Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 141 of 373
Found at i:46737457 original size:54 final size:54
Alignment explanation
Indices: 46737393--46737600 Score: 231
Period size: 53 Copynumber: 3.9 Consensus size: 54
46737383 TTGGTAAGAT
* * *
46737393 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * * *
46737447 AAGGAAATCATGTAAGACCATGTCAAGATATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * * *
46737502 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
46737555 AAGGATACCATGTAAGACCATGTCATGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
46737601 AAAAAGGAAA
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 41 0.32
55 40 0.31
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:46737522 original size:55 final size:54
Alignment explanation
Indices: 46737393--46737589 Score: 236
Period size: 54 Copynumber: 3.6 Consensus size: 54
46737383 TTGGTAAGAT
* * * *
46737393 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
46737447 AAGGAAATCATGTAAGACCATGTCAAGATATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * *
46737502 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
46737555 AAGGATACCATGTAAGACCATGTCATGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
46737590 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 41 0.34
55 40 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:46740189 original size:47 final size:47
Alignment explanation
Indices: 46740124--46740347 Score: 262
Period size: 47 Copynumber: 4.8 Consensus size: 47
46740114 ACATTATGAA
*
46740124 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGACGAG
* *
46740172 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGACG-AG
* *
46740218 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGACGAG
** * *
46740264 ATTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGA-G
* *
46740311 AGCCAGTGTAAGACCATGTCTGGGACACGGTATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
46740348 ACCTTACCCA
Statistics
Matches: 153, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
45 3 0.02
46 64 0.42
47 66 0.43
48 20 0.13
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGAG
Found at i:46740215 original size:46 final size:47
Alignment explanation
Indices: 46740124--46740337 Score: 251
Period size: 46 Copynumber: 4.6 Consensus size: 47
46740114 ACATTATGAA
* *
46740124 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGACGAG
* *
46740172 AGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTA-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACG-AG
* *
46740218 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTATGAGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGACGAG
** * *
46740264 ATTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGA-TATG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGACGA-G
46740311 AGCCAGTGTAAGACCATGTCTGGGACA
1 AGCCAGTGTAAGACCATGTCTGGGACA
46740338 CGGTATCGGC
Statistics
Matches: 146, Mismatches: 13, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
45 3 0.02
46 65 0.45
47 59 0.40
48 19 0.13
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGACGAG
Found at i:46740289 original size:93 final size:94
Alignment explanation
Indices: 46740077--46740348 Score: 290
Period size: 94 Copynumber: 2.9 Consensus size: 94
46740067 ATTTGTTTGT
* * * *
46740077 GAGCTAGTGTAAGACATGTCTCGGACAT-GCATC-ATTC-ACATTATGAAAGCCAGTGTAAGACC
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGA-CAT--AAGCCAGTGTAAGACC
*
46740139 ATGTCTAGGACATGGCATCGGCATTGAGACGA
63 ATGTCTGGGACATGGCATCGGCATTGAGACGA
* *
46740171 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGCCAGTGTAAGA-CAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATC-GACTCGAGACATAAGCCAGTGTAAGACCAT
*
46740234 GTCTGGGACAT-GCATCGGC-TATGAGATGA
65 GTCTGGGACATGGCATCGGCAT-TGAGACGA
* * * * *
46740263 TA-TTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCCAGTGTAAGACCA
1 GAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGACTCGAGACATAAGCCAGTGTAAGACCA
* *
46740327 TGTCTGGGACACGGTATCGGCA
64 TGTCTGGGACATGGCATCGGCA
46740349 CCTTACCCAC
Statistics
Matches: 151, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
91 2 0.01
92 25 0.17
93 48 0.32
94 64 0.42
95 7 0.05
96 3 0.02
97 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGACATAAGCCAGTGTAAGACCATG
TCTGGGACATGGCATCGGCATTGAGACGA
Found at i:46742470 original size:38 final size:38
Alignment explanation
Indices: 46742427--46742635 Score: 150
Period size: 38 Copynumber: 5.0 Consensus size: 38
46742417 TTTCAAATTA
*
46742427 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
*
46742465 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* *
46742503 A-ATGAATCAATATATGTATCTGTGGCATATCCACTTAGCACCACGTT
1 ACATG------TATA---A-CCGTGGTATATCCACTTAGCACCACGTT
* *
46742550 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTC
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
* * *
46742598 ACACGTATAACAGTGGTATATCTACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
46742636 TTTTTCATTC
Statistics
Matches: 141, Mismatches: 15, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
37 3 0.02
38 64 0.45
42 2 0.01
43 3 0.02
46 1 0.01
47 27 0.19
48 38 0.27
49 1 0.01
52 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:46742582 original size:48 final size:48
Alignment explanation
Indices: 46742467--46742605 Score: 192
Period size: 48 Copynumber: 2.9 Consensus size: 48
46742457 ACCACGTTAC
* * *
46742467 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
46742514 ATATGT-ATCTGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAATC-GTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
46742562 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTCACACGTAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTAT
46742606 AACAGTGGTA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
46 2 0.03
47 30 0.38
48 45 0.56
49 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (48 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:46745243 original size:18 final size:19
Alignment explanation
Indices: 46745216--46745253 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
46745206 TTTATAGTTT
46745216 TAAATAATTTTGGGTAAAA
1 TAAATAATTTTGGGTAAAA
*
46745235 TAAAT-ATTTTGGGTCAAA
1 TAAATAATTTTGGGTAAAA
46745253 T
1 T
46745254 TATAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (19 bp):
TAAATAATTTTGGGTAAAA
Found at i:46749301 original size:28 final size:29
Alignment explanation
Indices: 46749242--46749309 Score: 111
Period size: 28 Copynumber: 2.4 Consensus size: 29
46749232 TCAAGCCATA
* *
46749242 TGGGTCATATGAATGTGATTTGGGCCTAG
1 TGGGCCATATGAATGAGATTTGGGCCTAG
46749271 TGGGCCATATGAATGAGA-TTGGGCCTAG
1 TGGGCCATATGAATGAGATTTGGGCCTAG
46749299 TGGGCCATATG
1 TGGGCCATATG
46749310 CATGTATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 21 0.57
29 16 0.43
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.29
Consensus pattern (29 bp):
TGGGCCATATGAATGAGATTTGGGCCTAG
Found at i:46749673 original size:27 final size:27
Alignment explanation
Indices: 46749608--46749674 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
46749598 GTAATAAATG
*
46749608 AAAATTACCAAAATACCCTCGACCTAT
1 AAAATTACCGAAATACCCTCGACCTAT
*
46749635 -AAATTACCGAAATACCCTCGACTTAT
1 AAAATTACCGAAATACCCTCGACCTAT
46749661 AAAATTACCGAAAT
1 AAAATTACCGAAAT
46749675 GCCCCTAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 24 0.65
27 13 0.35
ACGTcount: A:0.45, C:0.25, G:0.06, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGACCTAT
Found at i:46758949 original size:11 final size:11
Alignment explanation
Indices: 46758933--46758974 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
46758923 TTTGAGTCCA
46758933 TTTATTTTTAC
1 TTTATTTTTAC
46758944 TTTATTTTT-C
1 TTTATTTTTAC
*
46758954 TTTTATTTTTAT
1 -TTTATTTTTAC
46758966 TTCTATTTT
1 TT-TATTTT
46758975 CAATTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 1 0.04
11 20 0.74
12 6 0.22
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTATTTTTAC
Found at i:46764612 original size:71 final size:71
Alignment explanation
Indices: 46764535--46764749 Score: 175
Period size: 71 Copynumber: 3.1 Consensus size: 71
46764525 TATACAATTA
46764535 ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
1 ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
46764600 TCTTTT
66 TCTTTT
* * * *
46764606 ATATTTTG-ACTGAA--ATTAATTA-ATA-TAATTGT-TTATATT---AAAGTTCAATA--AAAT
1 ATATTTTGTA-TGAATCA-TATTTATATATTAATTATATTCT-TTCCAAAAG---AATATTAATT
* ** *
46764660 AT-ATATAATTA
60 TTCATATCTTTT
* * * * *
46764671 ATATTTTGTATGAATCAAATTCATGTATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
46764736 TCTTTT
66 TCTTTT
46764742 ATATTTTG
1 ATATTTTG
46764750 ACCGAAATTA
Statistics
Matches: 105, Mismatches: 21, Indels: 36
0.65 0.13 0.22
Matches are distributed among these distances:
65 22 0.21
66 8 0.08
67 6 0.06
68 24 0.23
69 7 0.07
70 9 0.09
71 29 0.28
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (71 bp):
ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
TCTTTT
Found at i:46764740 original size:136 final size:136
Alignment explanation
Indices: 46764427--46764846 Score: 626
Period size: 136 Copynumber: 3.1 Consensus size: 136
46764417 GAAAAAGGAT
* *
46764427 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
* * *
46764492 TAATTGTTTATATTAAAAAAATTGGTAAAAATATATACAATTAATATTTTGTATGAATCATATTT
66 TAATTGTTTATATT--AAAAATTAGT-AAAATATATACAATTAATATTTTGTATGAATCAAATTC
46764557 ATATATTAA
128 ATATATTAA
* *
46764566 TTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACTGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
* * *
46764631 TAATTGTTTATATT-AAAGTTCAATAAAATATATATAATTAATATTTTGTATGAATCAAATTCAT
66 TAATTGTTTATATTAAAAATT-AGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
