Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 86 of 250
Found at i:27439618 original size:2 final size:2
Alignment explanation
Indices: 27439577--27439652 Score: 53
Period size: 2 Copynumber: 42.0 Consensus size: 2
27439567 CATTATTATT
* *
27439577 TA TA TA T- TA T- TA T- TA TA T- TA TA TT TT TA T- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
27439613 TA TA TA TA TA TA TA TA TA TA CTC T- TA TA T- TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
27439653 ATTATTTTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 20
0.73 0.04 0.24
Matches are distributed among these distances:
1 9 0.15
2 51 0.84
3 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:27439698 original size:18 final size:19
Alignment explanation
Indices: 27439657--27439699 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
27439647 ATTATAATTA
*
27439657 TTTTATATTATTATGTCAT
1 TTTTATATTATTATGACAT
27439676 TTTTATATTATTAT-ACAT
1 TTTTATATTATTATGACAT
27439694 TTTTAT
1 TTTTAT
27439700 CTATATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATATTATTATGACAT
Found at i:27443053 original size:40 final size:40
Alignment explanation
Indices: 27442959--27443210 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
27442949 TGGATGATAA
* *
27442959 CCGGGCTAAGTCCCGAAGGCA-TT-TGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
27442997 -C-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
27443035 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
27443075 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27443114 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
27443154 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
27443193 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27443211 TACTTGGCTT
Statistics
Matches: 198, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
36 18 0.09
37 4 0.02
38 24 0.12
39 44 0.22
40 108 0.55
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27443120 original size:79 final size:79
Alignment explanation
Indices: 27442959--27443210 Score: 349
Period size: 79 Copynumber: 3.2 Consensus size: 79
27442949 TGGATGATAA
* *
27442959 CCGGGCTAAGTCCCGAAGGCA-TT-TGCTAGTGACTAGT-T-C-GGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCA-TT
27443019 GTGCGAGTTACTATAT
64 GTGCGAGTTACTATAT
27443035 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGT
27443100 GCGAGTTACTATAT
66 GCGAGTTACTATAT
* *
27443114 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT-G
*
27443179 AGCGAG-TAGCTATA-
65 TGCGAGTTA-CTATAT
* *
27443193 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27443211 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 7, Indels: 12
0.90 0.04 0.07
Matches are distributed among these distances:
76 21 0.13
77 3 0.02
78 25 0.15
79 84 0.52
80 29 0.18
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGT
GCGAGTTACTATAT
Found at i:27443167 original size:119 final size:115
Alignment explanation
Indices: 27442958--27443210 Score: 359
Period size: 119 Copynumber: 2.2 Consensus size: 115
27442948 TTGGATGATA
* *
27442958 ACCGGGCTAAGTCCCGAAGGCATTTGCTAGTGACTAGTTCGGCTAAGTCCCGAAGGCATTTGTGC
1 ACCGGGCTAAGTCCCGAAGGCATTTGCGAGTGACTAGTTCGGCTAAGTCCCGAAGGCATTGGTGC
* *
27443023 GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT
66 GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTAT
*
27443073 ATCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATT-TGCGAGTGACTAGT-T-C-GGCTAAGTCCCGAAGGCATT
*
27443137 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTAT
61 GGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTAT
* *
27443192 ACC-GGTTAAATCCCGAAGG
1 ACCGGGCTAAGTCCCGAAGG
27443211 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
115 1 0.01
116 24 0.19
117 25 0.20
118 5 0.04
119 69 0.56
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (115 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGCGAGTGACTAGTTCGGCTAAGTCCCGAAGGCATTGGTGC
GAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTAT
Found at i:27448479 original size:39 final size:40
Alignment explanation
Indices: 27448365--27448548 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
27448355 GCTACTCGTT
*
27448365 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
27448405 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
27448445 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
27448484 CAAATGCCTTC-GGATCTTAGTCC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
27448524 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27448549 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 53 0.42
40 68 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:27448542 original size:79 final size:81
Alignment explanation
Indices: 27448365--27448548 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
27448355 GCTACTCGTT
* *
27448365 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
27448429 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* **
27448446 CAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC-
1 CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
27448507 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
27448524 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
27448549 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 23 0.26
79 53 0.60
80 10 0.11
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCAC
Found at i:27454470 original size:40 final size:39
Alignment explanation
Indices: 27454415--27454672 Score: 349
Period size: 40 Copynumber: 6.5 Consensus size: 39
27454405 TGGATGATAA
* *
27454415 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTA-TAT
27454455 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
27454495 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
27454535 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
27454575 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * * *
27454615 CTGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
* * *
27454654 CCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27454673 TACTTGGCTT
Statistics
Matches: 201, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.08
40 183 0.91
41 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:27456335 original size:15 final size:16
Alignment explanation
Indices: 27456309--27456343 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
27456299 CCTCAAACTT
27456309 TAGAACCAACCTCATA
1 TAGAACCAACCTCATA
27456325 TAGAA-CAACCTCATA
1 TAGAACCAACCTCATA
27456340 TAGA
1 TAGA
27456344 GTTAAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (16 bp):
TAGAACCAACCTCATA
Found at i:27458652 original size:15 final size:15
Alignment explanation
Indices: 27458623--27458665 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
27458613 CTTTTTGTAT
27458623 TCATGCATTTGCATC
1 TCATGCATTTGCATC
27458638 TCATAGCATTT-CATC
1 TCAT-GCATTTGCATC
*
27458653 ACAT-CATTTGCAT
1 TCATGCATTTGCAT
27458666 TCAAAGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.20
14 3 0.12
15 11 0.44
16 6 0.24
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (15 bp):
TCATGCATTTGCATC
Found at i:27467015 original size:205 final size:205
Alignment explanation
Indices: 27466659--27467157 Score: 692
Period size: 205 Copynumber: 2.4 Consensus size: 205
27466649 ACAGGCCACA
** * *
27466659 ACATAGCAGATCTGGCATTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATCATTG
1 ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATCCTTG
* * * * *
27466724 TGCTTACAAGGAACAAATCAAAGACATAGTTGATTTGGCTTTCATGTGTTTACAATGAAGCAAAT
65 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAAC
** * *
27466789 CTAAGATGATTTATCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAAT
130 CTAAGATGATTTAGAATCTCTGTATTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAAT
*
27466854 GGGGAGCAGAT
195 GGAGAGCAGAT
* * *
27466865 ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTAGCATCCTTAT
1 ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * * **
27466930 GCCTACAAGGAGCAAATCGAAGACATGGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAACC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAACC
* * * * **
27466995 TAAGATGATTTGGAATCTCTGTATTATCAGAGAACGAATCGAAGTCTAGCTTCTTCACTTTGATG
131 TAAGATGATTTAGAATCTCTGTATTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATG
27467060 GAGAGCAGAT
196 GAGAGCAGAT
* * * *
27467070 ACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGT
1 ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
*
27467135 GTTTACAAGGAACAAATCGAAGA
66 GCTTACAAGGAACAAATCGAAGA
27467158 AGCAGATTTG
Statistics
Matches: 255, Mismatches: 38, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
205 205 0.80
206 50 0.20
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAACC
TAAGATGATTTAGAATCTCTGTATTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATG
GAGAGCAGAT
Found at i:27468847 original size:30 final size:31
Alignment explanation
Indices: 27468805--27469060 Score: 105
Period size: 30 Copynumber: 8.3 Consensus size: 31
27468795 ATTTTTAACC
27468805 TTATT-TT-TATATTATATATTATATAATTA
1 TTATTATTATATATTATATATTATATAATTA
*
27468834 TT-TTATTATATA-T-TAT-TTATATTATTA
1 TTATTATTATATATTATATATTATATAATTA
**
27468861 TTATTATTTATATATTAT-T-TTCGCA-AATTA
1 TTATTA-TTATATATTATATATT-ATATAATTA
* *
27468891 TTATTATTTTACATTAT-TATT-TATATATTA
1 TTATTATTATATATTATATATTATATA-ATTA
*
27468921 TTA-TATTATATGTT-TATTAATTATATATATTA
1 TTATTATTATATATTATA-T-ATTATATA-ATTA
* * *
27468953 TATATTACTTTTTATATATATACTCTTATATTATATA
1 T-TATTA--TTATATAT-TATA-TATTATATAAT-TA
* * * *
27468990 TTATAATTAT-T-TTATATTATTATGTCATTTT
1 TTATTATTATATATTATA-TATTATAT-AATTA
* *
27469021 TATATTATTATACATT-TTTATCTATAT-ATTA
1 T-TATTATTATATATTATATAT-TATATAATTA
*
27469052 TTATCATTA
1 TTATTATTA
27469061 AAGGTTTTAA
Statistics
Matches: 171, Mismatches: 30, Indels: 51
0.68 0.12 0.20
Matches are distributed among these distances:
27 12 0.07
28 10 0.06
29 31 0.18
30 35 0.20
31 20 0.12
32 23 0.13
33 8 0.05
34 7 0.04
36 12 0.07
37 10 0.06
38 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (31 bp):
TTATTATTATATATTATATATTATATAATTA
Found at i:27468858 original size:19 final size:19
Alignment explanation
Indices: 27468806--27469041 Score: 124
Period size: 19 Copynumber: 12.5 Consensus size: 19
27468796 TTTTTAACCT
27468806 TATT-TTTATATTA-TATA
1 TATTATTTATATTATTATA
* *
27468823 TTATATAATTATTTTATTATA
1 -TAT-TATTTATATTATTATA
27468844 TATTATTTATATTATTAT-
1 TATTATTTATATTATTATA
27468862 TATTATTTATA-TATTAT-
1 TATTATTTATATTATTATA
*** *
27468879 T-TT-CGCAAATTATTAT-
1 TATTATTTATATTATTATA
*
27468895 TATT-TTACATTATTATTTATA
1 TATTATT-TA-TATTA-TTATA
* *
27468916 TATTA-TTATATTATATGTT
1 TATTATTTATATTAT-TATA
*
27468935 TATTAATTATATATATTATA
1 TATTATTTATAT-TATTATA
