Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 144 of 352
Found at i:46884896 original size:54 final size:54
Alignment explanation
Indices: 46884836--46885020 Score: 208
Period size: 54 Copynumber: 3.4 Consensus size: 54
46884826 CTCAACTTGT
* *
46884836 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTAC
* ** * *
46884890 AGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCATTGATTTAA
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTAC
**** * **** *
46884944 AAAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTAC
*
46884998 AAAATTACCAAAATACCCTCGAT
1 AAAATTACCAAATTACCCTCGAT
46885021 CAGTAAAATT
Statistics
Matches: 108, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTAC
Found at i:46884979 original size:27 final size:27
Alignment explanation
Indices: 46884849--46884979 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
46884839 ATTACCAAAG
*
46884849 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * **
46884876 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACTGTTT
46884903 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * * *
46884930 TACCATTGATTTAAAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
46884957 TACCCTCGATTTATAAAATTACT
1 TACCCTCGATTTATAGAATTACT
46884980 AAAATACCCT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:46884987 original size:27 final size:27
Alignment explanation
Indices: 46884957--46885287 Score: 181
Period size: 27 Copynumber: 12.2 Consensus size: 27
46884947 ATTACTGTTT
*
46884957 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
46884984 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
46885011 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * * *
46885038 TACTCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
46885064 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * *
46885091 TACCC-CTAGTTTGTAAAATTACCAAGA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * **
46885118 TACCACT-GGTTTGTGAAATTACTGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
46885145 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
46885172 TACCC-CTGATTTACAAAATTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
* * **
46885199 TACCCTTGACTTTCTAAAAATTATAAAAA
1 TACCCTCGA-TTTAT-AAAATTACCAAAA
* * * * **
46885228 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * * *
46885255 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
46885282 CACCCT
1 TACCCT
46885288 TGTAGGGTGA
Statistics
Matches: 234, Mismatches: 56, Indels: 28
0.74 0.18 0.09
Matches are distributed among these distances:
26 24 0.10
27 185 0.79
28 7 0.03
29 17 0.07
30 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:46885004 original size:81 final size:81
Alignment explanation
Indices: 46884856--46885005 Score: 174
Period size: 81 Copynumber: 1.9 Consensus size: 81
46884846 AAGTACCCTC
* * * * *** * *
46884856 GATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTATAGAA
1 GATTTAAAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAA
46884921 TTACTGTTTTACCATT
66 TTACTGTTTTACCATT
* * * * *
46884937 GATTTAAAAAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAA
1 GATTTAAAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAA
46885002 TTAC
66 TTAC
46885006 CAAAATACCC
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 55 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (81 bp):
GATTTAAAAAATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAAAA
TTACTGTTTTACCATT
Found at i:46885063 original size:26 final size:27
Alignment explanation
Indices: 46884970--46885203 Score: 199
Period size: 27 Copynumber: 8.7 Consensus size: 27
46884960 CCTCGATTTA
* * * *
46884970 TAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCCTAGTTTG
* * **
46884997 CAAAATTACCAAAATA-CCCTCGATCAG
1 TAAAATTACCAAAATACCCCTAG-TTTG
* *
46885024 TAAAATTACCAAAATA-CTCTAGTCTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* * *
46885050 TAAAATTGCTAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
46885077 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* * *
46885104 TAAAATTACCAAGATACCACTGGTTTG
1 TAAAATTACCAAAATACCCCTAGTTTG
* ** *
46885131 TGAAATTACTGAAATA-CCCTCAATTTG
1 TAAAATTACCAAAATACCCCT-AGTTTG
*
46885158 TAAAATTACCAAAATACCCCT-GATTTA
1 TAAAATTACCAAAATACCCCTAG-TTTG
*
46885185 CAAAATTA-CAGAAATACCC
1 TAAAATTACCA-AAATACCC
46885204 TTGACTTTCT
Statistics
Matches: 166, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 26 0.16
27 136 0.82
28 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTAGTTTG
Found at i:46885107 original size:80 final size:82
Alignment explanation
Indices: 46884970--46885178 Score: 246
Period size: 80 Copynumber: 2.6 Consensus size: 82
46884960 CCTCGATTTA
* ** *
46884970 TAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACC
1 TAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACC
*
46885034 AAAATA-CTCTAGTCTG
66 AAAATACCACTAGTCTG
* **
46885050 TAAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACC
1 TAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACC
* * *
46885114 AAGATACCACTGGTTTG
66 AAAATACCACTAGTCTG
* * **
46885131 TGAAATTACTGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TAAAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCCT
46885179 GATTTACAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 60 0.55
81 50 0.45
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (82 bp):
TAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACC
AAAATACCACTAGTCTG
Found at i:46885204 original size:54 final size:54
Alignment explanation
Indices: 46884966--46885286 Score: 231
Period size: 54 Copynumber: 5.9 Consensus size: 54
46884956 TTACCCTCGA
** ** *
46884966 TTTATAAAATTACTA-AAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTAC-AGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCTGG
* * * * * *
46885019 ATCAGTAAAATTACCA-AAATACTCT-AGTCTGTAAAATTGCTAAAATACCCCTGG
1 TTTA-TAAAATTA-CAGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCTGG
* * *
46885073 TTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAAAATTACCAAGATACCACTGG
1 TTTATAAAATTA-CAGAAATACCCTC-AGTTTGTAAAATTACCAAAATACCCCTGG
* * * * *
46885127 TTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGA
1 TTTATAAAATTACAGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCTGG
* * * * ** **
46885181 TTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTATAAAAATACCATTGG
1 TTTATAAAATTACAGAAATACCC-TCAGTTTGT-AAAATTACCAAAATACCCCTGG
* * ** * * *
46885237 TTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 TTTATAAAATTACAGAAATACCCTCAGTTTGTAAAATTACCAAAATACCC
46885287 TTGTAGGGTG
Statistics
Matches: 211, Mismatches: 48, Indels: 17
0.76 0.17 0.06
Matches are distributed among these distances:
53 37 0.18
54 122 0.58
55 13 0.06
56 39 0.18
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TTTATAAAATTACAGAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCTGG
Found at i:46885350 original size:27 final size:27
Alignment explanation
Indices: 46885307--46885380 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
46885297 AAATGACTAA
* *
46885307 AATACCCTTATTA-GGTAAAAAGACTGT
1 AATACCCCTA-TAGGGTAAAAAGACCGT
**
46885334 AA-AGCCCCTATAGGGTAAAGTGACCGT
1 AATA-CCCCTATAGGGTAAAAAGACCGT
*
46885361 AATACCCCTATATGGTAAAA
1 AATACCCCTATAGGGTAAAA
46885381 TGATGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAAAGACCGT
Found at i:46886247 original size:24 final size:25
Alignment explanation
Indices: 46886165--46886258 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
46886155 AGGAAGTGCT
*
46886165 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
46886190 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
46886215 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
46886239 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
46886259 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 20 0.31
25 45 0.69
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:46886271 original size:24 final size:24
Alignment explanation
Indices: 46886165--46886271 Score: 135
Period size: 25 Copynumber: 4.4 Consensus size: 24
46886155 AGGAAGTGCT
* *
46886165 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
* *
46886189 GAAAAGGGCTTTGCCCTAGTTTACC
1 -AAAAGGGCTTTGCCCCAGTTTATC
46886214 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
46886239 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
46886262 AAAAGAGGCT
1 AAAAG-GGCT
46886272 AGGCCTCCAG
Statistics
Matches: 76, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
23 9 0.12
24 22 0.29
25 45 0.59
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:46886515 original size:31 final size:31
Alignment explanation
Indices: 46886477--46886586 Score: 152
Period size: 31 Copynumber: 3.5 Consensus size: 31
46886467 CGTTTACAGT
*
46886477 AAAGGCTTCGACCCAATGATATGATTTATGG
1 AAAGGCTTCGACCCAGTGATATGATTTATGG
*
46886508 AAAGGCTTCGGCCCAGTGATATGATTTAT-G
1 AAAGGCTTCGACCCAGTGATATGATTTATGG
*
46886538 ATAAGGCTTC-AGCCCAGTGATATGATTTATGA
1 A-AAGGCTTCGA-CCCAGTGATATGATTTATGG
*
46886570 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGACCCAGT
46886587 AGCCGTTAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.03
31 67 0.96
32 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTGATATGATTTATGG
Found at i:46891483 original size:43 final size:42
Alignment explanation
Indices: 46891327--46891484 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
46891317 ATGAGATTTT
* *
46891327 GTGTAAGACCACGTCTGGGACGTTGGCATCAAATTGAGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCATATT-TGA-TTAC
* * * * * * *
46891371 GTGTAAGACCATGTTTGGGACATCGACATCATATATGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTAC
* *
46891413 GTGTAAGACC-CTATCTGGAACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATC-ATATTTGATTAC
*
46891456 ATGTAAGACCA-GATCTGGGACGTTGGCAT
1 GTGTAAGACCACG-TCTGGGACGTTGGCAT
46891485 TGTACGAGCT
Statistics
Matches: 87, Mismatches: 21, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
42 25 0.29
43 34 0.39
44 28 0.32
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTAC
Found at i:46901573 original size:39 final size:39
Alignment explanation
Indices: 46901521--46901978 Score: 565
Period size: 39 Copynumber: 11.7 Consensus size: 39
46901511 ATTTGATGTA
46901521 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* *
46901560 TATCCAGACTTAAGGTCCGCAGGCTTCATGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * *
46901599 TATCTGGACTTACGGTCCGCAGGCTTCATGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * *
46901638 TATCCGGGCTTAAAGACTCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTC-CGCAGGCTTCGTGCTGGAATTG
* * * * * *
46901678 TATCCGGACTTAAGATCCACAGGCTTCGTACTGGTACTA
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
46901717 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
** *
46901756 TATCCGGACTTAAGGTCCATAGACTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
*
46901795 TATCCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * * *
46901834 TATACGGGCTTAAAGACCAGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCC-GCAGGCTTCGTGCTGGAATTG
* * * * *
46901874 TATCCGGACTTAAGATCCGCAGGCTTCGTACTGGTACTA
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * * * * *
46901913 TATCTGGACTTAAGGTCTGCAGGCTTCGTACTGGTACTA
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * *
46901952 TATCCGGGCTTAAAGTCCCGTAGGCTT
1 TATCCGGACTTAAGGT-CCGCAGGCTT
46901979 TGTGTTGGTG
Statistics