*
46764695 GTATTAA
130 ATATTAA
*
46764702 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
* * * **
46764767 TAACTATTTATATTAATAAATTTAGTAAATTATATACAATTAATATTTTGTATGGCTCAAATTCA
66 TAATTGTTTATATTAA-AAA-TTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
46764832 TATATTAA
129 TATATTAA
46764840 TTATATT
1 TTATATT
46764847 TATGTTCTCT
Statistics
Matches: 254, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
136 122 0.48
137 2 0.01
138 53 0.21
139 77 0.30
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.46
Consensus pattern (136 bp):
TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
TAATTGTTTATATTAAAAATTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATA
TATTAA
Found at i:46767655 original size:13 final size:13
Alignment explanation
Indices: 46767639--46767664 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46767629 ACCAAGCCCG
46767639 TAAATATTTTTAT
1 TAAATATTTTTAT
46767652 TAAATATTTTTAT
1 TAAATATTTTTAT
46767665 ATTGGTGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:46785526 original size:12 final size:12
Alignment explanation
Indices: 46785509--46785540 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
46785499 TTAGTGAGTT
46785509 ACACAGCCTAGC
1 ACACAGCCTAGC
*
46785521 ACACAGCCTGGC
1 ACACAGCCTAGC
46785533 ACACAGCC
1 ACACAGCC
46785541 GTCTGTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.44, G:0.19, T:0.06
Consensus pattern (12 bp):
ACACAGCCTAGC
Found at i:46791515 original size:21 final size:21
Alignment explanation
Indices: 46791471--46791513 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
46791461 ATTTTAATGA
46791471 TTGATGATAGATTATGAAAGT
1 TTGATGATAGATTATGAAAGT
46791492 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
46791512 TT
1 TT
46791514 TGTTTAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 10 0.48
21 10 0.48
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:46797775 original size:19 final size:19
Alignment explanation
Indices: 46797732--46797789 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
46797722 ACTATTTTTA
46797732 AAAAATTTTGAAAA-TTATT
1 AAAAATTTT-AAAATTTATT
**
46797751 TTAAATTTTAAAATTTATT
1 AAAAATTTTAAAATTTATT
*
46797770 AAAAA-TATAAAATTT-TT
1 AAAAATTTTAAAATTTATT
46797787 AAA
1 AAA
46797790 TTTTCAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 5 0.15
18 13 0.39
19 15 0.45
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AAAAATTTTAAAATTTATT
Found at i:46797803 original size:26 final size:26
Alignment explanation
Indices: 46797753--46797803 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
46797743 AAATTATTTT
*
46797753 AAATTTTAAAATTTATTAAAAATATA
1 AAATTTTAAAATTTATCAAAAATATA
*
46797779 AAATTTTTAAATTT-TCAAAAGATAT
1 AAATTTTAAAATTTATCAAAA-ATAT
46797804 GATAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
AAATTTTAAAATTTATCAAAAATATA
Found at i:46798071 original size:32 final size:32
Alignment explanation
Indices: 46797997--46798072 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
46797987 TAATATTTTT
* *
46797997 ATTTTGTGAAATGGTCCATTTGGGCGAAACAA
1 ATTTTATGAAATGGTCCATTTGGGAGAAACAA
46798029 ATTTTATGAAATGGTCCATTTGGGAGATAGA-AA
1 ATTTTATGAAATGGTCCATTTGGGAGA-A-ACAA
46798062 ATTTT-TGAAAT
1 ATTTTATGAAAT
46798073 CGTTCCTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 31 0.77
33 8 0.20
34 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (32 bp):
ATTTTATGAAATGGTCCATTTGGGAGAAACAA
Found at i:46804898 original size:88 final size:89
Alignment explanation
Indices: 46804799--46804972 Score: 253
Period size: 88 Copynumber: 2.0 Consensus size: 89
46804789 TAATAAAAGC
* *
46804799 AGGGGCCTAATTGCTTTTTTTTATAAA-GTTTGAGGGTCTTTTCAATGCATTTTGAAAGTTCAAA
1 AGGGGCCTAATTGCTTTTTTTGA-AAAGGTTTGAGGGTCTTTTCAATGCATTTTAAAAGTTCAAA
* *
46804863 TACCCAATTGAGT-TAAAAAAATGT
65 TACCCAAATGAGTGCAAAAAAATGT
* ** *
46804887 AGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGT
1 AGGGGCCTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTCAATGCATTTTAAAAGTTCAAAT
46804952 ACCCAAATGAGTGCAAAAAAA
66 ACCCAAATGAGTGCAAAAAAA
46804973 GGGGCTTATT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
87 3 0.04
88 66 0.87
89 7 0.09
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (89 bp):
AGGGGCCTAATTGCTTTTTTTGAAAAGGTTTGAGGGTCTTTTCAATGCATTTTAAAAGTTCAAAT
ACCCAAATGAGTGCAAAAAAATGT
Found at i:46809388 original size:46 final size:46
Alignment explanation
Indices: 46809294--46809424 Score: 129
Period size: 46 Copynumber: 2.8 Consensus size: 46
46809284 TTTTGTAGCT
** * *
46809294 GATGCATGTTGCAGACATGTCTTACACTGGCT-TACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAAGACC
* * * *
46809340 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTTTCAATACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGACC
* * *
46809386 GATGCTATATCCCAAACATGGTCTTACATTGGCTCTCAT
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCTCAT
46809425 AATGTGGCCA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
46 41 0.59
47 12 0.17
48 16 0.23
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGACC
Found at i:46818559 original size:51 final size:51
Alignment explanation
Indices: 46818474--46818673 Score: 296
Period size: 51 Copynumber: 3.9 Consensus size: 51
46818464 ACGGATACAC
* * *
46818474 AGTGACCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAA
* *
46818525 AGTGGCCTTCACATAGTGCC-CAACTTATGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCAC-ACTTGTGTCCAAAGCTATTATATTCACAA
*
46818576 AGTGGCCTTCACATAGTACCACACTTGTGTCTAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
* *
46818627 AGTGGCCTTCACATAATACCACACTTGTGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTC
46818674 CTAAGGTTCA
Statistics
Matches: 135, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
50 2 0.01
51 132 0.98
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
Found at i:46818741 original size:24 final size:24
Alignment explanation
Indices: 46818709--46818855 Score: 145
Period size: 24 Copynumber: 6.0 Consensus size: 24
46818699 CCTTAGCACC
*
46818709 ATGCTATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
46818733 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
**
46818757 ATGCCATGGTTTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* * *
46818781 CACATTGACAAT-AACTTACTTCACTTAG
1 ---A-TG-CCATGGACTTATTTCACTTAG
* *
46818809 ATGTCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
46818833 ATGCCATAGTA-TTATTTCACTTA
1 ATGCCAT-GGACTTATTTCACTTA
46818856 ACACAATGCC
Statistics
Matches: 100, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
23 2 0.02
24 78 0.78
25 2 0.02
27 1 0.01
28 14 0.14
29 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:46818782 original size:76 final size:75
Alignment explanation
Indices: 46818700--46818864 Score: 215
Period size: 76 Copynumber: 2.2 Consensus size: 75
46818690 AAATTTCTCC
* * * *
46818700 CTTAGCACCATGCTATGGACTTATTTCACTTAGATGCCATGGACTTATTTCACTTAGATGCCATG
1 CTTAGCACCATGCAAT-AACTTACTTCACTTAGATGCCATGGACTTATTTCACTTAGATGCCATA
*
46818765 GTTTTATTTCA
65 GTATTATTTCA
* *
46818776 CTTAGCA-CATTGACAATAACTTACTTCACTTAGATGTCATGGTCTTATTTCACTTAGATGCCAT
1 CTTAGCACCA-TG-CAATAACTTACTTCACTTAGATGCCATGGACTTATTTCACTTAGATGCCAT
46818840 AGTATTATTTCA
64 AGTATTATTTCA
* *
46818852 CTTAACACAATGC
1 CTTAGCACCATGC
46818865 CATATCCTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
75 3 0.04
76 70 0.91
77 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (75 bp):
CTTAGCACCATGCAATAACTTACTTCACTTAGATGCCATGGACTTATTTCACTTAGATGCCATAG
TATTATTTCA
Found at i:46820388 original size:57 final size:57
Alignment explanation
Indices: 46820319--46820431 Score: 226
Period size: 57 Copynumber: 2.0 Consensus size: 57
46820309 CAAGACAGTG
46820319 GTACAAGAGGTTTGATTCCTTTATGGCTTCTCATGATTTCAAAAGAAGTAGTTTTGC
1 GTACAAGAGGTTTGATTCCTTTATGGCTTCTCATGATTTCAAAAGAAGTAGTTTTGC
46820376 GTACAAGAGGTTTGATTCCTTTATGGCTTCTCATGATTTCAAAAGAAGTAGTTTTG
1 GTACAAGAGGTTTGATTCCTTTATGGCTTCTCATGATTTCAAAAGAAGTAGTTTTG
46820432 ACAGTTGTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (57 bp):
GTACAAGAGGTTTGATTCCTTTATGGCTTCTCATGATTTCAAAAGAAGTAGTTTTGC
Found at i:46820504 original size:11 final size:11
Alignment explanation
Indices: 46820488--46820518 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
46820478 TTTAATTCTT
46820488 TATGTTGATGA
1 TATGTTGATGA
46820499 TATGTTGATGA
1 TATGTTGATGA
*
46820510 CATGTTGAT
1 TATGTTGAT
46820519 AGCAGCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (11 bp):
TATGTTGATGA
Found at i:46825620 original size:24 final size:24
Alignment explanation
Indices: 46825588--46825634 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
46825578 GCAGTAAGTG
46825588 TTAGTTTGACATTGATATGATATC
1 TTAGTTTGACATTGATATGATATC
46825612 TTAGTTTGACATTGATATGATAT
1 TTAGTTTGACATTGATATGATAT
46825635 TTGTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (24 bp):
TTAGTTTGACATTGATATGATATC
Found at i:46836615 original size:12 final size:12
Alignment explanation
Indices: 46836598--46836624 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46836588 CTCGGCTCTT
46836598 TCAGCATCATCA
1 TCAGCATCATCA
46836610 TCAGCATCATCA
1 TCAGCATCATCA
46836622 TCA
1 TCA
46836625 ACTTTCGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.26
Consensus pattern (12 bp):
TCAGCATCATCA
Found at i:46844906 original size:40 final size:40
Alignment explanation
Indices: 46844862--46845089 Score: 361
Period size: 40 Copynumber: 5.7 Consensus size: 40
46844852 GCTACTTGCT
46844862 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46844902 CAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
46844942 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
**
46844982 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