*
27468955 TATTACTTTTTA-TATATATA
1 TATTA-TTTATATTAT-TATA
*
27468975 CTCTTATATTATA-TATTATA
1 -TATTAT-TTATATTATTATA
*
27468995 -ATTATTTTATATTATTATG
1 TATTA-TTTATATTATTATA
27469014 TCATT-TTTATATTATTATA
1 T-ATTATTTATATTATTATA
*
27469033 CATT-TTTAT
1 TATTATTTAT
27469042 CTATATATTA
Statistics
Matches: 173, Mismatches: 24, Indels: 42
0.72 0.10 0.18
Matches are distributed among these distances:
15 2 0.01
16 9 0.05
17 9 0.05
18 33 0.19
19 53 0.31
20 37 0.21
21 30 0.17
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (19 bp):
TATTATTTATATTATTATA
Found at i:27468959 original size:16 final size:16
Alignment explanation
Indices: 27468817--27469009 Score: 102
Period size: 16 Copynumber: 12.1 Consensus size: 16
27468807 ATTTTTATAT
27468817 TATATATTATATAATTA
1 TATATATTATAT-ATTA
*
27468834 T-TTTATTATATATTA
1 TATATATTATATATTA
*
27468849 TTTATATTAT-TATTA
1 TATATATTATATATTA
27468864 T-TAT-TTATATATTA
1 TATATATTATATATTA
* *
27468878 TTTTCGCAAATTAT-TATTA
1 -TAT---ATATTATATATTA
* *
27468897 TTTTACATTAT-TATT-
1 -TATATATTATATATTA
27468912 TATATATTATTATATTA
1 TATATATTA-TATATTA
*
27468929 TATGT-TTAT-TAATTA
1 TATATATTATAT-ATTA
27468944 TATATATTATATATTA
1 TATATATTATATATTA
* * * *
27468960 CTTTTTATATATATACTC
1 -TATATAT-TATATATTA
27468978 T-TATATTATATATTA
1 TATATATTATATATTA
*
27468993 TA-ATTATTTTATATTA
1 TATA-TATTATATATTA
27469009 T
1 T
27469010 TATGTCATTT
Statistics
Matches: 142, Mismatches: 16, Indels: 37
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.03
14 16 0.11
15 31 0.22
16 58 0.41
17 12 0.08
18 7 0.05
19 10 0.07
20 4 0.03
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (16 bp):
TATATATTATATATTA
Found at i:27468993 original size:102 final size:102
Alignment explanation
Indices: 27468805--27469053 Score: 237
Period size: 102 Copynumber: 2.5 Consensus size: 102
27468795 ATTTTTAACC
* * *
27468805 TTATTTTTATATTATATATTATATAATTATTTTATTATATATTATTTATATTATTATTATTATTT
1 TTATTTATATATTATATATTATATAATTATTTAATTATATATTATTTATATTATTATTATTATAT
* * *
27468870 ATATATTATTTTCGCAAATTATTATTATTTTACATTA
66 ATATATTATATTCACAAATTATAATTATTTTACATTA
** *
27468907 TTATTTATATATTATTATATTATATGTTTA-TTAATTATATA-TATTATATATTACTTTTTA-TA
1 TTATTTATATATTA-TATATTATATAATTATTTAATTATATATTATT-TATATTA-TTATTATTA
* * * *
27468969 TATATACTCTTATATT-ATATATTATAATTATTTTATATTA
63 TATATA-TATTATATTCACAAATTATAATTATTTTACATTA
*
27469009 TTATGTCAT-T-TT-TATATTATTATACATT-TTT-ATCTATATATTATT
1 TTAT-TTATATATTATATATTA-TATA-ATTATTTAAT-TATATATTATT
27469054 ATCATTAAAG
Statistics
Matches: 121, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
99 7 0.06
100 5 0.04
101 16 0.13
102 65 0.54
103 28 0.23
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (102 bp):
TTATTTATATATTATATATTATATAATTATTTAATTATATATTATTTATATTATTATTATTATAT
ATATATTATATTCACAAATTATAATTATTTTACATTA
Found at i:27472587 original size:47 final size:47
Alignment explanation
Indices: 27472535--27473085 Score: 886
Period size: 47 Copynumber: 11.6 Consensus size: 47
27472525 GATAATTGTG
* *
27472535 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27472582 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27472631 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
27472678 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27472725 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27472772 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27472821 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27472868 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27472915 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27472964 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
27473013 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27473060 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
27473086 TCCCGAAGGG
Statistics
Matches: 474, Mismatches: 24, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 284 0.60
49 190 0.40
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:27472637 original size:96 final size:96
Alignment explanation
Indices: 27472535--27473085 Score: 907
Period size: 96 Copynumber: 5.8 Consensus size: 96
27472525 GATAATTGTG
* *
27472535 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27472600 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
27472631 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
27472694 ATGTGACAGGGCCGAGTGGCCAATGTGATGG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
27472725 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27472790 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
27472821 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27472884 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
27472915 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
27472980 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
27473013 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27473076 ATGTGATAAG
66 ATGTGATAAG
27473086 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 21, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
94 145 0.34
95 1 0.00
96 235 0.55
98 47 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:27472683 original size:143 final size:142
Alignment explanation
Indices: 27472535--27473085 Score: 881
Period size: 143 Copynumber: 3.9 Consensus size: 142
27472525 GATAATTGTG
*
27472535 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
27472600 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAAT
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAAT
27472664 GGCCGATGTGATGA
129 GGCCGATGTGATGA
* * * * * * *
27472678 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27472743 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATG
27472808 GCCGATGTGATGA
130 GCCGATGTGATGA
*
27472821 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27472886 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATG
27472951 GCCGATGTGATGA
130 GCCGATGTGATGA
27472964 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAA--GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * * *
27473029 ATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG-TATAAATGTGATAAG
64 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAG
27473086 TCCCGAAGGG
Statistics
Matches: 381, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
141 47 0.12
143 245 0.64
145 89 0.23
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (142 bp):
ATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGG
CCGATGTGATGA
Found at i:27475606 original size:82 final size:80
Alignment explanation
Indices: 27475513--27475672 Score: 184
Period size: 82 Copynumber: 2.0 Consensus size: 80
27475503 CATTTTACCA
*
27475513 AAAACCCGCTAAAAAC-AGAGCAATAGCGGCG-TTTTAGTAAAAAAACGCCGCTAAA-A-ATAGA
1 AAAACCCGCTAAAAACTAGAGCAATAGCGGCGCTTTCAGT---AAAACGCCGCTAAAGACATAG-
27475574 ACATTAGCGGCGCTTTCGGT
62 -CATTAGCGGCGCTTTCGGT
* * * *
27475594 AAAACGCCGCTAAAGACTATAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAGACCATAGCA
1 AAAAC-CCGCTAAAAACTAGAGCAATAGCGGCGCTTTCAGTAAAACGCCGCTAAAGA-CATAGCA
27475659 TTAGCGGCGCTTTC
64 TTAGCGGCGCTTTC
27475673 AGAAAAGCGA
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
81 19 0.28
82 27 0.40
83 13 0.19
84 9 0.13
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (80 bp):
AAAACCCGCTAAAAACTAGAGCAATAGCGGCGCTTTCAGTAAAACGCCGCTAAAGACATAGCATT
AGCGGCGCTTTCGGT
Found at i:27475629 original size:41 final size:41
Alignment explanation
Indices: 27475554--27475672 Score: 195
Period size: 41 Copynumber: 2.9 Consensus size: 41
27475544 TTTTAGTAAA
* * *
27475554 AAAACGCCGCTAAA-AATAGAACATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAGACTATAGCATTAGCGGCGCTTTCGGT
27475594 AAAACGCCGCTAAAGACTATAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAGACTATAGCATTAGCGGCGCTTTCGGT
*
27475635 AAAACGCCGCTAAAGACCATAGCATTAGCGGCGCTTTC
1 AAAACGCCGCTAAAGACTATAGCATTAGCGGCGCTTTC
27475673 AGAAAAGCGA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 14 0.19
41 60 0.81
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAGACTATAGCATTAGCGGCGCTTTCGGT
Found at i:27477037 original size:80 final size:81
Alignment explanation
Indices: 27476867--27477056 Score: 242
Period size: 80 Copynumber: 2.3 Consensus size: 81
27476857 AGAGATTAGT
27476867 GGCGTTTATTTAAAAAACGCCG-AAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTG
1 GGCGTTT-TTTAAAAAA-GCCGCAAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTG
*
27476931 GATATTTAGGAGAGTAGC
64 GATATTTAGGAGAGTACC
* * *
27476949 AGCATTTTTTGAAAAAAGCCGCAAAAAA-A-AGCAGTTTAACGAAAACGGCGTCGTTTTTATTGG
1 GGCGTTTTTT-AAAAAAGCCGCAAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTGG
* *
27477012 ATTTTTAGGGGAGTACC
65 ATATTTAGGAGAGTACC
* *
27477029 GGCGTTTTTTTCAAAAACGCCACAAAAA
1 GGCG-TTTTTT-AAAAAAGCCGCAAAAA
27477057 GCAAAAAAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
80 49 0.52
81 28 0.30
82 17 0.18
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (81 bp):
GGCGTTTTTTAAAAAAGCCGCAAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTGGA
TATTTAGGAGAGTACC
Found at i:27481851 original size:183 final size:183
Alignment explanation
Indices: 27481543--27481873 Score: 635
Period size: 183 Copynumber: 1.8 Consensus size: 183
27481533 AGATTCAGCA
27481543 TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTAAAGCTGCCATTTAATATTCGA
1 TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTAAAGCTGCCATTTAATATTCGA
27481608 ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
66 ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
*
27481673 TACTCTTATAATCTTACAGGTGTCTGTATTAGTGAATTAATGTTGTATGTATT
131 TAATCTTATAATCTTACAGGTGTCTGTATTAGTGAATTAATGTTGTATGTATT
* *
27481726 TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTGAAGCTGCCATTTAATCTTCGA
1 TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTAAAGCTGCCATTTAATATTCGA
27481791 ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
66 ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
27481856 TAATCTTATAATCTTACA
131 TAATCTTATAATCTTACA
27481874 TCTGTTCTAG
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 145 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (183 bp):
TCAGTTACTGCTTCCTGCTCCTCCTGCAACTATTGGTTCAACTAAAGCTGCCATTTAATATTCGA
ATTAATATTTGGTACTGATATAGATAAAGTTTTTATATTTGCTTAAACTGAAATATATTTGGTGC
TAATCTTATAATCTTACAGGTGTCTGTATTAGTGAATTAATGTTGTATGTATT
Found at i:27482513 original size:241 final size:241
Alignment explanation
Indices: 27482086--27482572 Score: 834
Period size: 241 Copynumber: 2.0 Consensus size: 241
27482076 ATGAATTAAT
27482086 TTTATTACCATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
**
27482151 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACGAGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGACTGGAAACCTGACGAGTTGCCTTATATCGAG