Matches: 361, Mismatches: 55, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
39 286 0.79
40 75 0.21
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
Found at i:46901807 original size:157 final size:156
Alignment explanation
Indices: 46901521--46901929 Score: 559
Period size: 157 Copynumber: 2.6 Consensus size: 156
46901511 ATTTGATGTA
* * *
46901521 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCAGACTTAAGGTCCGCAGGCTT
1 TATCCGGACTTAAGATCCACAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTT
* * * * *
46901586 CATGCTGGAATTGTATCTGGACTTACGGTCCGCAGGCTTCATGCTGGAATTGTATCCGGGCTTAA
66 CGTGCTGGAATTGTATCTGGACTTAAGGTCCACAGACTTCATGCTGGAATTGTATCCGGACTTAA
*
46901651 AGACTCGCAGGCTTCGTGCTGGAATTG
131 AGAC-CGCAGGCTTCATGCTGGAATTG
* * * *
46901678 TATCCGGACTTAAGATCCACAGGCTTCGTACTGGTACTATATCCGGACTTAAGGTCCGCAGGCTT
1 TATCCGGACTTAAGATCCACAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTT
* * *
46901743 CGTGCTGGAATTGTATCCGGACTTAAGGTCCATAGACTTCGTGCTGGAATTGTATCCGGACTTAA
66 CGTGCTGGAATTGTATCTGGACTTAAGGTCCACAGACTTCATGCTGGAATTGTATCCGGACTTAA
* *
46901808 GGTCCGCAGGCTTCATGCTGGAATTG
131 AGACCGCAGGCTTCATGCTGGAATTG
* * *
46901834 TATACGGGCTTAAAGA-CCAGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAGGC
1 TATCCGGACTT-AAGATCCA-CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGC
* * * *
46901898 TTCGTACTGGTACTATATCTGGACTTAAGGTC
64 TTCGTGCTGGAATTGTATCTGGACTTAAGGTC
46901930 TGCAGGCTTC
Statistics
Matches: 220, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
156 33 0.15
157 187 0.85
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (156 bp):
TATCCGGACTTAAGATCCACAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTT
CGTGCTGGAATTGTATCTGGACTTAAGGTCCACAGACTTCATGCTGGAATTGTATCCGGACTTAA
AGACCGCAGGCTTCATGCTGGAATTG
Found at i:46901859 original size:196 final size:196
Alignment explanation
Indices: 46901519--46901969 Score: 733
Period size: 196 Copynumber: 2.3 Consensus size: 196
46901509 ATATTTGATG
* * *
46901519 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCAGACTTAAGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCACAGAC
* * *
46901584 TTCATGCTGGAATTGTATCTGGACTTACGGTCCGCAGGCTTCATGCTGGAATTGTATCCGGGCTT
66 TTCATGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTGTATACGGGCTT
46901649 AAAGACTCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCACAGGCTTCGTACTGGTA
131 AAAGACTCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCACAGGCTTCGTACTGGTA
46901714 C
196 C
*
46901715 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCATAGAC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCACAGAC
*
46901780 TTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTGTATACGGGCTT
66 TTCATGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTGTATACGGGCTT
*
46901845 AAAGAC-CAGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAGGCTTCGTACTGGT
131 AAAGACTC-GCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCACAGGCTTCGTACTGGT
46901909 AC
195 AC
* * * * * * * *
46901911 TATATCTGGACTTAAGGTCTGCAGGCTTCGTACTGGTACTATATCCGGGCTTAAAGTCC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCC
46901970 CGTAGGCTTT
Statistics
Matches: 237, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
195 1 0.00
196 236 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.29
Consensus pattern (196 bp):
TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCACAGAC
TTCATGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTGTATACGGGCTT
AAAGACTCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCACAGGCTTCGTACTGGTA
C
Found at i:46908811 original size:140 final size:142
Alignment explanation
Indices: 46908498--46908822 Score: 315
Period size: 140 Copynumber: 2.3 Consensus size: 142
46908488 AAACATAAGG
* * * * *
46908498 TATAAT-GCCGATGCCATTTCCCAGGCATGGCCTTACACTAGCTATTGA-GAT-CGAGGCCGATG
1 TATAATAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC--TT-ACGTTGCGAGGCCGACG
* * * * * *
46908560 CCATGTCCCAGACATTGTCTTACACTGGCTGTCATCTCTCCATGCCGATGTCATGTCCCAGACAT
61 CCATGTCCCAGACATTGTCTTACACTAGCTCTCATCTCTCAATGCCAATGCCATGTCCCAAACAT
*
46908625 GGTCTTACACTGACACA
126 GGTCTTACAATGACACA
* * * * *
46908642 TCTCATAGCCGATGCTTGTCCCCGACATGTCTTACGCTAGCTTACGTTGCGAGGCCGACG-CATG
1 TATAATAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTTGCGAGGCCGACGCCATG
*
46908706 TCCCAGACA-TGTCTTACACTAGCTCTCGT-T-TCAATGCCAATGCCATGTCCCAAACATGGTCT
66 TCCCAGACATTGTCTTACACTAGCTCTCATCTCTCAATGCCAATGCCATGTCCCAAACATGGTCT
* * *
46908768 TACAATGGCTCT
131 TACAATGACACA
* *
46908780 TATAATGTGGCTGATGCATGTCCCA-AGCATGTCTTACACTAGC
1 TATAA--TAGCCGATGCATGTCCCAGA-CATGTCTTACACTAGC
46908823 GTACAAGTGA
Statistics
Matches: 147, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
138 39 0.27
139 2 0.01
140 47 0.32
141 17 0.12
142 10 0.07
143 11 0.07
144 14 0.10
145 7 0.05
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (142 bp):
TATAATAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTTGCGAGGCCGACGCCATG
TCCCAGACATTGTCTTACACTAGCTCTCATCTCTCAATGCCAATGCCATGTCCCAAACATGGTCT
TACAATGACACA
Found at i:46910511 original size:56 final size:56
Alignment explanation
Indices: 46910444--46910654 Score: 332
Period size: 56 Copynumber: 3.8 Consensus size: 56
46910434 GAAGTATATG
* *
46910444 TGGCATCGATATGTGACTCTAATATATGTGTACGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
*
46910500 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGA
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* * * *
46910556 TGGCTTCAATATGTAACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* * *
46910612 TGGCATCGATATATGACTCCGATATATGTCTACGAGTAAGACC
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACC
46910655 CTGTCTGGGG
Statistics
Matches: 140, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 140 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACGTTTAATACGT
Found at i:46917215 original size:56 final size:56
Alignment explanation
Indices: 46917129--46917332 Score: 302
Period size: 56 Copynumber: 3.6 Consensus size: 56
46917119 ATGTGGAATT
* ** * *
46917129 GATATGTAACTCTAATATATGTGTACGAGTAAGTCCACGTTTAATACATTGGCATC
1 GATATGTGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGTTGGCATC
*
46917185 GATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGG-ATTC
1 GATATGTGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGTTGGCA-TC
* *
46917241 GATATGTGACTCCGATATATGTGTGCGAGGAAGACCACGTTTAATACGTTGGCATC
1 GATATGTGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGTTGGCATC
* *
46917297 GATATATGACTCTGATATATGTGTACGAGTAAGACC
1 GATATGTGACTCCGATATATGTGTACGAGTAAGACC
46917333 CTGTCTGGGG
Statistics
Matches: 135, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
55 1 0.01
56 133 0.99
57 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (56 bp):
GATATGTGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGTTGGCATC
Found at i:46921941 original size:24 final size:24
Alignment explanation
Indices: 46921900--46921946 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
46921890 GCTTTATCAT
* *
46921900 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTAGAGGCCAAGCC-CTTTTA
46921925 ATAACTAG-GGCCAAGCCCTTTT
1 ATAACTAGAGGCCAAGCCCTTTT
46921947 TGGTAAACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (24 bp):
ATAACTAGAGGCCAAGCCCTTTTA
Found at i:46921947 original size:24 final size:25
Alignment explanation
Indices: 46921920--46921971 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
46921910 GCCTAGCCTC
*
46921920 TTTTAAT-AACTAGGGCCAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
** *
46921944 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
46921969 TTT
1 TTT
46921972 CGCACTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:46922043 original size:21 final size:21
Alignment explanation
Indices: 46922019--46922058 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46922009 TATAATGAGT
*
46922019 ATATCATAACATATCATGTGC
1 ATATAATAACATATCATGTGC
**
46922040 ATATAATTTCATATCATGT
1 ATATAATAACATATCATGT
46922059 ATAACAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (21 bp):
ATATAATAACATATCATGTGC
Found at i:46922123 original size:25 final size:25
Alignment explanation
Indices: 46922095--46922143 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
46922085 ATAATTAAAC
* * *
46922095 CCTAGGGGTATAATGGTCATTTTTT
1 CCTAGGGGCAAAATAGTCATTTTTT
46922120 CCTAGGGGCAAAATAGTCATTTTT
1 CCTAGGGGCAAAATAGTCATTTTT
46922144 CATATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTT
Found at i:46932117 original size:12 final size:12
Alignment explanation
Indices: 46932097--46932126 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46932087 CTTGTACCCT
46932097 TCCGCGACCACG
1 TCCGCGACCACG
*
46932109 TCCGTGACCACG
1 TCCGCGACCACG
46932121 TCCGCG
1 TCCGCG
46932127 GCCTCGTCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (12 bp):
TCCGCGACCACG
Found at i:46933712 original size:21 final size:21
Alignment explanation
Indices: 46933685--46933745 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
46933675 TATAATGAGT
46933685 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
46933706 ATCTCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
46933727 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
46933746 ATAACAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:46933744 original size:10 final size:10
Alignment explanation
Indices: 46933685--46933745 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
46933675 TATAATGAGT
46933685 ATATCATAG-C
1 ATATCAT-GTC
46933695 ATATCATGTGC
1 ATATCATGT-C
* **
46933706 ATCTCATAAC
1 ATATCATGTC
46933716 ATATCATGTGC
1 ATATCATGT-C
46933727 ATATCATGTC
1 ATATCATGTC
46933737 ATATCATGT
1 ATATCATGT
46933746 ATAACAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:46936961 original size:28 final size:28
Alignment explanation
Indices: 46936921--46936984 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
46936911 TAAGTCGTAA
46936921 CATCTTCTTGATCTGTATTCATCCCTTG
1 CATCTTCTTGATCTGTATTCATCCCTTG
46936949 CATCTTCTTGATCTGTATTCATCCCTTG
1 CATCTTCTTGATCTGTATTCATCCCTTG
*
46936977 CATGTTCT
1 CATCTTCT
46936985 CTGTAACACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.14, C:0.28, G:0.11, T:0.47
Consensus pattern (28 bp):
CATCTTCTTGATCTGTATTCATCCCTTG
Found at i:46938575 original size:29 final size:27
Alignment explanation
Indices: 46938557--46938626 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
46938547 ATATTAAGTC
*
46938557 CGCACACTCAGTGCTATATACTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
46938584 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
46938612 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
46938627 GTACAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:46938620 original size:28 final size:28
Alignment explanation
Indices: 46938557--46938654 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
46938547 ATATTAAGTC
* *
46938557 CGCACACTCAGTGCTATATACTC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
46938584 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
46938612 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
46938641 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46938655 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:46943272 original size:31 final size:31
Alignment explanation
Indices: 46943234--46943312 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
46943224 TTTAACGGTT
46943234 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
*
46943265 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCAAATC
46943296 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
46943313 ATTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCAAATC
Found at i:46943398 original size:42 final size:42
Alignment explanation
Indices: 46943336--46943427 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
46943326 TAGCCCATAG
* *
46943336 GCCCATTTCAATAACCCATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
* *
46943378 GCTCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
46943420 GCCCATTT
1 GCCCATTT
46943428 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATAACACATGAAATACCAATGAATGTATGCAA
Found at i:46943625 original size:25 final size:25
Alignment explanation
Indices: 46943562--46943644 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 25
46943552 CTAGAGGCCT
* *
46943562 AGCCTCTTTT-AAT-AACTGGGGAAA
1 AGCC-CTTTTCAATAAAATGGGGCAA
* **
46943586 AGCCTTTTTTGATAAACAT-GGGCAA
1 AGCCCTTTTCAATAAA-ATGGGGCAA
* *
46943611 AGCCCTTTTCAATAAATTGGGGCAT
1 AGCCCTTTTCAATAAAATGGGGCAA
46943636 AGCCCTTTT
1 AGCCCTTTT
46943645 AGCACTTCCT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
23 4 0.09
24 7 0.15
25 34 0.74
26 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
AGCCCTTTTCAATAAAATGGGGCAA
Found at i:46944670 original size:27 final size:27
Alignment explanation
Indices: 46944548--46944786 Score: 144
Period size: 27 Copynumber: 8.8 Consensus size: 27
46944538 CATCCTACAA
* * * * *
46944548 GGGTGTTTTGGTAAATCTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
** ** *
46944575 GGGTATTTCAGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * * *
46944602 TGGTATTTCT-ATAATTTTAAAAAGTCAA
1 GGGTATTT-TGGTAATTTTACAAACT-AG
** *
46944630 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
46944657 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * * *
46944683 AGAGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
46944711 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
46944738 GGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* *
46944765 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
46944787 TCGAGGGTAA
Statistics
Matches: 166, Mismatches: 40, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
26 4 0.02
27 136 0.82
28 26 0.16
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:46944672 original size:55 final size:54
Alignment explanation
Indices: 46944573--46944729 Score: 163
Period size: 55 Copynumber: 2.9 Consensus size: 54
46944563 TCTATAAACT
* *
46944573 AAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTTCT-ATAATTTTAAAAAGTC
1 AAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTT-TGGTAATTTTAAAAA-TC
* * * * *
46944628 AAGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTTTGGTAATTTTAAAAATC
* * * *** *
46944682 GAGAGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTA
1 AAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTTTGGTAATTTTA
46944730 CAAACTAGGG
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
54 41 0.48
55 44 0.52
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTTTGTAAACTAGTGGTATTTTGGTAATTTTAAAAATC
Found at i:46944819 original size:27 final size:27
Alignment explanation
Indices: 46944785--46944876 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
46944775 GTAATTTCAC
46944785 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
46944812 AGTTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
46944839 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
46944866 AATCAAGGGTA
1 AATCGAGGGTA
46944877 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:46944899 original size:54 final size:53
Alignment explanation
Indices: 46944765--46944901 Score: 132
Period size: 54 Copynumber: 2.5 Consensus size: 53
46944755 TATCCTACAG
* * * * * * * **
46944765 GGGTATTTTAGTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAGTTGA
1 GGGTAATTTGGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAATCAA
**
46944818 GGGTAAAATGGTAATTTTGTA-AATCGAGGGTAAAACGATAATTCTATAAATCAA
1 GGGTAATTTGGTAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAATCAA
*
46944872 GGGTACTTTGGTAATTTTACAAGTCGAGGG
1 GGGTAATTTGGTAATTTTACAA-TCGAGGG
46944902 CATTTCAATA
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
52 2 0.03
53 15 0.23
54 48 0.73
55 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (53 bp):
GGGTAATTTGGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAATCAA
Found at i:46950600 original size:48 final size:48
Alignment explanation
Indices: 46950486--46950593 Score: 146
Period size: 48 Copynumber: 2.2 Consensus size: 48
46950476 GCCACAATAT
* *
46950486 ATATACACATCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
1 ATATACATACCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
* **
46950534 ATATGCATGGCTCATACATATTTCACATTAGCC-TTTCGGCTTTACCAC
1 ATATACATACCTCATACATATTTCACATTAGCCATTT-GGCTTTACCAC
*
46950582 ATATATATACCT
1 ATATACATACCT
46950594 TGTACATCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 3 0.06
48 48 0.94
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
ATATACATACCTCATACATATTTCACATTAGCCATTTGGCTTTACCAC
Found at i:46965029 original size:81 final size:81
Alignment explanation
Indices: 46964883--46965045 Score: 265
Period size: 81 Copynumber: 2.0 Consensus size: 81
46964873 TTGGACGCAA
46964883 ATGTATAACCCGAAATTGTATGTTTGTTTGTGTGATAAGTCCGATAATGCCTCATAACCTATTCT
1 ATGTATAACCCGAAATTGTATGTTTGTTTGTGTGATAAGTCCGATAATGCCTCATAACCTATTCT
46964948 GACGTTGAATACGGAT
66 GACGTTGAATACGGAT
* * * *
46964964 ATGTATAGCCCGAAATTGTATGTTTGTTTGTGTGATAAGTCTGATAATGCCTTAT-ACTCTGTTC
1 ATGTATAACCCGAAATTGTATGTTTGTTTGTGTGATAAGTCCGATAATGCCTCATAAC-CTATTC
*
46965028 TGACGTTGAATATGGAT
65 TGACGTTGAATACGGAT
46965045 A
1 A
46965046 AGGGTGTTAC
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 2 0.03
81 74 0.97
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (81 bp):
ATGTATAACCCGAAATTGTATGTTTGTTTGTGTGATAAGTCCGATAATGCCTCATAACCTATTCT
GACGTTGAATACGGAT
Found at i:46968550 original size:39 final size:39
Alignment explanation
Indices: 46968507--46968766 Score: 326
Period size: 39 Copynumber: 6.7 Consensus size: 39
46968497 CTTCGGAACT
* * * ** * *
46968507 TTAAGCCCGGATATATTTCCAGCACGTAACCTACGAACC
1 TTAAGTCCGGATATAATTCCAACATATAGCCTACGGACC
**
46968546 TTAAGTCCAAATTATAATTCCAACATATAGCCTACGGACC
1 TTAAGTCCGGA-TATAATTCCAACATATAGCCTACGGACC
* * *
46968586 TTAAGTCCAGATATATTTCCAGCATATAGCCTACGGACC
1 TTAAGTCCGGATATAATTCCAACATATAGCCTACGGACC
*
46968625 TTAAGTCCGGATATAATTCCAACATATAGCCTGCGGACC
1 TTAAGTCCGGATATAATTCCAACATATAGCCTACGGACC
*
46968664 TTAAGTCCGGATATAATTCCAACATATAGCCTGCGGACC
1 TTAAGTCCGGATATAATTCCAACATATAGCCTACGGACC
* * * *
46968703 TTAAGTTCGGATATAATTCCAGCATATAGCTTGCGGACC
1 TTAAGTCCGGATATAATTCCAACATATAGCCTACGGACC
*
46968742 TTAAGTCCAGAT-TAATTCCAA-ATAT
1 TTAAGTCCGGATATAATTCCAACATAT
46968767 CATGCATATT
Statistics
Matches: 198, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
37 4 0.02
38 8 0.04
39 154 0.78
40 32 0.16
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (39 bp):
TTAAGTCCGGATATAATTCCAACATATAGCCTACGGACC
Found at i:46976463 original size:39 final size:39
Alignment explanation
Indices: 46976269--46976482 Score: 252
Period size: 39 Copynumber: 5.5 Consensus size: 39
46976259 ACTTTAAGCT
* * * * * *
46976269 CGGATATATTTCCTACATGTAACGTGCGAACCTTAAGTC
1 CGGATATAATTCCAACATATAGCCTGCGGACCTTAAGTC
* * * *
46976308 CGAATTATAATTCTAGCATATAGCCTGCGGACCTTAAGCC
1 CGGA-TATAATTCCAACATATAGCCTGCGGACCTTAAGTC
* * **
46976348 CGGATATATTTCTATTATATAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAACATATAGCCTGCGGACCTTAAGTC
* *
46976387 TGGATATAATTCCATCATATAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAACATATAGCCTGCGGACCTTAAGTC
46976426 CGGATATAATTCCAACATATAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAACATATAGCCTGCGGACCTTAAGTC
*
46976465 CAGAT-TAATTCCAA-ATAT
1 CGGATATAATTCCAACATAT
46976483 CATGCATATT
Statistics
Matches: 152, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
37 4 0.03
38 9 0.06
39 110 0.72
40 29 0.19
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (39 bp):
CGGATATAATTCCAACATATAGCCTGCGGACCTTAAGTC
Found at i:46986191 original size:19 final size:19
Alignment explanation
Indices: 46986167--46986203 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
46986157 CCTTTTTACT
46986167 TAAATTCGTTGTTAAAACA
1 TAAATTCGTTGTTAAAACA
46986186 TAAATTCGTTGTTAAAAC
1 TAAATTCGTTGTTAAAAC
46986204 TAAGTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (19 bp):
TAAATTCGTTGTTAAAACA
Found at i:46989784 original size:42 final size:42
Alignment explanation
Indices: 46989725--46989806 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
46989715 TACGGAAACT
*
46989725 TAGAAAATTTTCTTGATTTGGAGAGTCACAAGCCCGTGTGAA
1 TAGAAAATTTTCTTGATTTGGAGAATCACAAGCCCGTGTGAA
*
46989767 TAGAAAATTTTCTTGATTTGGAGAATCACACGCCCGTGTG
1 TAGAAAATTTTCTTGATTTGGAGAATCACAAGCCCGTGTG
46989807 GGTAGTCTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
TAGAAAATTTTCTTGATTTGGAGAATCACAAGCCCGTGTGAA
Found at i:46991077 original size:44 final size:45
Alignment explanation
Indices: 46991014--46991103 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
46991004 CCAAAACATG
* *
46991014 TGTCACAGACATCATGAACTCA-ACCACAACTCAATGAGTTTAGA
1 TGTCACAAACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
* *
46991058 TGTCACAAATATCATGAACTCAGACCATAACTCAATGAGTTCAGA
1 TGTCACAAACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
46991103 T
1 T
46991104 CACGATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 20 0.49
45 21 0.51
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.24
Consensus pattern (45 bp):
TGTCACAAACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:46999009 original size:17 final size:18
Alignment explanation
Indices: 46998987--46999020 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46998977 TCACATTGAA
46998987 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
46999004 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
46999021 CCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:47001519 original size:39 final size:40
Alignment explanation
Indices: 47001405--47001589 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
47001395 GCTACTCGTT
* *
47001405 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
47001445 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
47001485 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
47001524 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
47001565 CAAA-GCCTTCTGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47001590 CATCATTTGA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47001573 original size:79 final size:80
Alignment explanation
Indices: 47001405--47001589 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
47001395 GCTACTCGTT
* *
47001405 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGG-CTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCG
* *
47001469 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * **
47001486 CAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* *
47001549 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
47001565 CAAAGCCTTCTGGACTTAGCCCGGA
1 CAAAGCCTTC-GGGCTTAGCCCGGA
47001590 CATCATTTGA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 27 0.31
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGCTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:47014461 original size:29 final size:29
Alignment explanation