46845022 CAAATGCCTTCAGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
46845061 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46845090 CATCCGAATA
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.19
40 138 0.80
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46844961 original size:80 final size:80
Alignment explanation
Indices: 46844829--46845085 Score: 378
Period size: 80 Copynumber: 3.2 Consensus size: 80
46844819 AAACCAAGTA
* * * *
46844829 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
46844892 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
*
46844908 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
46844973 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* * *
46844988 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCAGG-CTTAGCCCGG-AATTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TA
* *
46845051 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
46845067 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46845086 TTATCATCCG
Statistics
Matches: 163, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 56 0.34
80 106 0.65
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:46852498 original size:40 final size:40
Alignment explanation
Indices: 46852454--46852681 Score: 334
Period size: 40 Copynumber: 5.7 Consensus size: 40
46852444 GCTACTTGCT
** *
46852454 CAAATGCCTTCAAGACTTAGCCCGGTTATAGTAACTCCCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
46852494 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46852534 CAAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
46852574 CAAATGCCTTCGGGACTTAGCTCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
46852614 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
46852653 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
46852682 CATCCGAATA
Statistics
Matches: 169, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.20
40 134 0.79
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:46866863 original size:25 final size:25
Alignment explanation
Indices: 46866833--46866881 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
46866823 TGCCTATTTC
46866833 TTCTAGTCAAAATCCTTCTATTTTA
1 TTCTAGTCAAAATCCTTCTATTTTA
46866858 TTCTAGTCAAAATCCTTCTATTTT
1 TTCTAGTCAAAATCCTTCTATTTT
46866882 CTTCATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (25 bp):
TTCTAGTCAAAATCCTTCTATTTTA
Found at i:46867832 original size:27 final size:27
Alignment explanation
Indices: 46867798--46867861 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
46867788 ATTTACTAAA
46867798 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* *
46867825 ATATCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
46867851 ATACCCCTAAG
1 ATACCCCTAAG
46867862 GTTAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 21 0.66
27 9 0.28
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:46868003 original size:27 final size:28
Alignment explanation
Indices: 46867965--46868072 Score: 132
Period size: 27 Copynumber: 4.0 Consensus size: 28
46867955 GAGGAAGCGT
* *
46867965 TCTGGTGGCTCTACCACAAATATTTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
46867992 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
46868020 TATGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* * *
46868047 TCTGATGACTCTGTCAC-AATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGT
46868073 CGTGCCAGCC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 55 0.77
28 16 0.23
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:46868059 original size:55 final size:54
Alignment explanation
Indices: 46867967--46868072 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 54
46867957 GGAAGCGTTC
* * *
46867967 TGGTGGCTCTACCACAAATATTTGATCTGGTGGCTCTGCCACAAATATCTGTTTA
1 TGGTGGCTCTACCACAAATATCTGATCTGATGACTCTGCCAC-AATATCTGTTTA
* *
46868022 TGGTGGCTCTGCCAC-AATATCTGTATCTGATGACTCTGTCACAATATCTGT
1 TGGTGGCTCTACCACAAATATCTG-ATCTGATGACTCTGCCACAATATCTGT
46868073 CGTGCCAGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 16 0.36
55 29 0.64
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (54 bp):
TGGTGGCTCTACCACAAATATCTGATCTGATGACTCTGCCACAATATCTGTTTA
Found at i:46871996 original size:28 final size:29
Alignment explanation
Indices: 46871927--46872031 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 29
46871917 GGAAGCGTTC
46871927 TGGTGGCTCTGCCACAAATATCTGATCTA
1 TGGTGGCTCTGCCACAAATATCTGATCTA
*
46871956 --GTGGCTCTGCCACAAATATCTGCT-TA
1 TGGTGGCTCTGCCACAAATATCTGATCTA
* *
46871982 TGGTGGCTCTGCCAC-AATATCT-ATATC
1 TGGTGGCTCTGCCACAAATATCTGATCTA
* *
46872009 TGGTGACTCTGTCAC-AATATCTG
1 TGGTGGCTCTGCCACAAATATCTG
46872032 TTCTGGCAGC
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
26 3 0.04
27 51 0.76
28 13 0.19
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (29 bp):
TGGTGGCTCTGCCACAAATATCTGATCTA
Found at i:46872019 original size:55 final size:54
Alignment explanation
Indices: 46871927--46872031 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 54
46871917 GGAAGCGTTC
*
46871927 TGGTGGCTCTGCCACAAATATCTGATCTAGTGGCTCTGCCACAAATATCTGCTTA
1 TGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCAC-AATATCTGCTTA
* * *
46871982 TGGTGGCTCTGCCAC-AATATCTATATCTGGTGACTCTGTCACAATATCTG
1 TGGTGGCTCTGCCACAAATATCT-GATCTAGTGACTCTGCCACAATATCTG
46872032 TTCTGGCAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
54 15 0.33
55 30 0.67
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (54 bp):
TGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCACAATATCTGCTTA
Found at i:46885746 original size:28 final size:28
Alignment explanation
Indices: 46885698--46885788 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
46885688 GTGACAGAGT
*
46885698 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
46885727 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
46885755 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
46885783 CACCAG
1 CACCAG
46885789 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:46885941 original size:28 final size:28
Alignment explanation
Indices: 46885894--46885958 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
46885884 AAATTAACCC
*
46885894 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
46885922 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
46885950 TAGGGGTAT
1 TAGGGGTAT
46885959 TCAAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:46886845 original size:39 final size:39
Alignment explanation
Indices: 46886801--46886879 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
46886791 AGAAAGGTAA
46886801 AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
1 AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
46886840 AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
1 AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
46886879 A
1 A
46886880 GGTTTTAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (39 bp):
AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
Found at i:46893601 original size:28 final size:28
Alignment explanation
Indices: 46893553--46893643 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
46893543 GTGACAGAGT
*
46893553 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
46893582 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
46893610 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
46893638 CACCAG
1 CACCAG
46893644 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:46893796 original size:28 final size:28
Alignment explanation
Indices: 46893750--46893813 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
46893740 AATTAACCCC
* *
46893750 AGGGGTATAAAGGTCATTTAGCATACAT
1 AGGGGTATAAAGGTAATTTAGCATACAA
* * *
46893778 AGGGGTATAATGGTAATTTTGCATTCAA
1 AGGGGTATAAAGGTAATTTAGCATACAA
46893806 AGGGGTAT
1 AGGGGTAT
46893814 TCAAGTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (28 bp):
AGGGGTATAAAGGTAATTTAGCATACAA
Found at i:46901454 original size:40 final size:40
Alignment explanation
Indices: 46901410--46901671 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
46901400 GCTCCTCGTT
* *
46901410 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
46901450 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46901490 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46901529 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
46901568 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
46901607 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
46901648 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46901672 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:46929016 original size:40 final size:40
Alignment explanation
Indices: 46928873--46929058 Score: 250
Period size: 40 Copynumber: 4.7 Consensus size: 40
46928863 TGAGGAATTG
*
46928873 TATCCGGGCTTAAAGACCCGCAGTCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
* * *
46928913 TATTCGGGCTTAAAGACCCGCAGTCTATATGCTCGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
46928953 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
* * * *
46928993 TATCCGGGCTTAAAGACCTGCAGGCT-TCGTGCTAGAATGC
1 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATGT
* * *
46929033 TATCCGAGC-TAGAGACCCGTAGGCTA
1 TATCCGGGCTTAAAGACCCGCAGGCTA
46929059 CGAGCTGGTA
Statistics
Matches: 131, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
39 14 0.11
40 117 0.89
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
Found at i:46939658 original size:50 final size:50
Alignment explanation
Indices: 46939545--46939922 Score: 323
Period size: 50 Copynumber: 7.5 Consensus size: 50
46939535 AGAACACATC
* * *
46939545 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGTCACGTG
* * *
46939597 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * * * *
46939647 TGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGTTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCACGTG
* * ***
46939698 TGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGTATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * * * *
46939748 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCA-ATCATGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTT-AGGTCACGTG
* * * * * *
46939799 TGTAGTACTAACTGCAGGCTACAACGTGTATCAGATGGATAAGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * ** *
46939849 TGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGCTTGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* *
46939899 TATAATACTAAGTGCAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
46939923 TGCGTACTAG
Statistics
Matches: 259, Mismatches: 59, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
48 2 0.01
49 6 0.02
50 148 0.57
51 75 0.29
52 28 0.11
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
Found at i:46939726 original size:101 final size:101
Alignment explanation
Indices: 46939545--46939884 Score: 410
Period size: 101 Copynumber: 3.4 Consensus size: 101
46939535 AGAACACATC
* * *** * * *
46939545 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTACTAAGT
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG-TTTCGATCACGTGTGTAGTACTAAGT
* *
46939610 GCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATG
65 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
*
46939647 TGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGTTTCGATCACGTGTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTCGATCACGTGTGTAGTACTAAGTG
* *
46939712 TAGGCTACTACGTGTACCAGATTGATAGGTCGTATG
66 CAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
* * ** * * *
46939748 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCAATCATGTGTGTAGTACTAACTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTCGATCACGTGTGTAGTACTAAGTG
* * * * * *
46939813 CAGGCTACAACGTGTATCAGATGGATAAGTCACGTG
66 CAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
* * *
46939849 TGTAGTACTAAGTGTAGGCTACTACGTGTACCAGAT
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
46939885 TGATAGCTTG
Statistics
Matches: 205, Mismatches: 33, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
101 174 0.85
102 31 0.15
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTCGATCACGTGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
Found at i:46940153 original size:16 final size:16
Alignment explanation
Indices: 46940132--46940163 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46940122 AGAATGGAGT
46940132 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
46940148 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
46940164 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:46940826 original size:180 final size:180
Alignment explanation
Indices: 46940490--46940826 Score: 480
Period size: 180 Copynumber: 1.9 Consensus size: 180
46940480 CCGAGAGCTG
* * * *
46940490 TACCATGAGATAAATAATTTTCAGTGAAGAGAGGTCGGAACTGTCAGATAGTGAAACAAGGGTAT
1 TACCATGAAATAAATAATTTTCAGTGAAGAGAGGTCAGAACTATCAGACAGTGAAACAAGGGTAT
* *
46940555 CTTTAATGAATAAACTGTACTAATTGGAAAAACTAAAAATTTGGAAAATTTTACGATAAGAATAT
66 ATTTAATGAATAAACTGTACTAATTGGAAAAACTAAAAATTTGAAAAATTTTACGATAAGAATAT
* *
46940620 ATATGAGTCTAGTTTCTGTAAAAATTAGTGGTTCTCAATTTGGAGTCTTC
131 ATATGAGTCTAGCTTCAGTAAAAATTAGTGGTTCTCAATTTGGAGTCTTC
* ** **
46940670 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACTATTGGACAGTG-AATTAGGAGTA
1 TACCATGAAATAAATAATTTTCAGTGAAGAGAGGTCAGAACTATCAGACAGTGAAACAAGG-GTA
** * * *
46940734 TATTTAATGAATAAACTGTACTAATTGGCTAAACTAAAAATTTTAAAAATTTTAGGGTAAGAATA
65 TATTTAATGAATAAACTGTACTAATTGGAAAAACTAAAAATTTGAAAAATTTTACGATAAGAATA
46940799 TATATGAGTCTAGCTTCAG-AGAAAATTA
130 TATATGAGTCTAGCTTCAGTA-AAAATTA
46940827 ACAGATCTTA
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
179 6 0.04
180 131 0.96
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (180 bp):
TACCATGAAATAAATAATTTTCAGTGAAGAGAGGTCAGAACTATCAGACAGTGAAACAAGGGTAT
ATTTAATGAATAAACTGTACTAATTGGAAAAACTAAAAATTTGAAAAATTTTACGATAAGAATAT
ATATGAGTCTAGCTTCAGTAAAAATTAGTGGTTCTCAATTTGGAGTCTTC
Found at i:46943649 original size:15 final size:15
Alignment explanation
Indices: 46943628--46943671 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
46943618 TATGATATTG
46943628 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
46943642 TCATCTTGGATTTCTC
1 T-ATCTTGGATTTCTC
*
46943658 TATCTTGGACTTCT
1 TATCTTGGATTTCT
46943672 TAATCCTAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.50
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:46946270 original size:19 final size:19
Alignment explanation
Indices: 46946246--46946282 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46946236 TGAGTATATA
46946246 TATGTGAATAATTTGATGT
1 TATGTGAATAATTTGATGT
* *
46946265 TATGTGATTATTTTGATG
1 TATGTGAATAATTTGATG
46946283 ATATAACGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (19 bp):
TATGTGAATAATTTGATGT
Found at i:46946862 original size:151 final size:150
Alignment explanation
Indices: 46946643--46947074 Score: 544
Period size: 151 Copynumber: 2.9 Consensus size: 150
46946633 TGAGAACACA
* ** *
46946643 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACA-GTTTTAGGTCACGTGTGTAGTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTG--TATCACATG-GTTAGGTCACGTGTGTAGTACTA
* * * *
46946707 AGTGCAGGCTACTACTTGTACTAGATTGTTAGGTCCCATGTGTAGTACTAAGTGTAGGCTACTAT
63 AGTGCAGGCTACTACGTGTAC-AGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
**
46946772 GCAAACCCGATAGTTTCGATCACG
127 GCAAACCCGATAACTTCGATCACG
* *
46946796 TGTGTAGTACTAAGTGCAGGCTACTATATGTATCACATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCACATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * *
46946861 GCAGGCTACTACGTGTACCGAATCGATAGGTCGCATGTGTAGTACTACGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACAG-ATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCA
* * *
46946926 TACCCGTTAACTTCGATCATG
130 AACCCGATAACTTCGATCACG
* * * * * * *
46946947 TGTGTAGTACTAGGTGCATGCTACTACGTGTATCAGATGGATAAGTCACGTATGTA-TACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCACATGGTTAGGTCACGTGTGTAGTACTAAGT
* *
46947011 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTATAGTACTAAGTCCAGGCTACTATGC
66 GCAGGCTACTACGTGTA-CAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
46947075 GTACCAAAGA
Statistics
Matches: 243, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
150 65 0.27
151 149 0.61
152 1 0.00
153 28 0.12
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCACATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCAA
ACCCGATAACTTCGATCACG
Found at i:46947048 original size:101 final size:99
Alignment explanation
Indices: 46946689--46947071 Score: 342
Period size: 101 Copynumber: 3.8 Consensus size: 99
46946679 ACAGTTTTAG
* * * *
46946689 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTACTAGATTGTTAGGTCCCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
* * *** * **
46946754 CTAAGTGTAGGCTACTATGCAAACCCGATAGTTTC
66 CTAAGTGCAGGCTACTACGTGTA-CCGATAGATAA
** * * * * *
46946789 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATATGTATCACATGGTTAGGTCACATGTGTAGT
1 G-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
46946854 ACTAAGTGCAGGCTACTACGTGTACCGAATCGATAG
65 ACTAAGTGCAGGCTACTACGTGTACCG-ATAGATAA
* * * * * * **
46946890 GTCGCATGTGTAGTACTACGTGCAGGCTACTATGCGTACCCG-TT-A-ACTTCGATCATGTGTGT
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG--CA--TGTGT
* * * *
46946952 AGTACTAGGTGCATGCTACTACGTGTATCAGATGGATAA
62 AGTACTAAGTGCAGGCTACTACGTGTA-CCGATAGATAA
* *
46946991 GTCACGTATGTA-TACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTATAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
*
46947055 CTAAGTCCAGGCTACTA
66 CTAAGTGCAGGCTACTA
46947072 TGCGTACCAA
Statistics
Matches: 226, Mismatches: 47, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
97 3 0.01
99 25 0.11
100 62 0.27
101 129 0.57
102 3 0.01
103 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (99 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTACGTGTACCGATAGATAA
Found at i:46947079 original size:50 final size:50
Alignment explanation
Indices: 46946639--46947080 Score: 347
Period size: 50 Copynumber: 8.8 Consensus size: 50
46946629 TTTGTGAGAA
* * *
46946639 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-CCAGATTGATAGGT
* * *
46946691 CACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTACTAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-TGTGTACCAGATTGATAGGT
* * *** * * * * *
46946741 CCCATGTGTAGTACTAAGTGTAGGCTACTATGCAAACCCGATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-ATAGGT
* * * * * *
46946792 CACGTGTGTAGTACTAAGTGCAGGCTACTATATGTATCACATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
* *
46946842 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATCGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG-ATTGATAGGT
* * * * * * *
46946892 CGCATGTGTAGTACTACGTGCAGGCTACTATGCGTACCCG-TTAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAGGT
** * * * * * *
46946943 CATGTGTGTAGTACTAGGTGCATGCTACTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
* * *
46946993 CACGTATGTA-TACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
* * * *
46947042 CGCATGTATAGTACTAAGTCCAGGCTACTATGCGTACCA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
46947081 AAGAGCTTCA
Statistics
Matches: 308, Mismatches: 71, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
48 2 0.01
49 46 0.15
50 155 0.50
51 72 0.23
52 32 0.10
53 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGT
Found at i:46947164 original size:16 final size:16
Alignment explanation
Indices: 46947143--46947174 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46947133 AGAATGGAGT
