Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 240 of 318
Found at i:76133988 original size:27 final size:27
Alignment explanation
Indices: 76133927--76134081 Score: 145
Period size: 27 Copynumber: 5.8 Consensus size: 27
76133917 TTCTACCCTA
* * *
76133927 CAGGGGTATTTCGAT-ATTTCACAAAT
1 CAGGGGTATTTTGATAATTTTACAAAC
* * * *
76133953 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTTGATAATTTTACAAAC
* *
76133980 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGATAATTTTACAAAC
* *
76134007 CAGGAGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGATAATTTTACAAAC
* *
76134034 CTGTGGTATTTT-AGTAATTTTACAAAC
1 CAGGGGTATTTTGA-TAATTTTACAAAC
*
76134061 CAGGGGTATTTTGGTAATTTT
1 CAGGGGTATTTTGATAATTTT
76134082 GTACACCAAG
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 12 0.11
27 94 0.87
28 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGATAATTTTACAAAC
Found at i:76134025 original size:54 final size:54
Alignment explanation
Indices: 76133956--76134108 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 54
76133946 CACAAATCGA
* * * * *
76133956 GAGTATTTCGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAG
1 GAGTATTTTGGTAATTTCACAAACCAGGGGTATTTTAGTAATTTTACAAACCAG
* * *
76134010 GAGTATTTTGGTAATTTTACAAACCTGTGGTATTTTAGTAATTTTACAAACCAG
1 GAGTATTTTGGTAATTTCACAAACCAGGGGTATTTTAGTAATTTTACAAACCAG
* *** * * *
76134064 GGGTATTTTGGTAATTTTGTACACCAAGGGTATTTCAGTAATTTT
1 GAGTATTTTGGTAATTTCACAAACCAGGGGTATTTTAGTAATTTT
76134109 GTAAATCGAG
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
GAGTATTTTGGTAATTTCACAAACCAGGGGTATTTTAGTAATTTTACAAACCAG
Found at i:76134089 original size:27 final size:27
Alignment explanation
Indices: 76133980--76134113 Score: 142
Period size: 27 Copynumber: 5.0 Consensus size: 27
76133970 TTTCACAAAT
* *
76133980 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* *
76134007 CAGGAGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * * *
76134034 CTGTGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* *
76134061 CAGGGGTATTTTGGTAATTTTGTACAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* ** *
76134088 CAAGGGTATTTCAGTAATTTTGTAAA
1 CAGGGGTATTTTGGTAATTTTATAAA
76134114 TCGAGGGTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTATAAAC
Found at i:76134253 original size:81 final size:81
Alignment explanation
Indices: 76134101--76134284 Score: 260
Period size: 81 Copynumber: 2.3 Consensus size: 81
76134091 GGGTATTTCA
* * *
76134101 GTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGAAAAACGATAATTCTATA
1 GTAATTTTATAAATTGAGGGTAAAATGGTAACTCTGTAAATCGAGAGAAAAACGATAATTCTATA
*
76134166 ATTCGAGGGTAATATG
66 AATCGAGGGTAATATG
* * * *
76134182 GTAATTCTATAAATTGAGGGTAAAATGGTAACTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTTTATAAATTGAGGGTAAAATGGTAACTCTGTAAATCGAGAGAAAAACGATAATTCTATA
* *
76134247 AATCGAGGGTACTTTG
66 AATCGAGGGTAATATG
* *
76134263 GTAATTTTACAAATTAAGGGTA
1 GTAATTTTATAAATTGAGGGTA
76134285 TTTCAATAAT
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 90 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (81 bp):
GTAATTTTATAAATTGAGGGTAAAATGGTAACTCTGTAAATCGAGAGAAAAACGATAATTCTATA
AATCGAGGGTAATATG
Found at i:76134268 original size:27 final size:27
Alignment explanation
Indices: 76134101--76134257 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
76134091 GGGTATTTCA
* *
76134101 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
76134128 GTAATTCTGTAAATCGAGAGAAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
76134155 ATAATTCTATAATTCGAGGGTAATATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
76134182 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
76134209 GTAACTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
76134236 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
76134258 CTTTGGTAAT
Statistics
Matches: 109, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:76134283 original size:54 final size:54
Alignment explanation
Indices: 76134111--76134284 Score: 141
Period size: 54 Copynumber: 3.2 Consensus size: 54
76134101 GTAATTTTGT
* * * * * * * * *
76134111 AAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGAGAAAAACGATAATTCTAT
1 AAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAACTCTAC
* * * * * **
76134165 AATTCGAGGGTAATATGGTAATTCTATAAATTGAGGGTAAAATGGTAACTCTGT
1 AAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAACTCTAC
* *** * *
76134219 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTAC
1 AAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAACTCTAC
*
76134273 AAATTAAGGGTA
1 AAATCAAGGGTA
76134285 TTTCAATAAT
Statistics
Matches: 97, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (54 bp):
AAATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAACTCTAC
Found at i:76155413 original size:21 final size:21
Alignment explanation
Indices: 76155369--76155422 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
76155359 AGAGCCTACA
**
76155369 ACACGGGCGTGTCTTAGGGTC
1 ACACGGGCGTGTCTTAGGACC
76155390 ACACGGGCGTGTCCTTA-GACC
1 ACACGGGCGTGT-CTTAGGACC
*
76155411 ACATGGGCGTGT
1 ACACGGGCGTGT
76155423 GAGCCCTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.17, C:0.26, G:0.35, T:0.22
Consensus pattern (21 bp):
ACACGGGCGTGTCTTAGGACC
Found at i:76161248 original size:79 final size:81
Alignment explanation
Indices: 76161083--76161266 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
76161073 TGAATGATGT
*
76161083 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
76161147 GTGCGAGATACTAATT
66 GTGCGAGATACTAATA
* * * * * **
76161163 CTGGGCTAAG-CCCAAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
76161225 TGTGCGAGTTACT-ATAA
65 TGTGCGAGATACTAAT-A
*
76161242 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
76161267 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.63
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATA
Found at i:76161273 original size:40 final size:40
Alignment explanation
Indices: 76161082--76161266 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
76161072 TTGAATGATG
* * * *
76161082 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
76161122 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
76161162 TCTGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
76161201 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
76161242 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
76161267 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:76161288 original size:79 final size:79
Alignment explanation
Indices: 76161135--76161289 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
76161125 GGACTAAGAT
* * **
76161135 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
76161200 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
76161214 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-C
*
76161277 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
76161290 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.60
80 24 0.37
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:76164720 original size:22 final size:20
Alignment explanation
Indices: 76164671--76164726 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
76164661 AAAACTATAT
76164671 AAATATATTATTTAATTATAAA
1 AAATATA-TA-TTAATTATAAA
**
76164693 GTATATGATATTAATTTATAAA
1 AAATAT-ATATTAA-TTATAAA
76164715 AAATATATATTA
1 AAATATATATTA
76164727 TAACATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 10 0.36
22 17 0.61
23 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
AAATATATATTAATTATAAA
Found at i:76165321 original size:17 final size:17
Alignment explanation
Indices: 76165299--76165331 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
76165289 AAGTATGATT
76165299 ATATGTGATT-ATTTGAA
1 ATATGT-ATTGATTTGAA
76165316 ATATGTATTGATTTGA
1 ATATGTATTGATTTGA
76165332 TGTTGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (17 bp):
ATATGTATTGATTTGAA
Found at i:76167874 original size:18 final size:18
Alignment explanation
Indices: 76167853--76167888 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
76167843 AGCGAGTAAA
76167853 GGCAGAACATCAAGTACC
1 GGCAGAACATCAAGTACC
76167871 GGCAGAACATCAAGTACC
1 GGCAGAACATCAAGTACC
76167889 TATCGATTGG
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:0.39, C:0.28, G:0.22, T:0.11
Consensus pattern (18 bp):
GGCAGAACATCAAGTACC
Found at i:76169327 original size:26 final size:25
Alignment explanation
Indices: 76169292--76169346 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
76169282 ACTATATAAA
* *
76169292 TATATTATTTAGTTATAAAT-TATAT
1 TATATTATTTA-TAAAAAATATATAT
76169317 TATATTAATTTATAAAAAATATATAT
1 TATATT-ATTTATAAAAAATATATAT
76169343 TATA
1 TATA
76169347 ACATTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTATTTATAAAAAATATATAT
Found at i:76169338 original size:22 final size:21
Alignment explanation
Indices: 76169289--76169344 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
76169279 AAAACTATAT
* *
76169289 AAATATATTATTTAGTTATAAA
1 AAATATA-TATTAATTTATAAA
**
76169311 TTATATTATATTAATTTATAAA
1 AAATA-TATATTAATTTATAAA
76169333 AAATATATATTA
1 AAATATATATTA
76169345 TAACATTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 7 0.26
22 18 0.67
23 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATATATATTAATTTATAAA
Found at i:76169944 original size:17 final size:17
Alignment explanation
Indices: 76169922--76169954 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