*
27482216 CTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAACAAATTC
131 CTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAAAAAATTC
*
27482281 AAAAAGACTT-GAAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAAGACTTAG-AAAAAGTTCTATCGATCTCATTTACTATTAAATA
* * *
27482327 TTTATTATCATGTAGCTTGCTTGT-TCATTAAAATTACAACAATAGTTGACCTTCTCTCCAATCT
1 TTTATTACCATGTAGCTTGCTTGTCT-ATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCT
* *
27482391 TATTTTAAATATTTTAAAGATTCAAAGTATATAGACTGGAAACCTGACGGGTTGTCTTATATCGA
65 TATTTTAAATATTTTAAAGATTCAAAGTATATAGACTGGAAACCTGACGAGTTGCCTTATATCGA
* * *
27482456 GCTGTAAGATATAATGGATCCTCCTTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
130 GCTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAAAAAATT
27482521 CAAAAAGACTTAGAAAAAGTTCTATCGATCTCATTTACTATTAAATA
195 CAAAAAGACTTAGAAAAAGTTCTATCGATCTCATTTACTATTAAATA
27482568 TTTAT
1 TTTAT
27482573 ATAACATTAA
Statistics
Matches: 232, Mismatches: 12, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
240 1 0.00
241 230 0.99
242 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGACTGGAAACCTGACGAGTTGCCTTATATCGAG
CTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAAAAAATTC
AAAAAGACTTAGAAAAAGTTCTATCGATCTCATTTACTATTAAATA
Found at i:27482775 original size:9 final size:9
Alignment explanation
Indices: 27482758--27482840 Score: 87
Period size: 9 Copynumber: 9.0 Consensus size: 9
27482748 CATTATTTAA
*
27482758 ATAAATTAC
1 ATAACTTAC
27482767 ATAACTTAC
1 ATAACTTAC
* *
27482776 ATAACTCAT
1 ATAACTTAC
27482785 ATAACTTAC
1 ATAACTTAC
*
27482794 ATAATTTAC
1 ATAACTTAC
27482803 ATAACAACTTAC
1 AT---AACTTAC
*
27482815 ATAACTCAC
1 ATAACTTAC
27482824 ATAACTTAC
1 ATAACTTAC
27482833 ATAA-TTAC
1 ATAACTTAC
27482841 TGTAACACCC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
8 4 0.06
9 50 0.81
12 8 0.13
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:27482813 original size:21 final size:21
Alignment explanation
Indices: 27482769--27482828 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
27482759 TAAATTACAT
*
27482769 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
27482787 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
27482808 AACTTACATAACTCACATAAC
1 AACTTACATAACTCACATAAC
27482829 TTACATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.34
20 3 0.09
21 20 0.57
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:27483820 original size:81 final size:81
Alignment explanation
Indices: 27483683--27483922 Score: 286
Period size: 81 Copynumber: 3.0 Consensus size: 81
27483673 TTAGTTTACC
* * * *
27483683 AAATTACCAAAATACCCCTGGTTTGTAAATTTA-CTAAAATACCCTTTGTTTATAAAATTACCAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTATC-AAAATACCCTTAGTTTGTAAAATTACCAA
*
27483747 AATATCCCTGGTTTGTA
65 AATATCCCTGATTTGTA
*
27483764 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAA
* *
27483829 ATATCCTTGATTTGTG
66 ATATCCCTGATTTGTA
* * *** ** **
27483845 AAATTACTAAAATACCCTCGACCTGTAAAATTATTGAAATACCCTTAACTTGTAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAA
*
27483910 GTA-CCCTTGATTT
66 ATATCCC-TGATTT
27483923 ACAGAATTAC
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
80 2 0.01
81 134 0.98
82 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAAA
ATATCCCTGATTTGTA
Found at i:27483875 original size:27 final size:27
Alignment explanation
Indices: 27483683--27483922 Score: 243
Period size: 27 Copynumber: 8.9 Consensus size: 27
27483673 TTAGTTTACC
* *
27483683 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
27483710 AATTTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TTGATTTGTA
*
27483737 AAATTACCAAAATATCCC-TGGTTTGTA
1 AAATTACCAAAATA-CCCTTGATTTGTA
*
27483764 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
27483791 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* *
27483818 AAATTACCAAAATATCCTTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
* * **
27483845 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*** * *
27483872 AAATTATTGAAATACCCTTAACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*
27483899 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTTGATTT
27483923 ACAGAATTAC
Statistics
Matches: 176, Mismatches: 31, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
26 5 0.03
27 165 0.94
28 6 0.03
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:27483993 original size:27 final size:27
Alignment explanation
Indices: 27483962--27484537 Score: 617
Period size: 27 Copynumber: 21.0 Consensus size: 27
27483952 AAAAAAATAC
* *
27483962 CGAAATACCCCTATAGAGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAT
* *
27483989 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAT
27484016 CGGAAA-ACCCCTGTAGGGTAGAATTAT
1 C-GAAATACCCCTGTAGGGTAGAATTAT
27484043 CGAAATACCCCTGTAGGGTAGAATTA-
1 CGAAATACCCCTGTAGGGTAGAATTAT
**
27484069 CTGAAATACCCCTGTAGAATAGAATTAT
1 C-GAAATACCCCTGTAGGGTAGAATTAT
* *
27484097 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAT
* *
27484124 CGAAATACCCCTGTAGAGTAGAACAGGGTAAAATT
1 CGAAATACCCCTGTAGGGTAG-A-A---T--TA-T
* *
27484159 ACCGAAATACCCCTATAGGGTAGAATTAT
1 -CG-AAATACCCCTGTAGGGTAGAATTAT
*
27484188 CGAAATACCCTTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAT
27484215 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAT
* *
27484242 CGAAATATCCCTGTAGGGTAAAATTA-
1 CGAAATACCCCTGTAGGGTAGAATTAT
** *
27484268 CTGAAATACCCCTGTAGAATAGAATTAC
1 C-GAAATACCCCTGTAGGGTAGAATTAT
* *
27484296 CGAAATACTCTTGTAGGGTAGAATTA-
1 CGAAATACCCCTGTAGGGTAGAATTAT
*
27484322 CAGAAATACCCCTGTAGGGTAGAGTTA-
1 C-GAAATACCCCTGTAGGGTAGAATTAT
*
27484349 CTGAAATACCCCTGTAGGGTAAAATTA-
1 C-GAAATACCCCTGTAGGGTAGAATTAT
* * *
27484376 CTAAAATACCCCTATATGGTAGAATTAT
1 C-GAAATACCCCTGTAGGGTAGAATTAT
* * * * *
27484404 CTATATACGCTTGTAGGGTAGAAATAT
1 CGAAATACCCCTGTAGGGTAGAATTAT
27484431 CGAAATACCCCTGTAGGGTAGAATTA-
1 CGAAATACCCCTGTAGGGTAGAATTAT
*
27484457 CTGAAATACCCCTGTAGGGTAGAATTAC
1 C-GAAATACCCCTGTAGGGTAGAATTAT
* *
27484485 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAT
* * * *
27484512 CGAGATACCCTTGTGGGGTAAAATTA
1 CGAAATACCCCTGTAGGGTAGAATTA
27484538 CCATTTTGCC
Statistics
Matches: 469, Mismatches: 60, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
26 8 0.02
27 425 0.91
28 10 0.02
29 2 0.00
30 1 0.00
32 2 0.00
34 1 0.00
35 1 0.00
36 2 0.00
37 17 0.04
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAT
Found at i:27484161 original size:37 final size:37
Alignment explanation
Indices: 27484111--27484183 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
27484101 ATACCCTTGT
* *
27484111 AGGGTAGAATTACCGAAATACCCCTGTAGAGTAGAAC
1 AGGGTAAAATTACCGAAATACCCCTATAGAGTAGAAC
*
27484148 AGGGTAAAATTACCGAAATACCCCTATAGGGTAGAA
1 AGGGTAAAATTACCGAAATACCCCTATAGAGTAGAA
27484184 TTATCGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (37 bp):
AGGGTAAAATTACCGAAATACCCCTATAGAGTAGAAC
Found at i:27484212 original size:91 final size:91
Alignment explanation
Indices: 27484057--27484237 Score: 299
Period size: 91 Copynumber: 2.0 Consensus size: 91
27484047 ATACCCCTGT
* * *
27484057 AGGGTAGAATTACTGAAATACCCCTGTAGAATAGAATTATCGAAATACCCTTGTAGGGTAGAATT
1 AGGGTAAAATTACCGAAATACCCCTATAGAATAGAATTATCGAAATACCCTTGTAGGGTAGAATT
27484122 ACCGAAATACCCCTGTAGAGTAGAAC
66 ACCGAAATACCCCTGTAGAGTAGAAC
**
27484148 AGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATT
1 AGGGTAAAATTACCGAAATACCCCTATAGAATAGAATTATCGAAATACCCTTGTAGGGTAGAATT
* *
27484213 ATCGAAATACCCCTGTAGGGTAGAA
66 ACCGAAATACCCCTGTAGAGTAGAA
27484238 TTATCGAAAT
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (91 bp):
AGGGTAAAATTACCGAAATACCCCTATAGAATAGAATTATCGAAATACCCTTGTAGGGTAGAATT
ACCGAAATACCCCTGTAGAGTAGAAC
Found at i:27484920 original size:22 final size:22
Alignment explanation
Indices: 27484887--27484945 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
27484877 CACGTTATTG
27484887 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
27484909 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
27484931 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
27484946 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:27485167 original size:25 final size:27
Alignment explanation
Indices: 27485107--27485167 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 27
27485097 TCTGTTAAGT
*
27485107 GGCTTTGCCACATTATCTGATTCTGGT
1 GGCTTTGCCACATTATCTGATTCTGGA
* *
27485134 GGCTATGCCACA-TATCT-ATTTTGGA
1 GGCTTTGCCACATTATCTGATTCTGGA
27485159 GGCTTTGCC
1 GGCTTTGCC
27485168 TCAACTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 14 0.47
26 5 0.17
27 11 0.37
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
GGCTTTGCCACATTATCTGATTCTGGA
Found at i:27485341 original size:25 final size:25
Alignment explanation
Indices: 27485313--27485377 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
27485303 CATTCACATT
* *
27485313 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTGATA
*
27485338 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTGTCACCTGATA
*
27485363 TTGATTCTGATTCTG
1 CTGATTCTGATTCTG
27485378 ATTCTAGTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTGATA
Found at i:27485349 original size:6 final size:6
Alignment explanation
Indices: 27485310--27485391 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
27485300 TTGCATTCAC
* * *
27485310 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
27485360 ATTTTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
27485392 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 47 0.78
7 7 0.12
8 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:27486060 original size:9 final size:9
Alignment explanation
Indices: 27486043--27486114 Score: 81
Period size: 9 Copynumber: 7.7 Consensus size: 9
27486033 ATTACATAAC
27486043 AACTTACAT
1 AACTTACAT
*
27486052 AACTCACAT
1 AACTTACAT
27486061 AACTTACAT
1 AACTTACAT
*
27486070 AATTTACAT
1 AACTTACAT
*
27486079 AACTCACAT
1 AACTTACAT
*
27486088 AACGTACAT
1 AACTTACAT
27486097 AACAACTTACAT
1 ---AACTTACAT
27486109 AACTTA
1 AACTTA
27486115 ACTAATACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
9 44 0.85
12 8 0.15
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:27486080 original size:27 final size:27
Alignment explanation
Indices: 27486046--27486098 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
27486036 ACATAACAAC
*
27486046 TTACATAACTCACATAACTTACATAAT
1 TTACATAACTCACATAACGTACATAAT
27486073 TTACATAACTCACATAACGTACATAA
1 TTACATAACTCACATAACGTACATAA
27486099 CAACTTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (27 bp):
TTACATAACTCACATAACGTACATAAT
Found at i:27486199 original size:17 final size:16
Alignment explanation