46947143 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
46947159 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
46947175 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:46959132 original size:16 final size:17
Alignment explanation
Indices: 46959111--46959145 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
46959101 ACAACCCATA
46959111 TTTTGGCTTTTCA-CCT
1 TTTTGGCTTTTCAGCCT
46959127 TTTTGGCTTTTCAGCCT
1 TTTTGGCTTTTCAGCCT
46959144 TT
1 TT
46959146 GTCATTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.06, C:0.23, G:0.14, T:0.57
Consensus pattern (17 bp):
TTTTGGCTTTTCAGCCT
Found at i:46962185 original size:6 final size:6
Alignment explanation
Indices: 46962167--46962254 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
46962157 AAGAAACATT
* *
46962167 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
46962216 ACCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
46962255 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 51 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:46962188 original size:18 final size:18
Alignment explanation
Indices: 46962167--46962254 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
46962157 AAGAAACATT
46962167 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
46962185 ATCAGAATCAGAATCAG-
1 ATCAGAATCAGAATCAGA
* * *
46962202 GTGACAGAATTAGAACCAGA
1 AT--CAGAATCAGAATCAGA
*
46962222 ATCAGTATCAGGTAA-CAGA
1 ATCAGAATCA-G-AATCAGA
*
46962241 ATCAAAATCAGAAT
1 ATCAGAATCAGAAT
46962255 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
17 3 0.05
18 22 0.40
19 27 0.49
20 3 0.05
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:46962222 original size:31 final size:31
Alignment explanation
Indices: 46962176--46962254 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
46962166 TATCAGAACT
* *
46962176 AGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAACCAGAATCAGAATCAGGTAAC
* *
46962207 AGAATTAGAACCAGAATCAGTATCAGGTAAC
1 AGAATCAGAACCAGAATCAGAATCAGGTAAC
* *
46962238 AGAATCAAAATCAGAAT
1 AGAATCAGAACCAGAAT
46962255 GTGAATGCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAGAACCAGAATCAGAATCAGGTAAC
Found at i:46963112 original size:27 final size:27
Alignment explanation
Indices: 46962666--46963113 Score: 491
Period size: 27 Copynumber: 16.6 Consensus size: 27
46962656 TACCCCCCAA
* *
46962666 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
46962693 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
46962720 GGGTATTTCGGTAATTCTATCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
46962747 GAGTATTTCAATAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
46962774 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * ** *
46962801 GGGTAATTCGGTATTTCTATGCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
46962828 GGGTATTTCAGTAATTCTACCCTACGG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
46962855 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
46962882 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
46962909 GGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
46962936 GGGTATTTTAGTAATTCTACCCTACAT
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * * * *
46962963 AGGTATTTCGGTATTTCTACCTTATAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* * * *
46962990 AGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
46963017 GGGTATTTCGGTAATTCTACCCTAAAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
46963044 GGGTATTTCAGTATTTCTACCCTATAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
46963071 GGGTATTTCGGTAATTCTATCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
46963098 GGGTATTTCAATAATT
1 GGGTATTTCAGTAATT
46963114 TCACAAATCA
Statistics
Matches: 353, Mismatches: 68, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 353 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:46963113 original size:81 final size:81
Alignment explanation
Indices: 46962664--46963113 Score: 591
Period size: 81 Copynumber: 5.6 Consensus size: 81
46962654 TTTACCCCCC
* *
46962664 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* *
46962729 GGTAATTCTATCCTA-
66 GGTATTTCTACCCTAT
* ** * * *
46962744 CAGGAGTATTTCAATAATTCTACCCTATAGGGGTATTTCAGTATTTCTACCCTACAAGGGTAATT
1 AAGG-GTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTT
**
46962809 CGGTATTTCTATGCTAT
65 CGGTATTTCTACCCTAT
* * * * *
46962826 AGGGGTATTTCAGTAATTCTACCCTACGGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
* *
46962891 AGTATTTCTACCCTAC
66 GGTATTTCTACCCTAT
* *
46962907 AAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACATA-GGTATTT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA-AGGGTATTT
*
46962971 CGGTATTTCTACCTTAT
65 CGGTATTTCTACCCTAT
* * * *
46962988 AAAGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTA-AAGGGGTATTT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAA-GGGTATTT
*
46963052 CAGTATTTCTACCCTAT
65 CGGTATTTCTACCCTAT
* *
46963069 AAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAATAATT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
46963114 TCACAAATCA
Statistics
Matches: 322, Mismatches: 43, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
79 1 0.00
80 4 0.01
81 314 0.98
82 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC
GGTATTTCTACCCTAT
Found at i:46963183 original size:54 final size:54
Alignment explanation
Indices: 46963125--46963262 Score: 143
Period size: 54 Copynumber: 2.6 Consensus size: 54
46963115 CACAAATCAG
*** *
46963125 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTAAAATGGTAATTCTGTAAACCAA
** * * * *
46963179 GGGTATTTCAGTAATTTTGCAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTAAAATGGTAATTCTGTAAACCAA
* * *
46963233 GGGTAGTTTGGTAATTTTATAAATTGAGGG
1 GGGTATTTTGGTAATTTTACAAATAGAGGG
46963263 CATTTCAGTA
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 2 0.03
54 65 0.97
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTAAAATGGTAATTCTGTAAACCAA
Found at i:46963208 original size:27 final size:27
Alignment explanation
Indices: 46963098--46963276 Score: 105
Period size: 27 Copynumber: 6.6 Consensus size: 27
46963088 TATCCTACAG
** *
46963098 GGGTATTTCAATAATTTCACAAATC-A
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
46963124 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCGGTAATTTTACAAATCGA
* ** * *
46963151 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCGGTAATTTTACAAATCGA
* *
46963179 GGGTATTTCAGTAATTTTGCAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
** * **
46963206 GGGTAAAAT-GGTAATTCTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTACAAATCGA
* *
46963233 GGGTAGTTT-GGTAATTTTATAAATTGA
1 GGGTA-TTTCGGTAATTTTACAAATCGA
* *
46963260 GGGCATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
46963277 GGTAAACTAA
Statistics
Matches: 123, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
26 5 0.04
27 114 0.93
28 4 0.03
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:46963210 original size:81 final size:81
Alignment explanation
Indices: 46963098--46963276 Score: 184
Period size: 81 Copynumber: 2.2 Consensus size: 81
46963088 TATCCTACAG
* *** * *
46963098 GGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGGTAATT-T-TACAAACTAGGGGTATTTT
1 GGGTATTTCAGTAATTTCACAAATCAGGGGTAAAATGGTAATTCTGTA-AAACGA-GGGTAGTTT
*
46963161 GGTAATTTTGTAAACCAA
64 GGTAATTTTATAAACCAA
** *
46963179 GGGTATTTCAGTAATTTTGCAAATC-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAGTTTG
1 GGGTATTTCAGTAATTTCACAAATCAG-GGGTAAAATGGTAATTCTGTAAAACGAGGGTAGTTTG
***
46963243 GTAATTTTATAAATTGA
65 GTAATTTTATAAACCAA
*
46963260 GGGCATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
46963277 GGTAAACTAA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 1 0.01
81 73 0.90
82 5 0.06
83 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.38
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTCACAAATCAGGGGTAAAATGGTAATTCTGTAAAACGAGGGTAGTTTGG
TAATTTTATAAACCAA
Found at i:46965816 original size:15 final size:15
Alignment explanation
Indices: 46965784--46965812 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46965774 ATTTTTTGTG
46965784 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
46965799 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
46965813 ATTTTCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:46967002 original size:43 final size:43
Alignment explanation
Indices: 46966939--46967068 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 43
46966929 CATAGGATTT
*
46966939 TCGATATGTGTTCTCATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGTTCTCATGTAAGACCACATCTGGGACATTGGCA
* * *
46966982 TCGATATGTGTTCTCGTGTAAGACC-CTGTCTGGGACACTGGCA
1 TCGATATGTGTTCTCATGTAAGACCAC-ATCTGGGACATTGGCA
* *
46967025 TCGATATGTGATT-ACATGTAAGACCACACCTGGGACATTGGCA
1 TCGATATGTG-TTCTCATGTAAGACCACATCTGGGACATTGGCA
46967068 T
1 T
46967069 TGTACGATAT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 71 0.95
44 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (43 bp):
TCGATATGTGTTCTCATGTAAGACCACATCTGGGACATTGGCA
Found at i:46970117 original size:39 final size:39
Alignment explanation
Indices: 46970073--46970209 Score: 222
Period size: 39 Copynumber: 3.5 Consensus size: 39
46970063 ATTCACTTTT
* *
46970073 AAGCATATATCACAATATTCATATAATCACATAACATCC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
46970112 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
46970151 AAGCATATATCACAATACTCATATAATCACAT-ACTTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
46970189 AAGCATATATAACAGTACTCA
1 AAGCATATATCACAATACTCA
46970210 AAAACATGTT
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 24 0.26
39 69 0.74
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:46971307 original size:306 final size:307
