Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 77 of 325
Found at i:24406853 original size:29 final size:29
Alignment explanation
Indices: 24406774--24406866 Score: 75
Period size: 29 Copynumber: 3.1 Consensus size: 29
24406764 TTAGAAAATA
24406774 TAAAAATAAAATAT-TTAATTTCAAAATATAAT
1 TAAAAATAAAATATATTAA-TT---AATATAAT
* *
24406806 TTAAAATAAAATATTTTAATTAATATAAT
1 TAAAAATAAAATATATTAATTAATATAAT
* * *
24406835 ATAAAAAT-AATTATATTAA-CAATATTAT
1 -TAAAAATAAAATATATTAATTAATATAAT
24406863 TAAA
1 TAAA
24406867 TTATATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
27 4 0.08
28 7 0.13
29 17 0.32
30 6 0.11
32 15 0.28
33 4 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
TAAAAATAAAATATATTAATTAATATAAT
Found at i:24407150 original size:16 final size:16
Alignment explanation
Indices: 24407125--24407158 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24407115 TTACTAATTG
24407125 CAACTCTATTCCATTA
1 CAACTCTATTCCATTA
* *
24407141 CAACTTTATTCTATTA
1 CAACTCTATTCCATTA
24407157 CA
1 CA
24407159 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.41
Consensus pattern (16 bp):
CAACTCTATTCCATTA
Found at i:24408542 original size:3 final size:3
Alignment explanation
Indices: 24408534--24408566 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
24408524 AAATCTCTAC
24408534 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
24408567 GAAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24411003 original size:71 final size:71
Alignment explanation
Indices: 24410878--24411035 Score: 219
Period size: 71 Copynumber: 2.2 Consensus size: 71
24410868 AAAAGAAAGA
* * * * **
24410878 GTATTGTGATATCCACACCTTGGAATCATGATACCTTTAAAAGTATTGAAGAATGGAGGCACCCT
1 GTATCGTGATATCCACACCTTAGAATCATGATACCTCTAAAAGTATTGAAGAATGAAAACACCCT
24410943 TCAATG
66 TCAATG
* *
24410949 GTATCGTGATATCCACACCTTAGAATCGTGATACCTCTAACAA-TATTGACGAATGAAAACACCC
1 GTATCGTGATATCCACACCTTAGAATCATGATACCTCTAA-AAGTATTGAAGAATGAAAACACCC
24411013 TTCAATG
65 TTCAATG
*
24411020 GTATCGCGATATCCAC
1 GTATCGTGATATCCAC
24411036 CTTTCCAAGA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 75 0.97
72 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (71 bp):
GTATCGTGATATCCACACCTTAGAATCATGATACCTCTAAAAGTATTGAAGAATGAAAACACCCT
TCAATG
Found at i:24411108 original size:22 final size:22
Alignment explanation
Indices: 24411080--24411134 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
24411070 GAGGTATCGT
24411080 GATATCCTCTTATGAGCATTGC
1 GATATCCTCTTATGAGCATTGC
*
24411102 GATATCCTCTTATGAGCATTTC
1 GATATCCTCTTATGAGCATTGC
24411124 GATATCCTCTT
1 GATATCCTCTT
24411135 GTGGGTATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (22 bp):
GATATCCTCTTATGAGCATTGC
Found at i:24414316 original size:37 final size:37
Alignment explanation
Indices: 24414264--24414346 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
24414254 GGGAACAATA
* ** * *
24414264 CTCACACAAGCTGTGATTGTAACTGTATCTATCAGTT
1 CTCACACAAGATGTGATTGTAACCATATCTATAAGTG
*
24414301 CTCACACAAGATGTGATTGTAACCATATCTGTAAGTG
1 CTCACACAAGATGTGATTGTAACCATATCTATAAGTG
24414338 CTCACACAA
1 CTCACACAA
24414347 TCTGTGGGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (37 bp):
CTCACACAAGATGTGATTGTAACCATATCTATAAGTG
Found at i:24422393 original size:12 final size:12
Alignment explanation
Indices: 24422376--24422400 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24422366 CACTTAAGAT
24422376 TCCTAAAAAATA
1 TCCTAAAAAATA
24422388 TCCTAAAAAATA
1 TCCTAAAAAATA
24422400 T
1 T
24422401 GTTAGATGTG
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (12 bp):
TCCTAAAAAATA
Found at i:24424827 original size:34 final size:34
Alignment explanation
Indices: 24424784--24424851 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
24424774 TAACGCGAAC
24424784 AAGTGTCGAGGTAAGTTTGTGTAACTTAATCCGG
1 AAGTGTCGAGGTAAGTTTGTGTAACTTAATCCGG
24424818 AAGTGTCGAGGTAAGTTTGTGTAACTTAATCCGG
1 AAGTGTCGAGGTAAGTTTGTGTAACTTAATCCGG
24424852 CATGTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.32
Consensus pattern (34 bp):
AAGTGTCGAGGTAAGTTTGTGTAACTTAATCCGG
Found at i:24425169 original size:23 final size:23
Alignment explanation
Indices: 24425139--24425184 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
24425129 CCTCTCGAGT
24425139 ATACGTTATGATTAGGGTTTAGC
1 ATACGTTATGATTAGGGTTTAGC
24425162 ATACGTTATGATTAGGGTTTAGC
1 ATACGTTATGATTAGGGTTTAGC
24425185 CTGGATTAGT
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:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (23 bp):
ATACGTTATGATTAGGGTTTAGC
Found at i:24432952 original size:42 final size:42
Alignment explanation
Indices: 24432906--24433012 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 42
24432896 GATGCCTCTA
* * * *
24432906 TCCCAGATAGGGTCTTACACGAAAT-T-ATATACGATGCCAATG
1 TCCCAGACACGGTCTTATACGAAATCTCA-AT-CGAGGCCAATG
* *
24432948 TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTATG
1 TCCCAGACACGGTCTTATACG-AAATCTCAATCGAGGCCAATG
24432991 TCCCAGACACGGTCTTATACGA
1 TCCCAGACACGGTCTTATACGA
24433013 TGTATCAGAC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 19 0.34
43 33 0.59
44 3 0.05
45 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
TCCCAGACACGGTCTTATACGAAATCTCAATCGAGGCCAATG
Found at i:24442767 original size:57 final size:57
Alignment explanation
Indices: 24442679--24442793 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
24442669 TACTGGAAGA
24442679 TATGTTGCTAAGCTATGTAATTGATTTTCATGGCAGCTGGGAGGAGTACTTGCCGTT
1 TATGTTGCTAAGCTATGTAATTGATTTTCATGGCAGCTGGGAGGAGTACTTGCCGTT
24442736 TATGTTGCTAAGCTATGTAATTGATTTTCATGGCAGCTGGGAGGAGTACTTGCCGTT
1 TATGTTGCTAAGCTATGTAATTGATTTTCATGGCAGCTGGGAGGAGTACTTGCCGTT
24442793 T
1 T
24442794 GTAGAGTTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (57 bp):
TATGTTGCTAAGCTATGTAATTGATTTTCATGGCAGCTGGGAGGAGTACTTGCCGTT
Found at i:24450147 original size:18 final size:18
Alignment explanation
Indices: 24450118--24450190 Score: 83
Period size: 18 Copynumber: 4.1 Consensus size: 18
24450108 CTTGGCCCAT
*
24450118 TGCAATAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
* *
24450136 TGCAGTAGCAGTAATCAG
1 TGCAGTAACAGTAAACAG
* *
24450154 TGTAGTAACATTAAACAG
1 TGCAGTAACAGTAAACAG
* *
24450172 TGCACTAACAGTAAGCAG
1 TGCAGTAACAGTAAACAG
24450190 T
1 T
24450191 ATGCAAGTCC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:24452784 original size:47 final size:47
Alignment explanation
Indices: 24452732--24453182 Score: 740
Period size: 47 Copynumber: 9.6 Consensus size: 47
24452722 GATAATTGTG
* *
24452732 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24452779 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
24452826 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24452873 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24452920 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24452969 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24453016 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
24453063 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
24453110 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
24453157 ATATGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
24453183 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 336 0.88
49 45 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:24453019 original size:190 final size:190
Alignment explanation
Indices: 24452732--24453182 Score: 748
Period size: 190 Copynumber: 2.4 Consensus size: 190
24452722 GATAATTGTG
24452732 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
24452795 ATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
66 ATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
24452860 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
24452920 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
24452985 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
* *
24453050 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * * * * * * *
24453110 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATATGAAAGTGTATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
24453173 ATGTGATAAG
66 ATGTGATAAG
24453183 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
188 58 0.23
189 2 0.01
190 187 0.76
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (190 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:24455075 original size:27 final size:27
Alignment explanation
Indices: 24455038--24455225 Score: 191
Period size: 27 Copynumber: 7.0 Consensus size: 27
24455028 AAACATATAT
* *
24455038 CACATAGGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
24455065 CACAAAAGGGCAAAATAGCCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
24455092 CTCATAAGGGCAAAACTGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
24455119 CACATAAGGGCAAAACTGTCAATTTA-
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
24455145 -ACACAAGGGCAAAACAGTCGTTTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
24455171 TACATAAGGGAAAAACCGTCATTTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
* **
24455198 CACGTAAGGGCAAAACAACCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
24455225 C
1 C
24455226 TTACAGGAGT
Statistics
Matches: 129, Mismatches: 30, Indels: 4
0.79 0.18 0.02
Matches are distributed among these distances:
25 20 0.16
27 109 0.84
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:24455247 original size:27 final size:27
Alignment explanation
Indices: 24455217--24455463 Score: 316
Period size: 27 Copynumber: 9.1 Consensus size: 27
24455207 GCAAAACAAC
* * * * *
24455217 CATTTTACCTTACAGGAGTATTACAGT
1 CATTTTACCCTATAGGGGTATTTCGGT
24455244 CATTTTACCCTAT-GAGGGTATTTCGGT
1 CATTTTACCCTATAG-GGGTATTTCGGT
*
24455271 CATTTTACCCTATAGGGGTATTTTGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
*
24455298 CATTTTACCCTATAGGGGTATTTTGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* *
24455325 CATTTTACCCTATGGGGGTATTTCGAT
1 CATTTTACCCTATAGGGGTATTTCGGT
*
24455352 CATTTTACCTTATAGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* * *
24455379 CATTTTATCCTATGGGGGTATTTTGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* * *
24455406 AATTTTACCTTATGGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
**
24455433 CATCATACCCTATAGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
24455460 CATT
1 CATT
24455464 ATTTTCAGTC
Statistics
Matches: 192, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 190 0.99
28 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