Indices: 47014419--47014481 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
47014409 CTTAGATCAG
47014419 CAGCTATATCTTTTGTTCCTCTTTGACTA
1 CAGCTATATCTTTTGTTCCTCTTTGACTA
47014448 CAGCTATATCTTTTGTTCCTCTTTGACTA
1 CAGCTATATCTTTTGTTCCTCTTTGACTA
47014477 CAGCT
1 CAGCT
47014482 TACATTTCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.46
Consensus pattern (29 bp):
CAGCTATATCTTTTGTTCCTCTTTGACTA
Found at i:47052253 original size:93 final size:93
Alignment explanation
Indices: 47052140--47052311 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47052130 CGCCCATAAG
* *
47052140 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47052205 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
47052233 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47052298 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
47052312 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47052308 original size:46 final size:46
Alignment explanation
Indices: 47052133--47052308 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
47052123 TGTAACCCGC
* * *
47052133 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
47052179 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
47052229 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47052272 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
47052309 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47058865 original size:93 final size:93
Alignment explanation
Indices: 47058752--47058923 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
47058742 CGCCCATAAG
* *
47058752 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47058817 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
47058845 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47058910 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
47058924 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47058920 original size:46 final size:46
Alignment explanation
Indices: 47058745--47058920 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
47058735 TGTAACCCGC
* * *
47058745 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
47058791 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
47058841 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
47058884 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
47058921 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47066197 original size:49 final size:49
Alignment explanation
Indices: 47066034--47066258 Score: 261
Period size: 49 Copynumber: 4.5 Consensus size: 49
47066024 TGAGGTGGCA
* * * *
47066034 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGATCACG
* * * * ** *
47066085 TGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GATCACG
* *
47066135 TCTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACG
* * * *
47066184 TGTGTAGTACTAAGTGCAGGTTACTAAGTGTACCGGATAATTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACG
*
47066233 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
47066259 TGCGTACCAG
Statistics
Matches: 148, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 75 0.51
50 42 0.28
51 31 0.21
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGATCACG
Found at i:47068707 original size:27 final size:26
Alignment explanation
Indices: 47068667--47068718 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
47068657 CTCACTGCAA
*
47068667 TCTGGTGGCCTCGTCACATATATCTGT
1 TCTGGTGACCTCGTCACA-ATATCTGT
*
47068694 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGTCACAATATCTG
47068719 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGTCACAATATCTGT
Found at i:47070479 original size:21 final size:21
Alignment explanation
Indices: 47070455--47070496 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
47070445 TCTTGGTTTA
*
47070455 GTCCCGAATTATACTCGATGT
1 GTCCCGAATTATACCCGATGT
*
47070476 GTCCTGAATTATACCCGATGT
1 GTCCCGAATTATACCCGATGT
47070497 ACATTTTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (21 bp):
GTCCCGAATTATACCCGATGT
Found at i:47074590 original size:93 final size:93
Alignment explanation
Indices: 47074431--47074602 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
47074421 GGATGGTTGA
* *
47074431 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
47074496 TGAGTCCCAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
47074524 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
47074589 TGAGTCCAAGTTCG
66 TGAGTCCAAGTTCG
47074603 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:47074607 original size:46 final size:46
Alignment explanation
Indices: 47074435--47074609 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
47074425 GGTTGAGCAT
* * *
47074435 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
47074481 CCGAACTCGTTGAGTTGAGTCCCAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
47074526 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
47074574 CCGAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47074610 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.56
47 27 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:47078962 original size:46 final size:46
Alignment explanation
Indices: 47078912--47079087 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
47078902 TGGTTGAGCA
47078912 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47078958 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47079003 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
47079050 ACCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47079088 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 62 0.56
47 29 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47079068 original size:93 final size:93
Alignment explanation
Indices: 47078909--47079079 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
47078899 GGATGGTTGA
**
47078909 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
47078974 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
47079002 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-CACCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACC-GAACTCGTTGAG
47079066 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
47079080 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47087533 original size:21 final size:22
Alignment explanation
Indices: 47087495--47087535 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
47087485 AAACCTCGTC
*
47087495 AACATAACTCATGAATCATTTA
1 AACATAACACATGAATCATTTA
*
47087517 AACATAA-ACATGCATCATT
1 AACATAACACATGAATCATT
47087536 AGTAAGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (22 bp):
AACATAACACATGAATCATTTA
Found at i:47094732 original size:43 final size:47
Alignment explanation
Indices: 47094685--47094809 Score: 136
Period size: 48 Copynumber: 2.7 Consensus size: 47
47094675 TGTAATTTCG
*
47094685 TGTAAGACCATAGT-TGGG-C-T-ATTGGCATCGATCTACTATCCCA
1 TGTAAGACCATAGTCTGGGACATGATTGGCATCGATCTACGATCCCA
*
47094728 TGTAATACCAT-GTCTGGGACATGGCATTGGCATCGATCTACGATCCCA
1 TGTAAGACCATAGTCTGGGACAT-G-ATTGGCATCGATCTACGATCCCA
* *
47094776 CGTAAGACCATA-TCTGGGATATGGCATTGGCATC
1 TGTAAGACCATAGTCTGGGACAT-G-ATTGGCATC
47094810 CTACCATGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
42 2 0.03
43 14 0.20
44 1 0.01
45 1 0.01
48 52 0.74
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (47 bp):
TGTAAGACCATAGTCTGGGACATGATTGGCATCGATCTACGATCCCA
Found at i:47094762 original size:48 final size:48
Alignment explanation
Indices: 47094705--47094809 Score: 165
Period size: 48 Copynumber: 2.2 Consensus size: 48
47094695 TAGTTGGGCT
* * * *
47094705 ATTGGCATCGATCTACTATCCCATGTAATACCATGTCTGGGACATGGC
1 ATTGGCATCGATCTACGATCCCACGTAAGACCATATCTGGGACATGGC
*
47094753 ATTGGCATCGATCTACGATCCCACGTAAGACCATATCTGGGATATGGC
1 ATTGGCATCGATCTACGATCCCACGTAAGACCATATCTGGGACATGGC
47094801 ATTGGCATC
1 ATTGGCATC
47094810 CTACCATGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (48 bp):
ATTGGCATCGATCTACGATCCCACGTAAGACCATATCTGGGACATGGC
Found at i:47099822 original size:20 final size:20
Alignment explanation
Indices: 47099797--47099840 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
47099787 GTGATAGTAA
*
47099797 GATAGTGTGACAAAGTTTCC
1 GATAGTGTGACAAAGTCTCC
47099817 GATAGTGTGACAAAGTCTCC
1 GATAGTGTGACAAAGTCTCC
47099837 GATA
1 GATA
47099841 ATCCTCGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (20 bp):
GATAGTGTGACAAAGTCTCC
Found at i:47107086 original size:45 final size:43
Alignment explanation
Indices: 47106939--47107107 Score: 168
Period size: 45 Copynumber: 3.9 Consensus size: 43
47106929 TTTTATCAAA
* ** * *
47106939 TCACCAGCATTTAGCCTGCTAGGTTTAAAAACCTGAAT-TCAT
1 TCACCAGCATTTAGCCTGCTAGGCTCGAAAGCCCGAATATCAT
* *
47106981 TCACCGGCATTTCGCCTGCTAGGCTCG-AAGCCCG-ATATCATT
1 TCACCAGCATTTAGCCTGCTAGGCTCGAAAGCCCGAATATCA-T
* *
47107023 TCACCGGTATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGT-AT
1 TCACCAGCATT-TAGCCTGCTAGGCTCGAAAGCCCGAATA-TCAT
47107067 CTCACCAGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATA
1 -TCACCAGCATT-TAGCCTGCTAGGCTCGAAA-GCCCGAATA
47107108 ATACTGTGCG
Statistics
Matches: 108, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
40 2 0.02
41 8 0.07
42 33 0.31
43 15 0.14
44 11 0.10
45 38 0.35
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (43 bp):
TCACCAGCATTTAGCCTGCTAGGCTCGAAAGCCCGAATATCAT
Found at i:47111056 original size:672 final size:672
Alignment explanation
Indices: 47109758--47111095 Score: 2329
Period size: 672 Copynumber: 2.0 Consensus size: 672
47109748 AGCGGTGCTA
*
47109758 AAATACAACTTAGTACCCAATGCTTCTTGCAATTTCTTCCAAAACCGTGATGTGAATCTCAAATC
1 AAATACAACTTAGTACCCAATGCTTCTTGCAATTTCTTCCAAAACCGTCATGTGAATCTCAAATC
*
47109823 TCTATCCGACACAATAGAAGTAGGTACCCCGTGTAACCTTACAATCTGAGAAACATACAATTCGG
66 TCTATCCGACACAATAGAAGTAGGTACCCCGTGTAACCTTACAATCTGAGAAACATACAATTCGA
**
47109888 CTAACTTATCAAGTGAATAATCCATACGTACGGGAATAAAATGAGCTGACTTTGTCAATCTATCA
131 CTAACTTATCAAGTGAATAATCCATACGTACGGGAATAAAATGAGCCAACTTTGTCAATCTATCA
*
47109953 ACCACAACCCAGATCACATCTTTCTTGCTCAGAGATAATGGCAACCCAGATACAAAATCCATCGT
196 ACCACAACCCAGATCACATCTTTCTTGCTCAGAGACAATGGCAACCCAGATACAAAATCCATCGT
*
47110018 GATTCGATCCCACTTCCACTCAGGTATCATGATCGGCTGAAGTAATCCCGAAGGCACTTGATGTT
261 GATTCGATCCCACTTCCACTCAGGTATCATGATCGGATGAAGTAATCCCGAAGGCACTTGATGTT
* * *
47110083 CCGCTTTCACTTGTTGATATATCAAACACTTCGAAACAAAGTCAGAAATGTCTTGTTTCATACCA
326 CCGCTTTCACTTATTGACATATCAAACACTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCA
* * *
47110148 TGCCACCAGTACTGACATTTCAGATCGTTGTACATTTTCGTACTACCCGGGTGAATTGACATTGG
391 TGCCACCAATACTGACATTTCAGATCGTTGTACATTTTCGTACTACCCGAGTGAATTGACATTCG
*
47110213 GCTGCTATGAGCCTCGCTCAAAATCATCAGAATAAGCTCTGAATTTCTCGGAACACATAATCGAT
456 GCTGCTATGAGCCTCGCTCAAAATCATCAGAATAAGCTCTGAATTTCTCAGAACACATAATCGAT
*
47110278 TTCTGAACCTCAAATAATCATTACTATCAATTAAAAATTCTGAATCCTCTATCGAAACACATAGT
521 TTCTGAACCTCAAACAATCATTACTATCAATTAAAAATTCTGAATCCTCTATCGAAACACATAGT
* * * *
47110343 GCTCGTTTTGGAACTTATTCATTATCAACTTTTTCAGCTTCACGGATTTGTTGCATCCATAACGG
586 GCTCGTTTTGCAACTAATTCATTATCAACTTTTTCAGCTTCACGAATTTGTTGCATCAATAACGG
47110408 TTTTGCTTTTAACTCCACTACT
651 TTTTGCTTTTAACTCCACTACT
* * **
47110430 AAATGCAACTTAGTACCCAATGCTTCTTGCAATTTCTTCCAAAATCG-CATTGTGAATCTCGGAT
1 AAATACAACTTAGTACCCAATGCTTCTTGCAATTTCTTCCAAAACCGTCA-TGTGAATCTCAAAT
*
47110494 CTCTATCCGATACAATAGAAGTAGGTACCCCGTGTAACCTTACAATCTGAGAAACATACAATTCG
65 CTCTATCCGACACAATAGAAGTAGGTACCCCGTGTAACCTTACAATCTGAGAAACATACAATTCG
*
47110559 ACTAACTTATCAAGTGAATAATCCATACGTACGGGAATAAAATGAGCCAACTTTTTCAATCTATC