76169912 AAGTATGATT
76169922 ATATGTGATT-ATTTGAA
1 ATATGT-ATTGATTTGAA
76169939 ATATGTATTGATTTGA
1 ATATGTATTGATTTGA
76169955 TGTTGAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (17 bp):
ATATGTATTGATTTGAA
Found at i:76173968 original size:451 final size:451
Alignment explanation
Indices: 76173126--76174029 Score: 1736
Period size: 451 Copynumber: 2.0 Consensus size: 451
76173116 TGAACATGGC
* *
76173126 CTGCAGCACGGGCATATCTTAGGGTCACACAGGCATGTCCCTAGACCACATAGGCATGTGAGCCC
1 CTGCAGCACGGGAATATCTTAGGGTCACACAGGCATGTCCCTAGACCACACAGGCATGTGAGCCC
*
76173191 TGTACCTAGGAAAAATTTTAGAAATTTTGCGAAAAATTCTTCGAGTTCTTAATTAAGTCCTGACT
66 TGTACCTAGGAAAAATTTTAGAAATTTTGCGAAAAATTCTTCGAGTTCTTAATTAAGTCCCGACT
* *
76173256 TGATTCTAATACTCGTTTTGGGCTTCAATGGTCCATTTAAGGGACGTTGTGAATATTTTGATAAA
131 TGATTCTAATACTCGTTTTGGGCTTCAAGGGTCCATTTAAGGGACGTTGTGAATATTTCGATAAA
76173321 TGAATAGTAATTAACGTGAATTATTTGTAAATATTCTAAAAGTTTTGGTAATGCTCTGTAATCGT
196 TGAATAGTAATTAACGTGAATTATTTGTAAATATTCTAAAAGTTTTGGTAATGCTCTGTAATCGT
76173386 GTTCTAGCGACAGATACAGGTTAAAGGTGTTACAGGTGGTACGTTTTTACCTTTCACTCGGTTGT
261 GTTCTAGCGACAGATACAGGTTAAAGGTGTTACAGGTGGTACGTTTTTACCTTTCACTCGGTTGT
*
76173451 TCAAACGACCCCATATGAAGCCATCTATGGTCAGGCCCCTCTCAGCACTTACCTTACTTAGCAGG
326 TCAAACAACCCCATATGAAGCCATCTATGGTCAGGCCCCTCTCAGCACTTACCTTACTTAGCAGG
76173516 ATTCTCAACTATTGATTGTGTGAATTGTAGCTTGCAACAACGAGAAGCAACTAGATACCTT
391 ATTCTCAACTATTGATTGTGTGAATTGTAGCTTGCAACAACGAGAAGCAACTAGATACCTT
*
76173577 CTGCAGCGCGGGAATATCTTAGGGTCACACAGGCATGTCCCTAGACCACACAGGCATGTGAGCCC
1 CTGCAGCACGGGAATATCTTAGGGTCACACAGGCATGTCCCTAGACCACACAGGCATGTGAGCCC
76173642 TGTACCTAGGAAAAATTTTAGAAATTTTGCGAAAAATTCTTCGAGTTCTTAATTAAGTCCCGACT
66 TGTACCTAGGAAAAATTTTAGAAATTTTGCGAAAAATTCTTCGAGTTCTTAATTAAGTCCCGACT
76173707 TGATTCTAATACTCGTTTTGGGCTTCAAGGGTCCATTTAAGGGACGTTGTGAATATTTCGATAAA
131 TGATTCTAATACTCGTTTTGGGCTTCAAGGGTCCATTTAAGGGACGTTGTGAATATTTCGATAAA
76173772 TGAATAGTAATTAACGTGAATTATTTGTAAATATTCTAAAAGTTTTGGTAATGCTCTGTAATCGT
196 TGAATAGTAATTAACGTGAATTATTTGTAAATATTCTAAAAGTTTTGGTAATGCTCTGTAATCGT
76173837 GTTCTAGCGACAGATACAGGTTAAAGGTGTTACAGGTGGTACGTTTTTACCTTTCACTCGGTTGT
261 GTTCTAGCGACAGATACAGGTTAAAGGTGTTACAGGTGGTACGTTTTTACCTTTCACTCGGTTGT
*
76173902 TCAAACAACCCCATATGAAGCCATCTATGGTCAGGCCCCTCTTAGCACTTACCTTACTTAGCAGG
326 TCAAACAACCCCATATGAAGCCATCTATGGTCAGGCCCCTCTCAGCACTTACCTTACTTAGCAGG
76173967 ATTCTCAACTATTGATTGTGTGAATTGTAGCTTGCAACAACGAGAAGCAACTAGATACCTT
391 ATTCTCAACTATTGATTGTGTGAATTGTAGCTTGCAACAACGAGAAGCAACTAGATACCTT
76174028 CT
1 CT
76174030 TCAGTTTCGT
Statistics
Matches: 445, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
451 445 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (451 bp):
CTGCAGCACGGGAATATCTTAGGGTCACACAGGCATGTCCCTAGACCACACAGGCATGTGAGCCC
TGTACCTAGGAAAAATTTTAGAAATTTTGCGAAAAATTCTTCGAGTTCTTAATTAAGTCCCGACT
TGATTCTAATACTCGTTTTGGGCTTCAAGGGTCCATTTAAGGGACGTTGTGAATATTTCGATAAA
TGAATAGTAATTAACGTGAATTATTTGTAAATATTCTAAAAGTTTTGGTAATGCTCTGTAATCGT
GTTCTAGCGACAGATACAGGTTAAAGGTGTTACAGGTGGTACGTTTTTACCTTTCACTCGGTTGT
TCAAACAACCCCATATGAAGCCATCTATGGTCAGGCCCCTCTCAGCACTTACCTTACTTAGCAGG
ATTCTCAACTATTGATTGTGTGAATTGTAGCTTGCAACAACGAGAAGCAACTAGATACCTT
Found at i:76186469 original size:22 final size:21
Alignment explanation
Indices: 76186435--76186502 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 21
76186425 TTGTGTAGGG
*
76186435 TTTTGAGTCTTTTTTTATATAT
1 TTTTTAGT-TTTTTTTATATAT
76186457 TTTTTAAGTTTTTTTTATATAT
1 TTTTT-AGTTTTTTTTATATAT
*
76186479 TCTTTAG-TTTTTTTATA-AT
1 TTTTTAGTTTTTTTTATATAT
76186498 TTTTT
1 TTTTT
76186503 GAGATGTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 6 0.14
20 10 0.24
21 2 0.05
22 21 0.50
23 3 0.07
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (21 bp):
TTTTTAGTTTTTTTTATATAT
Found at i:76187077 original size:19 final size:19
Alignment explanation
Indices: 76187049--76187088 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
76187039 CAACACCTCA
76187049 TTAACAGATTTATTAATTT
1 TTAACAGATTTATTAATTT
*
76187068 TTAACTGATTTATTAATTT
1 TTAACAGATTTATTAATTT
76187087 TT
1 TT
76187089 TAACCACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (19 bp):
TTAACAGATTTATTAATTT
Found at i:76188080 original size:15 final size:15
Alignment explanation
Indices: 76188060--76188111 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
76188050 CATTTTATTT
76188060 ATATTAGGATAATTA
1 ATATTAGGATAATTA
*
76188075 ATATTAAGATAA-T-
1 ATATTAGGATAATTA
*
76188088 -TATTAGGATATTTA
1 ATATTAGGATAATTA
*
76188102 ATTTTAGGAT
1 ATATTAGGAT
76188112 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 9 0.30
13 1 0.03
14 1 0.03
15 19 0.63
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:76188118 original size:13 final size:15
Alignment explanation
Indices: 76188084--76188120 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
76188074 AATATTAAGA
76188084 TAATTATTAGGATATT
1 TAATT-TTAGGATATT
76188100 TAATTTTAGGAT-TT
1 TAATTTTAGGATATT
76188114 T-ATTTTA
1 TAATTTTA
76188121 ATTATCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 3 0.14
15 7 0.33
16 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (15 bp):
TAATTTTAGGATATT
Found at i:76194517 original size:3 final size:3
Alignment explanation
Indices: 76194509--76194571 Score: 66
Period size: 3 Copynumber: 22.3 Consensus size: 3
76194499 ATTTTATTTC
76194509 TAT TAT TAT TAT TA- TAT TAT TA- TAT TA- TAT TAT TAAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT T-AT
76194553 TAT T-T TAT T-T TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
76194572 TCAATTTATT
Statistics
Matches: 52, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
2 12 0.23
3 34 0.65
4 6 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:76194541 original size:24 final size:26
Alignment explanation
Indices: 76194509--76194571 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
76194499 ATTTTATTTC
76194509 TATTATTATTATTATATTATTATATTA
1 TATTATTATTATTA-ATTATTATATTA
* *
76194536 TATTATTAATTATTAATTATTTTATTT
1 TATTATT-ATTATTAATTATTATATTA
76194563 TATT-TTATT
1 TATTATTATT
76194572 TCAATTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 3 0.09
26 2 0.06
27 21 0.64
28 7 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TATTATTATTATTAATTATTATATTA
Found at i:76194560 original size:5 final size:5
Alignment explanation
Indices: 76194499--76194606 Score: 67
Period size: 5 Copynumber: 20.6 Consensus size: 5
76194489 TTAATTTTAA
* * *
76194499 ATTTT ATTTCT ATTATT ATTATT ATATT ATTAT ATTAT ATTATT AATTATT
1 ATTTT ATTT-T ATT-TT ATT-TT ATTTT ATTTT ATTTT ATT-TT -ATT-TT
* * * *
76194550 A-ATT ATTTT ATTTT ATTTT ATTTC AATTT ATTTT ACTTTT A-ATT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT ATTTT
*
76194599 ATTAT ATT
1 ATTTT ATT
76194607 AATAAAATTA
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
4 6 0.07
5 50 0.60
6 20 0.24
7 7 0.08
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (5 bp):
ATTTT
Found at i:76197922 original size:15 final size:15
Alignment explanation
Indices: 76197902--76197953 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
76197892 CATTTTATTT
76197902 ATATTAGGATAATTA
1 ATATTAGGATAATTA
*
76197917 ATATTAAGATAA-T-
1 ATATTAGGATAATTA
*
76197930 -TATTAGGATATTTA
1 ATATTAGGATAATTA
*
76197944 ATTTTAGGAT
1 ATATTAGGAT
76197954 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 9 0.30
13 1 0.03
14 1 0.03
15 19 0.63
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:76197960 original size:13 final size:15
Alignment explanation
Indices: 76197926--76197962 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
76197916 AATATTAAGA
76197926 TAATTATTAGGATATT
1 TAATT-TTAGGATATT
76197942 TAATTTTAGGAT-TT
1 TAATTTTAGGATATT
76197956 T-ATTTTA
1 TAATTTTA
76197963 ATTATCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 3 0.14
15 7 0.33
16 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (15 bp):
TAATTTTAGGATATT
Found at i:76200893 original size:15 final size:15
Alignment explanation
Indices: 76200868--76200925 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
76200858 TCATATATAT
76200868 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
76200884 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
76200899 AATAATTTCATTCAA
1 TATAAATTCAATCAA
76200914 TATAAATTCAAT
1 TATAAATTCAAT
76200926 AAATTCATTG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:76200940 original size:24 final size:25
Alignment explanation
Indices: 76200899--76200950 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
76200889 ATTCAATCAA
* *
76200899 AATAATTTCATTCAATAT-AAATTC
1 AATAAATTCATTCAATATCAAAATC
76200923 AATAAATTCATTGC-ATATCAAAATC
1 AATAAATTCATT-CAATATCAAAATC
76200948 AAT
1 AAT
76200951 CCATTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (25 bp):
AATAAATTCATTCAATATCAAAATC
Found at i:76201877 original size:31 final size:32
Alignment explanation
Indices: 76201819--76201882 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
76201809 CATACATTTG
*
76201819 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
76201851 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
76201882 T
1 T
76201883 TATTTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:76202244 original size:143 final size:142
Alignment explanation
Indices: 76201811--76202453 Score: 1178
Period size: 142 Copynumber: 4.5 Consensus size: 142
76201801 AATTTTACCA
* * * * * * * *
76201811 TACATTTGTCATAATTTAATATATTTATTACATAAAAATCTCATAATATAATTATTTAATTAATA
1 TACAATTGTCATTATTTAATTTATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATA
76201876 AATATCTTATTTAATATCAAATACTAATATTACAATTGTACACACTTATATTTTCACATTTGTAC
66 AATATCTTATTTAATATCAAATACTAATATTACAATTGTACACACTTATATTTTCACATTTGTAC
76201941 CAATAAATTTAT
131 CAATAAATTTAT
76201953 TACAATTGTCATTATTTAATTTATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATA
1 TACAATTGTCATTATTTAATTTATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATA
76202018 AATATCTTATTTAATATCAAATACTAATATTACAATTGTACACACTTATATTTTCACATTTGTAC
66 AATATCTTATTTAATATCAAATACTAATATTACAATTGTACACACTTATATTTTCACATTTGTAC
76202083 CAATAAATTTAT
131 CAATAAATTTAT
*
76202095 TACAATTGTCATTATTGAATTTATTTATCAAACAAAAAATCTCATTATTTAATTATTTAATTAAT
1 TACAATTGTCATTATTTAATTTATTTATCAAAC-AAAAATCTCATTATTTAATTATTTAATTAAT
76202160 AAATATCTTATTTAATATCAAATACTAATATTACAATTGTACACACTTATATTTTCACATTTGTA
65 AAATATCTTATTTAATATCAAATACTAATATTACAATTGTACACACTTATATTTTCACATTTGTA
76202225 CCAATAAATTTAT
130 CCAATAAATTTAT
76202238 TACAATTGTCATTATTTAATTTATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATA
1 TACAATTGTCATTATTTAATTTATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATA
76202303 AATATCTTATTTAATATCAAATACTAATATTACAATTGTACACACTTATATTTTCACATTTGTAC
66 AATATCTTATTTAATATCAAATACTAATATTACAATTGTACACACTTATATTTTCACATTTGTAC
76202368 CAATAAATTTAT
131 CAATAAATTTAT
*
76202380 TACAATTGCCATTATTTAATTTATTTATCAAACAAAAAATCTCATTATTTAATTATTTAATTAAT
1 TACAATTGTCATTATTTAATTTATTTATCAAAC-AAAAATCTCATTATTTAATTATTTAATTAAT
76202445 AAATATCTT
65 AAATATCTT
76202454 TTTTTTTCTA
Statistics
Matches: 488, Mismatches: 11, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
142 307 0.63
143 181 0.37
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (142 bp):
TACAATTGTCATTATTTAATTTATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATA
AATATCTTATTTAATATCAAATACTAATATTACAATTGTACACACTTATATTTTCACATTTGTAC
CAATAAATTTAT
Found at i:76202354 original size:285 final size:285
Alignment explanation
Indices: 76201844--76202453 Score: 1184
Period size: 285 Copynumber: 2.1 Consensus size: 285
76201834 TTTATTACAT
* *
76201844 AAAAATCTCATAATATAATTATTTAATTAATAAATATCTTATTTAATATCAAATACTAATATTAC
1 AAAAATCTCATTATTTAATTATTTAATTAATAAATATCTTATTTAATATCAAATACTAATATTAC
76201909 AATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGTCATTATTTAATT
66 AATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGTCATTATTTAATT
76201974 TATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATAAATATCTTATTTAATATCAAA
131 TATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATAAATATCTTATTTAATATCAAA
*
76202039 TACTAATATTACAATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGT
196 TACTAATATTACAATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGC
76202104 CATTATTGAATTTATTTATCAAACA
261 CATTATTGAATTTATTTATCAAACA
76202129 AAAAATCTCATTATTTAATTATTTAATTAATAAATATCTTATTTAATATCAAATACTAATATTAC
1 AAAAATCTCATTATTTAATTATTTAATTAATAAATATCTTATTTAATATCAAATACTAATATTAC
76202194 AATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGTCATTATTTAATT
66 AATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGTCATTATTTAATT
76202259 TATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATAAATATCTTATTTAATATCAAA
131 TATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATAAATATCTTATTTAATATCAAA
76202324 TACTAATATTACAATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGC
196 TACTAATATTACAATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGC
*
76202389 CATTATTTAATTTATTTATCAAACA
261 CATTATTGAATTTATTTATCAAACA
76202414 AAAAATCTCATTATTTAATTATTTAATTAATAAATATCTT
1 AAAAATCTCATTATTTAATTATTTAATTAATAAATATCTT
76202454 TTTTTTTCTA
Statistics
Matches: 321, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
285 321 1.00
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (285 bp):
AAAAATCTCATTATTTAATTATTTAATTAATAAATATCTTATTTAATATCAAATACTAATATTAC
AATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGTCATTATTTAATT
TATTTATCAAACAAAAATCTCATTATTTAATTATTTAATTAATAAATATCTTATTTAATATCAAA
TACTAATATTACAATTGTACACACTTATATTTTCACATTTGTACCAATAAATTTATTACAATTGC
CATTATTGAATTTATTTATCAAACA
Found at i:76202570 original size:3 final size:3
Alignment explanation
Indices: 76202562--76202628 Score: 57
Period size: 3 Copynumber: 21.7 Consensus size: 3
76202552 TCAATTTATT
76202562 TAA TAA TAA TAA TAA T-A TAA TAA TAA TTAA TAA CTAA T-A TATA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA -TAA TAA TA-A T-AA
** *
76202609 TCG TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
76202629 TATTTATATA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.08
3 37 0.71
4 10 0.19
5 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:76204437 original size:22 final size:21
Alignment explanation
Indices: 76204401--76204444 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
76204391 AATTTGAGTA
76204401 AGAAATTAAGAGAGAATTGAG
1 AGAAATTAAGAGAGAATTGAG
* *
76204422 AGAAATTTGAGAGAGATTTGAG
1 AGAAA-TTAAGAGAGAATTGAG
76204444 A
1 A
76204445 ATGTGTGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
AGAAATTAAGAGAGAATTGAG
Found at i:76205365 original size:15 final size:16
Alignment explanation
Indices: 76205335--76205367 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
76205325 ATTCATGTCT
76205335 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
*
76205351 TTTTTTAATAT-TTTA
1 TTTTTTAAAATATTTA
76205366 TT
1 TT
76205368 CTATGTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:76207223 original size:29 final size:29
Alignment explanation
Indices: 76207165--76207223 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
76207155 TGACAATTCA
* * **
76207165 AAGAGTCTAATTGATTGTTATTTTTTATT
1 AAGAATCTAATTGATTGATATTTTCAATT
76207194 AAGAATCTAATTGATT-ATACTTTTCAATT
1 AAGAATCTAATTGATTGATA-TTTTCAATT
76207223 A
1 A
76207224 GGGGCTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (29 bp):
AAGAATCTAATTGATTGATATTTTCAATT
Found at i:76208024 original size:19 final size:19
Alignment explanation
Indices: 76207983--76208025 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
76207973 TTTTCTCTTT
* *
76207983 TTTTGTTGTTTTTTTAATG
1 TTTTGTTGTTTTCTTAATA
*
76208002 TTTTGTTGTTTTCTTATTA
1 TTTTGTTGTTTTCTTAATA
76208021 TTTTG
1 TTTTG
76208026 CCACCATTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.09, C:0.02, G:0.14, T:0.74
Consensus pattern (19 bp):
TTTTGTTGTTTTCTTAATA
Found at i:76208826 original size:16 final size:15
Alignment explanation
Indices: 76208800--76208849 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
76208790 ACATTATTAT
*
76208800 AAAACTAAAAATAAA
1 AAAATTAAAAATAAA
*
76208815 AAGAATTAAAAATATAT
1 AA-AATTAAAAATA-AA
*
76208832 AAAATTAAAATTAAA
1 AAAATTAAAAATAAA
76208847 AAA
1 AAA
76208850 TCTTAACGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.21
16 20 0.69
17 3 0.10
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
AAAATTAAAAATAAA
Found at i:76209660 original size:23 final size:25
Alignment explanation
Indices: 76209626--76209671 Score: 62
Period size: 23 Copynumber: 1.9 Consensus size: 25
76209616 TTAAATATAC
76209626 TTAACTATAAACT-TAA-ATTTTAA
1 TTAACTATAAACTCTAATATTTTAA
76209649 TTAA-TATAAAACTCTAATATTTT
1 TTAACTAT-AAACTCTAATATTTT
76209672 TTTATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.15
23 9 0.45
24 3 0.15
25 5 0.25
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAACTATAAACTCTAATATTTTAA
Found at i:76210427 original size:20 final size:21
Alignment explanation
Indices: 76210404--76210455 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
76210394 AAATCCGAAT
76210404 TAAAATAC-TAAAATACAGGA
1 TAAAATACTTAAAATACAGGA
* *
76210424 TAAAAT-CTTAAAATTCATGA
1 TAAAATACTTAAAATACAGGA
76210444 TAATAATA-TTAA
1 TAA-AATACTTAA
76210456 TGTGACATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.31
Consensus pattern (21 bp):
TAAAATACTTAAAATACAGGA
Found at i:76210946 original size:14 final size:14
Alignment explanation
Indices: 76210927--76210966 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
76210917 TTGATTGCCA
76210927 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
76210941 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
76210955 GGAAAATGTTTT
1 GTAAAATGTTTT
76210967 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:76210975 original size:20 final size:20
Alignment explanation
Indices: 76210950--76210989 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
76210940 CGTAAAATGA
*
76210950 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
76210970 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
76210990 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:76210979 original size:34 final size:35
Alignment explanation
Indices: 76210935--76211001 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
76210925 CAGTAAAATG
*
76210935 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
76210969 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
76211002 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:76211586 original size:18 final size:18
Alignment explanation
Indices: 76211565--76211603 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
76211555 GTTGTATCTT
76211565 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
76211583 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
76211601 TAA
1 TAA
76211604 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:76213297 original size:19 final size:19