CATTTTACCCTATAGGGGTATTTCGGT
Found at i:24455319 original size:81 final size:81
Alignment explanation
Indices: 24455242--24455463 Score: 354
Period size: 81 Copynumber: 2.7 Consensus size: 81
24455232 GAGTATTACA
* *
24455242 GTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACC
24455307 CTATAGGGGTATTTTG
66 CTATAGGGGTATTTTG
* * *
24455323 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATAGGGGTATTTCGGTCATTTTATC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACC
*
24455388 CTATGGGGGTATTTTG
66 CTATAGGGGTATTTTG
* * **
24455404 GTAATTTTACCTTATGGGGGTATTTCGGTCATCATACCCTATAGGGGTATTTCGGTCATT
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATT
24455464 ATTTTCAGTC
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 129 1.00
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACC
CTATAGGGGTATTTTG
Found at i:24460013 original size:24 final size:23
Alignment explanation
Indices: 24459962--24460026 Score: 112
Period size: 23 Copynumber: 2.7 Consensus size: 23
24459952 CCTATACATG
24459962 CAATTATACCAAAATGATTTTTA
1 CAATTATACCAAAATGATTTTTA
24459985 CAATTATACCAAAATGATTTTTA
1 CAATTATACCAAAATGATTTTTA
24460008 CTAATTATACCCAAAATGA
1 C-AATTATA-CCAAAATGA
24460027 CTAGTTGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 24 0.60
24 7 0.17
25 9 0.22
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (23 bp):
CAATTATACCAAAATGATTTTTA
Found at i:24462304 original size:11 final size:11
Alignment explanation
Indices: 24462290--24462314 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24462280 AAAGTATGAT
24462290 TAAAATGTAAC
1 TAAAATGTAAC
24462301 TAAAATGTAAC
1 TAAAATGTAAC
24462312 TAA
1 TAA
24462315 CTACCTGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (11 bp):
TAAAATGTAAC
Found at i:24465266 original size:44 final size:44
Alignment explanation
Indices: 24465204--24465586 Score: 309
Period size: 44 Copynumber: 8.7 Consensus size: 44
24465194 CTTTGATCCA
* * * *
24465204 CTCCACTG-AACTTTAGGGAGATAAGACTTGTAGCTTCTATATG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * *
24465247 CTCCACTGTAACTTCAGGGAAATGAGATTTGTGGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * * *
24465291 CTCCATTGCAACATCGGGGAGATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* *
24465335 CTCCACTGCAACTTTAGGGAGATAAGA----T---TT-AATATG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
* * * * ** *
24465371 CTCTATTGCAACTTCAGAGAGATAAGATTTGCTATCTTTGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTG
*
24465416 CTCCACTGCAACTTCAGGGAGA-AGATTTGTAATTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATA-A---G--ATTTGTAGCTTCAATCTG
* * * * * *
24465465 TTCCACTGTAACTTCAGGGAAATAAGACTTGTAACTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
24465509 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCCTGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTA----G-CTTCAATCTG
*
24465558 CTCCACTGCAACTTCAAGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
24465587 CGCCATGATA
Statistics
Matches: 268, Mismatches: 50, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
36 27 0.10
37 2 0.01
40 1 0.00
41 1 0.00
43 8 0.03
44 131 0.49
45 23 0.09
46 1 0.00
48 1 0.00
49 67 0.25
50 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTG
Found at i:24465523 original size:93 final size:92
Alignment explanation
Indices: 24465411--24465584 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 92
24465401 GCTATCTTTG
* * * *
24465411 ATCTACTCCACTGCAACTTCAGGGAG-AAGATTTGTAAT-TTGTAGCTTTAATCTGTTCCACTGT
1 ATCTACTCCACTGCAACTTCAGGGAGAAAGATTTGT-ATCCTGT--CTTCAATCTGCTCCACTGC
*
24465474 AACTTCAGGGAAATAAGACTTGTAACTTCA
63 AACTTCAAGGAAATAAGACTTGTAACTTCA
24465504 ATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCCTGTCTTCAATCTGCTCCACTGCAA
1 ATCTACTCCACTGCAACTTCAGGGAGA-AAGATTTGTATCCTGTCTTCAATCTGCTCCACTGCAA
*
24465569 CTTCAAGGAGATAAGA
65 CTTCAAGGAAATAAGA
24465585 TTCGCCATGA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
93 58 0.81
94 2 0.03
95 12 0.17
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (92 bp):
ATCTACTCCACTGCAACTTCAGGGAGAAAGATTTGTATCCTGTCTTCAATCTGCTCCACTGCAAC
TTCAAGGAAATAAGACTTGTAACTTCA
Found at i:24465571 original size:49 final size:46
Alignment explanation
Indices: 24465377--24465586 Score: 189
Period size: 49 Copynumber: 4.5 Consensus size: 46
24465367 TATGCTCTAT
* *
24465377 TGCAACTTCAGAGAGATAAGATTTGCTATCT-TT-GATCTACTCCAC
1 TGCAACTTCAGGGAGATAAGATTTG-TATCTCTTCAATCTACTCCAC
* * **
24465422 TGCAACTTCAGGGAG--AAGATTTGTAATTTGTAGCTTTAATCTGTTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGT-A--TCT--CTTCAATCTACTCCAC
* * * *
24465471 TGTAACTTCAGGGAAATAAGACTTGTA--ACTTCAATCTACTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGTATCTCTTCAATCTACTCCAC
*
24465515 TGCAACTTCAGGGAGATAAGATTTGTATCCTGTCTTCAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGTAT-C--TCTTCAATCTACTCCAC
*
24465564 TGCAACTTCAAGGAGATAAGATT
1 TGCAACTTCAGGGAGATAAGATT
24465587 CGCCATGATA
Statistics
Matches: 133, Mismatches: 18, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.01
43 9 0.07
44 37 0.28
45 16 0.12
48 2 0.02
49 59 0.44
50 1 0.01
51 8 0.06
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (46 bp):
TGCAACTTCAGGGAGATAAGATTTGTATCTCTTCAATCTACTCCAC
Found at i:24472283 original size:18 final size:18
Alignment explanation
Indices: 24472260--24472305 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
24472250 TTTTTGTATT
24472260 TGGCCTTGGGTTGGATTC
1 TGGCCTTGGGTTGGATTC
24472278 TGGCCTTGGGTTGGATTC
1 TGGCCTTGGGTTGGATTC
*
24472296 TTGCCTTGGG
1 TGGCCTTGGG
24472306 GCTGATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.04, C:0.17, G:0.39, T:0.39
Consensus pattern (18 bp):
TGGCCTTGGGTTGGATTC
Found at i:24479109 original size:50 final size:50
Alignment explanation
Indices: 24478947--24479331 Score: 389
Period size: 50 Copynumber: 7.6 Consensus size: 50
24478937 ATCTAGTCCG
* * *
24478947 CATAGTAGCCTGCACTTAGTACTGCACATGCGACC-AACAATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACA
* * * * * * * *
24478996 CGTAGTAGCCTACACTTAGTACTACACACGTGA-TTGAAGTTGTCAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CTATCTGGTACA
*
24479047 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACA
* * *
24479097 CGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACA
* * * * * * **
24479147 CGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTATG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CTATCTGGTACA
* * * **
24479198 CATAGTAGCTTACACTTTGTACTACACATACGACCTAACTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACA
* * ***
24479248 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACCATATTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACTATCTGGTACA
*
24479300 CATAGTAGCCTGCACATAGTACTACACATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
24479332 TTCTCACAAT
Statistics
Matches: 270, Mismatches: 57, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
49 29 0.11
50 128 0.47
51 71 0.26
52 42 0.16
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACA
Found at i:24479123 original size:101 final size:100
Alignment explanation
Indices: 24478945--24479129 Score: 325
Period size: 101 Copynumber: 1.8 Consensus size: 100
24478935 CTATCTAGTC
*
24478945 CGCATAGTAGCCTGCACTTAGTACTGCACATGCGACCAACAATCTGGTACACGTAGTAGCCTACA
1 CGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCCTACA
24479010 CTTAGTACTACACACGTGATTGAAGTTGTCAGGTA
66 CTTAGTACTACACACGTGATTGAAGTTGTCAGGTA
* *
24479045 CGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCTGC
1 CGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACGTAGTAGCCTAC
*
24479110 ACTTAGTACTACACATGTGA
65 ACTTAGTACTACACACGTGA
24479130 CCTAACCATC
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 36 0.45
101 44 0.55
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (100 bp):
CGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGCCTACA
CTTAGTACTACACACGTGATTGAAGTTGTCAGGTA
Found at i:24479177 original size:151 final size:151
Alignment explanation
Indices: 24478947--24479327 Score: 584
Period size: 151 Copynumber: 2.5 Consensus size: 151
24478937 ATCTAGTCCG
* * * * *
24478947 CATAGTAGCCTGCACTTAGTACTGCACATGCGACC-AACAATCTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
*
24479011 TTAGTACTACACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACAT
66 TTAGTACTACACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCCTACACTTAGTACTACACAT
*
24479076 GCGACCTAACTATCTGGTACA
131 ACGACCTAACTATCTGGTACA
*
24479097 CGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
* * * *
24479162 TTAGTACTACACACGTGATTGAAGTTGTCGGGTATGCATAGTAGCTTACACTTTGTACTACACAT
66 TTAGTACTACACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCCTACACTTAGTACTACACAT
24479227 ACGACCTAACTATCTGGTACA
131 ACGACCTAACTATCTGGTACA
* * * *
24479248 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACCATATTAAACACATAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACACGTAGTAGCCTGC
*
24479313 ACATAGTACTACACA
64 ACTTAGTACTACACA
24479328 TGTGTTCTCA
Statistics
Matches: 210, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
150 32 0.15
151 141 0.67
153 37 0.18
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (151 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGATTGAAGTTGTCAGGTACGCATAGTAGCCTACACTTAGTACTACACAT
ACGACCTAACTATCTGGTACA
Found at i:24479204 original size:101 final size:101
Alignment explanation
Indices: 24479047--24479280 Score: 283
Period size: 101 Copynumber: 2.3 Consensus size: 101
24479037 GTCAGGTACG
* * * * * * ** * *
24479047 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AA-CTATCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTATGCATAGTAGCCTAC
**
24479110 ACTTAGTACTACACATGTGACCTAACCATCTGATACA
65 ACTTAGTACTACACATACGACCTAACCATCTGATACA
* *
24479147 CGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTATGCATAGTAGCTTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTATGCATAGTAGCCTACA
* * *
24479212 CTTTGTACTACACATACGACCTAACTATCTGGTACA
66 CTTAGTACTACACATACGACCTAACCATCTGATACA
*
24479248 CATAGTAGCCTGCACTTAGTACTACACATGTGA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA
24479281 CCTAAAACCA
Statistics
Matches: 113, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
99 1 0.01
100 32 0.28
101 80 0.71
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (101 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTATGCATAGTAGCCTACA
CTTAGTACTACACATACGACCTAACCATCTGATACA
Found at i:24479276 original size:26 final size:26