130 ACTAACTTATCAAGTGAATAATCCATACGTACGGGAATAAAATGAGCCAACTTTGTCAATCTATC
*
47110624 AACCACAACCCAGATCACATCTTTCTTGCTCGGAGACAATGGCAACCCAGATACAAAATCCATCG
195 AACCACAACCCAGATCACATCTTTCTTGCTCAGAGACAATGGCAACCCAGATACAAAATCCATCG
*
47110689 TGATTCGATCCCACTTCCACTCGGGTATCATGATCGGATGAAGTAATCCCGAAGGCACTTGATGT
260 TGATTCGATCCCACTTCCACTCAGGTATCATGATCGGATGAAGTAATCCCGAAGGCACTTGATGT
*
47110754 TCCGCTTTCACTTATTGACATATCAAACAGTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACC
325 TCCGCTTTCACTTATTGACATATCAAACACTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACC
*
47110819 ATGCCACCAATACTGACATTTTAGATCGTTGTACATTTTCGTACTACCCGAGTGAATTGACATTC
390 ATGCCACCAATACTGACATTTCAGATCGTTGTACATTTTCGTACTACCCGAGTGAATTGACATTC
* * *
47110884 GGCTGCTATGAGCCTCGCTCAAAATCATCGGAATAAGCTCTGAATTTCTCAGAACACATGATCTA
455 GGCTGCTATGAGCCTCGCTCAAAATCATCAGAATAAGCTCTGAATTTCTCAGAACACATAATCGA
47110949 TTTCT-AAGCCTCAAACAATCATTACTATCAATTAAAAATTCTGAATCCTCTATCGAAACACATA
520 TTTCTGAA-CCTCAAACAATCATTACTATCAATTAAAAATTCTGAATCCTCTATCGAAACACATA
* * *
47111013 GTGCTCGTTTTGCAACTAATTCATTATCAATTTTTTGAGCTTCACGAATTTGTTGCATTAATAAC
584 GTGCTCGTTTTGCAACTAATTCATTATCAACTTTTTCAGCTTCACGAATTTGTTGCATCAATAAC
*
47111078 GGTTTTTCTTTTAACTCC
649 GGTTTTGCTTTTAACTCC
47111096 GCTATTAACA
Statistics
Matches: 629, Mismatches: 35, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
671 3 0.00
672 626 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (672 bp):
AAATACAACTTAGTACCCAATGCTTCTTGCAATTTCTTCCAAAACCGTCATGTGAATCTCAAATC
TCTATCCGACACAATAGAAGTAGGTACCCCGTGTAACCTTACAATCTGAGAAACATACAATTCGA
CTAACTTATCAAGTGAATAATCCATACGTACGGGAATAAAATGAGCCAACTTTGTCAATCTATCA
ACCACAACCCAGATCACATCTTTCTTGCTCAGAGACAATGGCAACCCAGATACAAAATCCATCGT
GATTCGATCCCACTTCCACTCAGGTATCATGATCGGATGAAGTAATCCCGAAGGCACTTGATGTT
CCGCTTTCACTTATTGACATATCAAACACTTCGAAACAAAGTCAGAAATGTCTCGTTTCATACCA
TGCCACCAATACTGACATTTCAGATCGTTGTACATTTTCGTACTACCCGAGTGAATTGACATTCG
GCTGCTATGAGCCTCGCTCAAAATCATCAGAATAAGCTCTGAATTTCTCAGAACACATAATCGAT
TTCTGAACCTCAAACAATCATTACTATCAATTAAAAATTCTGAATCCTCTATCGAAACACATAGT
GCTCGTTTTGCAACTAATTCATTATCAACTTTTTCAGCTTCACGAATTTGTTGCATCAATAACGG
TTTTGCTTTTAACTCCACTACT
Found at i:47120048 original size:40 final size:40
Alignment explanation
Indices: 47119987--47120207 Score: 217
Period size: 40 Copynumber: 5.6 Consensus size: 40
47119977 TTATTCGAAT
47119987 TATATCCGGGCTAAG-TCCCGAAGG-ATTTTATGCTAGTGAC
1 TATATCCGGGCTAAGAT-CCGAAGGCA-TTTATGCTAGTGAC
* *
47120027 TATATCCGGACTAAGATCCGAAGGCATTTGTG-TGAGTTG-C
1 TATATCCGGGCTAAGATCCGAAGGCATTTATGCT-AG-TGAC
* * *
47120067 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGAC
1 TATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGAC
*
47120107 TATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGGGAC
1 TATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGAC
* * * **
47120147 CATATCCGGGCTAAGA-CTCGAAGGC-CTTGTGCTAGTGGT
1 TATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGAC
47120186 TATATCC-GGCTAA-ATCCCGAAG
1 TATATCCGGGCTAAGAT-CCGAAG
47120208 ATACTTGGAT
Statistics
Matches: 155, Mismatches: 15, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 19 0.12
40 119 0.77
41 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGAC
Found at i:47120121 original size:80 final size:81
Alignment explanation
Indices: 47119987--47120207 Score: 260
Period size: 80 Copynumber: 2.8 Consensus size: 81
47119977 TTATTCGAAT
* * *
47119987 TATATCCGGGCTAAGTCCCGAAGG-ATTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAG
1 TATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGATCCCGAAG
* *
47120050 GCATTTGTG-TGAGTTG-C
65 GCATTTATGCT-AG-GGAC
*
47120067 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TCCCGAAGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGATCCCGAAGG
47120131 CATTTATGCTAGGGAC
66 CATTTATGCTAGGGAC
* * * **
47120147 CATATCCGGGCTAAGACTCGAAGGC-CTTGTGCTAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGATCCCGAAG
47120208 ATACTTGGAT
Statistics
Matches: 124, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 14 0.11
79 19 0.15
80 89 0.72
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGATCCCGAAGG
CATTTATGCTAGGGAC
Found at i:47123026 original size:21 final size:20
Alignment explanation
Indices: 47122998--47123036 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47122988 CAATTCTTGT
47122998 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
47123018 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
47123037 CAAAACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:47136596 original size:17 final size:15
Alignment explanation
Indices: 47136574--47136611 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
47136564 ATGTGCCCTC
47136574 TCTTTTTTTCTTCTTCT
1 TCTTTTTTT-TTCTT-T
47136591 TC-TTTTTTTTCTTT
1 TCTTTTTTTTTCTTT
47136605 TCTTTTT
1 TCTTTTT
47136612 AGCTAACACG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 9 0.45
16 6 0.30
17 2 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TCTTTTTTTTTCTTT
Found at i:47139772 original size:29 final size:30
Alignment explanation
Indices: 47139713--47139771 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
47139703 GCCTTCTAAA
*
47139713 ATTATTTACAAAAAAAGGCATCTAATTTTT
1 ATTATTTACAAAAAAAGGCATCGAATTTTT
* *
47139743 ATTATTTACGAAAAGA-GCAATCGAATTTT
1 ATTATTTACAAAAAAAGGC-ATCGAATTTT
47139772 AAAACTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (30 bp):
ATTATTTACAAAAAAAGGCATCGAATTTTT
Found at i:47151145 original size:92 final size:94
Alignment explanation
Indices: 47150983--47151195 Score: 225
Period size: 94 Copynumber: 2.3 Consensus size: 94
47150973 AGGTCGACGC
* * ** * * *
47150983 CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCTTGTCCTAGACGTG
1 CATGTCCCAAACAT-GTCTTACACTAGCTCT-ACATATCAATGCCGATGCCATGTCCTAGACATC
*
47151048 GTCTTACACTAACACATC-T-CGTAGCCGATG
64 ATCTTACACTAACAC-TCATACGTAGCCGATG
* * *
47151078 CATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAATGCTGATGCCATGTCCTAGACATCAT
1 CATGTCCCAAACATGTCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCTAGACATCAT
* * * *
47151142 CTTACACTAGCTCTCATAATGTGGCCGATG
66 CTTACACTAACACTCAT-ACGTAGCCGATG
*
47151172 CATGTCCCAAACATGTATTACACT
1 CATGTCCCAAACATGTCTTACACT
47151196 GGCACACAAA
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
91 2 0.02
92 37 0.37
94 48 0.48
95 12 0.12
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (94 bp):
CATGTCCCAAACATGTCTTACACTAGCTCTACATATCAATGCCGATGCCATGTCCTAGACATCAT
CTTACACTAACACTCATACGTAGCCGATG
Found at i:47153481 original size:21 final size:23
Alignment explanation
Indices: 47153434--47153487 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
47153424 CACTCAAGAT
**
47153434 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
47153457 AAAATAATATAT-AAA-TAATTC
1 AAAATAATATATAAAACTAATTA
47153478 AAAAT-ATATA
1 AAAATAATATA
47153488 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 8 0.29
22 3 0.11
23 12 0.43
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:47153738 original size:17 final size:15
Alignment explanation
Indices: 47153698--47153743 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
47153688 TTATAAATAG
*
47153698 AAATAAAAATATAAT
1 AAATAGAAATATAAT
47153713 AAATAGAAATATAAT
1 AAATAGAAATATAAT
47153728 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
47153744 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:47153746 original size:44 final size:44
Alignment explanation
Indices: 47153659--47153778 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
47153649 AACATATATA
* *
47153659 AGAAAAATAAT-AAT-GA-AAATAATATTAGTTTATAAATAGAAAT
1 AGAAAAATAATAAATAGATAAATAATAATAG--TAGAAATAGAAAT
*
47153702 A-AAAATATAATAAATAGA-AATATAATAATAGTAGAAATATAAAT
1 AGAAAA-ATAATAAATAGATAA-ATAATAATAGTAGAAATAGAAAT
* *
47153746 AGATAAATAATAATTAGATAAATAATAATAGTA
1 AGAAAAATAATAAATAGATAAATAATAATAGTA
47153779 TTAGAATAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
42 4 0.06
43 6 0.09
44 38 0.58
45 9 0.14
46 9 0.14
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (44 bp):
AGAAAAATAATAAATAGATAAATAATAATAGTAGAAATAGAAAT
Found at i:47153758 original size:15 final size:15
Alignment explanation
Indices: 47153708--47153817 Score: 76
Period size: 15 Copynumber: 7.7 Consensus size: 15
47153698 AAATAAAAAT
47153708 ATAATAAATAGA-AA
1 ATAATAAATAGATAA
*
47153722 TATAAT-AATAGTAGAA
1 -ATAATAAATAG-ATAA
47153738 AT-ATAAATAGATAA
1 ATAATAAATAGATAA
*
47153752 ATAATAATTAGATAA
1 ATAATAAATAGATAA
*
47153767 ATAAT-AATAG-TATT
1 ATAATAAATAGATA-A
* *
47153781 AGAATAAA-AAATAA
1 ATAATAAATAGATAA
47153795 AT-ATAAATAGA-AA
1 ATAATAAATAGATAA
47153808 CATAA-AAATA
1 -ATAATAAATA
47153818 ATAGCAATAA
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
13 9 0.12
14 31 0.41
15 34 0.45
16 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (15 bp):
ATAATAAATAGATAA
Found at i:47153768 original size:29 final size:28
Alignment explanation
Indices: 47153711--47153805 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 28
47153701 TAAAAATATA
*
47153711 ATAAATAGA-AATATAATAATAGTAGAAAT
1 ATAAATAGATAA-ATAATAATAG-ATAAAT
47153740 ATAAATAGATAAATAATAATTAGATAAAT
1 ATAAATAGATAAATAATAA-TAGATAAAT
47153769 A-ATAATAGTATTAGAATAA-AA-A-ATAAAT
1 ATA-AATAG-A-TA-AATAATAATAGATAAAT
47153797 ATAAATAGA
1 ATAAATAGA
47153806 AACATAAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 16
0.77 0.01 0.21
Matches are distributed among these distances:
27 1 0.02
28 13 0.22
29 29 0.50
30 6 0.10
31 4 0.07
32 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.28
Consensus pattern (28 bp):
ATAAATAGATAAATAATAATAGATAAAT
Found at i:47153774 original size:18 final size:20
Alignment explanation
Indices: 47153750--47153794 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
47153740 ATAAATAGAT
47153750 AAATAATA-ATTAG-ATAAA
1 AAATAATAGATTAGAATAAA
*
47153768 TAATAATAGTATTAGAATAAA
1 AAATAATAG-ATTAGAATAAA
47153789 AAATAA
1 AAATAA
47153795 ATATAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
20 5 0.23
21 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
AAATAATAGATTAGAATAAA
Found at i:47153788 original size:44 final size:43
Alignment explanation
Indices: 47153708--47153826 Score: 118
Period size: 44 Copynumber: 2.8 Consensus size: 43
47153698 AAATAAAAAT
*
47153708 ATAATAAATAGAAATATAATAATAGTAGAAATATAAATAGATAA
1 ATAATAAATAGAAATATAATAATAGTAGAAATATAAA-AAATAA
* * *
47153752 ATAATAATTAGATAA-ATAATAATAGTATTAGA-ATAAAAAATAA
1 ATAATAAATAGA-AATATAATAATAGTA-GAAATATAAAAAATAA
* * * *
47153795 AT-ATAAATAGAAACATAAAAATAATAGCAATA
1 ATAATAAATAGAAATATAATAATAGTAGAAATA
47153827 ATATATTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
41 3 0.05
42 19 0.31
43 7 0.11
44 28 0.46
45 4 0.07
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.27
Consensus pattern (43 bp):
ATAATAAATAGAAATATAATAATAGTAGAAATATAAAAAATAA
Found at i:47155113 original size:86 final size:85
Alignment explanation
Indices: 47154835--47155523 Score: 947
Period size: 85 Copynumber: 8.1 Consensus size: 85
47154825 TACCCTACTA
* * * * **
47154835 TTAAGGCTCACTGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGTA-ACTCAGCC
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTATTTTCAGCC
*
47154899 TGTTACCCT-CTACTTAGGGGG
64 TGTTACCCTACTGCTTAGGGGG
* * * *
47154920 TTAAGGCTCACTATCCTT-GATCTGATCCACTACTGTTTAGGGATAAGATCTGTATTTTCATCCT
1 TTAAGGCTCGCTGT-CTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCT
47154984 GTTACCCTACTGCTTAGGGGG
65 GTTACCCTACTGCTTAGGGGG
* * * *
47155005 TTAAGGCTCGTTGTCTTTGATCTCCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCCATCCT
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCCT
*
47155070 ATTACCCTACTGCTTAGGGGG
65 GTTACCCTACTGCTTAGGGGG
* ** * * *
47155091 TTAAGGCTCACCATCTTCGATCTGCTGCACTACTATTTAGGGATAAAATCTGTATTTTCTAGCCT
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTC-AGCCT
47155156 GTTACCCTACTGCTTA-GGGG
65 GTTACCCTACTGCTTAGGGGG
* *
47155176 TTAAGGCTCGCTATCTTTGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCCAGCCT
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCCT
*
47155241 GTTACCTTACTGCTTAGGGGG
65 GTTACCCTACTGCTTAGGGGG
* * * *
47155262 TTAAGGCTTGCTGTCTTCGATCTACTCCACTACTGTTTAGGGATAAGATCTGTATTTCCAGCCTA
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTG
47155327 TTACCCTACTGCTTA-GGGG
66 TTACCCTACTGCTTAGGGGG
* * *
47155346 TTAAGGCTCGCTGTCTTCGATATGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGCCTG
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTG
47155411 TTACCCTACTGCTTAGGGGG
66 TTACCCTACTGCTTAGGGGG
* * * * *
47155431 TTAAGGCTCGCTGTCTTCGATCTGTTTCACTACTGTTTAGGGATAAGATCTATATTTTTAGCCTA
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTG
*
47155496 TTACCTTACTGCTTAGGGGG
66 TTACCCTACTGCTTAGGGGG
47155516 TTAAGGCT
1 TTAAGGCT
47155524 TGTATCTTTA
Statistics
Matches: 543, Mismatches: 52, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
83 13 0.02
84 96 0.18
85 280 0.52
86 154 0.28
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (85 bp):
TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTG
TTACCCTACTGCTTAGGGGG
Found at i:47155132 original size:171 final size:169
Alignment explanation
Indices: 47154835--47155523 Score: 943
Period size: 171 Copynumber: 4.0 Consensus size: 169
47154825 TACCCTACTA
* * * * **
47154835 TTAAGGCTCACTGTCCTCGATCTGCTCCACTTCTGCTTAGGGAGATAAGATCTGTA-ACTCAGCC
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTA-GG-GATAAGATCTGTATTTTCAGCC
* *
47154899 TGTTACCCT-CTACTTAGGGGGTTAAGGCTCACTATCCTT-GATCTGATCCACTACTGTTTAGGG
64 TGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTAT-CTTCGATCTGCTCCACTACTGTTTAGGG
* *
47154962 ATAAGATCTGTATTTTCATCCTGTTACCCTACTGCTTAGGGGG
128 ATAAGATCTGTATTTTCAGCCTATTACCCTACTGCTTA-GGGG
* * * *
47155005 TTAAGGCTCGTTGTCTTTGATCTCCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCCATCCT
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCCT
* * * *
47155070 ATTACCCTACTGCTTAGGGGGTTAAGGCTCACCATCTTCGATCTGCTGCACTACTATTTAGGGAT
65 GTTACCCTACTGCTTAGGGGGTTAAGGCTCACTATCTTCGATCTGCTCCACTACTGTTTAGGGAT
* *
47155135 AAAATCTGTATTTTCTAGCCTGTTACCCTACTGCTTAGGGG
130 AAGATCTGTATTTTC-AGCCTATTACCCTACTGCTTAGGGG
* *
47155176 TTAAGGCTCGCTATCTTTGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCCAGCCT
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTT-CAGCCT
* ** * *
47155241 GTTACCTTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTACTCCACTACTGTTTAGGGAT
65 GTTACCCTACTGCTTAGGGGGTTAAGGCTCACTATCTTCGATCTGCTCCACTACTGTTTAGGGAT
*
47155306 AAGATCTGTATTTCCAGCCTATTACCCTACTGCTTAGGGG
130 AAGATCTGTATTTTCAGCCTATTACCCTACTGCTTAGGGG
* * *
47155346 TTAAGGCTCGCTGTCTTCGATATGTTCCACTACTGTTTAGGGATAAGATCTGTATTTTTAGCCTG
1 TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTG
* * * *
47155411 TTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTCGATCTGTTTCACTACTGTTTAGGGATA
66 TTACCCTACTGCTTAGGGGGTTAAGGCTCACTATCTTCGATCTGCTCCACTACTGTTTAGGGATA
* * *
47155476 AGATCTATATTTTTAGCCTATTACCTTACTGCTTAGGGGG
131 AGATCTGTATTTTCAGCCTATTACCCTACTGCTTA-GGGG
47155516 TTAAGGCT
1 TTAAGGCT
47155524 TGTATCTTTA
Statistics
Matches: 465, Mismatches: 48, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
168 13 0.03
169 100 0.22
170 137 0.29
171 195 0.42
172 20 0.04
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (169 bp):
TTAAGGCTCGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGATAAGATCTGTATTTTCAGCCTG
TTACCCTACTGCTTAGGGGGTTAAGGCTCACTATCTTCGATCTGCTCCACTACTGTTTAGGGATA
AGATCTGTATTTTCAGCCTATTACCCTACTGCTTAGGGG
Found at i:47155471 original size:44 final size:43
Alignment explanation
Indices: 47154982--47155472 Score: 152
Period size: 42 Copynumber: 11.5 Consensus size: 43
47154972 TATTTTCATC
* * *
47154982 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTTGTCTTTGAT
1 CTGTTACACTACTGCTTA-GGGGTTAAGGCTCGCTGTCTTCGAT
** * * * * * * *
47155026 CTCCTCCACTACTGTTTA-GGGATAA-GATCTG-TATTTTCCAT
1 CTGTTACACTACTGCTTAGGGGTTAAGGCTC-GCTGTCTTCGAT
* * * **
47155067 CCTATTACCCTACTGCTTAGGGGGTTAAGGCTCACCATCTTCGAT
1 -CTGTTACACTACTGCTTA-GGGGTTAAGGCTCGCTGTCTTCGAT
* * ** * * ** * * * *
47155112 CTGCTGCACTACTATTTAGGGATAAAATCT-G-TATTTTCTAGC
1 CTGTTACACTACTGCTTAGGGGTTAAGGCTCGCTGTCTTCGA-T
* * *
47155154 CTGTTACCCTACTGCTTAGGGGTTAAGGCTCGCTATCTTTGAT
1 CTGTTACACTACTGCTTAGGGGTTAAGGCTCGCTGTCTTCGAT
* * * * * * * * *
47155197 CTGCTCCACTACTGTTTA-GGGATAA-GATCTG-TATTTTCCAGC
1 CTGTTACACTACTGCTTAGGGGTTAAGGCTC-GCTGTCTTCGA-T
*
47155239 CTGTTAC-CTTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGAT
1 CTGTTACAC-TACTGCTTA-GGGGTTAAGGCTCGCTGTCTTCGAT
** * * * * * * *
47155283 CTACTCCACTACTGTTTA-GGGATAA-GAT--CTGTATTTCCAGC
1 CTGTTACACTACTGCTTAGGGGTTAAGGCTCGCTGT-CTTCGA-T
* *
47155324 CTATTACCCTACTGCTTAGGGGTTAAGGCTCGCTGTCTTCGAT
1 CTGTTACACTACTGCTTAGGGGTTAAGGCTCGCTGTCTTCGAT
* * * * * * ** *
47155367 ATGTTCCACTACTGTTTA-GGGATAA-GAT--CTGTATTTTTAGC
1 CTGTTACACTACTGCTTAGGGGTTAAGGCTCGCTGT-CTTCGA-T
*
47155408 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTCGAT
1 CTGTTACACTACTGCTTA-GGGGTTAAGGCTCGCTGTCTTCGAT
* *
47155452 CTGTTTCACTACTGTTTAGGG
1 CTGTTACACTACTGCTTAGGG
47155473 ATAAGATCTA
Statistics
Matches: 305, Mismatches: 112, Indels: 61
0.64 0.23 0.13
Matches are distributed among these distances:
39 8 0.03
40 7 0.02
41 57 0.19
42 79 0.26
43 47 0.15
44 77 0.25
45 26 0.09
46 4 0.01
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (43 bp):
CTGTTACACTACTGCTTAGGGGTTAAGGCTCGCTGTCTTCGAT
Found at i:47155875 original size:64 final size:65
Alignment explanation
Indices: 47155770--47155898 Score: 199
Period size: 64 Copynumber: 2.0 Consensus size: 65
47155760 TCATGTATTT
*
47155770 ATGCTTATGCCCAAATAACTAGGATGCTATGATCAAGATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCCAAATAACTAGGATGCTATGATCAAGATGAATCAAATGCCCCTAACTAGATGTG
* * *
47155835 ATGCTTATG-TCAAATAATTAGGATGCTATGATCGAA-ATGAATCATATGCCCCTAACTAGATGT
1 ATGCTTATGCCCAAATAACTAGGATGCTATGATC-AAGATGAATCAAATGCCCCTAACTAGATGT
47155898 G
65 G
47155899 TTATTATATG
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
64 48 0.81
65 11 0.19
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (65 bp):
ATGCTTATGCCCAAATAACTAGGATGCTATGATCAAGATGAATCAAATGCCCCTAACTAGATGTG
Found at i:47159624 original size:124 final size:125
Alignment explanation
Indices: 47159404--47159633 Score: 293
Period size: 124 Copynumber: 1.8 Consensus size: 125
47159394 AAAACCTCTC
*
47159404 AAAATAAGGAAATATTTTGTGTTTGGAAATTCAAGAAATCGTGCCCTACCGTGCTGGGTTTCGAT
1 AAAATAAGGAAATATTTTGTGTTTGGAAATTCAAGAAATCGTGCCCAACCGTGCTGGGTTTCGAT
** * **
47159469 TTTTCATTCAACTGAATAGCTGAATAAC-TTTTGAAATTTCGTCCATGTTTTCTTAAATT
66 TACTCATTCAACAGAATAGCCAAATAACTTTTTGAAATTTCGTCCATGTTTTCTTAAATT
* * * * *
47159528 AAAATGAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGTCCAATCGTGCTGGGTTTCGAC
1 AAAATAAGGAAATATTTTGTGTTTGGAAATTCAAGAAATCGTGCCCAACCGTGCTGGGTTTCGA-
** * * *
47159593 TTACTGTTTGACCAG-ATAGCCAAATATCTTTTTGAAATTTC
65 TTACTCATTCAACAGAATAGCCAAATAACTTTTTGAAATTTC
47159634 AAATGCATGA
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
124 68 0.77
125 20 0.23
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (125 bp):
AAAATAAGGAAATATTTTGTGTTTGGAAATTCAAGAAATCGTGCCCAACCGTGCTGGGTTTCGAT
TACTCATTCAACAGAATAGCCAAATAACTTTTTGAAATTTCGTCCATGTTTTCTTAAATT
Found at i:47161942 original size:20 final size:20
Alignment explanation
Indices: 47161917--47161957 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
47161907 GAGTTATTCG
47161917 TTTAAATTCAAAGATTCATC
1 TTTAAATTCAAAGATTCATC
47161937 TTTAAATTCAAAGATTCATC
1 TTTAAATTCAAAGATTCATC
47161957 T
1 T
47161958 AAAGATGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTAAATTCAAAGATTCATC
Found at i:47161999 original size:19 final size:19
Alignment explanation
Indices: 47161975--47162014 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47161965 GAAGAATTTG
47161975 AAAAAA-AAAATAAAGTCAA
1 AAAAAATAAAAT-AAGTCAA
*
47161994 AAAAAATAAAATTAGTCAA
1 AAAAAATAAAATAAGTCAA
47162013 AA
1 AA
47162015 GTTTAAGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAAAATAAAATAAGTCAA
Found at i:47166259 original size:47 final size:47
Alignment explanation
Indices: 47166073--47166528 Score: 750
Period size: 47 Copynumber: 9.6 Consensus size: 47
47166063 TATTTGAATA
47166073 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
47166122 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
47166171 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
47166220 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
47166267 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
47166314 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
47166361 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
47166408 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
47166455 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
47166502 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
47166529 TCCCGAAGGG
Statistics
Matches: 393, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
47 283 0.72
49 110 0.28
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:47174631 original size:14 final size:14
Alignment explanation
Indices: 47174612--47174643 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
47174602 TGTAAAAGAG
47174612 CAACTAAAGGAATT
1 CAACTAAAGGAATT
47174626 CAACTAAAGGAATT
1 CAACTAAAGGAATT
47174640 CAAC
1 CAAC
47174644 AAGATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (14 bp):
CAACTAAAGGAATT
Found at i:47179897 original size:27 final size:27
Alignment explanation
Indices: 47179867--47180044 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
47179857 ATATTGAGCC
* * *
47179867 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* *
47179894 CGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
47179921 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
47179949 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
47179976 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
47180003 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
*
47180030 CGTACACTTAGTGCT
1 CGCACACTTAGTGCT
47180045 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:47179960 original size:55 final size:55
Alignment explanation
Indices: 47179867--47180044 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
47179857 ATATTGAGCC
* *
47179867 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
47179921 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
47179976 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
*
47180030 CGTACACTTAGTGCT
1 CGCACACTTAGTGCT
47180045 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 55 0.53
55 46 0.44
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:47179980 original size:82 final size:81
Alignment explanation
Indices: 47179888--47180043 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
47179878 TGCTATACAA
* *
47179888 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGC
47179952 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * ** * *
47179970 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGTAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