Alignment explanation
Indices: 76213273--76213312 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
76213263 AAACCAAATC
76213273 AAGGGAGAACAAAAGGGAG
1 AAGGGAGAACAAAAGGGAG
* *
76213292 AAGGGAGAACGAACGGGAG
1 AAGGGAGAACAAAAGGGAG
76213311 AA
1 AA
76213313 CGAAACCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.42, T:0.00
Consensus pattern (19 bp):
AAGGGAGAACAAAAGGGAG
Found at i:76215717 original size:15 final size:15
Alignment explanation
Indices: 76215697--76215748 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
76215687 CATTTTATTT
76215697 ATATTAGGATAATTA
1 ATATTAGGATAATTA
*
76215712 ATATTAAGATAA-T-
1 ATATTAGGATAATTA
*
76215725 -TATTAGGATATTTA
1 ATATTAGGATAATTA
*
76215739 ATTTTAGGAT
1 ATATTAGGAT
76215749 TTTATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 9 0.30
13 1 0.03
14 1 0.03
15 19 0.63
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:76215755 original size:13 final size:15
Alignment explanation
Indices: 76215721--76215757 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
76215711 AATATTAAGA
76215721 TAATTATTAGGATATT
1 TAATT-TTAGGATATT
76215737 TAATTTTAGGAT-TT
1 TAATTTTAGGATATT
76215751 T-ATTTTA
1 TAATTTTA
76215758 ATTATCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 3 0.14
15 7 0.33
16 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (15 bp):
TAATTTTAGGATATT
Found at i:76216242 original size:14 final size:14
Alignment explanation
Indices: 76216223--76216262 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
76216213 TTGATTGCCA
76216223 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
76216237 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
76216251 GGAAAATGTTTT
1 GTAAAATGTTTT
76216263 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:76216271 original size:20 final size:20
Alignment explanation
Indices: 76216246--76216285 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
76216236 CGTAAAATGA
*
76216246 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
76216266 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
76216286 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:76216275 original size:34 final size:35
Alignment explanation
Indices: 76216231--76216297 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
76216221 CAGTAAAATG
*
76216231 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
76216265 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
76216298 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:76216932 original size:18 final size:18
Alignment explanation
Indices: 76216911--76216967 Score: 114
Period size: 18 Copynumber: 3.2 Consensus size: 18
76216901 GTTGTATCTT
76216911 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
76216929 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
76216947 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
76216965 TAA
1 TAA
76216968 AGTTGGTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:76218653 original size:19 final size:19
Alignment explanation
Indices: 76218629--76218668 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
76218619 AAACCAAATC
76218629 AAGGGAGAACGAAAGGGAG
1 AAGGGAGAACGAAAGGGAG
*
76218648 AAGGGAGAACGAACGGGAG
1 AAGGGAGAACGAAAGGGAG
76218667 AA
1 AA
76218669 CGAAACCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.45, T:0.00
Consensus pattern (19 bp):
AAGGGAGAACGAAAGGGAG
Found at i:76221299 original size:15 final size:14
Alignment explanation
Indices: 76221262--76221291 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
76221252 ATTTCTAAAA
*
76221262 TTAACTATTATTTC
1 TTAAATATTATTTC
76221276 TTAAATATTATTTC
1 TTAAATATTATTTC
76221290 TT
1 TT
76221292 TGAATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAAATATTATTTC
Found at i:76221657 original size:30 final size:29
Alignment explanation
Indices: 76221612--76221687 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
76221602 TTAAATTTCA
** *
76221612 AAAGTATAAGGATTAAAATTGATC-AATT
1 AAAGTATAAAAATTAAAATTAATCAAATT
76221640 CAATTAGTA-AAAAATTAAAATTAATCAAATT
1 -AA--AGTATAAAAATTAAAATTAATCAAATT
76221671 AAAGTATAAAAATTAAA
1 AAAGTATAAAAATTAAA
76221688 TTTGTAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 4 0.10
29 12 0.30
30 16 0.40
31 8 0.20
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (29 bp):
AAAGTATAAAAATTAAAATTAATCAAATT
Found at i:76225698 original size:19 final size:17
Alignment explanation
Indices: 76225683--76225774 Score: 50
Period size: 17 Copynumber: 5.4 Consensus size: 17
76225673 ATTTTAATAG
76225683 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
76225700 TTTAATACTT--ATCTAAA
1 TTTAATA-TTAAAT-TAAA
* **
76225717 --TAGTATTTGATT-AA
1 TTTAATATTAAATTAAA
* *
76225731 TTTAATATTAAAGTGATTA
1 TTTAATATTAAA-TTA-AA
76225750 TCTTAATATTAAATTAAA
1 T-TTAATATTAAATTAAA
*
76225768 TTAAATA
1 TTTAATA
76225775 CTTATTTTGT
Statistics
Matches: 56, Mismatches: 9, Indels: 20
0.66 0.11 0.24
Matches are distributed among these distances:
14 4 0.07
15 5 0.09
16 11 0.20
17 17 0.30
18 4 0.07
19 4 0.07
20 11 0.20
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:76228765 original size:46 final size:46
Alignment explanation
Indices: 76228709--76228884 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
76228699 TGGTTGAGCA
*
76228709 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
76228755 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
76228800 CATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* ** *
76228848 CCCGAGTTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76228885 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76228865 original size:93 final size:93
Alignment explanation
Indices: 76228706--76228877 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
76228696 GGATGGTTGA
* * * *
76228706 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76228771 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
**
76228799 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGTTCGTTGAGT
1 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
76228864 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
76228878 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76242838 original size:40 final size:40
Alignment explanation
Indices: 76242744--76242887 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
76242734 TACTCGAATG
*
76242744 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
76242785 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
76242825 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
76242865 ATAT-CGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
76242888 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 18 0.20
40 44 0.48
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:76248829 original size:27 final size:27
Alignment explanation
Indices: 76248799--76248976 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
76248789 ATATTGAGTC
* * * *
76248799 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
76248826 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
76248853 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
76248881 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
76248908 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
76248935 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
76248962 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76248977 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:76248938 original size:82 final size:81
Alignment explanation
Indices: 76248820--76248975 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
76248810 TGCTATATAA
* *
76248820 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
76248885 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
76248902 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
76248966 CACTTAGTGC
65 CACTTAGTGC
76248976 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:76252554 original size:12 final size:12
Alignment explanation
Indices: 76252537--76252562 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
76252527 CATTCCGAAG
76252537 TATATATATACA
1 TATATATATACA
76252549 TATATATATACA
1 TATATATATACA
76252561 TA
1 TA
76252563 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:76253075 original size:27 final size:27
Alignment explanation
Indices: 76253044--76253221 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
76253034 TAAATTGTAC
76253044 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
76253071 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
76253097 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
76253125 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
76253153 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
76253180 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
76253207 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
76253222 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:76253158 original size:82 final size:81
Alignment explanation
Indices: 76253045--76253200 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
76253035 AAATTGTACA
* *
76253045 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
76253109 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
76253126 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
76253191 TGCGAGTTGA
65 TGCGAATTGA
76253201 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:76253212 original size:82 final size:81
