
28 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:23458245 original size:81 final size:80
Alignment explanation
Indices: 23458069--23458262 Score: 212
Period size: 81 Copynumber: 2.4 Consensus size: 80
23458059 CTTCATTTAC
** * *
23458069 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAACACCCTAGATCA-TAAAATTACCAA
*
23458134 AATACCCCTGGTTTGT
65 AATACCCCTGATTTGT
* * *
23458150 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAACACCCCTAGCTTC-TAAAATTACTA
1 AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAACA-CCCTAG-ATCATAAAATTACCA
* *
23458214 AAGTACCCTTGATTTGT
64 AAATACCCCTGATTTGT
* * * *
23458231 GAAATTA-TCGAAATACTCTTGATTTGTAAAAT
1 AAAATTACT-AAAATACCCTTGGTTTGTAAAAT
23458263 ATCGAAATAC
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.01
81 87 0.92
82 5 0.05
83 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAACACCCTAGATCATAAAATTACCAAA
ATACCCCTGATTTGT
Found at i:23458272 original size:26 final size:27
Alignment explanation
Indices: 23458221--23458272 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
23458211 CTAAAGTACC
*
23458221 CTTGATTTGTGAAATTATCGAAATACT
1 CTTGATTTGTGAAAATATCGAAATACT
23458248 CTTGATTTGT-AAAATATCGAAATAC
1 CTTGATTTGTGAAAATATCGAAATAC
23458273 CATTGTAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (27 bp):
CTTGATTTGTGAAAATATCGAAATACT
Found at i:23458300 original size:27 final size:27
Alignment explanation
Indices: 23458265--23458401 Score: 159
Period size: 27 Copynumber: 5.0 Consensus size: 27
23458255 TGTAAAATAT
* *
23458265 CGAAATACCATTGTAGGGTAGAATTAT
1 CGAAATACCCTTGTAGGGTAGAATTAC
* * *
23458292 CGAAATACCCCTATAGGATAGAATTAC
1 CGAAATACCCTTGTAGGGTAGAATTAC
23458319 CGAAATAACCC-TGTAGGGTAGAATTAC
1 CGAAAT-ACCCTTGTAGGGTAGAATTAC
* *
23458346 CGAAATACCTTTGTAGGGTAGAATTAG
1 CGAAATACCCTTGTAGGGTAGAATTAC
* * *
23458373 CGAGATACCCTTGTGGGGTAAAAATTAC
1 CGAAATACCCTTGTAGGGT-AGAATTAC
23458401 C
1 C
23458402 ATTTTTCCCC
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
26 3 0.03
27 79 0.85
28 11 0.12
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAATTAC
Found at i:23458564 original size:16 final size:16
Alignment explanation
Indices: 23458543--23458573 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23458533 CAAATATAGG
*
23458543 CATGACATTCTGCATA
1 CATGACATGCTGCATA
23458559 CATGACATGCTGCAT
1 CATGACATGCTGCAT
23458574 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (16 bp):
CATGACATGCTGCATA
Found at i:23458642 original size:25 final size:25
Alignment explanation
Indices: 23458604--23458698 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
23458594 AGGAAGTGCT
* *
23458604 AAAAGGGCTATGCCCCCGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
23458629 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
23458654 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
23458679 AAAAGGGCTTTTCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
23458699 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:23461599 original size:24 final size:24
Alignment explanation
Indices: 23461545--23461599 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
23461535 GCTCCAGTTG
* * *
23461545 TGGCTCGGGCTCGACATCTGGCTC
1 TGGCTCGGGCTCGACATCAGCCAC
* * *
23461569 TGACTCGGGCTCTATATCAGCCAC
1 TGGCTCGGGCTCGACATCAGCCAC
23461593 TGGCTCG
1 TGGCTCG
23461600 TATGCCCCAG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.13, C:0.33, G:0.29, T:0.25
Consensus pattern (24 bp):
TGGCTCGGGCTCGACATCAGCCAC
Found at i:23463804 original size:150 final size:150
Alignment explanation
Indices: 23463626--23464162 Score: 765
Period size: 150 Copynumber: 3.6 Consensus size: 150
23463616 TTTTTTTAGG
* *