Alignment explanation
Indices: 24479244--24479328 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
24479234 AACTATCTGG
*
24479244 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
** *
24479270 TACACAT-GT-GACCTAAAACCATATTA-
1 TACACATAGTAG-CCT-GCA-CATAGTAC
*
24479296 AACACATAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
24479322 TACACAT
1 TACACAT
24479329 GTGTTCTCAC
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
24 1 0.02
25 11 0.25
26 21 0.48
27 10 0.23
28 1 0.02
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.25
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACATAGTAC
Found at i:24485827 original size:50 final size:50
Alignment explanation
Indices: 24485712--24486085 Score: 310
Period size: 50 Copynumber: 7.5 Consensus size: 50
24485702 GTACGCATAA
* * * ** **
24485712 TAGCCTGCACTTAGTACTACACATGCGA-CAAAAAATCCGATACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAG
* * *
24485761 CAGCCTGCA-TTAGTACTACACACATGACCTAACCATTTGATACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAG
* * * * * * *
24485810 TAGCCTGCACTTAGTACTACAAATGTGACCTAACTATCTGGTAGATGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAG
* * * * *
24485860 TAGCGTACACTTAGTACTATACACGGGACCTAACCATTTGATACACGTGG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAG
* * * *
24485910 TAGCCTGCACTTAGTACTACACACGTGA-TTGAA--GTTGTCGGGTACACATAG
1 TAGCCTGCACTTAGTACTACACACGTGACCT-AACCATT-T--GATACACGTAG
* * * * *
24485961 TAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAG
* * * * *
24486011 TAGCCTACACTTAGTACTACACACGTAACCTAAAACCATCTT-AAACACATGG
1 TAGCCTGCACTTAGTACTACACACGTGACCT--AACCAT-TTGATACACGTAG
*
24486063 TAGCCTGCACATAGTACTACACA
1 TAGCCTGCACTTAGTACTACACA
24486086 TGTGTTCTCA
Statistics
Matches: 254, Mismatches: 59, Indels: 21
0.76 0.18 0.06
Matches are distributed among these distances:
48 17 0.07
49 33 0.13
50 132 0.52
51 36 0.14
52 34 0.13
53 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAG
Found at i:24485978 original size:151 final size:152
Alignment explanation
Indices: 24485801--24486085 Score: 439
Period size: 151 Copynumber: 1.9 Consensus size: 152
24485791 AACCATTTGA
* * * *
24485801 TACACATAGTAGCCTGCACTTAGTACTACAAATGTGACCTAACTATCTGGTAGATGTAGTAGCGT
1 TACACATAGTAGCCTGCACTTAGTACTACAAATGCGACCTAACTATCTGGTACACGTAGTAGCCT
* * * * *
24485866 ACACTTAGTACTATACACGGGACCT-AACCAT-TTGATACACGTGGTAGCCTGCACTTAGTACTA
66 ACACTTAGTACTACACACGGAACCTAAACCATCTT-AAACACATGGTAGCCTGCACATAGTACTA
24485929 CACACGTGATTGAAGTTGTCGGG
130 CACACGTGATTGAAGTTGTCGGG
*
24485952 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCCT
1 TACACATAGTAGCCTGCACTTAGTACTACAAATGCGACCTAACTATCTGGTACACGTAGTAGCCT
*
24486017 ACACTTAGTACTACACACGTAACCTAAAACCATCTTAAACACATGGTAGCCTGCACATAGTACTA
66 ACACTTAGTACTACACACGGAACCT-AAACCATCTTAAACACATGGTAGCCTGCACATAGTACTA
24486082 CACA
130 CACA
24486086 TGTGTTCTCA
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
151 82 0.68
153 36 0.30
154 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.26
Consensus pattern (152 bp):
TACACATAGTAGCCTGCACTTAGTACTACAAATGCGACCTAACTATCTGGTACACGTAGTAGCCT
ACACTTAGTACTACACACGGAACCTAAACCATCTTAAACACATGGTAGCCTGCACATAGTACTAC
ACACGTGATTGAAGTTGTCGGG
Found at i:24486006 original size:101 final size:100
Alignment explanation
Indices: 24485712--24486043 Score: 346
Period size: 101 Copynumber: 3.3 Consensus size: 100
24485702 GTACGCATAA
* * * ** * * *
24485712 TAGCCTGCACTTAGTACTACACATGCGA-CAAAAAATCCGATACACGTAGCAGCCTGCA-TTAGT
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACTATCGGGTACACGTAGTAGCCTGCACTTAGT
** *
24485775 ACTACACACATGACCTAACCATTTGATACACATAG
66 ACTACACACGCGACCTAACCATTTGATACACGTAG
* * * * * * *
24485810 TAGCCTGCACTTAGTACTACAAATGTGACCTAACTATCTGGTAGATGTAGTAGCGTACACTTAGT
1 TAGCCTGCACTTAGTACTACACACGTGACCTAACTATCGGGTACACGTAGTAGCCTGCACTTAGT
* * *
24485875 ACTATACACGGGACCTAACCATTTGATACACGTGG
66 ACTACACACGCGACCTAACCATTTGATACACGTAG
* * * *
24485910 TAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTACACATAGTAGCCTGCACTTA
1 TAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTATCGGGTACACGTAGTAGCCTGCACTTA
* * * *
24485974 GTACTACACATGCGACCTAACTATCTGGTACACGTAG
64 GTACTACACACGCGACCTAACCATTTGATACACGTAG
* *
24486011 TAGCCTACACTTAGTACTACACACGTAACCTAA
1 TAGCCTGCACTTAGTACTACACACGTGACCTAA
24486044 AACCATCTTA
Statistics
Matches: 191, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
98 26 0.14
99 21 0.11
100 63 0.33
101 80 0.42
102 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (100 bp):
TAGCCTGCACTTAGTACTACACACGTGACCTAACTATCGGGTACACGTAGTAGCCTGCACTTAGT
ACTACACACGCGACCTAACCATTTGATACACGTAG
Found at i:24487724 original size:29 final size:28
Alignment explanation
Indices: 24487678--24487735 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
24487668 TAGAACTTTT
*
24487678 TCATGGATATCAAGTAATCATAAAATAA
1 TCATGGATATCAAATAATCATAAAATAA
24487706 TCATGGATCATCAAATAATCATAAAATAA
1 TCATGGAT-ATCAAATAATCATAAAATAA
24487735 T
1 T
24487736 TATTTCTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (28 bp):
TCATGGATATCAAATAATCATAAAATAA
Found at i:24492563 original size:28 final size:28
Alignment explanation
Indices: 24492531--24492597 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
24492521 AGAAAGCCTC
* *
24492531 TGTGGCGAA-ACTCGAAAGGAATGGCCCT
1 TGTGGCGAACCCT-GAAAGGAATAGCCCT
* *
24492559 TGTGGTGAACCCTGAAAGGAGTAGCCCT
1 TGTGGCGAACCCTGAAAGGAATAGCCCT
24492587 TGTGGC-AACCC
1 TGTGGCGAACCC
24492598 ATTTGAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 5 0.15
28 26 0.79
29 2 0.06
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.19
Consensus pattern (28 bp):
TGTGGCGAACCCTGAAAGGAATAGCCCT
Found at i:24499381 original size:10 final size:10
Alignment explanation
Indices: 24499366--24499392 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
24499356 ACTAAAATCC
24499366 TAATTAAGCT
1 TAATTAAGCT
24499376 TAATTAAGCT
1 TAATTAAGCT
24499386 TAATTAA
1 TAATTAA
24499393 TCATTTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (10 bp):
TAATTAAGCT
Found at i:24505746 original size:26 final size:23
Alignment explanation
Indices: 24505684--24505746 Score: 56
Period size: 26 Copynumber: 2.5 Consensus size: 23
24505674 GAAACTAAAG
*
24505684 AATTTAA-TTTTTTTTATTTATT
1 AATTTAACTATTTTTTATTTATT
24505706 AATTTGATACTTATTTTTTATTTGAGTT
1 AATTT-A-AC-TATTTTTTATTT-A-TT
24505734 AAATTTAACTATT
1 -AATTTAACTATT
24505747 AATTTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
22 5 0.15
23 1 0.03
24 1 0.03
26 15 0.45
27 3 0.09
28 3 0.09
29 5 0.15
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (23 bp):
AATTTAACTATTTTTTATTTATT
Found at i:24505904 original size:9 final size:9
Alignment explanation
Indices: 24505886--24505939 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 9
24505876 ATTAAAAAAT
24505886 AATT-TAAA
1 AATTATAAA
24505894 AATTATAAA
1 AATTATAAA
24505903 AATTA-AAA
1 AATTATAAA
24505911 AGA-TATATAA
1 A-ATTATA-AA
24505921 AATTGATAAA
1 AATT-ATAAA
24505931 AATTA-AAA
1 AATTATAAA
24505939 A
1 A
24505940 TAAAGTAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
8 14 0.35
9 13 0.32
10 10 0.25
11 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:24513955 original size:4 final size:4
Alignment explanation
Indices: 24513948--24513991 Score: 72
Period size: 4 Copynumber: 11.0 Consensus size: 4
24513938 TTAATTTAGA
24513948 AATT AATT AATT AATT AATTT AA-T AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AA-TT AATT AATT AATT AATT AATT AATT
24513992 TTTTTAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 3 0.08
4 31 0.82
5 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:24513965 original size:24 final size:24
Alignment explanation
Indices: 24513938--24513992 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
24513928 AAAAATTTAT
24513938 TTAATTTAGA-AATTAATTAATTAA
1 TTAATTTA-ATAATTAATTAATTAA
24513962 TTAATTTAATAATTAATTAATTAA
1 TTAATTTAATAATTAATTAATTAA
24513986 TTAATTT
1 TTAATTT
24513993 TTTTAAGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAATTTAATAATTAATTAATTAA
Found at i:24517843 original size:22 final size:20
Alignment explanation
Indices: 24517803--24517843 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
24517793 CGTACCCTAA
*
24517803 TTTTTGAAATTGTTGATGAT
1 TTTTTGAAATTATTGATGAT
24517823 TTTTTGAAATTCCATTGATGA
1 TTTTTGAAATT--ATTGATGA
24517844 ATCCATGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
22 7 0.39
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (20 bp):
TTTTTGAAATTATTGATGAT
Found at i:24518516 original size:43 final size:42
Alignment explanation
Indices: 24518468--24518635 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 42
24518458 ATCGAGTTAC
24518468 GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATT-T
* * * *
24518511 GATTACGTGTAAGACCATGTCTGGGACATTGGTATCGTTAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGTATTG-TATTT
* * * * * ** *
24518554 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGTAT-TGTATTT
* * * *
24518597 GATAACATGTAAGACCATATCTGAGATA-TGGTATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTAT
24518636 GAGCTTATGT
Statistics
Matches: 100, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
41 3 0.03
42 5 0.05
43 89 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTATTT
Found at i:24522589 original size:22 final size:22
Alignment explanation
Indices: 24522561--24522605 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
24522551 TGCCAAAGAC
24522561 TGCTTTTAGAATGAGGTACGGG
1 TGCTTTTAGAATGAGGTACGGG
24522583 TGCTTTTAGAATGAGGTACGGG
1 TGCTTTTAGAATGAGGTACGGG
24522605 T
1 T
24522606 ATTATGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.36, T:0.33
Consensus pattern (22 bp):
TGCTTTTAGAATGAGGTACGGG
Found at i:24525048 original size:34 final size:34
Alignment explanation
Indices: 24525005--24525077 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
24524995 CGTATCAGCA
*
24525005 ACAGT-TCAGTTTCAGT-TAGGGCCTTAGCCCAAT
1 ACAGTATCAGTATCAGTGT-GGGCCTTAGCCCAAT
24525038 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCAAT
1 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCAAT
*
24525072 TCAGTA
1 ACAGTA
24525078 GTGGTCACAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 5 0.14
34 30 0.83
35 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (34 bp):
ACAGTATCAGTATCAGTGTGGGCCTTAGCCCAAT
Found at i:24537577 original size:40 final size:40
Alignment explanation
Indices: 24537336--24537569 Score: 335