Indices: 27486168--27486207 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
27486158 TAGTTTAAAG
27486168 TTCA-AATTTCATAAC
1 TTCATAATTTCATAAC
27486183 TTCATAATTTACATAAC
1 TTCATAATTT-CATAAC
27486200 TTACATAA
1 TT-CATAA
27486208 AACATACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 5 0.23
17 8 0.36
18 5 0.23
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (16 bp):
TTCATAATTTCATAAC
Found at i:27491680 original size:21 final size:21
Alignment explanation
Indices: 27491654--27491701 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
27491644 TCAACTTAGA
*
27491654 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
27491675 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
27491696 GCGGAG
1 GCGGAG
27491702 CAGAATAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:27492475 original size:20 final size:20
Alignment explanation
Indices: 27492452--27492496 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
27492442 TTTTATTAAG
27492452 TTTTAATTTTATAAA-ATACT
1 TTTTAATTTTATAAATATA-T
* *
27492472 TTTTTATTTTTTAAATATAT
1 TTTTAATTTTATAAATATAT
27492492 TTTTA
1 TTTTA
27492497 TGTACTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAATTTTATAAATATAT
Found at i:27492482 original size:21 final size:20
Alignment explanation
Indices: 27492452--27492495 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
27492442 TTTTATTAAG
27492452 TTTTAATTTTATAAA-ATACTT
1 TTTTAATTTT-TAAATATA-TT
*
27492473 TTTTATTTTTTAAATATATT
1 TTTTAATTTTTAAATATATT
27492493 TTT
1 TTT
27492496 ATGTACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAATTTTTAAATATATT
Found at i:27498062 original size:49 final size:47
Alignment explanation
Indices: 27497993--27498205 Score: 177
Period size: 49 Copynumber: 4.5 Consensus size: 47
27497983 TTACCGCTGC
*
27497993 CATGTCCCAGACATGGTCTTACACTGGCTATC-TCCACCAAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CACCAAGGCCGATG
* * * * * *
27498041 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTA-TACGTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CACCAAG-GCCGATG
* * **
27498091 CATGTCTCAGACATGTCTTACACTAGC-A-CGA-AACTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATC-ATCACCAAGGCCGATG
* * * * *
27498135 CATGTCTCAGACACGTCTTACACTAGCTAACATCATCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCACCAAGGCCGATG
27498182 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
27498206 GGCACTCACC
Statistics
Matches: 134, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 32 0.24
45 3 0.02
46 5 0.04
47 28 0.21
48 13 0.10
49 45 0.34
50 8 0.06
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCACCAAGGCCGATG
Found at i:27498233 original size:47 final size:46
Alignment explanation
Indices: 27497993--27498234 Score: 163
Period size: 47 Copynumber: 5.1 Consensus size: 46
27497983 TTACCGCTGC
* * *
27497993 CATGTCCCAGACATGGTCTTACACTGGCTATCTC-CAC-CAAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-A-CTCAC-CTCTACGCCGATG
* *** * *
27498041 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCACCTCTAC--GCCGATG
* ** *
27498091 CATGTCTCAGACATGTCTTACACTAGCACGAAACT-TA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTACGCCGATG
* * * * *
27498135 CATGTCTCAGACACGTCTTACACTAGCTAACATCA--TCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGC--AC-TCACCTCTACGCCGATG
*
27498182 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTACGCCGATG
27498228 CCATGTC
1 -CATGTC
27498235 TTAAACGTGG
Statistics
Matches: 154, Mismatches: 27, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
44 35 0.23
45 3 0.02
46 12 0.08
47 42 0.27
48 16 0.10
49 40 0.26
50 6 0.04
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTACGCCGATG
Found at i:27498287 original size:94 final size:91
Alignment explanation
Indices: 27497993--27498299 Score: 280
Period size: 94 Copynumber: 3.3 Consensus size: 91
27497983 TTACCGCTGC
* *
27497993 CATGTCCCAGACATGGTCTTACACTGGCTATCTC-CAC-CAAGGCCGATGCCATGTCCCAGACAT
1 CATGTCCCAGACAT-GTCTTACACTGGC-A-CTCAC-CTCTA-GCCGATGCCATGTCTCAGAC-T
* *
27498056 GGTCTTACACTAGCTCTCGTGTATACGTGCTGATG
60 GGTCTTACACTAGCTATCATG-AT-CG-GCTGATG
* * ** * **
27498091 CATGTCTCAGACATGTCTTACACTAGCACGAAACT-TAGCCGATG-CATGTCTCAGACACGTCTT
1 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTAGCCGATGCCATGTCTCAGACTGGTCTT
* *
27498154 ACACTAGCTAACATCATCAAGGCTGATG
66 ACACTAGCTATCATGATC--GGCTGATG
* *
27498182 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCCGATGCCATGTCTTAAACGTGGTC
1 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTA-GCCGATGCCATGTCTCAGAC-TGGTC
** *
27498247 TTACACGCGCTATCATGATGCGGCTTATG
64 TTACACTAGCTATCATGAT-CGGCTGATG
* *
27498276 CATGTCTCAGACACGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
27498300 AGCCCTCGTC
Statistics
Matches: 171, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
90 1 0.01
91 39 0.23
92 19 0.11
93 18 0.11
94 46 0.27
95 21 0.12
96 2 0.01
97 12 0.07
98 13 0.08
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTAGCCGATGCCATGTCTCAGACTGGTCTT
ACACTAGCTATCATGATCGGCTGATG
Found at i:27498590 original size:18 final size:18
Alignment explanation
Indices: 27498567--27498604 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27498557 TTGACTAGTC
27498567 GGCTTAATCAAATTGCTT
1 GGCTTAATCAAATTGCTT
**
27498585 GGCTTAATCTGATTGCTT
1 GGCTTAATCAAATTGCTT
27498603 GG
1 GG
27498605 TTTTGCCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (18 bp):
GGCTTAATCAAATTGCTT
Found at i:27499460 original size:15 final size:15
Alignment explanation
Indices: 27499440--27499471 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27499430 GCAATCGGGC
27499440 TTGAAAATATTAAAA
1 TTGAAAATATTAAAA
27499455 TTGAAAATATTAAAA
1 TTGAAAATATTAAAA
27499470 TT
1 TT
27499472 AGCTCACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
TTGAAAATATTAAAA
Found at i:27505365 original size:47 final size:47
Alignment explanation
Indices: 27505305--27505483 Score: 125
Period size: 47 Copynumber: 3.8 Consensus size: 47
27505295 CATCGAGACT
*
27505305 GATGCATGACCCAAACAT-GTCTTACACTGGCACTCACCTCTACGCC
1 GATGCATGTCCCAAACATGGTCTTACACTGGCACTCACCTCTACGCC
* * * * *
27505351 GATGCCATGTCCCAAACGTGGTCTTACACGGGCTA-TCA--TGATGCGGCT
1 GATG-CATGTCCCAAACATGGTCTTACACTGGC-ACTCACCT-CTAC-GCC
* * * ** * *
27505399 GATGCATGTCCCAGACAT-GTCTTACACTAGCCCTCGTCTCAATGCC
1 GATGCATGTCCCAAACATGGTCTTACACTGGCACTCACCTCTACGCC
* * * *
27505445 AATGCCATGTCCCATACATGGTCTTATACTGGCTCTCAC
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCACTCAC
27505484 ATAACCCAAT
Statistics
Matches: 99, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
46 23 0.23
47 39 0.39
48 36 0.36
49 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (47 bp):
GATGCATGTCCCAAACATGGTCTTACACTGGCACTCACCTCTACGCC
Found at i:27505403 original size:94 final size:93
Alignment explanation
Indices: 27505165--27505478 Score: 312
Period size: 94 Copynumber: 3.4 Consensus size: 93
27505155 ATCGAGGCCA
* * * * *
27505165 ATGCCATGTCCCAGACATGGTCTTAAACTAGCTCTCGTGTATACGTGCTGATGCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATG-AT-CGAGCTGATGCATGTCCCAGAC
* **
27505230 ATGTCTTACCCTAGCACGAAACT-TAGCCG
64 ATGTCTTACACTAGCACTCAACTCTAGCCG
* * * * * *
27505259 ATG-CATGTCCCAGACA-CGTCTTACATTGGCTAACATCATCGAGACTGATGCATGACCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATCGAG-CTGATGCATGTCCCAGACA
* *
27505322 TGTCTTACACTGGCACTCACCTCTACGCCG
65 TGTCTTACACTAGCACTCAACTCTA-GCCG
* * *
27505352 ATGCCATGTCCCAAACGTGGTCTTACACGGGCTATCATGATGCG-GCTGATGCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGAT-CGAGCTGATGCATGTCCCAGACA
* ** * *
27505416 TGTCTTACACTAGCCCTCGTCTCAATGCCA
65 TGTCTTACACTAGCACTCAACTCTA-GCCG
* *
27505446 ATGCCATGTCCCATACATGGTCTTATACTGGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT
27505479 CTCACATAAC
Statistics
Matches: 178, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
90 3 0.02
91 36 0.20
92 15 0.08
93 20 0.11
94 83 0.47
95 19 0.11
96 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATCGAGCTGATGCATGTCCCAGACAT
GTCTTACACTAGCACTCAACTCTAGCCG
Found at i:27511869 original size:41 final size:39
Alignment explanation
Indices: 27511818--27511895 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 39
27511808 TTAGTGCCAT
*
27511818 CTCAAATAACCG-AGACTAAGTCAGTATCGCACACTTAGTAC
1 CTCAAATAACCGAAG-CT-AGTCA-AATCGCACACTTAGTAC
* *
27511859 CTCAAGTAACCGAAGCTAGTTAAATCGCACACTTAGT
1 CTCAAATAACCGAAGCTAGTCAAATCGCACACTTAGT
27511896 GTCAAAGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 14 0.42
40 4 0.12
41 13 0.39
42 2 0.06
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (39 bp):
CTCAAATAACCGAAGCTAGTCAAATCGCACACTTAGTAC
Found at i:27511915 original size:30 final size:29
Alignment explanation
Indices: 27511871--27511934 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
27511861 CAAGTAACCG
* *
27511871 AAGCTAGTTAAATCGCACACTTAGTGTCA
1 AAGCTAGTTAAATCGCACACATAGTGCCA
27511900 AAGCTAGTCTAAATCGCACACATAGTGCCA
1 AAGCTAGT-TAAATCGCACACATAGTGCCA
27511930 AAGCT
1 AAGCT
27511935 TCTGATTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACATAGTGCCA
Found at i:27515466 original size:45 final size:45
Alignment explanation
Indices: 27515402--27515617 Score: 314
Period size: 45 Copynumber: 4.9 Consensus size: 45
27515392 TATTGTACAG
*
27515402 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
27515447 TACTATTCGGGCCTTTGAGCCTGGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
27515492 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
27515537 TACTATTCGGGCCTTCGAGCCTAGCAAGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
27515582 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC-AAAATGCCG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCG
27515618 ATGGATGAAT
Statistics
Matches: 160, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
42 8 0.05
43 16 0.10
44 5 0.03
45 130 0.81
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:27519265 original size:31 final size:31
Alignment explanation
Indices: 27519227--27519285 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
27519217 CACGTATTTG
27519227 AAATAAGCTTCACAACCCTTTCTAACAAGGA
1 AAATAAGCTTCACAACCCTTTCTAACAAGGA
27519258 AAATAAGCTTCACAACCCTTTCTAACAA
1 AAATAAGCTTCACAACCCTTTCTAACAA
27519286 AACTCAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (31 bp):
AAATAAGCTTCACAACCCTTTCTAACAAGGA
Found at i:27522646 original size:6 final size:6
Alignment explanation
Indices: 27522635--27522664 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
27522625 GAAAGGAAAC
27522635 AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
27522665 TTCAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:27522947 original size:25 final size:26
Alignment explanation
Indices: 27522914--27522970 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