23463626 TGATTTTGACCCTTTGTTGATATTTTTTTTTATTTT-AGGATTTTA-TTTTTAAAATATACTATT
1 TGATTTTGGCCCTTTGTTGGTA-TTTTTTTTATTTTCA-GATTTTATTTTTTAAAATATACTATT
*
23463689 TTCGTATTTTATTTTTATATTATTTTAGTCCATAATGTTTCAAATGTATTATTTAAGTATTTTTT
64 TTCGTATTTTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTATTTTTT
*
23463754 ATATTAATTTAATAAATATCCC
129 ATATTAATTTAATAAATAACCC
*
23463776 TGATTTTGGCCCTTTATTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
* * * *
23463841 TGTATTTTATTTTTATATTATTTTAGTACATAATGTTCCAAATGCATTATTTAAGTGTTGTTTTT
66 CGTATTTTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT-AT-TTTTT
23463906 ATATTAATTTAATAAATAACCC
129 ATATTAATTTAATAAATAACCC
* *
23463928 TAATTTTGGCACTTTGTTGGTA------TT-TTTT---ATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
* *
23463983 CGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT
66 CGTATTTTA--TTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTATTTTTT
*
23464048 ATATTAATTTAGTAAATAACCC
129 ATATTAATTTAATAAATAACCC
* * * **
23464070 TGATTTTGGTCTTTTGTTTGTATTTTTTAAATTTTCAGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
23464135 CGTATTTTATTTTTATATTATTTTAGTA
66 CGTATTTTATTTTTATATTATTTTAGTA
23464163 AAAAATCCGC
Statistics
Matches: 346, Mismatches: 25, Indels: 32
0.86 0.06 0.08
Matches are distributed among these distances:
142 78 0.23
143 1 0.00
144 44 0.13
145 4 0.01
146 2 0.01
149 24 0.07
150 111 0.32
151 1 0.00
152 81 0.23
ACGTcount: A:0.27, C:0.07, G:0.08, T:0.58
Consensus pattern (150 bp):
TGATTTTGGCCCTTTGTTGGTATTTTTTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTT
CGTATTTTATTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTATTTTTTAT
ATTAATTTAATAAATAACCC
Found at i:23464227 original size:17 final size:16
Alignment explanation
Indices: 23464197--23464236 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
23464187 CCAAAAAGTT
*
23464197 ATTTTTTTCGTATTTA
1 ATTTTTTTCATATTTA
*
23464213 ATTTCTTTTCATATTTT
1 ATTT-TTTTCATATTTA
23464230 ATTTTTT
1 ATTTTTT
23464237 CATTAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (16 bp):
ATTTTTTTCATATTTA
Found at i:23464695 original size:3 final size:3
Alignment explanation
Indices: 23464681--23464728 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
23464671 GTGTCGCATC
* *
23464681 CTT CTC CTT CTT CTT CTT C-T CTT CTT -TT CTT CTT CTC CTT CTTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT
23464725 CTT C
1 CTT C
23464729 CCGAAATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:23464710 original size:25 final size:24
Alignment explanation
Indices: 23464682--23464728 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
23464672 TGTCGCATCC
*
23464682 TTCTCCTTCTTCTTCTTCTCTTCTT
1 TTCTCCTTCTCCTTCTT-TCTTCTT
*
23464707 TTCTTCTTCTCCTTCTTTCTTC
1 TTCTCCTTCTCCTTCTTTCTTC
23464729 CCGAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (24 bp):
TTCTCCTTCTCCTTCTTTCTTCTT
Found at i:23464712 original size:19 final size:16
Alignment explanation
Indices: 23464681--23464728 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
23464671 GTGTCGCATC
23464681 CTTCTCCTTC-TTCTT
1 CTTCTCCTTCTTTCTT
23464696 CTTCT-CTTCTTTTCTT
1 CTTCTCCTTC-TTTCTT
23464712 CTTCTCCTTCTTTCTT
1 CTTCTCCTTCTTTCTT
23464728 C
1 C
23464729 CCGAAATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.13
15 5 0.17
16 17 0.57
17 4 0.13
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
CTTCTCCTTCTTTCTT
Found at i:23464715 original size:22 final size:21
Alignment explanation
Indices: 23464687--23464727 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
23464677 CATCCTTCTC
*
23464687 CTTCTTCTTCTTCTCTTCTTTT
1 CTTCTTCTCCTTCT-TTCTTTT
23464709 CTTCTTCTCCTTCTTTCTT
1 CTTCTTCTCCTTCTTTCTT