Period size: 40 Copynumber: 5.9 Consensus size: 40
24537326 ATTCGGATTG
* *
24537336 ATAACCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
24537375 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
24537415 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
24537455 ATAAACGGGCTAAGTCCCGAAGGCAATTGTGCTAGTTACA
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
24537495 ATAACCGGGCTAAGTCCCAAAGGCAATTGTGCGTGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
24537535 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
24537570 AAGCTATATC
Statistics
Matches: 172, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 12 0.07
40 160 0.93
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:24542955 original size:40 final size:40
Alignment explanation
Indices: 24542873--24543093 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
24542863 ACCCAAGTAT
** * *
24542873 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
24542911 CTTCGGGTCTTAGCCCAGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
24542951 CTTCGGGACTTATCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
24542991 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
24543031 CTTCGGGTTTTGGCCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
* *
24543072 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGTCTTAGCCCGGATAT
24543094 CATTCGAATA
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 14 0.09
40 98 0.64
41 28 0.18
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:24548898 original size:40 final size:40
Alignment explanation
Indices: 24548657--24548890 Score: 380
Period size: 40 Copynumber: 5.9 Consensus size: 40
24548647 ATTCGGATTG
* *
24548657 ATAATCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
24548696 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
24548736 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
24548776 ATAACCGGGCTAAGTCCCGAAGACAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
24548816 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
24548856 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
24548891 AAGCTATATT
Statistics
Matches: 182, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.07
40 170 0.93
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:24564965 original size:101 final size:101
Alignment explanation
Indices: 24564794--24565002 Score: 221
Period size: 101 Copynumber: 2.1 Consensus size: 101
24564784 CATGGCCCTG
* *
24564794 CCATGGTCTTACATTAGTAGTGCCATAACCCAGTTATGGTTTTATTGTCAGAATGCCATAGCCCA
1 CCATGGTCTTACATTAGAAGTGCCATAACCCAGTTATGGTTTTATTGTCAAAATGCCATAGCCCA
* ** *
24564859 ACTATGGTTTTACATATAATTACTATC-ATGGTCCAA
66 ACTATGGTCTTACATATAAACACT-GCAATGGTCCAA
* *
24564895 CCATGGTCTTACGTTCA-AAGTGCTATAACCCAGTTATGGTCTTTCCA-T-T-AAAATGCCATAG
1 CCATGGTCTTACATT-AGAAGTGCCATAACCCAGTTATGGT-TTT--ATTGTCAAAATGCCATAG
** * * *
24564956 CGTAGCTATGGTCTTATATGTAAACACTGCAATGGTCCAA
62 CCCAACTATGGTCTTACATATAAACACTGCAATGGTCCAA
24564996 CCATGGT
1 CCATGGT
24565003 ATTTTTCATC
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
100 1 0.01
101 82 0.91
102 5 0.06
103 1 0.01
104 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (101 bp):
CCATGGTCTTACATTAGAAGTGCCATAACCCAGTTATGGTTTTATTGTCAAAATGCCATAGCCCA
ACTATGGTCTTACATATAAACACTGCAATGGTCCAA
Found at i:24568882 original size:115 final size:115
Alignment explanation
Indices: 24568680--24568910 Score: 426
Period size: 115 Copynumber: 2.0 Consensus size: 115
24568670 ACTGATAGGA
*
24568680 AAGAGCTGATCACGGTACTGCTCTTTCCCATGGATGATCCACCTTGAATGATAGTCATTCCACAC
1 AAGAGCTGATCACAGTACTGCTCTTTCCCATGGATGATCCACCTTGAATGATAGTCATTCCACAC
24568745 CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTCACAT
66 CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTCACAT
* *
24568795 AAGAGCTGATCACAGTACTGCTCTTTCCCTTGGATGATCCACCTTGAATGATGGTCATTCCACAC
1 AAGAGCTGATCACAGTACTGCTCTTTCCCATGGATGATCCACCTTGAATGATAGTCATTCCACAC
*
24568860 CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTTACAT
66 CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTCACAT
24568910 A
1 A
24568911 TTCCACCTTG
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 112 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (115 bp):
AAGAGCTGATCACAGTACTGCTCTTTCCCATGGATGATCCACCTTGAATGATAGTCATTCCACAC
CAATTTCATTTGTTGGCCTTTGCTATAGTGTTGAAATCAAGGATTCACAT
Found at i:24572387 original size:55 final size:53
Alignment explanation
Indices: 24572326--24572579 Score: 221
Period size: 55 Copynumber: 4.8 Consensus size: 53
24572316 ATTAGGGTTT
* * *
24572326 AAGGATACCATATAAGACCATACCAAGGCATGACAATTGGTAAGGTTTTTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-GTTTTTAAGGC
* * * *
24572381 AAGGATATCATGTAAGATCATGCCAAGACATGGCATTGATAAGTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTT-T-TAAGGC
* * ** *
24572436 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTGATAAGAC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTTAAGGC
* * * * * *
24572489 AATGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAG-TTTCAA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTTAAGGC
* * * * *
24572538 AAGGATACCACGTAAGACCATGACAAGTCATGACAATGGTAA
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAA
24572580 AATTACCCGT
Statistics
Matches: 163, Mismatches: 32, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
49 36 0.22
52 6 0.04
53 41 0.25
54 8 0.05
55 68 0.42
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTTAAGGC
Found at i:24572532 original size:108 final size:110
Alignment explanation
Indices: 24572333--24572535 Score: 266
Period size: 108 Copynumber: 1.9 Consensus size: 110
24572323 TTTAAGGATA
** * *
24572333 CCATATAAGACCATACCAAGGCATGACAATTGGTAAGGTTTTTAAGGCAAGGATATCATGTAAGA
1 CCATATAAGACCATACCAAGGCATGACAATTGGTAAGGTTGATAAGACAAGGATACCATGTAAGA
* *
24572398 TCATGCCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
66 CCATGCCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
* * * * *
24572443 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GTTGATAAGACAATGATACCATGTAAGA
1 CCATATAAGACCATACCAAGGCATGACAATTGGTAAGGTTGATAAGACAAGGATACCATGTAAGA
* * *
24572506 CCATGTCGAGACATGGCAATGGTAAGTTTC
66 CCATGCCAAGACATGGCAATGATAAGTTTC
24572536 AAAAGGATAC
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
108 48 0.61
109 7 0.09
110 24 0.30
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (110 bp):
CCATATAAGACCATACCAAGGCATGACAATTGGTAAGGTTGATAAGACAAGGATACCATGTAAGA
CCATGCCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:24579589 original size:29 final size:29
Alignment explanation
Indices: 24579556--24579629 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
24579546 GTTGTGAGAT
* *
24579556 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
24579585 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
24579614 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24579630 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:24582380 original size:13 final size:13
Alignment explanation
Indices: 24582364--24582405 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
24582354 TATAAACACC
24582364 TATTATTTATTTT
1 TATTATTTATTTT
24582377 TATTATTTATTTT
1 TATTATTTATTTT
* *
24582390 TA-TCTTTATTTA
1 TATTATTTATTTT
24582402 TATT
1 TATT
24582406 TTGACATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTATTTATTTT
Found at i:24582385 original size:7 final size:6
Alignment explanation
Indices: 24582364--24582407 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
24582354 TATAAACACC
* *
24582364 TATTATT TATTTT TATTATT TATTTT TATCTT TATTTA TATTTT
1 TATT-TT TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT
24582408 GACATTACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
6 22 0.69
7 10 0.31
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:24584402 original size:28 final size:28
Alignment explanation
Indices: 24584362--24584496 Score: 166
Period size: 28 Copynumber: 4.8 Consensus size: 28
24584352 ACATACATGT
* * *
24584362 ATATAGCCCATTAGGCCCAATCTCTTTC
1 ATATGGCCCATTAGGCCCAATCACATTC
24584390 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
* *
24584419 ATACGG-CCATTAGGCCCAATCACATTT
1 ATATGGCCCATTAGGCCCAATCACATTC
* *
24584446 ATGTGGCCCATTAGGCCCAAATCAAATTC
1 ATATGGCCCATTAGGCCC-AATCACATTC
*
24584475 ATACGG-CCATTAGGCCCAATCA
1 ATATGGCCCATTAGGCCCAATCA
24584497 TATTTACAGT
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
27 18 0.19
28 50 0.54
29 25 0.27
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACATTC
Found at i:24584430 original size:56 final size:56
Alignment explanation
Indices: 24584369--24584502 Score: 216
Period size: 56 Copynumber: 2.4 Consensus size: 56
24584359 TGTATATAGC
* *
24584369 CCATTAGGCCCAATCTC-TTTCATATGGCCCATTAGGCCCAAATCACATTCATACGG
1 CCATTAGGCCCAATCACATTT-ATATGGCCCATTAGGCCCAAATCAAATTCATACGG
*
24584425 CCATTAGGCCCAATCACATTTATGTGGCCCATTAGGCCCAAATCAAATTCATACGG
1 CCATTAGGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCAAATTCATACGG
*
24584481 CCATTAGGCCCAATCATATTTA
1 CCATTAGGCCCAATCACATTTA
24584503 CAGTTATGCT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 70 0.96
57 3 0.04
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (56 bp):
CCATTAGGCCCAATCACATTTATATGGCCCATTAGGCCCAAATCAAATTCATACGG
Found at i:24585971 original size:16 final size:16
Alignment explanation
Indices: 24585947--24585978 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24585937 AAATTTGAGA
24585947 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
24585963 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
24585979 GTGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:24592240 original size:28 final size:28
Alignment explanation
Indices: 24592199--24592310 Score: 154
Period size: 28 Copynumber: 4.0 Consensus size: 28
24592189 AGGCCCAATC
* * *
24592199 TGGCCCTTTCGGCCTAATCACATTTATA
1 TGGCCCATTAGGCCCAATCACATTTATA
*
24592227 TGGCCCATTAGGCCCAAATCACATTCATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
* *
24592256 CGG-CCATTAGGCCCAATCACATTTATG
1 TGGCCCATTAGGCCCAATCACATTTATA
24592283 TGGCCCATTAGGCCCAATCACATTTATA
1 TGGCCCATTAGGCCCAATCACATTTATA
24592311 GTTATGCTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 13 0.18
28 46 0.63
29 14 0.19
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:24597700 original size:49 final size:49
Alignment explanation
Indices: 24597628--24598073 Score: 371
Period size: 47 Copynumber: 8.9 Consensus size: 49
24597618 TATGAAATGA