27522904 TAACAGACTT
*
27522914 AATTCATTA-CTTAAACAGCTCAAAC
1 AATTTATTATCTTAAACAGCTCAAAC
**
27522939 AATTTATTATCTTAAACATTTCAAAC
1 AATTTATTATCTTAAACAGCTCAAAC
27522965 AATTTA
1 AATTTA
27522971 GTTCAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.37
Consensus pattern (26 bp):
AATTTATTATCTTAAACAGCTCAAAC
Found at i:27524300 original size:93 final size:93
Alignment explanation
Indices: 27524188--27524359 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
27524178 GCCCATAAGT
***
27524188 GAACTCGAACTCAAATCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
27524253 CGAGCTCGGATGCCTAGTTACATCTTTC
66 CAAGCTCGGATGCCTAGTTACATCTTTC
** * * *
27524281 GAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
27524346 CAAGTTCGGATGCC
66 CAAGCTCGGATGCC
27524360 CAAATATCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTTTC
Found at i:27524346 original size:46 final size:45
Alignment explanation
Indices: 27524180--27524355 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 45
27524170 TGTGACACGC
* * **
27524180 CCATAAGTGAACTCGAACTCAAATCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGAATTCGCAT
* *
27524226 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGC-A--T
* *** * *
27524272 ACATCTTTCGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGA-ATTCGCAT
* *
27524319 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27524356 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 63 0.61
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGCAT
Found at i:27526786 original size:30 final size:30
Alignment explanation
Indices: 27526742--27526830 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
27526732 CAAAGATAAC
27526742 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
27526771 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * * *
27526801 AAGAGATCCAGGATAAAAAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
27526831 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:27526790 original size:15 final size:15
Alignment explanation
Indices: 27526742--27526817 Score: 84
Period size: 15 Copynumber: 5.1 Consensus size: 15
27526732 CAAAGATAAC
*
27526742 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
27526756 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
27526771 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
27526786 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
27526801 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
27526816 AA
1 AA
27526818 AAAACCCAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.58, C:0.14, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:27529863 original size:46 final size:44
Alignment explanation
Indices: 27529796--27529972 Score: 176
Period size: 46 Copynumber: 3.9 Consensus size: 44
27529786 TGTAACCCGC
*
27529796 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGAGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGA-TTCGCAT
* * *
27529842 CCATAAGTGAACTCGGACTCAACTTAACAAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* *** *
27529888 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCAT
* *
27529935 CCATAAGTGAACTCGGGCTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
27529973 GCCCAAATAT
Statistics
Matches: 107, Mismatches: 17, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 3 0.03
46 63 0.59
47 30 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Found at i:27529909 original size:93 final size:93
Alignment explanation
Indices: 27529804--27529975 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
27529794 GCCCATAAGT
* *
27529804 GAACTCGAACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 GAACTCGAACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
27529868 ACAAGCTCGGATGCCTAGTTACATCTCTC
65 ACAAGCTCGGATGCCTAGTTACATCTCTC
* * *
27529897 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
27529962 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
27529976 CAAATATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:27542615 original size:39 final size:39
Alignment explanation
Indices: 27542566--27542658 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 39
27542556 ACTTGGGGTA
* * *
27542566 CGCAGCCTATGTGCTGGAATTATATCCAAACTTAGGGTC
1 CGCAGGCTATGTGCTGGAATTATAACCAAACTTAAGGTC
* **
27542605 GGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTC
1 CGCAGGCTATGTGCTGGAATTATAACCAAACTTAAGGTC
*
27542644 CGCAGGCTACGTGCT
1 CGCAGGCTATGTGCT
27542659 AGAAGTACGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CGCAGGCTATGTGCTGGAATTATAACCAAACTTAAGGTC
Found at i:27558533 original size:43 final size:43
Alignment explanation
Indices: 27558471--27558677 Score: 298
Period size: 43 Copynumber: 4.9 Consensus size: 43
27558461 TACCATACCA
*
27558471 ATGCCATATCCCAGATATGGTCTTACATAG-GATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
* * *
27558513 ATGCCAATAGCCCAGCTATGGTCTTACA-CGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
*
27558556 ATGCCATATCCCAGATATGGTCTTACATAG-GATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
* *
27558598 ATGCCAATAGCCCAGCTATGGTCTTACAT-GAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
27558641 ATGCCATATCCCAGATATGGTCTTACAT-GAAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATAGAAATCTCA
27558678 ACTAACCCTA
Statistics
Matches: 147, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
42 73 0.50
43 74 0.50
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
Found at i:27558677 original size:85 final size:85
Alignment explanation
Indices: 27558471--27558668 Score: 387
Period size: 85 Copynumber: 2.3 Consensus size: 85
27558461 TACCATACCA
27558471 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
27558536 TTACACGAAATCTCATATCG
66 TTACACGAAATCTCATATCG
27558556 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
*
27558621 TTACATGAAATCTCATATCG
66 TTACACGAAATCTCATATCG
27558641 ATGCCATATCCCAGATATGGTCTTACAT
1 ATGCCATATCCCAGATATGGTCTTACAT
27558669 GAAATCTCAA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 112 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (85 bp):
ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
TTACACGAAATCTCATATCG
Found at i:27563933 original size:43 final size:43
Alignment explanation
Indices: 27563875--27564131 Score: 333
Period size: 43 Copynumber: 6.0 Consensus size: 43
27563865 TATATAGCTC
* * * *
27563875 ATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCTC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * * *
27563916 ATATCGATGCCAATATCCCA-ACTATGGTCTTACACGAAATCAC-
1 ATA-CAATGCCAATGTCCCAGAC-ATGGTCTTACATGTAATCACA
*
27563959 ATAACGATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 AT-ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
*
27564003 ATACAATGCCACTGTCCCAGACATGGTCTTACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * *
27564046 ATACAATGCCAATGTCCTAGACATGGTCTTGCACGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
*
27564089 ATACAATACCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
27564132 TCTTAGTAAT
Statistics
Matches: 191, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
41 3 0.02
42 7 0.04
43 176 0.92
44 5 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
Found at i:27579216 original size:33 final size:33
Alignment explanation
Indices: 27579174--27579239 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
27579164 TCACTGTTGG
27579174 TAAACTATTTAAATCATCTGACTCAATCTGGAT
1 TAAACTATTTAAATCATCTGACTCAATCTGGAT
* *
27579207 TAAACTATTTAAATTATCTGACTCAATTTGGAT
1 TAAACTATTTAAATCATCTGACTCAATCTGGAT
27579240 AATCTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (33 bp):
TAAACTATTTAAATCATCTGACTCAATCTGGAT
Found at i:27582552 original size:43 final size:43
Alignment explanation
Indices: 27582524--27582673 Score: 196
Period size: 43 Copynumber: 3.5 Consensus size: 43
27582514 TAGCCCAACT
27582524 ATGGTCTTACACGAAATCAC-ATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCACAAT-ACGATGCCAATGTCCCAGAC
*
27582567 ATGGTCTTACAC-ATAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGA-AATCACAATACGATGCCAATGTCCCAGAC
* * * * *
27582610 ATGGTCTTACAAGTAATCACAATACAATGCCAATCTCCTAGAC
1 ATGGTCTTACACGAAATCACAATACGATGCCAATGTCCCAGAC
* *
27582653 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACACGAAATCACA
27582674 TCTAGGTAAT
Statistics
Matches: 98, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
42 1 0.01
43 95 0.97
44 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACAATACGATGCCAATGTCCCAGAC
Found at i:27583311 original size:19 final size:20
Alignment explanation
Indices: 27583289--27583326 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27583279 TTAAGCATTC
*
27583289 ATCAATGGC-ACTTCAAAAA
1 ATCAATGACAACTTCAAAAA
*
27583308 ATCATTGACAACTTCAAAA
1 ATCAATGACAACTTCAAAA
27583327 GTTAAGGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.24
Consensus pattern (20 bp):
ATCAATGACAACTTCAAAAA
Found at i:27587244 original size:108 final size:109
Alignment explanation
Indices: 27587046--27587270 Score: 283
Period size: 108 Copynumber: 2.1 Consensus size: 109
27587036 AGGTATTTAA
* * * * *
27587046 ACGGCCTGGCACACGGGCGTGTGGCATGGCCGTGTGACCCAACTTCAAAAGTTACACAGGCACGG
1 ACGGCCTAGCACACGGGCATGTGGCATGGCCATGTGACCCAAATTCAAAAGTTACACAGGCACAG
* *** *
27587111 ACATGGGTTGGGACACAGTTTTGTGTCCCTATTTTGATTGTTAC
66 ACATGGGCTGGGACACAGCCATGTGTCCCTATTTCGATTGTTAC
* * * ** *
27587155 ATGGCCTAGCATACGGGCATGTGGCTTGGCCATGTGACCCAAATT-TGAAGTTACACGGGCACAG
1 ACGGCCTAGCACACGGGCATGTGGCATGGCCATGTGACCCAAATTCAAAAGTTACACAGGCACAG
27587219 ACATGGGCTGGGACAC-GACCATGTGTCCCTATTTCGATTGTTAC
66 ACATGGGCTGGGACACAG-CCATGTGTCCCTATTTCGATTGTTAC
27587263 ACGGCCTA
1 ACGGCCTA
27587271 AGACACAGGC
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
107 1 0.01
108 59 0.60
109 38 0.39
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (109 bp):
ACGGCCTAGCACACGGGCATGTGGCATGGCCATGTGACCCAAATTCAAAAGTTACACAGGCACAG
ACATGGGCTGGGACACAGCCATGTGTCCCTATTTCGATTGTTAC
Found at i:27587299 original size:108 final size:108
Alignment explanation
Indices: 27587094--27587299 Score: 227
Period size: 108 Copynumber: 1.9 Consensus size: 108
27587084 CCAACTTCAA
* * *** * *
27587094 AAGTTACACAGGCACGGACATGGGTTGGGACACAGTTTTGTGTCCCTATTTTGATTGTTACATGG
1 AAGTTACACAGGCACAGACATGGGCTGGGACACAGCCATGTGTCCCTATTTCGATTGTTACACGG
* * * **
27587159 CCTAGCATACGGGCATGTGGCTTGGCCATGTGACCCAAATTTG
66 CCTAGCACACAGGCATATGGCTCAGCCATGTGACCCAAATTTG
*
27587202 AAGTTACACGGGCACAGACATGGGCTGGGACAC-GACCATGTGTCCCTATTTCGATTGTTACACG
1 AAGTTACACAGGCACAGACATGGGCTGGGACACAG-CCATGTGTCCCTATTTCGATTGTTACACG
* * * *
27587266 GCCTAAG-ACACAGGCGTATGTCTCATCCCTGTGA
65 GCCT-AGCACACAGGCATATGGCTCAGCCATGTGA
27587300 GTCACATTGT