23464728 CCCGAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (21 bp):
CTTCTTCTCCTTCTTTCTTTT
Found at i:23464900 original size:13 final size:13
Alignment explanation
Indices: 23464882--23464909 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23464872 CTATCAACTT
23464882 TTTCTGTTTTGTG
1 TTTCTGTTTTGTG
23464895 TTTCTGTTTTGTG
1 TTTCTGTTTTGTG
23464908 TT
1 TT
23464910 ACAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.21, T:0.71
Consensus pattern (13 bp):
TTTCTGTTTTGTG
Found at i:23467363 original size:2 final size:2
Alignment explanation
Indices: 23467322--23467355 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23467312 TACATATAAT
23467322 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23467356 CGTATATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23480465 original size:43 final size:44
Alignment explanation
Indices: 23480325--23480568 Score: 187
Period size: 43 Copynumber: 5.6 Consensus size: 44
23480315 AATTGCAGAT
* * * *
23480325 CTTATCCCACTAAGCAGCAGGGAAACAGATCGAAGGCGAAGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGGGC
* * * * ** * **
23480369 CTTAACCCCCTAAGCAGTAGGGTAATAG-GCTAAATTTACA-GAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGA-AGGGC
*
23480412 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGAAGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGGGC
* * * * **
23480456 CTTAA-CCCCTAAGCAGTAGGGTAACA-AACTGAA-TTTACA-GAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGGTGA-AGGGC
* * * *
23480498 CTTAA-CCCCTAAGTAGTAGGGAAACAGATCAAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGGGC
*
23480541 CTTAACCCCCTAAGCAGTAGGGTAACAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAG
23480569 GATTGAAATC
Statistics
Matches: 150, Mismatches: 41, Indels: 18
0.72 0.20 0.09
Matches are distributed among these distances:
42 30 0.20
43 66 0.44
44 54 0.36
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGAAGGGC
Found at i:23480474 original size:86 final size:87
Alignment explanation
Indices: 23480262--23480569 Score: 424
Period size: 86 Copynumber: 3.6 Consensus size: 87
23480252 AGAATGGTGT
** ** * *
23480262 AACAGATCGAAGACGAAGAACCTTAAATCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
* * *
23480326 TTATCCCACTAAGCAGCAGGGA
66 TTAACCCCCTAAGCAGTAGGGA
* * *
23480348 AACAGATCGAAGGCGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTAAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
23480413 TTAACCCCCTAAGCAGTAGGGA
66 TTAACCCCCTAAGCAGTAGGGA
* **
23480435 AACAGATCGAAGGCGAAGGGCCTTAA-CCCCTAAGCAGTAGGGTAACAAACTGAATTTACAGATC
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
*
23480499 TTAA-CCCCTAAGTAGTAGGGA
66 TTAACCCCCTAAGCAGTAGGGA
* * *
23480520 AACAGATCAAAGATGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
1 AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGG
23480570 ATTGAAATCA
Statistics
Matches: 197, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
85 38 0.19
86 106 0.54
87 53 0.27
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (87 bp):
AACAGATCGAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATC
TTAACCCCCTAAGCAGTAGGGA
Found at i:23481072 original size:44 final size:44
Alignment explanation
Indices: 23481024--23481122 Score: 144
Period size: 44 Copynumber: 2.2 Consensus size: 44
23481014 TTATAGGGAA
* * * *
23481024 CAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAG
1 CAGATCAAAGATAACAGATTTGGCATCTCTGTATTGACAAAGAG
*
23481068 CAGATCAAAGATAACAGATTTGGCATCTCTGTATTGACAAATAG
1 CAGATCAAAGATAACAGATTTGGCATCTCTGTATTGACAAAGAG
*
23481112 CAAATCAAAGA
1 CAGATCAAAGA
23481123 CAAAGAATCT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (44 bp):
CAGATCAAAGATAACAGATTTGGCATCTCTGTATTGACAAAGAG
Done.