Alignment explanation
Indices: 76253041--76253221 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
76253031 GATTAAATTG
* *
76253041 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
76253106 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
76253122 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
76253186 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
76253204 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
76253222 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:76260162 original size:27 final size:27
Alignment explanation
Indices: 76260132--76260309 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
76260122 ATATTGAGTC
* * * *
76260132 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
76260159 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
76260186 CGCACACTTAGTGCTACATGGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
76260214 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
76260241 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
76260268 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
76260295 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76260310 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:76260271 original size:82 final size:81
Alignment explanation
Indices: 76260153--76260308 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
76260143 TGCTATATAA
* * *
76260153 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATGGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
76260218 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
76260235 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
76260299 CACTTAGTGC
65 CACTTAGTGC
76260309 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:76265253 original size:46 final size:46
Alignment explanation
Indices: 76265197--76265372 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
76265187 TGGTTGAGCA
*
76265197 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
76265243 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
76265288 CATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* ** *
76265336 CCCGAGTTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76265373 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76265353 original size:93 final size:93
Alignment explanation
Indices: 76265194--76265365 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
76265184 GGATGGTTGA
* * * * *
76265194 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
76265259 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
**
76265287 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGTTCGTTGAGT
1 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
76265352 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
76265366 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76268477 original size:26 final size:26
Alignment explanation
Indices: 76268443--76268544 Score: 186
Period size: 26 Copynumber: 3.9 Consensus size: 26
76268433 TCCCATAATA
76268443 GAACATTTACCTAACCCATTATCATG
1 GAACATTTACCTAACCCATTATCATG
*
76268469 GAATATTTACCTAACCCATTATCATG
1 GAACATTTACCTAACCCATTATCATG
*
76268495 AAACATTTACCTAACCCATTATCATG
1 GAACATTTACCTAACCCATTATCATG
76268521 GAACATTTACCTAACCCATTATCA
1 GAACATTTACCTAACCCATTATCA
76268545 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
GAACATTTACCTAACCCATTATCATG
Found at i:76274772 original size:7 final size:7
Alignment explanation
Indices: 76274760--76274794 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
76274750 GCTGAAGCCT
76274760 TTTCATA
1 TTTCATA
76274767 TTTCATA
1 TTTCATA
76274774 TTTCATA
1 TTTCATA
76274781 TTTCATA
1 TTTCATA
76274788 TTTCATA
1 TTTCATA
76274795 ACATTGGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:76275089 original size:26 final size:26
Alignment explanation
Indices: 76275023--76275159 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
76275013 CTGGAGGCCT
* *
76275023 AGCCTCTTTT-AAT-AACCGGGGCAAA
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
76275048 AGCCC-TTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
76275073 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
76275099 AGCCCTTTTTAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
76275125 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
76275151 AGCCCTTTT
1 AGCCCTTTT
76275160 GCTTCCTCCA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 19 0.20
26 73 0.75
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:76275238 original size:20 final size:20
Alignment explanation
Indices: 76275207--76275263 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
76275197 TTATGAATAC
76275207 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
76275227 ATCATTTTCATATCATACAT
1 ATCATGTGCATATCATACAT
*
76275247 GTCATGTGCATATCATA
1 ATCATGTGCATATCATA
76275264 TCAATATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:76286727 original size:12 final size:12
Alignment explanation
Indices: 76286710--76286751 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
76286700 GCATGGATAC
76286710 ATGAAACACATT
1 ATGAAACACATT
*
76286722 ATG-AA-ACTTT
1 ATGAAACACATT
76286732 CATGAAACACATT
1 -ATGAAACACATT
76286745 ATGAAAC
1 ATGAAAC
76286752 TTTTCTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 4 0.16
11 5 0.20
12 12 0.48
13 4 0.16
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.26
Consensus pattern (12 bp):
ATGAAACACATT
Found at i:76286739 original size:23 final size:23
Alignment explanation
Indices: 76286709--76286754 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
76286699 AGCATGGATA
76286709 CATGAAACACATTATGAAACTTT
1 CATGAAACACATTATGAAACTTT
76286732 CATGAAACACATTATGAAACTTT
1 CATGAAACACATTATGAAACTTT
76286755 TCTAACTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (23 bp):
CATGAAACACATTATGAAACTTT
Found at i:76291304 original size:43 final size:43
Alignment explanation
Indices: 76291250--76291451 Score: 221
Period size: 43 Copynumber: 4.7 Consensus size: 43
76291240 AACATATACA
* *
76291250 ATGCCAATGTCCCAGACGTGGTCTTATATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAACATCG
*
76291293 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAACATCG
* * * * * *
76291336 ATGCCACTGTCCCAAACAG-GGTATTACACGAAATCAGATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAATCAAACATCG
* * * * *
76291378 ATGCCGATGTCCTAGACGTGGTCTTACACGTAAAACAGAA-TTGG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGT-AATCA-AACATCG
*
76291422 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
76291452 AAAAACATAT
Statistics
Matches: 133, Mismatches: 21, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 25 0.19
43 77 0.58
44 30 0.23
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAACATCG
Found at i:76294516 original size:52 final size:50
Alignment explanation
Indices: 76294438--76294571 Score: 173
Period size: 50 Copynumber: 2.6 Consensus size: 50
76294428 ATTGTGAGAA
* *
76294438 CACATGTGTAGTACTATGTGCAGGCTACTATGAGTTTAA-A-ATGGTTTTAATT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGAG--TAACAGATGG--TTAAGT
* *
76294490 CACATGTGTAGTTCTAAGTGCAGGCTACTACGAGTAACAGATGGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGAGTAACAGATGGTTAAGT
*
76294540 CGCATGTGTAGTACTAAGTGCAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
76294572 CGTACCCGAT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
50 37 0.51
51 1 0.01
52 35 0.48
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGAGTAACAGATGGTTAAGT
Found at i:76294607 original size:50 final size:49
Alignment explanation
Indices: 76294438--76294621 Score: 131
Period size: 50 Copynumber: 3.6 Consensus size: 49
76294428 ATTGTGAGAA
* * * *
76294438 CACATGTGTAGTACTATGTGCAGGCTACTATGAGTTTAA-A-ATGGTTTTAATT
1 CACATGTGTGGT-CTAAGTGCAGGCTACTATGAG--TAACAGAT-G-CTTAAGT
* * *
76294490 CACATGTGTAGTTCTAAGTGCAGGCTACTACGAGTAACAGATGGTTAAGT
1 CACATGTGT-GGTCTAAGTGCAGGCTACTATGAGTAACAGATGCTTAAGT
* * * * * *
76294540 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTT-CGAT
1 CACATGTGTGGT-CTAAGTGCAGGCTACTATGAGTAACAGAT-GCTTAAG-T
* *
76294591 CACATGTGTGGTCTAAGTGTAGGCCACTATG
1 CACATGTGTGGTCTAAGTGCAGGCTACTATG
76294622 TAACAGCTCA
Statistics
Matches: 107, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
49 1 0.01
50 59 0.55
51 16 0.15
52 30 0.28
53 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (49 bp):
CACATGTGTGGTCTAAGTGCAGGCTACTATGAGTAACAGATGCTTAAGT
Found at i:76302670 original size:23 final size:23
Alignment explanation
Indices: 76302640--76302696 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
76302630 CACTAGCTTG
*
76302640 TTTTGGTATAGATAATAAACTTA
1 TTTTGGTATAAATAATAAACTTA
*
76302663 TTTTGGTATAAATAGTAAACTTA
1 TTTTGGTATAAATAATAAACTTA
76302686 TTTTGGTATAA
1 TTTTGGTATAA
76302697 TGGCATGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.46
Consensus pattern (23 bp):
TTTTGGTATAAATAATAAACTTA
Found at i:76305327 original size:14 final size:14
Alignment explanation
Indices: 76305308--76305334 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76305298 ATATTTAACT
76305308 TGTTCTTAATTATG
1 TGTTCTTAATTATG
76305322 TGTTCTTAATTAT
1 TGTTCTTAATTAT
76305335 TGCTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:76314735 original size:28 final size:28
Alignment explanation
Indices: 76314695--76314756 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
76314685 ATAATTGTAT
* *