24597628 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
24597677 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
24597724 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
* * ** *
24597773 TGATAGGGCCTAAT-GCCGATATATGTGATACCTAATG-G-CCGATGTGAT-GA-ATG
1 TGATAAGGCCTAATGGCCG----ATGTGAT---GAATGTGAAAG-TGT-ATATATATG
** * * * * * * *
24597826 TGA-AAGTGTATATATATG-TGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGATAAG-GCCTA-AT-GGCCGAT---G--TGAT-G--AATGTGA--AA-GTG-TA-TATATATG
24597889 TG-TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
24597935 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
*
24597982 TGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
* * * * * * *
24598031 TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
24598074 AATTGATAAG
Statistics
Matches: 326, Mismatches: 35, Indels: 72
0.75 0.08 0.17
Matches are distributed among these distances:
46 8 0.02
47 129 0.40
48 4 0.01
49 103 0.32
50 3 0.01
51 4 0.01
52 9 0.03
53 16 0.05
54 8 0.02
55 8 0.02
56 10 0.03
57 1 0.00
58 1 0.00
60 4 0.01
61 7 0.02
62 4 0.01
63 7 0.02
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
Found at i:24597738 original size:47 final size:48
Alignment explanation
Indices: 24597628--24597792 Score: 289
Period size: 49 Copynumber: 3.4 Consensus size: 48
24597618 TATGAAATGA
24597628 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATG
24597677 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATG
24597724 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATG
*
24597773 TGATAGGGCCTAAT-GCCGAT
1 TGATAAGGCCTAATGGCCGAT
24597793 ATATGTGATA
Statistics
Matches: 113, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
47 47 0.42
48 6 0.05
49 60 0.53
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.30
Consensus pattern (48 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATG
Found at i:24597813 original size:23 final size:23
Alignment explanation
Indices: 24597766--24597815 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
24597756 GAAAGTGTAT
24597766 ATATATGTGATAGGGCCTAATGCCG
1 ATATATGTGATA--GCCTAATGCCG
24597791 ATATATGTGATA-CCTAATGGCCG
1 ATATATGTGATAGCCTAAT-GCCG
24597814 AT
1 AT
24597816 GTGATGAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 6 0.25
25 12 0.50
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (23 bp):
ATATATGTGATAGCCTAATGCCG
Found at i:24597821 original size:71 final size:74
Alignment explanation
Indices: 24597717--24597864 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 74
24597707 GTGAAAGTGT
24597717 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
1 ATATATGTGATAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGC
24597782 CTAAT-GCCG
65 CTAATGGCCG
24597791 ATATATGTGAT-A-CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 ATATATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
24597854 TAATGGCCG
66 TAATGGCCG
24597863 AT
1 AT
24597865 GTGATGAATG
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
71 55 0.75
72 6 0.08
73 1 0.01
74 11 0.15
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (74 bp):
ATATATGTGATAAGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
TAATGGCCG
Found at i:24597935 original size:25 final size:25
Alignment explanation
Indices: 24597907--24597985 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
24597897 CTAATGGCCG
24597907 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
24597932 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
24597954 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
24597979 ATGTGAT
1 ATGTGAT
24597986 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:24597951 original size:47 final size:47
Alignment explanation
Indices: 24597791--24598083 Score: 411
Period size: 47 Copynumber: 6.3 Consensus size: 47
24597781 CCTAATGCCG
24597791 ATATATGTGAT-A--CCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
*
24597837 ATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
24597884 ATATA--TG-TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
24597928 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
24597975 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
* * * * * * *
24598024 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
24598071 ATAAAT-TGATAAG
1 ATATATGTGATAAG
24598084 TCCGAAGGGC
Statistics
Matches: 225, Mismatches: 14, Indels: 16
0.88 0.05 0.06
Matches are distributed among these distances:
44 41 0.18
45 2 0.01
46 18 0.08
47 94 0.42
49 70 0.31
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:24601935 original size:94 final size:92
Alignment explanation
Indices: 24601775--24601949 Score: 307
Period size: 94 Copynumber: 1.9 Consensus size: 92
24601765 TTGAGATTAT
*
24601775 TTGTGAACCTTGATAACTTGTTTTAGTTGCTCATAAGCTATTGATTAAACCCATACTTGAATTCT
1 TTGTGAACCTTGATAACTTGTTTTAGTTGCTCATAAGCTACTGATTAAACCCATACTTGAATTCT
24601840 AAATCGTGATATTGTAAGTTTATGAGTA
66 AAATCGTGATA-TGTAAGTTTATGAGTA
24601868 TTGTGAACCTTGATAAACTTG-TTTAGTTTGCTCATAAGCTACTGATTAAACCCATACTTGAATT
1 TTGTGAACCTTGAT-AACTTGTTTTAG-TTGCTCATAAGCTACTGATTAAACCCATACTTGAATT
24601932 CTAAATCGTGATATGTAA
64 CTAAATCGTGATATGTAA
24601950 AAGTATTGAA
Statistics
Matches: 79, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
93 24 0.30
94 55 0.70
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (92 bp):
TTGTGAACCTTGATAACTTGTTTTAGTTGCTCATAAGCTACTGATTAAACCCATACTTGAATTCT
AAATCGTGATATGTAAGTTTATGAGTA
Found at i:24602072 original size:47 final size:47
Alignment explanation
Indices: 24601970--24602395 Score: 711
Period size: 47 Copynumber: 9.1 Consensus size: 47
24601960 TATGAAATGA
*
24601970 TGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATA
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
24602016 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
24602063 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
24602112 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
24602159 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
24602206 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
*
24602253 TGAT-AGGCCTAATGGCC--CGTGATGAATGTGAAAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
24602297 TGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * * * * * *
24602343 TGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
24602389 TGATAAG
1 TGATAAG
24602396 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 11, Indels: 15
0.93 0.03 0.04
Matches are distributed among these distances:
44 30 0.08
45 36 0.10
46 77 0.21
47 171 0.47
49 47 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:24602139 original size:96 final size:96
Alignment explanation
Indices: 24601970--24602395 Score: 691
Period size: 96 Copynumber: 4.6 Consensus size: 96
24601960 TATGAAATGA
24601970 TGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATA--TGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
24602032 CCGATGTGATGAATGTGAAAGTGTATATATG
66 CCGATGTGATGAATGTGAAAGTGTATATATG
24602063 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
24602128 CCGATGTGATGAATGTGAAAGTGTATATATG
66 CCGATGTGATGAATGTGAAAGTGTATATATG
24602159 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
24602222 CCGATGTGATGAATGTGAAAGTGTATATATG
66 CCGATGTGATGAATGTGAAAGTGTATATATG
*
24602253 TGAT-AGGCCTAATGGCC--CGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
24602313 CCGATGTGATGAATGTG-AAGTGTATATATG
66 CCGATGTGATGAATGTGAAAGTGTATATATG
* * * * * *
24602343 TGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
24602396 TCCCGAAGGG
Statistics
Matches: 321, Mismatches: 4, Indels: 17
0.94 0.01 0.05
Matches are distributed among these distances:
90 27 0.08
91 59 0.18
92 28 0.09
93 47 0.15
94 74 0.23
96 86 0.27
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATG
Found at i:24602227 original size:143 final size:143
Alignment explanation
Indices: 24601970--24602395 Score: 710
Period size: 143 Copynumber: 3.0 Consensus size: 143
24601960 TATGAAATGA
*
24601970 TGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATATGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
24602034 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
66 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
24602099 GTGTATATATATG
131 GTGTATATATATG
24602112 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
24602177 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
66 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
24602242 GTG--TATATATG
131 GTGTATATATATG
*
24602253 TGAT-AGGCCTAATGGCC--CGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
* * * * * *
24602315 GATGTGATGAATGTG-AAGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAA
66 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
24602378 GTGTATA-A-ATG
131 GTGTATATATATG
24602389 TGATAAG
1 TGATAAG
24602396 TCCCGAAGGG
Statistics
Matches: 272, Mismatches: 8, Indels: 13
0.93 0.03 0.04
Matches are distributed among these distances:
136 36 0.13
137 19 0.07
138 61 0.22
140 13 0.05
141 12 0.04
142 33 0.12
143 98 0.36
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATATG
Found at i:24602569 original size:36 final size:37
Alignment explanation
Indices: 24602514--24602591 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
24602504 CCGAGCTCTA
* * *
24602514 AAGACCTGATGACTACGTGTGGA-ATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
24602550 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
24602587 AAGAC
1 AAGAC
24602592 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 20 0.54
37 17 0.46
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:24604178 original size:8 final size:8
Alignment explanation
Indices: 24604165--24604189 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24604155 ACGGAACGAG
24604165 TCGACTAT
1 TCGACTAT
24604173 TCGACTAT
1 TCGACTAT
24604181 TCGACTAT
1 TCGACTAT
24604189 T
1 T
24604190 TTAGACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TCGACTAT
Found at i:24608424 original size:42 final size:42
Alignment explanation
Indices: 24608366--24608493 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
24608356 TAGGGTTATT
* *
24608366 GAGATTATGTGTAAGACCATATCTGGGATATGGCATTGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAC
* *
24608408 GAGACTT-CGTGTAAGACCATAGCTGGGTTATTGGCATTGATAC
1 GAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATTGATAC
* * * * *
24608451 GAGATTACATGTAAGACCATATTTGAGATATAGCATTGGTAC
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAC
24608493 G
1 G
24608494 GTACTATGTG
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 37 0.51
43 35 0.49
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATTGATAC
Found at i:24608464 original size:43 final size:42
Alignment explanation
Indices: 24608366--24608471 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 42
24608356 TAGGGTTATT
* * *
24608366 GAGATTATGTGTAAGACCATATCTGGGATATGGCATTGATAT
1 GAGATTACGTGTAAGACCATAGCTGGGATATGGCATTGATAC
*
24608408 GAGACTT-CGTGTAAGACCATAGCTGGGTTATTGGCATTGATAC
1 GAGA-TTACGTGTAAGACCATAGCTGGGATA-TGGCATTGATAC
*
24608451 GAGATTACATGTAAGACCATA
1 GAGATTACGTGTAAGACCATA
24608472 TTTGAGATAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
42 26 0.46
43 30 0.54
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATAGCTGGGATATGGCATTGATAC
Found at i:24610465 original size:17 final size:19
Alignment explanation
Indices: 24610419--24610465 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
24610409 CGTTAAAGGT
24610419 CGAT-AAATGA-AAGTGCC
1 CGATCAAATGATAAGTGCC
*
24610436 CGATC-AATTATAA-TGCC
1 CGATCAAATGATAAGTGCC
24610453 CGA-CAAATGATAA
1 CGATCAAATGATAA
24610466 ACGATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.04
17 22 0.88
18 2 0.08
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (19 bp):
CGATCAAATGATAAGTGCC
Found at i:24612312 original size:20 final size:20
Alignment explanation
Indices: 24612287--24612324 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24612277 CTACACCTTG
24612287 GAAAAATTTTAAAAAGTCAT
1 GAAAAATTTTAAAAAGTCAT
*
24612307 GAAAAATTTTCAAAAGTC
1 GAAAAATTTTAAAAAGTC
24612325 TCGATTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (20 bp):
GAAAAATTTTAAAAAGTCAT
Found at i:24623530 original size:22 final size:22
Alignment explanation
Indices: 24623500--24623549 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
24623490 CTCTAGGGAC
* *
24623500 TATGCGGTCTGAGCTAATGAGT-
1 TATGTGGTCTAAGCTAATGA-TA
*
24623522 TATGTGGTCTAAGCTCATGATA
1 TATGTGGTCTAAGCTAATGATA
24623544 TATGTG
1 TATGTG
24623550 ACACATGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (22 bp):
TATGTGGTCTAAGCTAATGATA
Found at i:24634383 original size:26 final size:28
Alignment explanation
Indices: 24634345--24634399 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
24634335 GTTTTTGATG
24634345 AAATCGAGCTTTT-GGACTAAATTGTGC
1 AAATCGAGCTTTTAGGACTAAATTGTGC
*
24634372 AAAT-GAGGTTTTGAAGGACTAAATTGTG
1 AAATCGAGCTTTT--AGGACTAAATTGTG
24634400 AATTAAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 7 0.29
27 4 0.17
29 13 0.54
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (28 bp):
AAATCGAGCTTTTAGGACTAAATTGTGC
Found at i:24645620 original size:46 final size:46
Alignment explanation
Indices: 24645567--24645695 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 46
24645557 TATTTGGGCA
* *
24645567 TCCGAGCTCGTTGAGTCGAGTCCGAGTTCACTTATGGATGA-GAATG
1 TCCGAGCTCGTTGAGTCGAGTACGAGTTCACTTATGGAT-ACGAAAG
** *
24645613 TCCGAGCTCGTTGAGTTAAGTACAAGTTCACTTATGGATACGAAAG
1 TCCGAGCTCGTTGAGTCGAGTACGAGTTCACTTATGGATACGAAAG
* * *
24645659 CCCGAGCTCGTTGAG-CTGAGTTCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTC-GAGTACGAGTTCACTTATGG
24645696 GTGGGTTACA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
45 1 0.01
46 69 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTCGAGTACGAGTTCACTTATGGATACGAAAG
Found at i:24654358 original size:40 final size:40
Alignment explanation
Indices: 24654296--24654511 Score: 314
Period size: 40 Copynumber: 5.4 Consensus size: 40
24654286 AAACCAAGTA
* * *
24654296 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
24654335 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24654375 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24654415 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
24654455 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
24654495 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
24654512 CGTTATCATC
Statistics
Matches: 165, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.08
40 151 0.92
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24662414 original size:40 final size:40
Alignment explanation
Indices: 24662352--24662563 Score: 279
Period size: 40 Copynumber: 5.3 Consensus size: 40
24662342 AAACCAAGTA
* * *
24662352 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
24662391 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
24662431 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
24662471 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
24662511 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
24662551 CCTTTGGGACTTA
1 CCTTCGGGACTTA
24662564 ACCCCGTTAT
Statistics
Matches: 157, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 16 0.10
40 141 0.90
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:24664861 original size:46 final size:47
Alignment explanation
Indices: 24664778--24664939 Score: 154
Period size: 46 Copynumber: 3.5 Consensus size: 47
24664768 GATGAGTGCT
* *
24664778 AGTGTAAGA-CATGTCTAGGACATGCATCAGC-GTCGAGACATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTG-CGAGACATAAGCC
* * *
24664824 AGTGTAAGA-CATGTCTGGGACATGCGTCGGCTGCGAGATGAT-AGGC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTGCGAGA-CATAAGCC
* * * * **
24664870 AATGTAAGACCATGTCTGGGACATGGCTTCGACT-TGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTGCGAGACATAAGCC
*
24664917 AGTGTAAGACCGTGTCTGGGACA
1 AGTGTAAGACCATGTCTGGGACA
24664940 CGGTATCGGC
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
46 45 0.46
47 45 0.46
48 7 0.07
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTGCGAGACATAAGCC
Found at i:24664894 original size:47 final size:47
Alignment explanation
Indices: 24664780--24664939 Score: 143
Period size: 47 Copynumber: 3.4 Consensus size: 47
24664770 TGAGTGCTAG
* * ** *
24664780 TGTAAGA-CATGTCTAGGACAT-GCATC-AGCGTCGAGACATAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCGA-C-TCGAGATGTAAGCCAA
* *
24664826 TGTAAGA-CATGTCTGGGACAT-GCGTCGGCTGCGAGATG-ATAGGCAA
1 TGTAAGACCATGTCTGGGACATGGCGTCGACT-CGAGATGTA-AGCCAA
* * *
24664872 TGTAAGACCATGTCTGGGACATGGCTTCGACTTGAGATGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCGACTCGAGATGTAAGCCAA
*
24664919 TGTAAGACCGTGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
24664940 CGGTATCGGC
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.02
46 41 0.43
47 44 0.46
48 8 0.08
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCGTCGACTCGAGATGTAAGCCAA
Found at i:24665085 original size:71 final size:71
Alignment explanation
Indices: 24664969--24665110 Score: 230
Period size: 71 Copynumber: 2.0 Consensus size: 71
24664959 CACGTTTGAG
* * *
24664969 GCTATGGTATATCTGATAGCACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCTAGTTAATGAG
1 GCTATGGTATATCCGATAACACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCCAGTTAATGAG
24665034 GAAAGT
66 GAAAGT
* * *
24665040 GCTATGGTATATCCGATAACATTCCGAATGGTTCAATGTGGAAGTTTTGATTTCCAGTTAATGAG
1 GCTATGGTATATCCGATAACACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCCAGTTAATGAG
24665105 GAAAGT
66 GAAAGT
24665111 ATAACCGTGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (71 bp):
GCTATGGTATATCCGATAACACTCCGAATGGTTCAACGTGGAAGTTCTGATTTCCAGTTAATGAG
GAAAGT
Found at i:24666167 original size:22 final size:22
Alignment explanation
Indices: 24666142--24666196 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
24666132 TTGGAATGGT
* *
24666142 CACACGGGTGTGTTTCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
24666164 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
24666186 CACACGGGCGT
1 CACACGGGCGT
24666197 ATGCCTTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.11, C:0.42, G:0.27, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:24672574 original size:47 final size:46
Alignment explanation
Indices: 24672405--24672619 Score: 145
Period size: 47 Copynumber: 4.6 Consensus size: 46
24672395 TCATTTGTGA
* * *
24672405 GAGCTAGTGTAAGACCATGTTTAGGACATAGCATCGAC-ATTGAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTA-TGAGAT
* * * * *
24672451 GAGTGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCAAGACAT
1 GA--GCCAGTGTAAGACCATGTCTGGGACATAGCATC-GACT-ATGAGAT
* * *
24672499 AAGCCAGTGAAAGA-CATGTCTGGGACAT-GCGTCGACTATGAGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAGAT
* * * *
24672543 GATAGTCAGTGTAAGACCATGTCTGGGACATGGCTTTGACT-TGAGAT
1 G--AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAGAT
* **
24672590 GTAAGCCAGTATAAGACTGTGTCTGGGACA
1 G--AGCCAGTGTAAGACCATGTCTGGGACA
24672620 CAACATCGGC
Statistics
Matches: 137, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
44 5 0.04
45 3 0.02
46 45 0.33
47 59 0.43
48 24 0.18
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (46 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGACTATGAGAT
Found at i:24679215 original size:16 final size:17
Alignment explanation
Indices: 24679185--24679219 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
24679175 TATATGTGGT
24679185 AAGGAAATATGACATGA
1 AAGGAAATATGACATGA
*
24679202 AAGG-AATATTACATGA
1 AAGGAAATATGACATGA
24679218 AA
1 AA
24679220 TACAAGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.54, C:0.06, G:0.20, T:0.20
Consensus pattern (17 bp):
AAGGAAATATGACATGA
Found at i:24680838 original size:35 final size:35
Alignment explanation
Indices: 24680717--24680840 Score: 126
Period size: 35 Copynumber: 3.5 Consensus size: 35
24680707 TCCCAATCTT
* *
24680717 TCTATCCCAACCTTTTT-GAGGTTACCTTAGACTTA-
1 TCTATCCCAACCTTTTTAG-GGTTGCCTTAGAC-GAG
***
24680752 TCTATCCCAACCTTTTTAAAATTGCCTTAGACGAG
1 TCTATCCCAACCTTTTTAGGGTTGCCTTAGACGAG
* ** *
24680787 TATATCTTAACCTTTTTAGGGTTGCCTTAGACGGG
1 TCTATCCCAACCTTTTTAGGGTTGCCTTAGACGAG
*
24680822 TCTATCCCAACTTTTTTAG
1 TCTATCCCAACCTTTTTAG
24680841 AGTCATCTTT
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
34 1 0.01
35 70 0.99
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (35 bp):
TCTATCCCAACCTTTTTAGGGTTGCCTTAGACGAG
Found at i:24680995 original size:28 final size:28
Alignment explanation
Indices: 24680964--24681017 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
24680954 TGGCCTTGAC
*
24680964 TATGTTTTTTCCAACCCTTTAATAAAGG
1 TATGTTTTTGCCAACCCTTTAATAAAGG
24680992 TATGTTTTTGCCAACCCTTTAATAAA
1 TATGTTTTTGCCAACCCTTTAATAAA
24681018 AGTCGACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (28 bp):
TATGTTTTTGCCAACCCTTTAATAAAGG