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
107 1 0.01
108 76 0.96
109 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (108 bp):
AAGTTACACAGGCACAGACATGGGCTGGGACACAGCCATGTGTCCCTATTTCGATTGTTACACGG
CCTAGCACACAGGCATATGGCTCAGCCATGTGACCCAAATTTG
Found at i:27595715 original size:40 final size:40
Alignment explanation
Indices: 27595638--27595843 Score: 263
Period size: 40 Copynumber: 5.2 Consensus size: 40
27595628 AAACCAAGTA
* *
27595638 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
27595677 CCGTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
27595717 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * ** * * *
27595757 CCTTCGGGACTTAGCCCGAATATAATCGCTTGCATAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** *
27595797 CCTTCGGGACACAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
27595837 CCTTCGG
1 CCTTCGG
27595844 ATCTTAGTCC
Statistics
Matches: 142, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
39 13 0.09
40 129 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:27598191 original size:27 final size:27
Alignment explanation
Indices: 27598160--27598337 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27598150 TAAATTGTAC
27598160 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27598187 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27598213 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27598241 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27598269 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27598296 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27598323 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27598338 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27598274 original size:82 final size:81
Alignment explanation
Indices: 27598161--27598316 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27598151 AAATTGTACA
* *
27598161 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27598225 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27598242 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27598307 TGCGAGTTGA
65 TGCGAATTGA
27598317 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27598328 original size:82 final size:81
Alignment explanation
Indices: 27598157--27598337 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27598147 GATTAAATTG
* *
27598157 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27598222 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27598238 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27598302 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27598320 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27598338 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27615722 original size:40 final size:40
Alignment explanation
Indices: 27615678--27615909 Score: 261
Period size: 40 Copynumber: 5.8 Consensus size: 40
27615668 ATAACCACAA
* *
27615678 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
27615718 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
27615758 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* *
27615798 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * * *
27615838 GCACAAATGCCTTCGGGACTTAGCCTGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
27615878 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
27615910 CATTCAAATG
Statistics
Matches: 166, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 4 0.02
40 155 0.93
41 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:27615762 original size:80 final size:80
Alignment explanation
Indices: 27615678--27615909 Score: 322
Period size: 80 Copynumber: 2.9 Consensus size: 80
27615668 ATAACCACAA
* * * * * *
27615678 GCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
*
27615742 CCGGATATATCAACTC
65 CCGGATATAGCAACTC
* *
27615758 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
*
27615823 CGGGTATAGCAACTC
66 CGGATATAGCAACTC
* * * *
27615838 GCACAAATGCCTTCGGGACTTAGCCTGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
27615903 CGGATAT
66 CGGATAT
27615910 CATTCAAATG
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 131 0.98
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCC
CGGATATAGCAACTC
Found at i:27615886 original size:120 final size:120
Alignment explanation
Indices: 27615658--27615908 Score: 398
Period size: 120 Copynumber: 2.1 Consensus size: 120
27615648 TTCTTCGAAT
*
27615658 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
* * * *
27615722 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGACTTAGCCCGGATAAATCAACTAGCACAAATGCCTTCGGGAC
* *
27615777 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
* *
27615842 AAATGCCTTCGGGACTTAGCCTGGATAAAATC-ACTAGCATAAATGCCTTCGGGAC
66 AAATGCCTTCGGGACTTAGCCCGGAT-AAATCAACTAGCACAAATGCCTTCGGGAC
27615897 TTAGCCCGGATA
1 TTAGCCCGGATA
27615909 TCATTCAAAT
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
119 4 0.03
120 113 0.93
121 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATAAAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGACTTAGCCCGGATAAATCAACTAGCACAAATGCCTTCGGGAC
Found at i:27623791 original size:40 final size:40
Alignment explanation
Indices: 27623736--27623885 Score: 194
Period size: 40 Copynumber: 3.7 Consensus size: 40
27623726 ATAACCACAA
*
27623736 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
* * * * *
27623776 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAAACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGGT-ATAGC-AACTC
27623818 GCA-AAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAA-TGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
* *
27623858 GCACAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
27623886 ATATCATTCA
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
40 53 0.57
41 12 0.13
42 28 0.30
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
Found at i:27623837 original size:42 final size:40
Alignment explanation
Indices: 27623720--27623889 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
27623710 CAGAATTTAG
* * * *
27623720 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
27623760 CCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
* *
27623800 CCGGATAAAATCAAACTAGCA-AAATTGCCTTCGGGTCTTAAC
1 CCGGAT-ATAGC-AACTAGCACAAA-TGCCTTCGGGTCTTAAC
* * * *
27623842 CCGGGTATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
27623882 CCGGATAT
1 CCGGATAT
27623890 CATTCAAATG
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
40 67 0.63
41 12 0.11
42 28 0.26
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:27623880 original size:82 final size:82
Alignment explanation
Indices: 27623735--27623888 Score: 290
Period size: 82 Copynumber: 1.9 Consensus size: 82
27623725 TATAACCACA
* *
27623735 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 AGCAAAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
27623800 CCGGATAAAATCAAACT
66 CCGGATAAAATCAAACT
27623817 AGCAAAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
1 AGCAAAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
27623882 CCGGATA
66 CCGGATA
27623889 TCATTCAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (82 bp):
AGCAAAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
CCGGATAAAATCAAACT
Found at i:27624150 original size:43 final size:44
Alignment explanation
Indices: 27624074--27624164 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 44
27624064 GTCATAGTAT
27624074 GACTAATCATTTCAATAATAATTCAAGTAGGGTCATTACTCGAA
1 GACTAATCATTTCAATAATAATTCAAGTAGGGTCATTACTCGAA
27624118 GACTAATCATTTCAAT-ATAATTCAAGTAGGGTCATTACTCGAA
1 GACTAATCATTTCAATAATAATTCAAGTAGGGTCATTACTCGAA
27624161 GACT
1 GACT
27624165 TACCTCGGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 31 0.66
44 16 0.34
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (44 bp):
GACTAATCATTTCAATAATAATTCAAGTAGGGTCATTACTCGAA
Found at i:27645910 original size:43 final size:42
Alignment explanation
Indices: 27645851--27646010 Score: 133
Period size: 43 Copynumber: 3.8 Consensus size: 42
27645841 AACTCACACA
* * *
27645851 ATGCC-ATATCCTAGATATGGTCTTACATGTTATCATATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCATA-ATCG
* * * * * *
27645893 ATGCCACTATCCCAGATAAGGTGTTACATGAAATCATAAATAG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCAT-AATCG
* ** * * *
27645936 ATGCCAATGTCCCAGACATGACCTTACACGTAATCACAATACA
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCATAAT-CG
* *
27645979 ATGCCAATGTCCCATACATGGTCTTACATGTA
1 ATGCCAATATCCCAGACATGGTCTTACATGTA
27646011 GTCACATCTC
Statistics
Matches: 92, Mismatches: 23, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 8 0.09
43 83 0.90
44 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCATAATCG
Found at i:27649687 original size:93 final size:93
Alignment explanation
Indices: 27649574--27649744 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
27649564 GCCCCTAAGT
* *
27649574 GAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27649639 CGAGTTCGGATGCCTACTTACATCTCAC
66 CGAGTTCGGATGCCTACTTACATCTCAC
*
27649667 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27649732 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27649745 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTACTTACATCTCAC
Found at i:27649741 original size:46 final size:46
Alignment explanation
Indices: 27649569--27649741 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
27649559 AACCCGCCCC
* * *
27649569 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
27649615 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTACTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
27649663 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
27649708 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27649742 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, 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 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:27652166 original size:15 final size:15
Alignment explanation
Indices: 27652140--27652195 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
27652130 CAAGGAAACC
27652140 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
27652155 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
27652170 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
27652185 GAATAAAGAAA
1 GAATAAAGAAA
27652196 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:27660556 original size:28 final size:28
Alignment explanation
Indices: 27660524--27660593 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
27660514 ATAGTAAGTC
27660524 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
27660552 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