Alignment explanation
Indices: 46970753--46971344 Score: 886
Period size: 306 Copynumber: 1.9 Consensus size: 307
46970743 CTTACACTCG
46970753 GAATTTAGAGTAGGGCTTTAGGCTACTACTAAATTCCCAAATAACACATTGAATCATGTCCACAA
1 GAATTTAGAGTAGGGCTTTAGGCTACTACTAAATTCCCAAATAACACATTGAATCATGTCCACAA
* * * * *
46970818 GAAATTATTTCAAAAACTTACCAATTATGCTTTCGTTGAAAAGCCAAAATCTCAAACTAGTTTTT
66 GAAATTATTTCAAAAACTCACCAATTACGCTTTCGTTGAAAAACCAAAAGCTCAAACTAGCTTTT
* **
46970883 CCTTGCCTTTATCTTTACTCATAGAAGGTCTTATCGATTCCAACGCTTCAACAAAGTAAATCACA
131 CCTTGCCTTTAACGCTACTCATAGAAGGTCTTATCGATTCCAACGCTTCAACAAAGTAAATCACA
* * *
46970948 CAACAACACAATCAACATTCAGCTAAAGACTCACATCAAACAATCCAAAAACACAATCCTAAGGT
196 CAACAACACAATCAACATTCAGCCAAAGACTCACATCAAACAATCCAAAAACACAAGCCTAAGCT
46971013 AAGTTCCCTTTTGACCGAAACCTTCGATATGAGCAATCCTATACTTA
261 AAGTTCCCTTTTGACCGAAACCTTCGATATGAGCAATCCTATACTTA
*
46971060 GAATTTAGAGTAGGGCTTTAGGCTACTACTAAATTCCTAAATAAC-CTATTGAATCATGTCCACA
1 GAATTTAGAGTAGGGCTTTAGGCTACTACTAAATTCCCAAATAACAC-ATTGAATCATGTCCACA
** * * ***
46971124 ATCAATTA-TTCCAAAACTCACCAATTACGCTTT-TTTCGAAAAATTGAAAGCTCAAACTAGCTT
65 AGAAATTATTTCAAAAACTCACCAATTACGCTTTCGTT-GAAAAACCAAAAGCTCAAACTAGCTT
*
46971187 TTCCTTGCCTTTAACGCTACTCGTAGAAGGT-TCTATCGATTCCAACGCTTCAACAAAGTAAATC
129 TTCCTTGCCTTTAACGCTACTCATAGAAGGTCT-TATCGATTCCAACGCTTCAACAAAGTAAATC
* * *
46971251 ACACAACAACACAATCAACATTCAGCCAATGACTCACATCAGACTATCCAAAAACACAAGCCTAA
193 ACACAACAACACAATCAACATTCAGCCAAAGACTCACATCAAACAATCCAAAAACACAAGCCTAA
* * **
46971316 GCTAGGTTCTCTTTTGATTGAAACCTTCG
258 GCTAAGTTCCCTTTTGACCGAAACCTTCG
46971345 GCATAGAAAA
Statistics
Matches: 255, Mismatches: 27, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
305 3 0.01
306 185 0.73
307 67 0.26
ACGTcount: A:0.36, C:0.24, G:0.11, T:0.28
Consensus pattern (307 bp):
GAATTTAGAGTAGGGCTTTAGGCTACTACTAAATTCCCAAATAACACATTGAATCATGTCCACAA
GAAATTATTTCAAAAACTCACCAATTACGCTTTCGTTGAAAAACCAAAAGCTCAAACTAGCTTTT
CCTTGCCTTTAACGCTACTCATAGAAGGTCTTATCGATTCCAACGCTTCAACAAAGTAAATCACA
CAACAACACAATCAACATTCAGCCAAAGACTCACATCAAACAATCCAAAAACACAAGCCTAAGCT
AAGTTCCCTTTTGACCGAAACCTTCGATATGAGCAATCCTATACTTA
Found at i:46973987 original size:16 final size:15
Alignment explanation
Indices: 46973963--46974018 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
46973953 TACAGTTGTC
*
46973963 TCACTATCTATCATTT
1 TCACAATCTAT-ATTT
*
46973979 TCACAATCTAGAGTTT
1 TCACAATCTATA-TTT
* *
46973995 TCACAGTCTATAGTT
1 TCACAATCTATATTT
46974010 TCA-AATCTA
1 TCACAATCTA
46974019 AAGAAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 22 0.67
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (15 bp):
TCACAATCTATATTT
Found at i:46976319 original size:19 final size:19
Alignment explanation
Indices: 46976295--46976334 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
46976285 TGTGTCATCA
*
46976295 TAAATTCATAGGCATAGCT
1 TAAATTCATAGGCATAACT
*
46976314 TAAATTTATAGGCATAACT
1 TAAATTCATAGGCATAACT
46976333 TA
1 TA
46976335 CAGATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGGCATAACT
Found at i:46980418 original size:48 final size:48
Alignment explanation
Indices: 46980362--46980639 Score: 351
Period size: 48 Copynumber: 5.8 Consensus size: 48
46980352 CACCATATTA
* * * *
46980362 ATGTGTGCCAGTGTAAGACTATGTTTGGGACATGGAATCGACAATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * *
46980410 ATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACAATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * *
46980458 ATGTATGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCGATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * *
46980506 ATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGTGATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CGATGAT
* * * *
46980554 ATGTTTGCTAGTGTAAGACCAGGTATGGGACATGGCATCGACGATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * * *
46980602 ATGTGTGCTAGTATAAGACCTTGTTTGGGACATGGCAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCAT
46980640 TGTCACTGAC
Statistics
Matches: 204, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
48 203 1.00
49 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (48 bp):
ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
Found at i:46981754 original size:31 final size:27
Alignment explanation
Indices: 46981697--46981754 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
46981687 CTTACTAAGC
46981697 TTTAAGCTTACTCTCTCATTTTCTTTA
1 TTTAAGCTTACTCTCTCATTTTCTTTA
*
46981724 TTTAAGCTTACTCTCTCATTTTCTTTC
1 TTTAAGCTTACTCTCTCATTTTCTTTA
46981751 TTTA
1 TTTA
46981755 GTGATGTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.17, C:0.22, G:0.03, T:0.57
Consensus pattern (27 bp):
TTTAAGCTTACTCTCTCATTTTCTTTA
Found at i:46987289 original size:23 final size:23
Alignment explanation
Indices: 46987237--46987407 Score: 127
Period size: 23 Copynumber: 7.4 Consensus size: 23
46987227 GTCATGGTTG
*
46987237 GTAAGCTCCTCTTGAGCTGATGAACA
1 GTAAGCT-CTATTGAGCTGA--AACA
* *
46987263 GTAACCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACA
**
46987286 GTAAGCTCTATCAAGCT-AAACA
1 GTAAGCTCTATTGAGCTGAAACA
*
46987308 GTAAGCTC-ATACGAGCTGAAACA
1 GTAAGCTCTAT-TGAGCTGAAACA
*
46987331 GTAAGCTTTATTGAGCTG-AACA
1 GTAAGCTCTATTGAGCTGAAACA
* * * *
46987353 TTAGGCTCT-TTCAAGCT-AAACCG
1 GTAAGCTCTATT-GAGCTGAAA-CA
* *
46987376 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAAACA
*
46987399 GTAAACTCT
1 GTAAGCTCT
46987408 TCCGAGCTAT
Statistics
Matches: 114, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
21 4 0.04
22 33 0.29
23 54 0.47
24 6 0.05
25 11 0.10
26 6 0.05
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACA
Found at i:46987343 original size:68 final size:68
Alignment explanation
Indices: 46987250--46987407 Score: 185
Period size: 68 Copynumber: 2.3 Consensus size: 68
46987240 AGCTCCTCTT
*
46987250 GAGCTGATGAACAGTAACCTCTATTGAGCTGAAACGGTAAGCTCTATCAAGCTAAA-CAGTAAGC
1 GAGCTGA--AACAGTAACCTCTATTGAGCTG-AACAGTAAGCTCTATCAAGCTAAACCAGTAAGC
46987314 T-CATAC
63 TCCA-AC
* * * * * *
46987320 GAGCTGAAACAGTAAGCTTTATTGAGCTGAACATTAGGCTCTTTCAAGCTAAACCGGTAAGCTCC
1 GAGCTGAAACAGTAACCTCTATTGAGCTGAACAGTAAGCTCTATCAAGCTAAACCAGTAAGCTCC
*
46987385 AAT
66 AAC
*
46987388 GAGCTGAAACAGTAAACTCT
1 GAGCTGAAACAGTAACCTCT
46987408 TCCGAGCTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
67 20 0.26
68 47 0.62
69 2 0.03
70 7 0.09
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (68 bp):
GAGCTGAAACAGTAACCTCTATTGAGCTGAACAGTAAGCTCTATCAAGCTAAACCAGTAAGCTCC
AAC
Found at i:46993166 original size:22 final size:22
Alignment explanation
Indices: 46993139--46993220 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
46993129 CCTGAGCTGA
*
46993139 TGAACAGTAAGCTCTATAAAGC
1 TGAACAGTAAGCTCTATAGAGC
46993161 TGAACAGTAAGCTC-ATACGAGC
1 TGAACAGTAAGCTCTATA-GAGC
* *
46993183 TGAAACGGTAAGCT-TCATTGAGC
1 TG-AACAGTAAGCTCT-ATAGAGC
*
46993206 TGAACAGTAAACTCT
1 TGAACAGTAAGCTCT
46993221 TTCGAGCTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.06
22 28 0.56
23 17 0.34
24 2 0.04
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATAGAGC
Found at i:46993196 original size:23 final size:23
Alignment explanation
Indices: 46993132--46993261 Score: 83
Period size: 22 Copynumber: 5.7 Consensus size: 23
46993122 AGCTCCTCCT
46993132 GAGCTGATGAACAGTAAGCTCTATA-
1 GAGCTGA--AACAGTAAGCTC-ATAC
*
46993157 AAGCTG-AACAGTAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCATAC
* *
46993179 GAGCTGAAACGGTAAGCTTCAT-T
1 GAGCTGAAACAGTAAGC-TCATAC
* * *
46993202 GAGCTG-AACAGTAAACTCTTTC
1 GAGCTGAAACAGTAAGCTCATAC
* * *
46993224 GAGCT-AAATCGGCAAGCTCCA-AT
1 GAGCTGAAA-CAGTAAGCT-CATAC
46993247 GAGCTGAAACAGTAA
1 GAGCTGAAACAGTAA
46993262 ACTCTTCCAA
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.07
22 32 0.40
23 30 0.37
24 8 0.10
25 5 0.06
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCATAC
Found at i:46993207 original size:45 final size:45
Alignment explanation
Indices: 46993158--46993265 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
46993148 AGCTCTATAA
* * * *
46993158 AGCTGAACAGTAAGCTCATACGAGCTGAAA-CGGTAAGCTTCATTG
1 AGCTGAACAGTAAACTCATACGAGCT-AAATCGGCAAGCTCCAATG
* *
46993203 AGCTGAACAGTAAACTCTTTCGAGCTAAATCGGCAAGCTCCAATG
1 AGCTGAACAGTAAACTCATACGAGCTAAATCGGCAAGCTCCAATG
46993248 AGCTGAAACAGTAAACTC
1 AGCTG-AACAGTAAACTC
46993266 TTCCAAGCTG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 3 0.05
45 40 0.73
46 12 0.22
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (45 bp):
AGCTGAACAGTAAACTCATACGAGCTAAATCGGCAAGCTCCAATG
Found at i:46996520 original size:19 final size:19
Alignment explanation
Indices: 46996496--46996533 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46996486 TGTGTCATCA
*
46996496 TAAATTCATATGCATAACT
1 TAAATTCATAAGCATAACT
*
46996515 TAAATTTATAAGCATAACT
1 TAAATTCATAAGCATAACT
46996534 CACACATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAATTCATAAGCATAACT
Found at i:47013303 original size:93 final size:93
Alignment explanation
Indices: 47013190--47013361 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
47013180 CGCCCATAAG
* *
47013190 CGAACACGGACTCAACTCAACGAGCTCAGG-CGTTCGGATCCATAAGTGAACTCGGACTCAACTC
1 CGAACACGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
47013254 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACAAGTTCGGATGCCTAGTTACATCTCA
* *
47013283 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACACGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47013348 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
47013362 TCAATCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACACGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:47013356 original size:46 final size:46
Alignment explanation
Indices: 47013183--47013358 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