Found at i:24682255 original size:5 final size:6
Alignment explanation
Indices: 24682238--24682262 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24682228 TGGTGTATAA
24682238 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
24682263 TGTGAGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:24682968 original size:6 final size:6
Alignment explanation
Indices: 24682959--24682998 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
24682949 AACAAATGCA
* *
24682959 AATGTG AATGTG AATGTG AATGTG AATGGG AATGGG AATG
1 AATGTG AATGTG AATGTG AATGTG AATGTG AATGTG AATG
24682999 GAAATGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.28
Consensus pattern (6 bp):
AATGTG
Found at i:24686634 original size:5 final size:5
Alignment explanation
Indices: 24686624--24686671 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
24686614 TAAATTTTAT
24686624 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
24686672 AATGAATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:24687785 original size:17 final size:17
Alignment explanation
Indices: 24687763--24687799 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24687753 TGGGATATGT
24687763 GTAAAAGATGATG-TGGA
1 GTAAAAGAT-ATGATGGA
24687780 GTAAAAGATATGATGGA
1 GTAAAAGATATGATGGA
24687797 GTA
1 GTA
24687800 TCATTGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (17 bp):
GTAAAAGATATGATGGA
Found at i:24688027 original size:34 final size:35
Alignment explanation
Indices: 24687938--24688029 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 35
24687928 TACCTTGGTT
* * *
24687938 TGGTGTAGTTATTGCTCTATCAA-TCCATTTGGTG
1 TGGTGTAGTTATTGCTCTATTAAGTCCATTTGATA
* * *
24687972 TGGTGTACTTATCGCTTTATTAAGT-CATTTGATA
1 TGGTGTAGTTATTGCTCTATTAAGTCCATTTGATA
24688006 TGGTGTAGTTATTGCTCTATTAAG
1 TGGTGTAGTTATTGCTCTATTAAG
24688030 CTATCTAGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
34 47 0.98
35 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.22, T:0.46
Consensus pattern (35 bp):
TGGTGTAGTTATTGCTCTATTAAGTCCATTTGATA
Found at i:24688044 original size:34 final size:33
Alignment explanation
Indices: 24687938--24688046 Score: 94
Period size: 34 Copynumber: 3.2 Consensus size: 33
24687928 TACCTTGGTT
* * * *
24687938 TGGTGTAGTTATTGCTCTATCAATCCATTTGGTG
1 TGGTGTAGTTATTGCTCTATTAAGCTA-TTAGTG
* * * * *
24687972 TGGTGTACTTATCGCTTTATTAAG-TCATTTGATA
1 TGGTGTAGTTATTGCTCTATTAAGCT-ATTAG-TG
24688006 TGGTGTAGTTATTGCTCTATTAAGCTATCTAGTG
1 TGGTGTAGTTATTGCTCTATTAAGCTAT-TAGTG
24688040 TGGTGTA
1 TGGTGTA
24688047 CTACCTGTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
33 3 0.05
34 52 0.90
35 3 0.05
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (33 bp):
TGGTGTAGTTATTGCTCTATTAAGCTATTAGTG
Found at i:24694306 original size:24 final size:24
Alignment explanation
Indices: 24694254--24694306 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
24694244 GCCATAATCG
*
24694254 GGAAGTTCACAGAGAACCTTATCA
1 GGAAGTTCACAAAGAACCTTATCA
*
24694278 AGAAGTTCACAAAGAA-CTATATCA
1 GGAAGTTCACAAAGAACCT-TATCA
24694302 GGAAG
1 GGAAG
24694307 CTCCAGATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (24 bp):
GGAAGTTCACAAAGAACCTTATCA
Found at i:24696844 original size:43 final size:43
Alignment explanation
Indices: 24696723--24696836 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
24696713 TCACATATCG
* * * * *
24696723 ATGCCACTGTCCCAAATAGGGTCTTACACGA-AATC-AATTAACA
1 ATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCAAAAT-ACA
24696766 ATGCCAATGTCCCAGACATGGTCTTACACATAATCAAAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCAAAATACA
*
24696809 ATGCCAATGTCCCAGGCATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
24696837 TGTAATCACA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
42 1 0.02
43 59 0.94
44 3 0.05
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAATCAAAATACA
Found at i:24697370 original size:21 final size:21
Alignment explanation
Indices: 24697323--24697370 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
24697313 CATATTTCAC
*
24697323 ATTT-ATTTCACATTTTAACC
1 ATTTAATTTCACATTTTAACA
** *
24697343 ACATAATTTCACATTTTTACA
1 ATTTAATTTCACATTTTAACA
24697364 ATTTAAT
1 ATTTAAT
24697371 CCCTAATTGA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTAATTTCACATTTTAACA
Found at i:24700169 original size:93 final size:93
Alignment explanation
Indices: 24700010--24700180 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
24700000 CGCCCATAAG
*
24700010 CGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACCCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCA
24700075 ACGAGTTCAGATGCCTAGTTACATTTCA
66 ACGAGTTCAGATGCCTAGTTACATTTCA
* * * *
24700103 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATACGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCA
*
24700168 ACGAGTTCGGATG
66 ACGAGTTCAGATG
24700181 TTCGCATCCA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATTTCA
Found at i:24700225 original size:46 final size:46
Alignment explanation
Indices: 24700003--24700226 Score: 263
Period size: 46 Copynumber: 4.8 Consensus size: 46
24699993 TGTAACCCGC
* * ***
24700003 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * * *
24700049 CCATAAGTGAACCCGGACTCAACTCAACGAGTTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * *
24700095 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
24700142 CCATACGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
24700188 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
24700227 CCCAAATATC
Statistics
Matches: 147, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
45 1 0.01
46 111 0.76
47 33 0.22
48 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:24703183 original size:47 final size:47
Alignment explanation
Indices: 24703132--24703446 Score: 483
Period size: 47 Copynumber: 6.7 Consensus size: 47
24703122 TTAGGATTCT
* * *
24703132 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
24703179 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
24703226 ATATGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
24703271 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
24703318 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
24703365 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
24703412 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
24703447 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
45 45 0.18
46 1 0.00
47 204 0.82
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:24703253 original size:23 final size:23
Alignment explanation
Indices: 24703226--24703298 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
24703216 CTAATGGCCG
24703226 ATATGATGAATGTGAAAGTGTAT
1 ATATGATGAATGTGAAAGTGTAT
* * ***
24703249 ATATGAT-AAGGCCT-AATG-GCCG
1 ATATGATGAATG--TGAAAGTGTAT
24703271 ATATGATGAATGTGAAAGTGTAT
1 ATATGATGAATGTGAAAGTGTAT
24703294 ATATG
1 ATATG
24703299 TGATAAGGCC
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 14 0.40
23 19 0.54
24 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (23 bp):
ATATGATGAATGTGAAAGTGTAT
Found at i:24703284 original size:139 final size:139
Alignment explanation
Indices: 24703135--24703392 Score: 464
Period size: 139 Copynumber: 1.9 Consensus size: 139
24703125 GGATTCTATG
*
24703135 TGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGATGAATGTGAA-AGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
24703199 TATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGATAAGGCCTA
65 TATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGATAAGGCCTA
24703264 ATGGCCGATA
130 ATGGCCGATA
* *
24703274 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 TGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
24703339 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
66 ATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATG
24703393 TGACAGGGCC
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
138 1 0.01
139 113 0.99
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (139 bp):
TGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGATAAGGCCTAA
TGGCCGATA
Found at i:24703623 original size:37 final size:37
Alignment explanation
Indices: 24703565--24703643 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
24703555 CCGAGCTCTA
* * *
24703565 AAGACCCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
* *
24703602 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
24703639 AAGAC
1 AAGAC
24703644 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:24717811 original size:16 final size:17
Alignment explanation
Indices: 24717778--24717811 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24717768 TGTTTTCATA
24717778 TATCATTTGTCATGTAT
1 TATCATTTGTCATGTAT
*
24717795 TATCATTT-TCTTGTAT
1 TATCATTTGTCATGTAT
24717811 T
1 T
24717812 TCAGACGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATCATTTGTCATGTAT
Found at i:24732494 original size:17 final size:17
Alignment explanation
Indices: 24732472--24732506 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24732462 TATATTTGAG
24732472 TAAGTTAAATGGTTGTA
1 TAAGTTAAATGGTTGTA
24732489 TAAGTTAAATGGTTGTA
1 TAAGTTAAATGGTTGTA
24732506 T
1 T
24732507 TTGTATAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TAAGTTAAATGGTTGTA
Found at i:24734132 original size:130 final size:129
Alignment explanation
Indices: 24733960--24734197 Score: 449
Period size: 130 Copynumber: 1.8 Consensus size: 129
24733950 ACAAAATATT
24733960 AATTGTATATATTTTACCGAATTTATTAATATAAACAGTTATAGTAATTAATTTTGGTCAAAATA
1 AATTGTATATATTTTACCGAATTTATTAATATAAACAGTTATAGTAATTAATTTTGGTCAAAATA
*
24734025 TAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTAATTCATA
66 TAAAAGACATGGAAATTAATATCCTTTTGGAAAGAATATAATTAATATATGAATTTAATTCATA
*
24734089 AATTGTATATATTTTTACCGAATTTATTAATATAAACAGTTATATTAATTAATTTTGGTCAAAAT
1 AATTGTATATA-TTTTACCGAATTTATTAATATAAACAGTTATAGTAATTAATTTTGGTCAAAAT
24734154 ATAAAAGACATGGAAATTAATATCCTTTTGGAAAGAATATAATT
65 ATAAAAGACATGGAAATTAATATCCTTTTGGAAAGAATATAATT
24734198 CCTTTTTTTC
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
129 11 0.10
130 95 0.90
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (129 bp):
AATTGTATATATTTTACCGAATTTATTAATATAAACAGTTATAGTAATTAATTTTGGTCAAAATA
TAAAAGACATGGAAATTAATATCCTTTTGGAAAGAATATAATTAATATATGAATTTAATTCATA
Found at i:24734303 original size:75 final size:77
Alignment explanation
Indices: 24734178--24734325 Score: 237
Period size: 75 Copynumber: 1.9 Consensus size: 77
24734168 AATTAATATC
* * *