27660580 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27660594 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:27662947 original size:21 final size:20
Alignment explanation
Indices: 27662919--27662957 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
27662909 GAATCGTCAT
27662919 GGAGTTGAAAAGGCTATGTG
1 GGAGTTGAAAAGGCTATGTG
*
27662939 GGAGCTTGAAAATGCTATG
1 GGAG-TTGAAAAGGCTATG
27662958 AAACAAAAAT
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:0.31, C:0.08, G:0.36, T:0.26
Consensus pattern (20 bp):
GGAGTTGAAAAGGCTATGTG
Found at i:27670135 original size:50 final size:50
Alignment explanation
Indices: 27670052--27670299 Score: 307
Period size: 50 Copynumber: 4.9 Consensus size: 50
27670042 TATGTGGGTT
27670052 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * * * * *
27670102 TTAGGTCGCATGTGTAGTACTAAGTACAAGCTACTATGCGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * * ** * *
27670152 CTTCGATCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* * *
27670203 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
* ** *
27670253 TTAGGTCGCAAGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
27670300 GAGGTTCGGC
Statistics
Matches: 165, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
50 127 0.77
51 38 0.23
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG
Found at i:27670184 original size:101 final size:100
Alignment explanation
Indices: 27670052--27670299 Score: 300
Period size: 101 Copynumber: 2.5 Consensus size: 100
27670042 TATGTGGGTT
* * *
27670052 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGTGT
*
27670117 AGTACTAAGTACAAGCTACTATGCGTACCAGA-TA
66 AGTACTAAGTACAAGCTACTACGCGTACCAGATTA
* * ** * *
27670151 GCTTCGATCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGT
1 --TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGT
* * * *
27670216 GTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTA
64 GTAGTACTAAGTACAAGCTACTACGCGTACCAGATTA
* * ** *
27670253 TTAGGTCGCAAGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
27670300 GAGGTTCGGC
Statistics
Matches: 122, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
100 37 0.30
101 83 0.68
102 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGTCACATGTGT
AGTACTAAGTACAAGCTACTACGCGTACCAGATTA
Found at i:27685401 original size:43 final size:43
Alignment explanation
Indices: 27685351--27685500 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
27685341 TATCCCAGTT
* * * * * *
27685351 ATGGTCTTACATGTTATCA-TATATCGATGCCACTATCGCAGAC
1 ATGGTCTTACACGTAATCACAATA-CGATGCCAATGTCCCAGAC
* * *
27685394 AGGGTCTTAGACG-ATATCATAATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTA-ATCACAATACGATGCCAATGTCCCAGAC
* * *
27685437 ATTGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCACAATACGATGCCAATGTCCCAGAC
*
27685480 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACACGTAATCACA
27685501 TATCGATAAC
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
43 84 0.95
44 4 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACAATACGATGCCAATGTCCCAGAC
Found at i:27693066 original size:16 final size:16
Alignment explanation
Indices: 27693047--27693089 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
27693037 AAAAATCCTA
27693047 AAAAGCTAAAATGCCG
1 AAAAGCTAAAATGCCG
* *
27693063 AAAAGTTGAAATGCCG
1 AAAAGCTAAAATGCCG
*
27693079 AAAAGCCAAAA
1 AAAAGCTAAAA
27693090 GTTTGGCTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.53, C:0.16, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAGCTAAAATGCCG
Found at i:27693331 original size:28 final size:28
Alignment explanation
Indices: 27693299--27693410 Score: 111
Period size: 28 Copynumber: 4.0 Consensus size: 28
27693289 TATGAGCATG
27693299 AATATAAATGTGATTTGGGCCTAAT-GGC
1 AATATAAATGTGA-TTGGGCCTAATGGGC
* *
27693327 AATATGAATGTGGTTTGGGCCTAATGGGCC
1 AATATAAATGT-GATTGGGCCTAATGGG-C
* *
27693357 AA-ATAAATATGAATGGGCCTAATGGGC
1 AATATAAATGTGATTGGGCCTAATGGGC
* * * *
27693384 TATATAAAAGAGATTGGGCCTAGTGGG
1 AATATAAATGTGATTGGGCCTAATGGG
27693411 TCATATGTAT
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
27 2 0.03
28 54 0.79
29 9 0.13
30 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.28
Consensus pattern (28 bp):
AATATAAATGTGATTGGGCCTAATGGGC
Found at i:27696253 original size:37 final size:37
Alignment explanation
Indices: 27696179--27696253 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
27696169 GTTCCAACTG
* * *
27696179 AAACACCAATCGCTTGTAAGAGCTAATCCATCTGATA
1 AAACACCAATCGCTTATAAGAGCTAATCCACCCGATA
27696216 AAACACCAGAT-GCTTATAAGAGCTAATCCACCCGATA
1 AAACACCA-ATCGCTTATAAGAGCTAATCCACCCGATA
27696253 A
1 A
27696254 CACGCCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.21
Consensus pattern (37 bp):
AAACACCAATCGCTTATAAGAGCTAATCCACCCGATA
Found at i:27698278 original size:15 final size:15
Alignment explanation
Indices: 27698258--27698289 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27698248 TCAGGAAGGG
27698258 GAAGAGCAAGAAAGT
1 GAAGAGCAAGAAAGT
*
27698273 GAAGAGGAAGAAAGT
1 GAAGAGCAAGAAAGT
27698288 GA
1 GA
27698290 TGGAACAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.38, T:0.06
Consensus pattern (15 bp):
GAAGAGCAAGAAAGT
Found at i:27701158 original size:20 final size:21
Alignment explanation
Indices: 27701130--27701169 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
27701120 ATATTTGATT
27701130 ATTTGATTTCTCATTT-TTTTC
1 ATTTGATTTC-CATTTATTTTC
27701151 ATTT-ATTTCCATTTATTTT
1 ATTTGATTTCCATTTATTTT
27701170 TACTATAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 9 0.50
21 4 0.22
ACGTcount: A:0.17, C:0.12, G:0.03, T:0.68
Consensus pattern (21 bp):
ATTTGATTTCCATTTATTTTC
Found at i:27705314 original size:54 final size:56
Alignment explanation
Indices: 27705202--27705322 Score: 128
Period size: 59 Copynumber: 2.2 Consensus size: 56
27705192 TATTATATAT
27705202 TATATATTTTTATTAATCTATATTTTAATAATAACTATATTAAAAATGTTATTAAATTA
1 TATATATTTTTATTAATCTATATTTTAATAAT-A-TATATTAAAAATG-TATTAAATTA
* * *
27705261 TATATATTTTTATTAAAT-TTTA-TTTAGTAAT-TATATTAAAATATG-ATTCAATTA
1 TATATATTTTTATT-AATCTATATTTTAATAATATATATTAAAA-ATGTATTAAATTA
27705315 T-T-TATTTT
1 TATATATTTT
27705323 CTAAATTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
52 6 0.11
53 1 0.02
54 9 0.16
55 10 0.18
56 3 0.05
58 8 0.14
59 17 0.30
60 3 0.05
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (56 bp):
TATATATTTTTATTAATCTATATTTTAATAATATATATTAAAAATGTATTAAATTA
Found at i:27706852 original size:41 final size:42
Alignment explanation
Indices: 27706794--27706875 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 42
27706784 AAAAAATTTC
**
27706794 AAAAATCCCAAAAATA-TTTTCTATTTTTATTTTTAATTTTTT
1 AAAAATCCCAAAAATATTTTTCT-TCATTATTTTTAATTTTTT
27706836 AAAAAT-CCAAAAATATTTTTCTTCATTATTTTTAATTTTT
1 AAAAATCCCAAAAATATTTTTCTTCATTATTTTTAATTTTT
27706876 GTTATTGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 25 0.68
42 12 0.32
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (42 bp):
AAAAATCCCAAAAATATTTTTCTTCATTATTTTTAATTTTTT
Found at i:27714156 original size:22 final size:22
Alignment explanation
Indices: 27714124--27714166 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27714114 CTAAGTCAAC
*
27714124 AGGACGACTCAACGTCGTAGAT
1 AGGACGACTCAACGCCGTAGAT
* *
27714146 AGGACGGCTCAATGCCGTAGA
1 AGGACGACTCAACGCCGTAGA
27714167 CATTGCAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.16
Consensus pattern (22 bp):
AGGACGACTCAACGCCGTAGAT
Found at i:27719851 original size:42 final size:43
Alignment explanation
Indices: 27719738--27719853 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
27719728 GGGATTTAGA
* * *
27719738 AATCCGAGCTCATTGAGCGGTCCGAGTTCGTGATATATATGAG
1 AATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATATATATGAG
* * * * * *
27719781 AATCTGAACTTGTTGAGTGGTCCAAGTTCATGATATATGTG-G
1 AATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATATATATGAG
* *
27719823 CATCCGAGCTCGTTGAGAGGTCTGAGTTCAT
1 AATCCGAGCTCGTTGAGAGGTCCGAGTTCAT
27719854 TATGGATGTA
Statistics
Matches: 58, Mismatches: 15, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
AATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATATATATGAG
Found at i:27724748 original size:33 final size:33
Alignment explanation
Indices: 27724683--27724748 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
27724673 GGTGTCGCCA
* * * *
27724683 AATTTTCAACGCAAACATAATAGTTGCCAACTC
1 AATTTTCAACGCAAACACAAAAGCTACCAACTC
* *
27724716 AATTTTCAGCGCAAACACAAAAGCTACTAACTC
1 AATTTTCAACGCAAACACAAAAGCTACCAACTC
27724749 TAAGTCATGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (33 bp):
AATTTTCAACGCAAACACAAAAGCTACCAACTC
Found at i:27734226 original size:39 final size:40
Alignment explanation
Indices: 27734125--27734307 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
27734115 TCGAATGATG
* * *
27734125 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
27734164 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
27734205 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27734243 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
** *
27734282 AACGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27734308 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
38 11 0.09
39 70 0.56
40 33 0.27
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27734314 original size:78 final size:78
Alignment explanation
Indices: 27734178--27734340 Score: 197
Period size: 78 Copynumber: 2.1 Consensus size: 78
27734168 GGACTAAGAT
** **
27734178 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGTTACTAATAACGGGCTAAGCCCGAAGGCATTGGAACGAG-TAGCTA
*
27734242 -ATCCGGGTTAAGTC
65 TATCC-GGTTAAATC
* * *
27734256 CCGAAGGCATTTGTGTGAGTTACT-ATAACGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCATTTGTGCGAGTTACTAATAACGGGCTAAG-CCCGAAGGCATTGGAACGAGTAGCTA
*
27734320 TATCCGGTTAAATT
65 TATCCGGTTAAATC
27734334 CCGAAGG
1 CCGAAGG
27734341 TACGTGATTC
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
77 12 0.16
78 57 0.78
79 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATAACGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAT
ATCCGGTTAAATC
Found at i:27742212 original size:40 final size:40
Alignment explanation
Indices: 27742128--27742312 Score: 184
Period size: 40 Copynumber: 4.7 Consensus size: 40
27742118 TCGAATGATG
* * * * *
27742128 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAATGACCATA
1 TCCGGGCTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
27742168 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27742208 TCCGGGCTAA-ACCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
27742247 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
27742288 -CCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGGCTAAGAT-CCGAAGGCATTTG