47013173 TGTAACCCGC
* * * *
47013183 CCATAAGCGAACACGGACTCAACTCAACGAGCTCAGG-CGTTCGGAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
47013229 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
47013279 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
47013322 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
47013359 TGCTCAATCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:47013377 original size:46 final size:46
Alignment explanation
Indices: 47013227--47013377 Score: 141
Period size: 46 Copynumber: 3.2 Consensus size: 46
47013217 AGGCGTTCGG
47013227 ATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTAC
1 ATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A--T-C
* * *** *
47013277 AT-CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GC
1 ATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATC
*
47013320 ATCCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAATC
1 ATCC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ATC
47013368 ATCCT-AGTGA
1 ATCCTAAGTGA
47013378 CATGTCACTT
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.02
46 35 0.43
47 30 0.37
48 8 0.10
49 1 0.01
50 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
ATCCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATC
Found at i:47014807 original size:51 final size:52
Alignment explanation
Indices: 47014730--47014863 Score: 193
Period size: 52 Copynumber: 2.6 Consensus size: 52
47014720 CGTATACTCG
* * *
47014730 GTGGCCTGCACCTAGTACCACCCTTGTAGTCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTATCCTTCTTCACAAA
* *
47014781 GTGGCCTTCACATAGTACCACACTTGT-GACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAG-TCAAAGCTATCCTTCTTCACAAA
47014833 GTGGCCTTCACATAGTACCACACTTG-AGTCA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCA
47014864 CTGGTGACAT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
50 1 0.01
51 34 0.46
52 39 0.53
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTATCCTTCTTCACAAA
Found at i:47020804 original size:21 final size:21
Alignment explanation
Indices: 47020778--47020848 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
47020768 AATTACATGG
47020778 TAAATATCAAATCACCTTAAA
1 TAAATATCAAATCACCTTAAA
** * *
47020799 TAAATAT-AAGCCA-ATTACATGG
1 TAAATATCAAATCACCTTA-A--A
47020821 TAAATATCAAATCACCTTAAA
1 TAAATATCAAATCACCTTAAA
*
47020842 CAAATAT
1 TAAATAT
47020849 AAGCCAATAC
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
19 3 0.08
20 5 0.14
21 13 0.36
22 7 0.19
23 5 0.14
24 3 0.08
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.28
Consensus pattern (21 bp):
TAAATATCAAATCACCTTAAA
Found at i:47020875 original size:43 final size:43
Alignment explanation
Indices: 47020757--47020860 Score: 185
Period size: 43 Copynumber: 2.5 Consensus size: 43
47020747 TCATTTTAGC
47020757 CAAA-ATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
1 CAAATATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
*
47020799 TAAATATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
1 CAAATATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
47020842 CAAATATAAGCCAA-TACAT
1 CAAATATAAGCCAATTACAT
47020861 TTGGCAAAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 8 0.14
43 51 0.86
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.25
Consensus pattern (43 bp):
CAAATATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
Found at i:47022674 original size:32 final size:32
Alignment explanation
Indices: 47022633--47022693 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
47022623 AGAAAATGGG
47022633 CTTCCTCACACGGGCATTCCACACGGCCGGGA
1 CTTCCTCACACGGGCATTCCACACGGCCGGGA
47022665 CTTCCTCACACGGGCATTCCACACGGCCG
1 CTTCCTCACACGGGCATTCCACACGGCCG
47022694 TGTCAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.18, C:0.43, G:0.23, T:0.16
Consensus pattern (32 bp):
CTTCCTCACACGGGCATTCCACACGGCCGGGA
Found at i:47022684 original size:15 final size:15
Alignment explanation
Indices: 47022630--47022684 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
47022620 TGGAGAAAAT
47022630 GGGC-TTCCTCACAC
1 GGGCATTCCTCACAC
* *
47022644 GGGCATTCCACACGGCC
1 GGGCATTCCTCAC--AC
47022661 GGG-ACTTCCTCACAC
1 GGGCA-TTCCTCACAC
47022676 GGGCATTCC
1 GGGCATTCC
47022685 ACACGGCCGT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
14 4 0.12
15 15 0.47
16 2 0.06
17 11 0.34
ACGTcount: A:0.16, C:0.40, G:0.25, T:0.18
Consensus pattern (15 bp):
GGGCATTCCTCACAC
Found at i:47026958 original size:25 final size:25
Alignment explanation
Indices: 47026890--47026958 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
47026880 GAGGAAGTGA
* *
47026890 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
*
47026915 AAAAGGGCTTTGCCTTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
47026940 AAAAGGGCTTTGCCCTAGT
1 AAAAGGGCTTTGCCCTAGT
47026959 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCG
Found at i:47034712 original size:20 final size:20
Alignment explanation
Indices: 47034684--47034721 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47034674 ATGGTTTGAC
*
47034684 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
47034704 ATGAAATGCACATGATAT
1 ATGAAATGCACATGATAT
47034722 ATTCATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:47034832 original size:25 final size:25
Alignment explanation
Indices: 47034767--47034835 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
47034757 GAGGAAGTGA
*
47034767 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
*
47034792 AAAAGGGCTTTGCCCTAGTTTATCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
47034817 AAAAGGGCTTTGCCCTAGT
1 AAAAGGGCTTTGCCCTAGT
47034836 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCG
Found at i:47043977 original size:43 final size:43
Alignment explanation
Indices: 47043828--47043984 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
47043818 ATATTGTACA
* *
47043828 ATGCCAACGTCTCAGACGTGGTCTTACATGCT-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATATCG
* ** * * *
47043871 ATGCGATTGTCCTAGACAG-GGTCTTACATG-AATCAAATAT-G
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * * *
47043912 ATGCCTATGTCCCAAACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
47043955 ATTCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
47043985 AGAACACATT
Statistics
Matches: 90, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 23 0.26
42 17 0.19
43 49 0.54
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:47044965 original size:25 final size:25
Alignment explanation
Indices: 47044928--47045022 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
47044918 CTCTTTTAAT
*
47044928 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
47044953 AATTGGGGCAAAGCCCTTTTT-AGTA
1 AACTGGGGCAAAGCCCTTTTTGA-TA
*
47044978 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
47045003 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
47045023 AGAATTTCCT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
24 1 0.02
25 61 0.97
26 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:47044987 original size:50 final size:50
Alignment explanation
Indices: 47044928--47045022 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
47044918 CTCTTTTAAT
* *
47044928 AACTAGGGCAAAGCCCTTTTTGATAAATTGGGGCAAAGCCCTTTTTAGTA
1 AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTTAGTA
* *
47044978 AACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTT
47045023 AGAATTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (50 bp):
AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTTAGTA
Found at i:47045273 original size:27 final size:27
Alignment explanation
Indices: 47045224--47045414 Score: 283
Period size: 27 Copynumber: 7.0 Consensus size: 27
47045214 GGGGCAAAAT
* * * *
47045224 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
47045252 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47045279 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47045306 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47045333 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47045360 GATAATTCTACCCTACAGGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47045387 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47045414 G
1 G
47045415 ATATTTTACA
Statistics
Matches: 147, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
27 142 0.97
28 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:47045583 original size:27 final size:27
Alignment explanation
Indices: 47045375--47045610 Score: 183
Period size: 27 Copynumber: 8.8 Consensus size: 27
47045365 TTCTACCCTA
* * * ** *
47045375 CAGGGATATTTCGGTAATTCTACCCTA
1 CAGGGGTATTTTGGTAATTTTACAATC
* *
47045402 CAGGGGTATTTCGAT-ATTTTACAAAT-
1 CAGGGGTATTTTGGTAATTTTAC-AATC
* * * *
47045428 CAAGAGTATTTTGATAATTTCACATAT-
1 CAGGGGTATTTTGGTAATTTTACA-ATC
* *
47045455 CACGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAATC
* *
47045482 CAGGGGTGTTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAATC
* * *
47045509 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAATC
*
47045536 CAGGGGTATTTTGGTAATTTTACTGATC
1 CAGGGGTATTTTGGTAATTTTAC-AATC
* ** *
47045564 GA-GGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAATC
* *
47045590 CAAGGGTATTTTAGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
47045611 GTAAATTGGG
Statistics
Matches: 172, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 23 0.13
27 146 0.85
28 3 0.02
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAATC
Found at i:47045615 original size:27 final size:27
Alignment explanation
Indices: 47045417--47045610 Score: 217
Period size: 27 Copynumber: 7.2 Consensus size: 27
47045407 GTATTTCGAT
* * *
47045417 ATTTTACAAATCAAGAGTATTTTGATA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* * * *