24734178 CTTTTGGAAAGAATATAATTCCTTTTTTTCTAATTTTCCATTTGTCTTCTCTAATAATAAGGGAA
1 CTTTTGGAAAGAATATAATTCCTATTTTTCTAATTTTCCATTTGCCTTCTCTAATAATAAGCGAA
24734243 TAATCCTACATT
66 TAATCCTACATT
* *
24734255 CTTTTGGAAAGAATATAATT-C-ATTTTTCTAATTTTCCATTTGCCTTCTCTATTAATAAGCGAG
1 CTTTTGGAAAGAATATAATTCCTATTTTTCTAATTTTCCATTTGCCTTCTCTAATAATAAGCGAA
24734318 TAATCCTA
66 TAATCCTA
24734326 GTTTTCCTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 45 0.68
76 1 0.02
77 20 0.30
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (77 bp):
CTTTTGGAAAGAATATAATTCCTATTTTTCTAATTTTCCATTTGCCTTCTCTAATAATAAGCGAA
TAATCCTACATT
Found at i:24737360 original size:47 final size:47
Alignment explanation
Indices: 24737309--24737623 Score: 483
Period size: 47 Copynumber: 6.7 Consensus size: 47
24737299 TTAGGATTCT
* * *
24737309 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
24737356 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
24737403 ATATGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
24737448 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
24737495 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
24737542 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
24737589 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
24737624 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
45 45 0.18
46 1 0.00
47 204 0.82
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:24737430 original size:23 final size:23
Alignment explanation
Indices: 24737403--24737475 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
24737393 CTAATGGCCG
24737403 ATATGATGAATGTGAAAGTGTAT
1 ATATGATGAATGTGAAAGTGTAT
* * ***
24737426 ATATGAT-AAGGCCT-AATG-GCCG
1 ATATGATGAATG--TGAAAGTGTAT
24737448 ATATGATGAATGTGAAAGTGTAT
1 ATATGATGAATGTGAAAGTGTAT
24737471 ATATG
1 ATATG
24737476 TGATAAGGCC
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 14 0.40
23 19 0.54
24 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (23 bp):
ATATGATGAATGTGAAAGTGTAT
Found at i:24737461 original size:139 final size:139
Alignment explanation
Indices: 24737312--24737569 Score: 464
Period size: 139 Copynumber: 1.9 Consensus size: 139
24737302 GGATTCTATG
*
24737312 TGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TGATGAATGTGAA-AGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
24737376 TATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGATAAGGCCTA
65 TATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGATAAGGCCTA
24737441 ATGGCCGATA
130 ATGGCCGATA
* *
24737451 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 TGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
24737516 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
66 ATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATG
24737570 TGACAGGGCC
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
138 1 0.01
139 113 0.99
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (139 bp):
TGATGAATGTGAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGATAAGGCCTAA
TGGCCGATA
Found at i:24751968 original size:16 final size:17
Alignment explanation
Indices: 24751935--24751968 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24751925 TGTTTTCATA
24751935 TATCATTTGTCATGTAT
1 TATCATTTGTCATGTAT
*
24751952 TATCATTT-TCTTGTAT
1 TATCATTTGTCATGTAT
24751968 T
1 T
24751969 TCAGACGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATCATTTGTCATGTAT
Found at i:24759105 original size:17 final size:18
Alignment explanation
Indices: 24759085--24759118 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24759075 GATTGGGCGC
24759085 GTGGGC-TACACGGGCAT
1 GTGGGCTTACACGGGCAT
*
24759102 GTGGGCTTACATGGGCA
1 GTGGGCTTACACGGGCA
24759119 CGCTACATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.21, G:0.41, T:0.21
Consensus pattern (18 bp):
GTGGGCTTACACGGGCAT
Found at i:24769338 original size:32 final size:32
Alignment explanation
Indices: 24769302--24769380 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
24769292 ATAATCTCAA
* * *
24769302 TTGGGCCTAGCCCATCTTAGAATCAATATCAG
1 TTGGGCCTAGCCCATATCAGAACCAATATCAG
** *
24769334 TTGGGCCTAGCCTGTATCAGAACCAGTATCAG
1 TTGGGCCTAGCCCATATCAGAACCAATATCAG
24769366 TTGGGCCTAGCCCAT
1 TTGGGCCTAGCCCAT
24769381 TTTAATATCA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (32 bp):
TTGGGCCTAGCCCATATCAGAACCAATATCAG
Found at i:24776588 original size:24 final size:25
Alignment explanation
Indices: 24776534--24776595 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 25
24776524 AACAGAAAGC
*
24776534 TCAC-AAGAGCCATAATCGGGAAGT
1 TCACAAAGAACCATAATCGGGAAGT
24776558 TCACAAAGAACCAT-ATCGGGAAGT
1 TCACAAAGAACCATAATCGGGAAGT
*
24776582 TCACAAATAACCAT
1 TCACAAAGAACCAT
24776596 GTCAAGAAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 27 0.77
25 8 0.23
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (25 bp):
TCACAAAGAACCATAATCGGGAAGT
Found at i:24776604 original size:24 final size:24
Alignment explanation
Indices: 24776553--24776604 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
24776543 CCATAATCGG
**
24776553 GAAGTTCACAAAGAACCATATCGG
1 GAAGTTCACAAAGAACCATATCAA
* *
24776577 GAAGTTCACAAATAACCATGTCAA
1 GAAGTTCACAAAGAACCATATCAA
24776601 GAAG
1 GAAG
24776605 CTGCCGATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (24 bp):
GAAGTTCACAAAGAACCATATCAA
Found at i:24790577 original size:6 final size:6
Alignment explanation
Indices: 24790568--24790646 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
24790558 TACCAGAACT
* * *
24790568 AGAATC AGAATC AGAATC ATAATC AGTATC AG-GTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
24790617 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
24790647 GTAAATGCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
5 3 0.05
6 47 0.81
7 6 0.10
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:24790608 original size:25 final size:25
Alignment explanation
Indices: 24790579--24790643 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
24790569 GAATCAGAAT
* *
24790579 CAGAATCATAATCAGTATCAGGTGA
1 CAGAATCAAAATCAGTATCAGGTAA
*
24790604 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGTATCAGGTAA
24790629 CAGAATCAAAATCAG
1 CAGAATCAAAATCAG
24790644 AATGTAAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.20
Consensus pattern (25 bp):
CAGAATCAAAATCAGTATCAGGTAA
Found at i:24791287 original size:81 final size:80
Alignment explanation
Indices: 24791166--24791403 Score: 309
Period size: 81 Copynumber: 3.0 Consensus size: 80
24791156 TAAAATGGTA
* * * *
24791166 ATTT-TACCCCACAAGGTTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGG-GTATTTCAGTAATTCTACCCT
24791230 ACAGGGGTATTTAGGT
65 ACAGGGGTATTTAGGT
*
24791246 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTCAGTAATTCTACCCT
* *
24791311 ATAGGGGTATTTCGGT
65 ACAGGGGTATTTAGGT
* * * * * *
24791327 ATTTCTACCCTATAAGGGTATTTCGATATTTGTACCCAATA-AGGGTATTTCGGTATTTCTACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCC--TACAGGGTATTTCAGTAATTCTACCC
24791391 TACAGGGGTATTT
64 TACAGGGGTATTT
24791404 CGATAATTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
80 4 0.03
81 130 0.94
82 3 0.02
83 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCAGTAATTCTACCCTA
CAGGGGTATTTAGGT
Found at i:24791405 original size:27 final size:27
Alignment explanation
Indices: 24791162--24791411 Score: 275
Period size: 27 Copynumber: 9.3 Consensus size: 27
24791152 GGGGTAAAAT
* * * * *
24791162 GGTAATTTTACCCCACAAGGTTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24791189 GGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24791216 AGTAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24791243 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24791270 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
24791297 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
24791324 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * * *
24791351 GATATTTGTACCCAATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24791378 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
24791405 GATAATT
1 GGTAATT
24791412 TTGTAAATCG
Statistics
Matches: 189, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 189 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:24791517 original size:54 final size:54
Alignment explanation
Indices: 24791407--24791519 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
24791397 GGTATTTCGA
*
24791407 TAATTTTGTAAATCGAAGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACGG
1 TAATTTTGTAAATCGAAGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGG
* * * * * *
24791461 TAATTTTGTAAATTGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAAGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGG
24791515 TAATT
1 TAATT
24791520 CTACAAATCG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (54 bp):
TAATTTTGTAAATCGAAGGTAAAACGATAATTCTATAAATCAAGGGTAAAACGG
Found at i:24791522 original size:27 final size:27
Alignment explanation
Indices: 24791415--24791533 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
24791405 GATAATTTTG
* * *
24791415 TAAATCGAAGGTAAAACGATAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
* * *
24791442 TAAATCAAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
24791469 TAAATTGAGGGTGAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
24791496 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
24791523 CAAATCGAGGG
1 TAAATCGAGGG
24791534 CATTTCAGTA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGGTAATTCTA
Found at i:24793512 original size:6 final size:6
Alignment explanation
Indices: 24793503--24793581 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
24793493 TACCAGAACT
* * *
24793503 AGAATC AGAATC AGAATC AGGATA AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
24793552 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
24793582 GTAAATGCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
5 3 0.05
6 48 0.83
7 5 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:24793539 original size:31 final size:31
Alignment explanation
Indices: 24793503--24793581 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
24793493 TACCAGAACT
*
24793503 AGAATCAGAATCAGAATCAGGATAAGGTGAC
1 AGAATCAGAATCAGAATCAGGATAAGGTAAC
* *
24793534 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGATAAGGTAAC
*
24793565 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
24793582 GTAAATGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGATAAGGTAAC
Done.