27742313 AATGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27742334 original size:79 final size:79
Alignment explanation
Indices: 27742181--27742345 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
27742171 GGACTAAGAT
* **
27742181 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAACCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAACCCGAAGGCATTGGAACGAGTTACTAA
*
27742246 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
** * *
27742260 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTA-AACCCGAAGGCATTGGAACGAGTTA-C
* *
27742323 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
27742339 CCGAAGG
1 CCGAAGG
27742346 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAACCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:27751445 original size:27 final size:27
Alignment explanation
Indices: 27751415--27751619 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
27751405 ATATTAAGTC
* *
27751415 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
27751442 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
27751470 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
27751497 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
27751524 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
27751551 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
27751578 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
27751605 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27751620 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27751554 original size:54 final size:54
Alignment explanation
Indices: 27751415--27751618 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
27751405 ATATTAAGTC
* * * **
27751415 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
27751470 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
27751524 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
27751578 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
27751619 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:27751584 original size:81 final size:81
Alignment explanation
Indices: 27751469--27751618 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
27751459 ATAATCAAAC
* * * * * *
27751469 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
27751534 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
27751550 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
27751615 GTGC
66 GTGC
27751619 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:27759573 original size:27 final size:27
Alignment explanation
Indices: 27759543--27759747 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
27759533 ATATTAAGTC
* *
27759543 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
27759570 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
27759598 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
27759625 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
27759652 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
27759679 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
27759706 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
27759733 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27759748 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27759682 original size:54 final size:54
Alignment explanation
Indices: 27759543--27759746 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
27759533 ATATTAAGTC
* * * **
27759543 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
27759598 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
27759652 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
27759706 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
27759747 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:27759712 original size:81 final size:81
Alignment explanation
Indices: 27759597--27759746 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
27759587 ATAATCAAAC
* * * * * *
27759597 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
27759662 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
27759678 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
27759743 GTGC
66 GTGC
27759747 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:27767194 original size:30 final size:31
Alignment explanation
Indices: 27767143--27767215 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
27767133 TAAAAAATAA
* *
27767143 AAATTCAATTTTTTTAAAAAAATTGA-TGATC
1 AAATTTAATTTTTTTAAAAAAATTAATTG-TC
* *
27767174 ATATTTAATTTTTTT-TAAAAATTAATTGTC
1 AAATTTAATTTTTTTAAAAAAATTAATTGTC
27767204 AAATTTAATTTT
1 AAATTTAATTTT
27767216 AAGAAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 21 0.58
31 15 0.42
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (31 bp):
AAATTTAATTTTTTTAAAAAAATTAATTGTC
Found at i:27768645 original size:34 final size:34
Alignment explanation
Indices: 27768602--27768667 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
27768592 AATGCCAATC
27768602 AAGCTAAAACTCAATCAATATAGAATTTATCTTT
1 AAGCTAAAACTCAATCAATATAGAATTTATCTTT
27768636 AAGCTAAAACTCAATCAATATAGAATTTATCT
1 AAGCTAAAACTCAATCAATATAGAATTTATCT
27768668 GTTTATTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (34 bp):
AAGCTAAAACTCAATCAATATAGAATTTATCTTT
Found at i:27768729 original size:17 final size:16
Alignment explanation
Indices: 27768704--27768739 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
27768694 AATATTTTAT
27768704 TTTATTAATAAATAAA
1 TTTATTAATAAATAAA
*
27768720 TTTATGTAATAAATTAA
1 TTTAT-TAATAAATAAA
27768737 TTT
1 TTT
27768740 CATATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTTATTAATAAATAAA
Found at i:27769215 original size:17 final size:16
Alignment explanation
Indices: 27769181--27769231 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
27769171 GGCATAATTT
27769181 AAAATGAAAATTTAAA
1 AAAATGAAAATTTAAA
27769197 AAAATGAAAATTATAAA
1 AAAATGAAAATT-TAAA
* * *
27769214 AAAAGGAAGATGTAAA
1 AAAATGAAAATTTAAA
27769230 AA
1 AA
27769232 TATTAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.20
Consensus pattern (16 bp):
AAAATGAAAATTTAAA
Found at i:27774252 original size:58 final size:58
Alignment explanation
Indices: 27774162--27774280 Score: 193
Period size: 58 Copynumber: 2.1 Consensus size: 58
27774152 TGTAAAAGCA
* * *
27774162 ATTTTGTTGTGATATAGGGGGCCATAAGGATTAGGGCTCATATTAATATTTGAAGGCC
1 ATTTTGTTGTGATATAGGGGGCAATAAGGATTAAGGCTCATATTAATATTCGAAGGCC
* *
27774220 ATTTTGTTGTGATATAGGGGGCAATAAGGATTAAGGCTCATATTGATATTCGAAGTCC
1 ATTTTGTTGTGATATAGGGGGCAATAAGGATTAAGGCTCATATTAATATTCGAAGGCC
27774278 ATT
1 ATT
27774281 GAAGCTGAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (58 bp):
ATTTTGTTGTGATATAGGGGGCAATAAGGATTAAGGCTCATATTAATATTCGAAGGCC
Found at i:27778971 original size:15 final size:15
Alignment explanation
Indices: 27778943--27778976 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27778933 GTAATTGATG
*
27778943 TGTGGATGACTTGGT
1 TGTGGATGAATTGGT
*
27778958 TGTGGTTGAATTGGT
1 TGTGGATGAATTGGT
27778973 TGTG
1 TGTG
27778977 TGTATATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.44
Consensus pattern (15 bp):
TGTGGATGAATTGGT
Found at i:27782700 original size:14 final size:14
Alignment explanation
Indices: 27782681--27782709 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27782671 TGTGCCACAC
27782681 ACGACTAGTAGACA
1 ACGACTAGTAGACA
27782695 ACGACTAGTAGACA
1 ACGACTAGTAGACA
27782709 A
1 A
27782710 GCCCGTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
ACGACTAGTAGACA
Found at i:27788774 original size:43 final size:42
Alignment explanation
Indices: 27788669--27788786 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
27788659 GACTTGAGAT
* * * *
27788669 TTACATGTAAGACCATGTCTGGGACA-TCGACATCGTATTTGA
1 TTACATGTAAGACCACGTCTGGGACAGT-GGCATCATATTCGA
***
27788711 TTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCAATATTCGA
1 TTACATGTAAGACCAC-GTCTGGGACAGTGGCATC-ATATTCGA
27788754 TTACATGTAAGACCACGTCTGGGA-AGTTGGCAT
1 TTACATGTAAGACCACGTCTGGGACAG-TGGCAT
27788787 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
42 28 0.46
43 32 0.52
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACAGTGGCATCATATTCGA
Found at i:27795318 original size:21 final size:21
Alignment explanation
Indices: 27795292--27795338 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27795282 AAGTGTACTG
*
27795292 TACTGGCAGCTCTGTTGCAAT
1 TACTGGCAGCTCTGCTGCAAT
* *
27795313 TACTGGCAGCTTTGCTGTAAT
1 TACTGGCAGCTCTGCTGCAAT
27795334 TACTG
1 TACTG
27795339 AATAGTGCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.36
Consensus pattern (21 bp):
TACTGGCAGCTCTGCTGCAAT
Found at i:27801666 original size:42 final size:42
Alignment explanation
Indices: 27801603--27801756 Score: 146
Period size: 42 Copynumber: 3.6 Consensus size: 42
27801593 ACTAAGTCTA
* *
27801603 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
1 CGTGTAAGACCATATTTGGGATATGGCATCAATATGAGATTT
* * * * *** *
27801645 TGTTTAAGACCACATTTGGGATGTAAAATTAATATGAGATTT
1 CGTGTAAGACCATATTTGGGATATGGCATCAATATGAGATTT
* * * * **
27801687 CGTGTAAGACCATAGTTGGGCTATTGGCATCTATACGAGATCC
1 CGTGTAAGACCATATTTGGGATA-TGGCATCAATATGAGATTT
*
27801730 CATGTAAGACCATATTTGGGATATGGC
1 CGTGTAAGACCATATTTGGGATATGGC
27801757 GTTGGTATGG
Statistics
Matches: 84, Mismatches: 27, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
42 53 0.63
43 31 0.37
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATATTTGGGATATGGCATCAATATGAGATTT
Found at i:27802949 original size:20 final size:20
Alignment explanation
Indices: 27802920--27802973 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
27802910 CATGGCCTGC
*
27802920 CCACATGGGCGTGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
27802940 CCACACGGGCATGTCCCAAG
1 CCACACGGGCGTGTCCCAAG
*
27802960 CCACACGGACGTGT
1 CCACACGGGCGTGT
27802974 GGCTCTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.28, T:0.13
Consensus pattern (20 bp):
CCACACGGGCGTGTCCCAAG
Found at i:27818974 original size:42 final size:42
Alignment explanation
Indices: 27818927--27819076 Score: 158
Period size: 42 Copynumber: 3.5 Consensus size: 42
27818917 ACAAAGGATA
27818927 CGTGTAAGACCATATCTAGGATATGGCATCGATATGAGATTT
1 CGTGTAAGACCATATCTAGGATATGGCATCGATATGAGATTT
* * * * *
27818969 CGTGTAAGACCACATTTGGGATGTGGCATTGATATGAGATTT
1 CGTGTAAGACCATATCTAGGATATGGCATCGATATGAGATTT
* ** * * * *
27819011 CGTGTAACACCATGGCTGGGCTATTGGCATCGATACGAGA-TC
1 CGTGTAAGACCATATCTAGGATA-TGGCATCGATATGAGATTT
*
27819053 CTATGTAAGACCATATCTAGGATA
1 C-GTGTAAGACCATATCTAGGATA
27819077 CGGCGTTGGT
Statistics
Matches: 85, Mismatches: 21, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
42 55 0.65
43 30 0.35
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTAGGATATGGCATCGATATGAGATTT
Done.