76314695 TGTTGATGATGAAGTTATTAGAGGATAA
1 TGTTGATGATGAAGCTATTACAGGATAA
76314723 TGTTGATGATGAAGCTATTACAGGATAA
1 TGTTGATGATGAAGCTATTACAGGATAA
*
76314751 TATTGA
1 TGTTGA
76314757 ATTTGTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (28 bp):
TGTTGATGATGAAGCTATTACAGGATAA
Found at i:76319784 original size:40 final size:40
Alignment explanation
Indices: 76319729--76319875 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 40
76319719 AGCTTCAGTG
* *
76319729 GCATTAGCAGCGCTTTTTGAAAAATGCCGCTATAGATCGA
1 GCATTAGCAGCGCTTTTTAAAAAACGCCGCTATAGATCGA
* * * *
76319769 GCATTAACGGCGCTTTTAAAAAAACACCG-TCATAGATCGA
1 GCATTAGCAGCGCTTTTTAAAAAACGCCGCT-ATAGATCGA
* * * *
76319809 GCAGTAGCGGCGCTTTTTAAAAAACGCAGCTATAGGTCGA
1 GCATTAGCAGCGCTTTTTAAAAAACGCCGCTATAGATCGA
* *
76319849 CCATTAGCAGCGCTTTTTGAAAAACGC
1 GCATTAGCAGCGCTTTTTAAAAAACGC
76319876 TGCAAAAAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 87 0.98
41 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (40 bp):
GCATTAGCAGCGCTTTTTAAAAAACGCCGCTATAGATCGA
Found at i:76319792 original size:116 final size:113
Alignment explanation
Indices: 76319519--76319797 Score: 355
Period size: 116 Copynumber: 2.4 Consensus size: 113
76319509 GCGCATTTCA
* * * *
76319519 AAAAACGTCGCTATAGGTCGAGCATTAACGGCGCTTTTTGAAAAACACCGAAAAAATTAAGCACA
1 AAAAACGCCGCTATAGGTCGAGCATTAACGGCGCTTTTTAAAAAAAACCGAAAAAATCAAGCACA
*
76319584 ACGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTTAGCGCGCTTTTTG
66 ACGCCGTCGTTTTATGTTGAGCTTCAGTGGCATTTAGCGCGCTTTTTG
* * * * * * * * *
76319632 AAAAACGCCACTATAGGTCGAGCATTAGCGGAGTTTTTTTAAAAAAACGCAGCTATAGATCGAGC
1 AAAAACGCCGCTATAGGTCGAGCATTAACGGCGCTTTTTAAAAAAAAC-C-G-AAAAAATCAAGC
76319697 ACAACGCCGTCGTTTTATGTTGAGCTTCAGTGGCA-TTAGCAGCGCTTTTTG
63 ACAACGCCGTCGTTTTATGTTGAGCTTCAGTGGCATTTAGC-GCGCTTTTTG
* *
76319748 AAAAATGCCGCTATAGATCGAGCATTAACGGCGC-TTTTAAAAAAACACCG
1 AAAAACGCCGCTATAGGTCGAGCATTAACGGCGCTTTTTAAAAAAA-ACCG
76319798 TCATAGATCG
Statistics
Matches: 141, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
113 41 0.29
114 2 0.01
115 17 0.12
116 81 0.57
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (113 bp):
AAAAACGCCGCTATAGGTCGAGCATTAACGGCGCTTTTTAAAAAAAACCGAAAAAATCAAGCACA
ACGCCGTCGTTTTATGTTGAGCTTCAGTGGCATTTAGCGCGCTTTTTG
Found at i:76320061 original size:7 final size:7
Alignment explanation
Indices: 76320051--76320117 Score: 50
Period size: 7 Copynumber: 9.4 Consensus size: 7
76320041 CTTAAATATA
76320051 AAATCCT
1 AAATCCT
76320058 AAATCCT
1 AAATCCT
76320065 AAAT-CT
1 AAATCCT
*
76320071 ATAAACCTT
1 A-AATCC-T
*
76320080 AAACCCT
1 AAATCCT
76320087 AAA-CACT
1 AAATC-CT
76320094 AAA-CCAT
1 AAATCC-T
76320101 AAATCCT
1 AAATCCT
*
76320108 AAACCCT
1 AAATCCT
76320115 AAA
1 AAA
76320118 ACTCTAAACT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 5 0.10
7 37 0.73
8 7 0.14
9 2 0.04
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.22
Consensus pattern (7 bp):
AAATCCT
Found at i:76320067 original size:21 final size:21
Alignment explanation
Indices: 76320043--76320110 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
76320033 CTTAAACCCT
76320043 TAAATATAAAATCC-TAAATCC
1 TAAATATAAAA-CCATAAATCC
* * *
76320064 TAAATCTATAAACCTTAAACCC
1 TAAATATA-AAACCATAAATCC
*
76320086 TAAACACT-AAACCATAAATCC
1 TAAATA-TAAAACCATAAATCC
76320107 TAAA
1 TAAA
76320111 CCCTAAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 24 0.63
22 13 0.34
23 1 0.03
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAATATAAAACCATAAATCC
Found at i:76320068 original size:14 final size:14
Alignment explanation
Indices: 76320055--76320117 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
76320045 AATATAAAAT
76320055 CCTAAATCCTAAA-
1 CCTAAATCCTAAAC
* *
76320068 TCTATAAACCTTAAAC
1 CCTA-AATCC-TAAAC
76320084 CCTAAA-CACTAAAC
1 CCTAAATC-CTAAAC
*
76320098 CATAAATCCTAAAC
1 CCTAAATCCTAAAC
76320112 CCTAAA
1 CCTAAA
76320118 ACTCTAAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 3 0.08
14 26 0.65
15 8 0.20
16 3 0.08
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (14 bp):
CCTAAATCCTAAAC
Found at i:76320087 original size:29 final size:28
Alignment explanation
Indices: 76320055--76320275 Score: 118
Period size: 29 Copynumber: 7.6 Consensus size: 28
76320045 AATATAAAAT
76320055 CCTAAATC-CTAAATCTATAAA-CCTTAAAC
1 CCTAAA-CACTAAA-CTATAAATCC-TAAAC
*
76320084 CCTAAACACTAAACCATAAATCCTAAAC
1 CCTAAACACTAAACTATAAATCCTAAAC
* *
76320112 CCTAAAACTCTAAACTAT-AGTCACTAAAC
1 CCT-AAACACTAAACTATAAATC-CTAAAC
* * *
76320141 TCTTAAACCCTTAAA-TATAAAATCCTAAAG
1 -CCTAAACAC-TAAACTAT-AAATCCTAAAC
* *
76320171 CCTAAA-ACTTTAAA-TCTGAATCACTAAAC
1 CCTAAACAC--TAAACTATAAATC-CTAAAC
* * *
76320200 CCTTAAACCCTTAAA-TACAAATCTTAAAC
1 CC-TAAACAC-TAAACTATAAATCCTAAAC
76320229 CCTAAAC-CTTAAA-TCATAAATCCTAAAC
1 CCTAAACAC-TAAACT-ATAAATCCTAAAC
* *
76320257 CATAAAACCCTAAACTATA
1 CCT-AAACACTAAACTATA
76320276 GACAGTAAAC
Statistics
Matches: 155, Mismatches: 21, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
27 7 0.05
28 41 0.26
29 76 0.49
30 27 0.17
31 4 0.03
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (28 bp):
CCTAAACACTAAACTATAAATCCTAAAC
Found at i:76320111 original size:21 final size:21
Alignment explanation
Indices: 76320057--76320117 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
76320047 TATAAAATCC
*
76320057 TAAATCCTAAATCTA-TAAACCT
1 TAAATCCTAAA-C-ACTAAACCA
*
76320079 TAAACCCTAAACACTAAACCA
1 TAAATCCTAAACACTAAACCA
*
76320100 TAAATCCTAAACCCTAAA
1 TAAATCCTAAACACTAAA
76320118 ACTCTAAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 1 0.03
21 23 0.68
22 10 0.29
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAATCCTAAACACTAAACCA
Found at i:76320175 original size:59 final size:58
Alignment explanation
Indices: 76320101--76320267 Score: 189
Period size: 59 Copynumber: 2.9 Consensus size: 58
76320091 ACTAAACCAT
*
76320101 AAATCCTAAACCCTAAAACTCTAAA-CT-ATAGTCACTAAACTCTTAAACCCTTAAATATA
1 AAATCCTAAACCCTAAAACTCTAAATCTGA-A-TCACTAAACCCTTAAACCCTTAAATA-A
* * *
76320160 AAATCCTAAAGCCTAAAACTTTAAATCTGAATCACTAAACCCTTAAACCCTTAAATAC
1 AAATCCTAAACCCTAAAACTCTAAATCTGAATCACTAAACCCTTAAACCCTTAAATAA
* * * * *
76320218 AAATCTTAAACCCTAAACCT-TAAATCATAAATC-CTAAACCATAAAACCCT
1 AAATCCTAAACCCTAAAACTCTAAATC-TGAATCACTAAACCCTTAAACCCT
76320268 AAACTATAGA
Statistics
Matches: 95, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
57 21 0.22
58 22 0.23
59 48 0.51
60 3 0.03
61 1 0.01
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (58 bp):
AAATCCTAAACCCTAAAACTCTAAATCTGAATCACTAAACCCTTAAACCCTTAAATAA
Found at i:76320234 original size:109 final size:109
Alignment explanation
Indices: 76320033--76320235 Score: 257
Period size: 109 Copynumber: 1.9 Consensus size: 109
76320023 GGAACAGTCC
* * * *
76320033 CTTAAACCCTTAAATATAAAATCCTAAATCCTAAATCTATAAACCTTAAACCCTAAACACTAAAC
1 CTTAAACCCTTAAATATAAAATCCTAAAGCCTAAAACTATAAACCTGAAACACTAAACACTAAAC
* *
76320098 CATAAATCCTAAACCCTAAAACTCTAAACTATAGTCACTAAACT
66 CATAAATACTAAACCCTAAAACCCTAAACTATAGTCACTAAACT
* * * *
76320142 CTTAAACCCTTAAATATAAAATCCTAAAGCCTAAAACTTTAAATCTGAATCACTAAACCCTTAAA
1 CTTAAACCCTTAAATATAAAATCCTAAAGCCTAAAACTATAAACCTGAAACACTAAACAC-TAAA
* * *
76320207 CCCTTAAATAC-AAA-TCTTAAACCCTAAAC
65 -CCATAAATACTAAACCCTAAAACCCTAAAC
76320236 CTTAAATCAT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
109 64 0.81
110 7 0.09
111 8 0.10
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (109 bp):
CTTAAACCCTTAAATATAAAATCCTAAAGCCTAAAACTATAAACCTGAAACACTAAACACTAAAC
CATAAATACTAAACCCTAAAACCCTAAACTATAGTCACTAAACT
Found at i:76320242 original size:21 final size:21
Alignment explanation
Indices: 76320218--76320262 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
76320208 CCTTAAATAC
* *
76320218 AAATCTTAAACCCTAAACCTT
1 AAATCATAAACCCTAAACCAT
*
76320239 AAATCATAAATCCTAAACCAT
1 AAATCATAAACCCTAAACCAT
76320260 AAA
1 AAA
76320263 ACCCTAAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATCATAAACCCTAAACCAT
Found at i:76320254 original size:86 final size:87
Alignment explanation
Indices: 76320144--76320306 Score: 219
Period size: 86 Copynumber: 1.9 Consensus size: 87
76320134 ACTAAACTCT
** *
76320144 TAAACCCTTAAATATAAAATCCTAAAGCC-TAAAACTTTAAATCTGA-A-TCACTAAACCCTTAA
1 TAAACCCTTAAATATAAAATCCTAAA-CCATAAAACCCTAAA-CT-ATAGACACTAAACCCTTAA
76320206 ACCCTTAAATACAAATCTTAAACCC
63 ACCCTTAAATACAAATCTTAAACCC
*
76320231 TAAA-CCTTAAATCAT-AAATCCTAAACCATAAAACCCTAAACTATAGACAGTAAACCCTTAAAC
1 TAAACCCTTAAAT-ATAAAATCCTAAACCATAAAACCCTAAACTATAGACACTAAACCCTTAAAC
76320294 CCTTAAATACAAA
65 CCTTAAATACAAA
76320307 ATCCTCAATC
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
84 1 0.01
85 5 0.07
86 56 0.82
87 6 0.09
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (87 bp):
TAAACCCTTAAATATAAAATCCTAAACCATAAAACCCTAAACTATAGACACTAAACCCTTAAACC
CTTAAATACAAATCTTAAACCC
Found at i:76320270 original size:15 final size:14
Alignment explanation
Indices: 76320224--76320271 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
76320214 ATACAAATCT
* *
76320224 TAAACCCTAAACCT
1 TAAACCATAAACCC
* *
76320238 TAAATCATAAATCC
1 TAAACCATAAACCC
76320252 TAAACCATAAAACCC
1 TAAACCAT-AAACCC
76320267 TAAAC
1 TAAAC
76320272 TATAGACAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:76320321 original size:29 final size:30
Alignment explanation
Indices: 76320135--76320311 Score: 138
Period size: 29 Copynumber: 6.1 Consensus size: 30
76320125 ACTATAGTCA
* *
76320135 CTAAACTCTTAAACCCTTAAATATAAAATC