47180035 ACTTAGTGC
66 ACTTAGTGC
47180044 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 19 0.29
82 46 0.71
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47182452 original size:27 final size:26
Alignment explanation
Indices: 47182422--47182523 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 26
47182412 CGTAATCAAA
*
47182422 TCGCACACTTAGTGCTACATATTAGAC
1 TCGCACACTTAGTGCTACATATTA-AT
** * *
47182449 TCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCTACAT-ATTAAT
*
47182476 TCGCACACTTAGTGC-ATCATATTCATT
1 TCGCACACTTAGTGCTA-CATATT-AAT
*
47182503 TCGCACACTTAGTGCAACATA
1 TCGCACACTTAGTGCTACATA
47182524 GTCGAATCGA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
26 1 0.02
27 58 0.94
28 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (26 bp):
TCGCACACTTAGTGCTACATATTAAT
Found at i:47186073 original size:40 final size:40
Alignment explanation
Indices: 47186006--47186170 Score: 201
Period size: 40 Copynumber: 4.2 Consensus size: 40
47185996 GGACTAAGAT
* * * *
47186006 CCGAGGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGTC
* * *
47186046 CCGAAGGCATTTATGCTAG-TGATTATATCCAGGCTAAGAT-
1 CCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAG-TC
* *
47186086 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGTC
*
47186126 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGTC
47186165 CCGAAG
1 CCGAAG
47186171 ATACTTGGGT
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
39 15 0.14
40 88 0.83
41 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGTC
Found at i:47186132 original size:80 final size:79
Alignment explanation
Indices: 47185994--47186170 Score: 250
Period size: 80 Copynumber: 2.2 Consensus size: 79
47185984 CGGATGATAA
* * *
47185994 CCGGACTAAGATCCGAGGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGG-CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
47186059 TGCTAG-TGATTATAT
65 TGCGAGTTG-TTATAT
* *
47186074 CCAGGCTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CC-GGCTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
47186139 TGCGAGTTGTTATAT
65 TGCGAGTTGTTATAT
47186154 CCGGCTAA-ATCCCGAAG
1 CCGGCTAAGAT-CCGAAG
47186171 ATACTTGGGT
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
78 2 0.02
79 12 0.14
80 70 0.80
81 4 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGCTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTAT
GCGAGTTGTTATAT
Found at i:47364958 original size:17 final size:18
Alignment explanation
Indices: 47364928--47364963 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
47364918 AAATAATTGA
47364928 TTAATATTGAAAATAAAT
1 TTAATATTGAAAATAAAT
*
47364946 TTAA-ATTGGAAATAAAT
1 TTAATATTGAAAATAAAT
47364963 T
1 T
47364964 CAGAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TTAATATTGAAAATAAAT
Found at i:47365821 original size:15 final size:16
Alignment explanation
Indices: 47365796--47365828 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
47365786 ATTTAATATA
47365796 AAATCAAAAATAAAAT
1 AAATCAAAAATAAAAT
47365812 AAAT-AAAAATAAAAT
1 AAATCAAAAATAAAAT
47365827 AA
1 AA
47365829 GATTTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATCAAAAATAAAAT
Found at i:47368222 original size:47 final size:47
Alignment explanation
Indices: 47368127--47368470 Score: 176
Period size: 47 Copynumber: 7.3 Consensus size: 47
47368117 GACATGTTTA
* * * *
47368127 GGACAT-GCTTCGGCCATATTATGAGAGCCAGTGTAAGACCATTTCTG
1 GGACATGGCATCGG-CATATGATGAGAGCCAATGTAAGACCATGTCTG
* * *
47368174 GGACATGGCATCGGTATCCA-GATGAGGGCTAATGTAAGA-CATGTCTG
1 GGACATGGCATCGGCAT--ATGATGAGAGCCAATGTAAGACCATGTCTG
* * *
47368221 GGACAT-GCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTG
1 GGACATGGCATC-GGCATATGATGAGAGCCAATGTAAGACCATGTCTG
* * * * *
47368268 GGACATGGCATCGGCACAGAGATAAGCGCCAGA-GTAAGA-CATGTTTG
1 GGACATGGCATCGGCATA-TGATGAGAGCCA-ATGTAAGACCATGTCTG
* ** * * * *
47368315 GGACAT-GCATCGGCCTCGACAAAGATAGCCAATGTAAGA-CGTGTTTG
1 GGACATGGCATCGGCAT--ATGATGAGAGCCAATGTAAGACCATGTCTG
* * * * * * *
47368362 GGACA-CGCTTCGGC-TAAGA-GTTGTGCTAGTGTAAGA-CATGTCTG
1 GGACATGGCATCGGCATATGATG-AGAGCCAATGTAAGACCATGTCTG
* * *
47368406 GGACAT-ACATCAGCACGCATAT-ATGAGAGCCAGTGTAAGACCATGTTTG
1 GGACATGGCATC-G---GCATATGATGAGAGCCAATGTAAGACCATGTCTG
*
47368455 GGACATGGAATCGGCA
1 GGACATGGCATCGGCA
47368471 ATTTATCCCA
Statistics
Matches: 225, Mismatches: 49, Indels: 47
0.70 0.15 0.15
Matches are distributed among these distances:
43 1 0.00
44 26 0.12
45 2 0.01
46 33 0.15
47 86 0.38
48 56 0.25
49 18 0.08
50 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GGACATGGCATCGGCATATGATGAGAGCCAATGTAAGACCATGTCTG
Found at i:47368276 original size:94 final size:92
Alignment explanation
Indices: 47368115--47368468 Score: 317
Period size: 94 Copynumber: 3.8 Consensus size: 92
47368105 GCACCAGTGC
* * * * *
47368115 AAGACATGTTTAGGACATGCTTCGGCCATATTATGAGAGCCAGTGTAAGACCATTTCTGGGACAT
1 AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
*
47368180 GGCATCGGTATCCAGATGAGGGCTAATGT
66 GGCATCGGTA--CAGATGAGCGCTAATGT
47368209 AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
1 AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
* * *
47368274 GGCATCGGCACAGAGATAAGCGCCAGA-GT
66 GGCATCGGTAC--AGATGAGCGCTA-ATGT
* * ** * * * * *
47368303 AAGACATGTTTGGGACATGCATCGGCC-TCGACAAAGATAGCCAATGTAAGA-CGTGTTTGGGAC
1 AAGACATGTCTGGGACATGCATCAGCCAT--ATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* * * * *
47368366 A-CGCTTCGGCTA-AGA-GTTGTGCTAGTGT
64 ATGGCATCGG-TACAGATG-AGCGCTAATGT
* *
47368394 AAGACATGTCTGGGACATACATCAGCACGCATA-TATGAGAGCCAGTGTAAGACCATGTTTGGGA
1 AAGACATGTCTGGGACATGCATCAG--C-CATATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
*
47368458 CATGGAATCGG
63 CATGGCATCGG
47368469 CAATTTATCC
Statistics
Matches: 209, Mismatches: 37, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
91 31 0.15
92 16 0.08
93 21 0.10
94 123 0.59
95 18 0.09
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
GGCATCGGTACAGATGAGCGCTAATGT
Found at i:47375912 original size:47 final size:45
Alignment explanation
Indices: 47375757--47376109 Score: 239
Period size: 47 Copynumber: 7.6 Consensus size: 45
47375747 ATTTGTGCGA
* *
47375757 CAGTGCAAGACATGTCTGGGACATGCTTCAGCCACATA-ATGAGAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCAG-C-CATAGATGAGAGC
* ** * *
47375803 CAGTATAAGACCATGTCTGGGACATGGCATC-GGTATCCAGACGAGGGC
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAT--AGATGAGAGC
* * *
47375851 TAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-GATGAGAGC
* * * *
47375897 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGAGATGAGTGC
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CATAGATGAGAGC
* ** * * *
47375945 CAGAGTAAGACATGTCTAAGACATGCATCGGCCTCAACAGA-GATAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ATAGATGAGAGC
* * * * * * *
47375992 CAGTGTAAGACGTGTCTGGGACACGCTTCGGCTA-AGA-GTTGTGC
1 CAGTGTAAGACATGTCTGGGACATGCATCAGCCATAGATG-AGAGC
* * *
47376036 TAGTGTAAGACATGTTTGGGACATGCATCAGCACGCATATATGAGAGC
1 CAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATAGATGAGAGC
47376084 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGA-CATGTCTGGGACATG
47376110 GCATTGGCAA
Statistics
Matches: 238, Mismatches: 50, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 28 0.12
45 3 0.01
46 37 0.16
47 89 0.37
48 59 0.25
49 18 0.08
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
CAGTGTAAGACATGTCTGGGACATGCATCAGCCATAGATGAGAGC
Found at i:47375924 original size:94 final size:91
Alignment explanation
Indices: 47375758--47376113 Score: 355
Period size: 94 Copynumber: 3.8 Consensus size: 91
47375748 TTTGTGCGAC
* * * * *
47375758 AGTGCAAGACATGTCTGGGACATGCTTCAGCCACATAATGAGAGCCAGTATAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
*
47375823 GACATGGCATCGGTATCCAGACGAGGGCT
66 GACATGGCATCGGTA--CAGA-GAGTGCT
* *
47375852 AGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
47375917 GACATGGCATCGGCACAGAGATGAGTGCC
66 GACATGGCATCGGTAC--AGA-GAGTGCT
* ** * ** *
47375946 AGAGTAAGACATGTCTAAGACATGCATCGGCC-TCAACA-GAGATAGCCAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ATTATGAG--AGCCAGTGTAAGACCATGTC
* * *
47376008 TGGGACA-CGCTTCGGCTA-AGAGTTGTGCT
63 TGGGACATGGCATCGG-TACAGAG-AGTGCT
*
47376037 AGTGTAAGACATGTTTGGGACATGCATCAGCACGCATA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATATTATGAGAGCCAGTGTAAGACCATGTC
47376101 TGGGACATGGCAT
63 TGGGACATGGCAT
47376114 TGGCAATTTA
Statistics
Matches: 214, Mismatches: 34, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
90 1 0.00
91 32 0.15
92 14 0.07
93 24 0.11
94 129 0.60
95 14 0.07
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGTACAGAGAGTGCT
Found at i:47384150 original size:40 final size:40
Alignment explanation
Indices: 47384065--47384281 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
47384055 TGGATGATAA
* *
47384065 CCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
47384104 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
47384144 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
47384184 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTTTCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
47384224 CCGGGCTACGTCCTGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
47384264 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
47384282 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 34 0.22
40 124 0.78
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:47392257 original size:40 final size:40
Alignment explanation
Indices: 47392200--47392417 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
47392190 TGGATGATAA
* * *
47392200 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
47392240 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
47392280 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
47392320 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTTCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
47392360 CCGAGCTACGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
47392400 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
47392418 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.09
40 146 0.91
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:47394598 original size:58 final size:57
Alignment explanation
Indices: 47394463--47394598 Score: 148
Period size: 57 Copynumber: 2.4 Consensus size: 57
47394453 TTTACAGCAG
* * * * * * *
47394463 GATTACCAGTCTAGGCTAAATCCTATCCATAGCATATGCTTTAAAGAGCTTAATTTT
1 GATTACCCGTCTGGGCTAAATCCAATCCATAACATAAGCTTTAAAGAGCTTAAATTA
* * * *
47394520 GATTACCCGTCCGGGTTAAATCCAATCTATAACATAAGC-TTAAGAGGGCTTAAATTA
1 GATTACCCGTCTGGGCTAAATCCAATCCATAACATAAGCTTTAA-AGAGCTTAAATTA
47394577 GAATTACCCGTCTGGGCTAAAT
1 G-ATTACCCGTCTGGGCTAAAT
47394599 TCTATTTGCA
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.06
57 42 0.66
58 18 0.28
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (57 bp):
GATTACCCGTCTGGGCTAAATCCAATCCATAACATAAGCTTTAAAGAGCTTAAATTA
Found at i:47401687 original size:31 final size:31
Alignment explanation
Indices: 47401644--47401705 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
47401634 CACCCGAATA
*
47401644 CCCTCTGTAAATGCAACATGTCTAAGGAAAC
1 CCCTCTGCAAATGCAACATGTCTAAGGAAAC
*
47401675 CCCTCTGCAAATGCATCATGTCTAAGGAAAC
1 CCCTCTGCAAATGCAACATGTCTAAGGAAAC
47401706 TAACATCCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (31 bp):
CCCTCTGCAAATGCAACATGTCTAAGGAAAC
Found at i:47417812 original size:57 final size:55