1 CTAAACCCTTAAACCCTTAAATACAAAATC
* * * **
76320165 CTAAAGCC-TAAAACTTTAAAT-CTGAATC
1 CTAAACCCTTAAACCCTTAAATACAAAATC
76320193 ACTAAACCCTTAAACCCTTAAATAC-AAATC
1 -CTAAACCCTTAAACCCTTAAATACAAAATC
*
76320223 TTAAACCC-TAAA-CCTTAAAT-CATAAATC
1 CTAAACCCTTAAACCCTTAAATACA-AAATC
* * * *
76320251 CTAAACCATAAAACCC-TAAACTA-TAGA-C
1 CTAAACCCTTAAACCCTTAAA-TACAAAATC
*
76320279 AGTAAACCCTTAAACCCTTAAATACAAAATC
1 -CTAAACCCTTAAACCCTTAAATACAAAATC
76320310 CT
1 CT
76320312 CAATCCTAAA
Statistics
Matches: 111, Mismatches: 23, Indels: 26
0.69 0.14 0.16
Matches are distributed among these distances:
26 1 0.01
27 8 0.07
28 20 0.18
29 49 0.44
30 31 0.28
31 2 0.02
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.25
Consensus pattern (30 bp):
CTAAACCCTTAAACCCTTAAATACAAAATC
Found at i:76320907 original size:113 final size:115
Alignment explanation
Indices: 76320770--76321104 Score: 276
Period size: 114 Copynumber: 2.9 Consensus size: 115
76320760 GCCCGTTTTG
* * * * *
76320770 TAGCTTTGATATTAGTGACGCTTTTTAAAAAACGCCGCAAAA-GTGT-ATTA-CTGGTGTTTTCA
1 TAGCCTTGTTATTAGTGGCGCTTTTTAAAAAACGCCGCAAAAGGTGTAATTACCT-ATGTTTGC-
*
76320832 T-C-GAAAACGCCACAAAACAACTATTAAGAGATTGCAAAACGACGCTGTTTA
64 TCCAGAAAACGCCA-AAAACAACTATTAACAGATTGCAAAACGACGCTGTTTA
* * *
76320883 TAGCCTTTTTATTAGTGGCGC-TTTT-ATAAATGCCGCAAAAGGTGTGAATTACCTATGTTTGCT
1 TAGCCTTGTTATTAGTGGCGCTTTTTAAAAAACGCCGCAAAAGGTGT-AATTACCTATGTTTGCT
* * * * * * *
76320946 CCAGAAAATGCCATAAATATCTATTAACAGATTGCAAAACGGCGTTGTTTG
65 CCAGAAAACGCCAAAAACAACTATTAACAGATTGCAAAACGACGCTGTTTA
* * * * * * *
76320997 TAGCCTTGTTATTAGTGGTGCTTTAT-AAAAACGCTGCAGAAGATATGAATTACC-ATCGTTTTC
1 TAGCCTTGTTATTAGTGGCGCTTTTTAAAAAACGCCGCAAAAGGTGT-AATTACCTAT-GTTTGC
** * * * *
76321060 ATAAAAAAAACGCCACAAACATCTATTAATAGATTG-AAAACGACG
64 -TCCAGAAAACGCCAAAAACAACTATTAACAGATTGCAAAACGACG
76321105 TCGTTTTTTA
Statistics
Matches: 179, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
111 13 0.07
112 8 0.04
113 18 0.10
114 63 0.35
115 49 0.27
116 28 0.16
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (115 bp):
TAGCCTTGTTATTAGTGGCGCTTTTTAAAAAACGCCGCAAAAGGTGTAATTACCTATGTTTGCTC
CAGAAAACGCCAAAAACAACTATTAACAGATTGCAAAACGACGCTGTTTA
Found at i:76323182 original size:24 final size:24
Alignment explanation
Indices: 76323155--76323201 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
76323145 ATTATTATTG
* *
76323155 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCATCCGTTTTATCAC
*
76323179 AAATATTATCATTCGTTTTATCA
1 AAATATTATCATCCGTTTTATCA
76323202 TTTAAGTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.06, T:0.45
Consensus pattern (24 bp):
AAATATTATCATCCGTTTTATCAC
Found at i:76323452 original size:14 final size:14
Alignment explanation
Indices: 76323433--76323463 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
76323423 GTGTTAGTCG
76323433 ATAATGCCATTACC
1 ATAATGCCATTACC
76323447 ATAATGCCATTACC
1 ATAATGCCATTACC
76323461 ATA
1 ATA
76323464 TGAAAACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (14 bp):
ATAATGCCATTACC
Found at i:76323769 original size:15 final size:15
Alignment explanation
Indices: 76323751--76323798 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
76323741 TTAATTTATT
76323751 TAAATATTATTTAAC
1 TAAATATTATTTAAC
* **
76323766 TAAA-ATAATTTATT
1 TAAATATTATTTAAC
*
76323780 TAAATATTATTTAAG
1 TAAATATTATTTAAC
76323795 TAAA
1 TAAA
76323799 ATAAATTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
TAAATATTATTTAAC
Found at i:76323774 original size:29 final size:29
Alignment explanation
Indices: 76323742--76323802 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
76323732 TAATTTGGAT
76323742 TAATTTATTTAAATATTATTTAACTAAAA
1 TAATTTATTTAAATATTATTTAACTAAAA
*
76323771 TAATTTATTTAAATATTATTTAAGTAAAA
1 TAATTTATTTAAATATTATTTAACTAAAA
76323800 TAA
1 TAA
76323803 ATTTTTTCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAACTAAAA
Found at i:76323913 original size:195 final size:193
Alignment explanation
Indices: 76323578--76323941 Score: 613
Period size: 195 Copynumber: 1.9 Consensus size: 193
76323568 TAATTTGGAT
* *
76323578 TAATGTATTTAAATATTATTTAATTAAAATAATTTTTTTTCCATATGATTTACCACATCGTCAAA
1 TAATGTATTTAAATATTATTTAAGTAAAATAATATTTTTTCCATATGATTTACCACATCGTCAAA
* *
76323643 TTTTTTTTATTATTTCTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGATTTTCAACTTT
66 TTTTTTTTATTATTTCTTTTTCATAGAACAAAGTTGACATTTCATCTTATACGACTTTCAACTTT
76323708 TTATACACAATTTTTAAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAACTAAAA
131 TTATACACAATTTTTAAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAACTAAAA
* * *
76323771 TAATTTATTTAAATATTATTTAAGTAAAATAA-ATTTTTTCCATGTGATTTTTCCACATCGTCAA
1 TAATGTATTTAAATATTATTTAAGTAAAATAATATTTTTTCCATATGA-TTTACCACATCGTCAA
*
76323835 ATTTTATTTTTATTATTTCTTTTTCATAGAACAAAGTTGACATTTCATCTTATACGGCTTTCAAC
65 A-TTT-TTTTTATTATTTCTTTTTCATAGAACAAAGTTGACATTTCATCTTATACGACTTTCAAC
*
76323900 TTTTTATACACAATTTTTTAAATTACATAATTTGGATTAATT
128 TTTTTATACACAATTTTTAAAATTACATAATTTGGATTAATT
76323942 ATGTAATAAC
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
192 13 0.08
193 46 0.29
194 3 0.02
195 97 0.61
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (193 bp):
TAATGTATTTAAATATTATTTAAGTAAAATAATATTTTTTCCATATGATTTACCACATCGTCAAA
TTTTTTTTATTATTTCTTTTTCATAGAACAAAGTTGACATTTCATCTTATACGACTTTCAACTTT
TTATACACAATTTTTAAAATTACATAATTTGGATTAATTTATTTAAATATTATTTAACTAAAA
Found at i:76323961 original size:9 final size:9
Alignment explanation
Indices: 76323947--76324104 Score: 62
Period size: 9 Copynumber: 18.0 Consensus size: 9
76323937 TAATTATGTA
76323947 ATAACTTAC
1 ATAACTTAC
76323956 ATAACTTAC
1 ATAACTTAC
*
76323965 AAAACTTAC
1 ATAACTTAC
76323974 ATAA--TAC
1 ATAACTTAC
* *
76323981 ATAA-ATAT
1 ATAACTTAC
* *
76323989 ATATCATATC
1 ATAACTTA-C
76323999 ATAACTTAC
1 ATAACTTAC
76324008 ATAA--TAC
1 ATAACTTAC
* *
76324015 ATAA-ATAT
1 ATAACTTAC
* **
76324023 ATATCAGATC
1 ATAACTTA-C
*
76324033 ATAACATAC
1 ATAACTTAC
*
76324042 ATACCTTAC
1 ATAACTTAC
*
76324051 ATAAATGT--
1 ATAACT-TAC
* *
76324059 ATATCATATC
1 ATAACTTA-C
76324069 ATAACTTAC
1 ATAACTTAC
76324078 ATAACTTAC
1 ATAACTTAC
* *
76324087 AAAATTTAC
1 ATAACTTAC
*
76324096 TTAACTTAC
1 ATAACTTAC
76324105 GTAATACATA
Statistics
Matches: 112, Mismatches: 27, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
7 15 0.13
8 13 0.12
9 65 0.58
10 19 0.17
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:76324005 original size:34 final size:34
Alignment explanation
Indices: 76323967--76324081 Score: 176
Period size: 34 Copynumber: 3.3 Consensus size: 34
76323957 TAACTTACAA
76323967 AACTTACATAATACATAAATATATATCATATCAT
1 AACTTACATAATACATAAATATATATCATATCAT
*
76324001 AACTTACATAATACATAAATATATATCAGATCAT
1 AACTTACATAATACATAAATATATATCATATCAT
* * *
76324035 AACATACATACCTTACATAAATGTATATCATATCAT
1 AACTTACATA--ATACATAAATATATATCATATCAT
76324071 AACTTACATAA
1 AACTTACATAA
76324082 CTTACAAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
34 42 0.58
36 30 0.42
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.33
Consensus pattern (34 bp):
AACTTACATAATACATAAATATATATCATATCAT
Found at i:76329215 original size:14 final size:14
Alignment explanation
Indices: 76329191--76329225 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
76329181 TTAAATATTT
76329191 ATAAT-GTTTAATC
1 ATAATGGTTTAATC
*
76329204 ATAATGGTTTAATT
1 ATAATGGTTTAATC
76329218 ATAATGGT
1 ATAATGGT
76329226 ATATTCATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (14 bp):
ATAATGGTTTAATC
Found at i:76329986 original size:43 final size:43
Alignment explanation
Indices: 76329939--76330274 Score: 404
Period size: 43 Copynumber: 7.8 Consensus size: 43
76329929 TGTTTTTAAT
* * * *
76329939 AAAAGCGCTGCTAAAGGTCATGTTCTTTAGTGGTGTTTGTATG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* *
76329982 AAAAGCGCCGCTAAAGGTCACGTTCTTTAACGGCATTTGTATG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* * * * *
76330025 CAAGGCGCCACTAAAGGTCACATTCTTTAGCGGTGTTTGTATG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* * * * *
76330068 AAAAGCACCGCTAAAGGTCAAGTTCTGTAGCGGCATTTTTGA-G
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGT-ATG
* * *
76330111 AAAAGCGCCGCTATAGGTCACGTTCTATAGCGGCGTTTGAATG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* * * *
76330154 AAAAGCGCCACTAAATGTCACGTTCTTTAGCGGCATTTGTCTG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* *
76330197 AAAAGTGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGTG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
* * *
76330240 AAAAGCGTCACTAAAGGTCATGTTCTTTAGCGGCG
1 AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCG
76330275 CTTTCTCAAA
Statistics
Matches: 245, Mismatches: 46, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
42 1 0.00
43 243 0.99
44 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTATG
Found at i:76330811 original size:12 final size:12
Alignment explanation
Indices: 76330794--76330818 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
76330784 GTTATATTTA
76330794 TTAGGTACTTTG
1 TTAGGTACTTTG
76330806 TTAGGTACTTTG
1 TTAGGTACTTTG
76330818 T
1 T
76330819 ATAGTGTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (12 bp):
TTAGGTACTTTG
Found at i:76334252 original size:23 final size:23
Alignment explanation
Indices: 76334222--76334276 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
76334212 ATATGCAATG
76334222 TTGTTGTTATGCTAACAATTGGT
1 TTGTTGTTATGCTAACAATTGGT