Alignment explanation
Indices: 47417751--47417906 Score: 143
Period size: 56 Copynumber: 2.8 Consensus size: 55
47417741 AAGCTCTCGT
* **
47417751 GAGCATATGTTACAATTAGGATTTAGCCTGGACTGGTAATCCTAATTGAA-CTCTTTA
1 GAGCATATGTTACAA-AAGGATTTAGCCTGGACTGGTAATCCTAA-CAAAGCT-TTTA
* * * * *
47417808 GAGCATCTGTCACAAAAAGGATTTAGCCTAGATTGGTAATCCTGACAAAGCTTTTA
1 GAGCATATGTTAC-AAAAGGATTTAGCCTGGACTGGTAATCCTAACAAAGCTTTTA
** * * *
47417864 GAATATATGTTACAGACAGGATTTAGCCTGGTCTGATAATCCT
1 GAGCATATGTTACA-AAAGGATTTAGCCTGGACTGGTAATCCT
47417907 GTTATATAAT
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
55 1 0.01
56 38 0.48
57 38 0.48
58 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (55 bp):
GAGCATATGTTACAAAAGGATTTAGCCTGGACTGGTAATCCTAACAAAGCTTTTA
Found at i:47420591 original size:8 final size:8
Alignment explanation
Indices: 47420578--47420604 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
47420568 ATATTTTTAC
47420578 AAAATTAT
1 AAAATTAT
47420586 AAAATTAT
1 AAAATTAT
47420594 AAAATTAT
1 AAAATTAT
47420602 AAA
1 AAA
47420605 TTCGAGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAATTAT
Found at i:47422699 original size:27 final size:27
Alignment explanation
Indices: 47422669--47422873 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
47422659 ATATTAAGTC
* * *
47422669 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
47422696 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
47422724 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
** * *
47422751 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
47422778 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
47422805 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
47422832 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
47422859 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47422874 GTACAATTTA
Statistics
Matches: 158, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
27 132 0.84
28 26 0.16
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:47430612 original size:27 final size:27
Alignment explanation
Indices: 47430582--47430785 Score: 257
Period size: 27 Copynumber: 7.6 Consensus size: 27
47430572 ATATTAAGTC
* * * *
47430582 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
47430609 CGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
47430636 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** * *
47430663 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
47430690 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
47430717 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47430744 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47430771 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47430786 GTACAATTTA
Statistics
Matches: 156, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
27 155 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:47435123 original size:11 final size:11
Alignment explanation
Indices: 47435107--47435135 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
47435097 TTTCAACAAC
47435107 TTAACGAATTT
1 TTAACGAATTT
47435118 TTAACGAATTT
1 TTAACGAATTT
47435129 TTAACGA
1 TTAACGA
47435136 GGATCCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (11 bp):
TTAACGAATTT
Found at i:47440803 original size:18 final size:18
Alignment explanation
Indices: 47440780--47440828 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
47440770 TTAATTTTTT
47440780 AAAATTTAAAATTTAAAA
1 AAAATTTAAAATTTAAAA
**
47440798 AAAA-TTATATTTTTAAAA
1 AAAATTTA-AAATTTAAAA
*
47440816 AAAATTAAAAATT
1 AAAATTTAAAATT
47440829 GTTAAAATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
17 3 0.12
18 19 0.79
19 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTTAAAATTTAAAA
Found at i:47450909 original size:26 final size:26
Alignment explanation
Indices: 47450880--47450963 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
47450870 TGGTACAAAT
* *
47450880 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47450906 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47450932 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
47450958 TGATAA
1 TGATAA
47450964 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:47452430 original size:28 final size:27
Alignment explanation
Indices: 47452398--47452462 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
47452388 AAACCCTAAA
* *
47452398 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTATG-ATGCAAAATTACCGTT
*
47452426 ATACCCCTA-GGTGCAAAATTACCGTT
1 ATACCCCTATGATGCAAAATTACCGTT
47452452 ATACCCCTATG
1 ATACCCCTATG
47452463 GTTAATTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 22 0.67
27 2 0.06
28 9 0.27
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (27 bp):
ATACCCCTATGATGCAAAATTACCGTT
Found at i:47452606 original size:27 final size:27
Alignment explanation
Indices: 47452565--47452677 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
47452555 GAGGAAGCGT
**
47452565 TCTGGTGGCAATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
47452592 TCTGATGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
47452619 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
47452647 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
47452673 TCTGG
1 TCTGG
47452678 CAGCCATGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.07
27 52 0.72
28 15 0.21
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:47452670 original size:54 final size:54
Alignment explanation
Indices: 47452563--47452677 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
47452553 TGGAGGAAGC
*
47452563 GTTCTGGTGGCAATGCCACAAATATCTGATCTGATGGCTCTGCCACATATATCT
1 GTTCTGGTGGCAATGCCACAAATATCTGATCTGATGACTCTGCCACATATATCT
** * * * *
47452617 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCAATGCCACAAATATCTG-ATCTGATGACTCTGCCACATATATCT
47452671 GTTCTGG
1 GTTCTGG
47452678 CAGCCATGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
GTTCTGGTGGCAATGCCACAAATATCTGATCTGATGACTCTGCCACATATATCT
Found at i:47452763 original size:19 final size:22
Alignment explanation
Indices: 47452739--47452778 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
47452729 CTCCCCACAC
47452739 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
47452758 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
47452779 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:47462740 original size:47 final size:50
Alignment explanation
Indices: 47462686--47462955 Score: 218
Period size: 47 Copynumber: 5.7 Consensus size: 50
47462676 TGTATGTGCT
*
47462686 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGAAATGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTATGAGATGCC
* * *
47462733 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGA-GAT--G-TGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTATGAGATGCC
* * *
47462777 AGTATAAGACCATGTCTAGGACATGGCATCGG-CACGGATATATGAGA-GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-GAT-TATGAGATGCC
* * * * * * *
47462827 AGTGTAAGACCATGTCTAGGACATGGCGTCAGCCTCAATT-T-CGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTATGAGAT-GCC
*
47462876 AGTGTAAGACCATGTTTGGGACATGGCATC-G--AC--TTGATG-GATGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATT-ATGAGATG--CC
47462923 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
47462956 ATTATACCCT
Statistics
Matches: 180, Mismatches: 24, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
44 13 0.07
45 16 0.09
46 14 0.08
47 67 0.37
48 6 0.03
49 29 0.16
50 33 0.18
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTATGAGATGCC
Found at i:47464666 original size:12 final size:12
Alignment explanation
Indices: 47464649--47464673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47464639 GCTTGGAAAA
47464649 TAGTCTAAGTGT
1 TAGTCTAAGTGT
47464661 TAGTCTAAGTGT
1 TAGTCTAAGTGT
47464673 T
1 T
47464674 GGCCACACGA
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:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (12 bp):
TAGTCTAAGTGT
Found at i:47466837 original size:18 final size:18
Alignment explanation
Indices: 47466816--47466879 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
47466806 TAACATTCAA
*
47466816 TTATTCAGTAGCAATTAG
1 TTATTCAGTAGCAATCAG
* * *
47466834 TTATTTAGTAACAATCAT
1 TTATTCAGTAGCAATCAG
*
47466852 TTGTTCAGTAGCAATCAG
1 TTATTCAGTAGCAATCAG
*
47466870 TCATTCAGTA
1 TTATTCAGTA
47466880 ATGATCAATT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
TTATTCAGTAGCAATCAG
Found at i:47466859 original size:36 final size:36
Alignment explanation
Indices: 47466798--47466915 Score: 128
Period size: 36 Copynumber: 3.3 Consensus size: 36
47466788 TTTATCAGTT
* *
47466798 TCATTTAGTAACATTCAATTATTCAGTAGCAATTAG
1 TCATTTAGTAACAATCAATTATTCAGTAGCAATCAG
* * *
47466834 TTATTTAGTAACAATCATTTGTTCAGTAGCAATCAG
1 TCATTTAGTAACAATCAATTATTCAGTAGCAATCAG
* ** * **
47466870 TCATTCAGTAATGATCAATTATTCAGTAACAGCCAG
1 TCATTTAGTAACAATCAATTATTCAGTAGCAATCAG
*
47466906 TCATTCAGTA
1 TCATTTAGTA
47466916 CTTTTATTTA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (36 bp):
TCATTTAGTAACAATCAATTATTCAGTAGCAATCAG
Found at i:47468969 original size:52 final size:52
Alignment explanation
Indices: 47468891--47468994 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
47468881 AGAAACTGAG
47468891 ACCCGAAAATACACTTTTTCGATAACCATAAAATTCGGGTCGTTACATTTCT
1 ACCCGAAAATACACTTTTTCGATAACCATAAAATTCGGGTCGTTACATTTCT
47468943 ACCCGAAAATACACTTTTTCGATAACCATAAAATTCGGGTCGTTACATTTCT
1 ACCCGAAAATACACTTTTTCGATAACCATAAAATTCGGGTCGTTACATTTCT
47468995 TCCCTAATTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (52 bp):
ACCCGAAAATACACTTTTTCGATAACCATAAAATTCGGGTCGTTACATTTCT
Found at i:47473232 original size:39 final size:39
Alignment explanation
Indices: 47473177--47473277 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
47473167 ATCGTGATCT
* * *
47473177 GAAGCCCGAAGTCTAACTAAAGCAAATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCAAATAAGTGATAAACG
*
47473216 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGATAAACG
1 GAAGCCCGAAGGCTAACTGAAGCAAATAAGTGATAAACG
47473255 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
47473278 TCACCAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCAAATAAGTGATAAACG
Found at i:47478445 original size:28 final size:28
Alignment explanation
Indices: 47478413--47478496 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
47478403 AACTTCGATC
47478413 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
47478441 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
47478463 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
47478491 ACGTGT
1 ACGTGT
47478497 ACCAGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:47478486 original size:50 final size:49
Alignment explanation
Indices: 47478311--47478553 Score: 315
Period size: 49 Copynumber: 4.9 Consensus size: 49
47478301 TATTATGAGT
* * *
47478311 TCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATTATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGG
* * * * *
47478360 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GG
* * **
47478411 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GG
*
47478461 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGG
* * *
47478510 TCGCATGTGTAGTACTAAGTGCAGGCTGCTATGTGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
47478554 GCTTTGGCTA
Statistics
Matches: 168, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 81 0.48
50 49 0.29
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGG
Done.