76334245 TTGTTGTTATGCTAACAATTGGT
1 TTGTTGTTATGCTAACAATTGGT
**
76334268 AAGTTGTTA
1 TTGTTGTTA
76334277 AAGAAGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (23 bp):
TTGTTGTTATGCTAACAATTGGT
Found at i:76336196 original size:25 final size:23
Alignment explanation
Indices: 76336136--76336198 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 23
76336126 ATCATTTTCC
76336136 GCTCTTTTGAGCTATGAACAGTAA
1 GCTC-TTTGAGCTATGAACAGTAA
76336160 GCTCTTCCTGAGCTGAT-AGACAGTAA
1 GCTCTT--TGAGCT-ATGA-ACAGTAA
76336186 GCTCTATTGAGCT
1 GCTCT-TTGAGCT
76336199 TAAACGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
23 2 0.06
24 4 0.12
25 13 0.38
26 14 0.41
27 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
GCTCTTTGAGCTATGAACAGTAA
Found at i:76336220 original size:23 final size:24
Alignment explanation
Indices: 76336194--76336244 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
76336184 AAGCTCTATT
*
76336194 GAGCTTAAA-CGATAAGCTCAGAC
1 GAGCTTAAATCAATAAGCTCAGAC
*
76336217 GAGC-TAAATCAATAAGCTCATAC
1 GAGCTTAAATCAATAAGCTCAGAC
76336240 GAGCT
1 GAGCT
76336245 GAGAACAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (24 bp):
GAGCTTAAATCAATAAGCTCAGAC
Found at i:76336285 original size:26 final size:25
Alignment explanation
Indices: 76336206--76336295 Score: 96
Period size: 24 Copynumber: 3.7 Consensus size: 25
76336196 GCTTAAACGA
** *
76336206 TAAGCTCAGACGAGCT-A-AATCAA
1 TAAGCTCTTACGAGCTGAGAATCAG
*
76336229 TAAGCTCATACGAGCTGAGAA-CAG
1 TAAGCTCTTACGAGCTGAGAATCAG
*
76336253 TAAGCTCTTACGAGCTGATATATCAG
1 TAAGCTCTTACGAGCTGAGA-ATCAG
*
76336279 TAAGCTCTTATGAGCTG
1 TAAGCTCTTACGAGCTG
76336296 CGGTGAGTCC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.26
24 21 0.36
25 3 0.05
26 19 0.33
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (25 bp):
TAAGCTCTTACGAGCTGAGAATCAG
Found at i:76340866 original size:31 final size:31
Alignment explanation
Indices: 76340828--76340889 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
76340818 CTTTAGTATA
76340828 TTGTTAAATAAGGTAATGCAATTCATGATTT
1 TTGTTAAATAAGGTAATGCAATTCATGATTT
*
76340859 TTGTTAAATAAGGTAATGTAATTCATGATTT
1 TTGTTAAATAAGGTAATGCAATTCATGATTT
76340890 GTGTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (31 bp):
TTGTTAAATAAGGTAATGCAATTCATGATTT
Found at i:76348147 original size:21 final size:22
Alignment explanation
Indices: 76348113--76348155 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
76348103 CGCTATAGGC
*
76348113 ACTACCAATGATAAATCTATGT
1 ACTACCAATGATAAATCCATGT
*
76348135 ACTA-CAATTATAAATCCATGT
1 ACTACCAATGATAAATCCATGT
76348156 TCCATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (22 bp):
ACTACCAATGATAAATCCATGT
Found at i:76350077 original size:110 final size:110
Alignment explanation
Indices: 76349879--76350098 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
76349869 TGCGCAAAAA
76349879 TTCTATATAAGCTTCCTCCTAGAAAAATGCCTCAAATTCGATCAAACCATTAAAATGGTGGAAAT
1 TTCTATATAAGCTTCCTCCTAGAAAAATGCCTCAAATTCGATCAAACCATTAAAATGGTGGAAAT
76349944 AAACACAGTGATCTACATTAAAATTCCAAATCAGAAATTAAAACT
66 AAACACAGTGATCTACATTAAAATTCCAAATCAGAAATTAAAACT
* *
76349989 TTCTGTATAAGCTTCCTCCTAGAAAAATGCCTCAAATTTGATCAAACCATTAAAATGGTGGAAAT
1 TTCTATATAAGCTTCCTCCTAGAAAAATGCCTCAAATTCGATCAAACCATTAAAATGGTGGAAAT
*
76350054 AAACACAGTGATCTACATTAAAATTCCAGATCAGAAATTAAAACT
66 AAACACAGTGATCTACATTAAAATTCCAAATCAGAAATTAAAACT
76350099 ACAAAAACCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.28
Consensus pattern (110 bp):
TTCTATATAAGCTTCCTCCTAGAAAAATGCCTCAAATTCGATCAAACCATTAAAATGGTGGAAAT
AAACACAGTGATCTACATTAAAATTCCAAATCAGAAATTAAAACT
Found at i:76353594 original size:20 final size:19
Alignment explanation
Indices: 76353566--76353619 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
76353556 AAAATTACAA
*
76353566 AAAAATTAAAATATTTTTC
1 AAAATTTAAAATATTTTTC
*
76353585 AAAATTTTAAAATATTTTTT
1 AAAA-TTTAAAATATTTTTC
*
76353605 AAAATTCAAAATATT
1 AAAATTTAAAATATT
76353620 AATAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAATTTAAAATATTTTTC
Found at i:76353720 original size:40 final size:40
Alignment explanation
Indices: 76353647--76353725 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
76353637 TATATTGTTA
*
76353647 AAAAAATTATAAAATTTTAATAAATTCTAAAAATATATAAT
1 AAAAAAGTATAAAATTTTAATAAATTCTAAAAATA-ATAAT
76353688 AAAAAAGT-TAAAATTTTAA-AAATTTGCT-AAAATAATAA
1 AAAAAAGTATAAAATTTTAATAAA-TT-CTAAAAATAATAA
76353726 CTTTGGGTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
39 7 0.20
40 19 0.54
41 9 0.26
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAAAAGTATAAAATTTTAATAAATTCTAAAAATAATAAT
Found at i:76354508 original size:16 final size:16
Alignment explanation
Indices: 76354489--76354540 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
76354479 TTAAATTATA
76354489 ATATTTTTGAATTCAT
1 ATATTTTTGAATTCAT
*
76354505 ATA--TTTAAATT-AT
1 ATATTTTTGAATTCAT
76354518 AATATTTTTGAATTCAT
1 -ATATTTTTGAATTCAT
76354535 ATATTT
1 ATATTT
76354541 AAATGTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
16 16 0.53
17 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (16 bp):
ATATTTTTGAATTCAT
Found at i:76354513 original size:30 final size:30
Alignment explanation
Indices: 76354479--76354550 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
76354469 CCCATTAATG
76354479 TTAAATTATAATATTTTTGAATTCATATAT
1 TTAAATTATAATATTTTTGAATTCATATAT
76354509 TTAAATTATAATATTTTTGAATTCATATAT
1 TTAAATTATAATATTTTTGAATTCATATAT
76354539 TTAAATGTATAA
1 TTAAAT-TATAA
76354551 ACATGTTACT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 36 0.88
31 5 0.12
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (30 bp):
TTAAATTATAATATTTTTGAATTCATATAT
Found at i:76354515 original size:14 final size:14
Alignment explanation
Indices: 76354498--76354544 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
76354488 AATATTTTTG
76354498 AATTCATATATTTA
1 AATTCATATATTTA
*
76354512 AATT-ATAATATTTTTG
1 AATTCAT-ATA--TTTA
76354528 AATTCATATATTTA
1 AATTCATATATTTA
76354542 AAT
1 AAT
76354545 GTATAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 2 0.07
14 13 0.48
16 10 0.37
17 2 0.07
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (14 bp):
AATTCATATATTTA
Found at i:76363327 original size:93 final size:96
Alignment explanation
Indices: 76363215--76363392 Score: 281
Period size: 93 Copynumber: 1.9 Consensus size: 96
76363205 CGCCCATAAG
* *
76363215 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAA-G-T-GAACTCGGACTCAAC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGGATCGAACTCGGACTCAAC
76363277 TCAACGAGTTCGGATGCCTAGTTACATCTCA
66 TCAACGAGTTCGGATGCCTAGTTACATCTCA
*
76363308 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCGGACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAG-G-A-TCGAACTCGGACTC
76363373 AACTCAACGAGTTCGGATGC
63 AACTCAACGAGTTCGGATGC
76363393 TCAACCATTC
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
93 42 0.55
95 1 0.01
98 1 0.01
99 32 0.42
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (96 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGGATCGAACTCGGACTCAAC
TCAACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:76363373 original size:47 final size:46
Alignment explanation
Indices: 76363208--76363389 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
76363198 TGTAACCCGC
* * *
76363208 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
76363254 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
76363304 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
76363347 CCATAAGTGAACTCGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAA--G----CGAACTCGGACTCAACTCAACGAGTTCGGA
76363390 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 34 0.30
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
52 30 0.27
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:76365141 original size:67 final size:67
Alignment explanation
Indices: 76365033--76365165 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 67
76365023 AATGGATGGT
*
76365033 TATTTATAAGTAAACTATCAGAATTCTAATTGGATTCGTTGATGGAGTTTTACTTGATAGTAGAT
1 TATTTATAAGTAAACTATCAGAATTCTAATTGGATTCGTTGATGGAATTTTACTTGATAGTAGAT
76365098 AA
66 AA
* *
76365100 TATTTATAAGTAAACTATCAGAATTCTAATTGGATTTGTTGATGTAATTTTACTTGATAGTAGAT
1 TATTTATAAGTAAACTATCAGAATTCTAATTGGATTCGTTGATGGAATTTTACTTGATAGTAGAT
76365165 A
66 A
76365166 GGTAAGATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (67 bp):
TATTTATAAGTAAACTATCAGAATTCTAATTGGATTCGTTGATGGAATTTTACTTGATAGTAGAT
AA
Found at i:76369048 original size:28 final size:28
Alignment explanation
Indices: 76369016--76369071 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
76369006 AAAAAGTTTC
76369016 ATTATAATCATAACTTTAAACTTTTTAA
1 ATTATAATCATAACTTTAAACTTTTTAA
76369044 ATTATAATCATAACTTTAAACTTTTTAA
1 ATTATAATCATAACTTTAAACTTTTTAA
76369072 CTATGCATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTATAATCATAACTTTAAACTTTTTAA
Found at i:76369162 original size:28 final size:28
Alignment explanation
Indices: 76369131--76369185 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
76369121 TTTATTTTCT
76369131 ATTTAAAAGTTT-TAAAAAATTATGTTTA
1 ATTTAAAA-TTTATAAAAAATTATGTTTA
* *
76369159 ATTTATAATTTAATAAAAAGTTATGTT
1 ATTTAAAATTT-ATAAAAAATTATGTT
76369186 AATCTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 3 0.13
28 7 0.30
29 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (28 bp):
ATTTAAAATTTATAAAAAATTATGTTTA
Done.