47045444 ATTTCACATATCACGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* * *
47045471 ATTTTACAAGCCAGGGGTGTTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
47045498 ATTTTACAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
47045525 ATTTTACAAACCAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** * *
47045552 ATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** *
47045579 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
47045606 ATTTT
1 ATTTT
47045611 GTAAATTGGG
Statistics
Matches: 138, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTTTACAAACCAAGGGTATTTTGGTA
Found at i:47045624 original size:81 final size:81
Alignment explanation
Indices: 47045402--47045610 Score: 253
Period size: 81 Copynumber: 2.6 Consensus size: 81
47045392 TTCTACCCTA
* * * * * * * *
47045402 CAGGGGTATTTCGAT-ATTTTACAAATCAAGAGTATTTT-GATAATTTCACATATCACGGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAACCAGGGGTATT
47045465 TTGGTAATTTTACAAGC
65 TTGGTAATTTTACAAGC
*
47045482 CAGGGGTGTTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
* *
47045547 TGGTAATTTTACTGATC
66 TGGTAATTTTAC-AAGC
* **
47045564 GA-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
47045611 GTAAATTGGG
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
80 12 0.11
81 95 0.86
82 4 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
TGGTAATTTTACAAGC
Found at i:47045633 original size:27 final size:27
Alignment explanation
Indices: 47045603--47045931 Score: 446
Period size: 27 Copynumber: 12.2 Consensus size: 27
47045593 GGGTATTTTA
* * *
47045603 GTAATTTTGTAAATTGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
47045630 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
47045657 GTAATTCTGTGAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
47045684 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
47045711 GTAATTCT-TAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * **
47045737 GTAATTTTGTAAATCAAGGGTAAAGTG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47045764 GTAATTCTATAAATCGAGGGTAGAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
47045791 GTAATTCTATAAATCGAGGGTAAAATC-
1 GTAATTCTGTAAATCGAGGGTAAAA-CG
*
47045818 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
47045845 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47045872 GTAATTCTATAAATCGATGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47045899 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
47045926 GTAATT
1 GTAATT
47045932 TTACAAACTG
Statistics
Matches: 269, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
26 24 0.09
27 244 0.91
28 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:47045633 original size:81 final size:81
Alignment explanation
Indices: 47045485--47045635 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
47045475 TACAAGCCAG
* ****
47045485 GGGTGTTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTAAAACGG
47045550 TAATTTTACTGATCGA
66 TAATTTTACTGATCGA
** ** ***
47045566 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATTGGGGGTAAAACGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTAAAACGG
47045631 TAATT
66 TAATT
47045636 CTGTAAATCG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTAAAACGG
TAATTTTACTGATCGA
Found at i:47049046 original size:40 final size:40
Alignment explanation
Indices: 47048951--47049210 Score: 305
Period size: 40 Copynumber: 6.5 Consensus size: 40
47048941 CCAAGCCAAG
* * *
47048951 TGCCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AA
1 TGCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAA
* * * *
47048989 TGCCTTCAGGACATAGCCCAGATATAGTAACTCGCACCAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* *
47049029 TGCCTTCGAGACTTAGCCCGGATATAGTAACTCACACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* *
47049069 TGCCTTCGGGACTTAGCGCGGATGTAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* * * *
47049109 TGCCTTCGGGACTTAGCCCGAATGTAATAACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
47049149 TGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAA
1 TGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAA
47049190 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
47049211 TTATCATCCA
Statistics
Matches: 191, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
38 13 0.07
39 16 0.08
40 135 0.71
41 24 0.13
42 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:47057241 original size:23 final size:23
Alignment explanation
Indices: 47057208--47057273 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
47057198 GGATTTTTGG
*
47057208 TTTTTACTTTTTATTATTATACTA
1 TTTTTA-TTTTTATTATTATAATA
*
47057232 TTTTTATTTTTATTAATATTAATA
1 TTTTTATTTTTATTATTA-TAATA
*
47057256 -TTTTACTTTT-TTATTATA
1 TTTTTATTTTTATTATTATA
47057274 TTACTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.05
22 5 0.14
23 20 0.54
24 10 0.27
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTTATTTTTATTATTATAATA
Found at i:47057242 original size:24 final size:23
Alignment explanation
Indices: 47057208--47057281 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 23
47057198 GGATTTTTGG
47057208 TTTTTACTTTTTATTAT-TATACTA
1 TTTTTA-TTTTTATTATAT-TACTA
*
47057232 TTTTTATTTTTATTAATATTAATA
1 TTTTTATTTTTATT-ATATTACTA
47057256 -TTTTACTTTTTTATTATATTACTA
1 TTTTTA--TTTTTATTATATTACTA
47057280 TT
1 TT
47057282 ATTAGTAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
23 13 0.30
24 20 0.47
25 10 0.23
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTTATTTTTATTATATTACTA
Found at i:47057276 original size:30 final size:32
Alignment explanation
Indices: 47057222--47057282 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 32
47057212 TACTTTTTAT
*
47057222 TATTATACTATTTTTATTTTTATTAATATTAA
1 TATTATACTATTTTTATTTATATTAATATTAA
* *
47057254 TATTTTACT-TTTTTA-TTATATTACTATTA
1 TATTATACTATTTTTATTTATATTAATATTA
47057283 TTAGTAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 12 0.46
31 6 0.23
32 8 0.31
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (32 bp):
TATTATACTATTTTTATTTATATTAATATTAA
Found at i:47057300 original size:48 final size:48
Alignment explanation
Indices: 47057209--47057311 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 48
47057199 GATTTTTGGT
* * ** *
47057209 TTTTAC-TTTTTATTATTATACTATTTTTATTTTTATTAATATTAATA
1 TTTTACTTTTTTATTATTATACTATTATTAGTAATAGTAATATTAATA
* *
47057256 TTTTACTTTTTTATTA-TATTACTATTATTAGTAATAGTACTATTATTA
1 TTTTACTTTTTTATTATTA-TACTATTATTAGTAATAGTAATATTAATA
47057304 TTCTTACT
1 TT-TTACT
47057312 ATTATGCTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.17
48 33 0.72
49 5 0.11
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (48 bp):
TTTTACTTTTTTATTATTATACTATTATTAGTAATAGTAATATTAATA
Found at i:47063719 original size:7 final size:7
Alignment explanation
Indices: 47063707--47063733 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
47063697 AAATAACATT
47063707 TTTATCA
1 TTTATCA
47063714 TTTATCA
1 TTTATCA
47063721 TTTATCA
1 TTTATCA
47063728 TTTATC
1 TTTATC
47063734 GACATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTATCA
Found at i:47066951 original size:42 final size:42
Alignment explanation
Indices: 47066832--47066987 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 42
47066822 AGTACCACAC
* * ** **
47066832 CAATGCAACATCCCAGATATGGTCTTACATGGGATCTTGTA-
1 CAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATAT
* * * * * *
47066873 CTGATGCCAATAGCCTAGCTATGATCTTACACGAAATCTCATAT
1 C-AATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATAT
*
47066917 CAATGCCATATCCCAGATATGGTCTTACATGAAATCTCAAAAT
1 CAATGCCATATCCCAGATATGGTCTTACATGAAATCTC-ATAT
*
47066960 -GATGCCATATCCCAGATATGGTCTTACA
1 CAATGCCATATCCCAGATATGGTCTTACA
47066988 CATAGTCTCA
Statistics
Matches: 91, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 57 0.63
43 32 0.35
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATAT
Found at i:47071524 original size:27 final size:27
Alignment explanation
Indices: 47071494--47071555 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
47071484 AGTTTATAAA
47071494 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* * *
47071521 ATACCTCT-AGGTGCAAAATTACTATT
1 ATACCCCTAAGATGCAAAATTACCATT
47071547 ATACCCCTA
1 ATACCCCTA
47071556 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:47071727 original size:27 final size:27
Alignment explanation
Indices: 47071669--47071739 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
47071659 GTTCTGGTGG
* * *
47071669 CTCTGCCACAAATATCTATTTCCGGTGG
1 CTCTGCCAC-AATATCTATATCCAGTGA
*
47071697 CTCTGCCACAATATCTATATCTAGTGA
1 CTCTGCCACAATATCTATATCCAGTGA
*
47071724 CTCTGTCACAATATCT
1 CTCTGCCACAATATCT
47071740 GTTCTGGCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 29 0.76
28 9 0.24
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (27 bp):
CTCTGCCACAATATCTATATCCAGTGA
Found at i:47072971 original size:34 final size:34
Alignment explanation
Indices: 47072928--47072996 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
47072918 ACCGAGACTA
47072928 TAGCTAGACTGTGATTCTATGAAAAATAGAAACT
1 TAGCTAGACTGTGATTCTATGAAAAATAGAAACT
47072962 TAGCTAGACTGTGATTCTATGAAAAATAGAAACT
1 TAGCTAGACTGTGATTCTATGAAAAATAGAAACT
47072996 T
1 T
47072997 TAAAACACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (34 bp):
TAGCTAGACTGTGATTCTATGAAAAATAGAAACT
Found at i:47073737 original size:3 final size:3
Alignment explanation
Indices: 47073724--47073755 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
47073714 AATTTGGATG
*
47073724 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
47073756 TTGTATGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:47085717 original size:40 final size:40
Alignment explanation
Indices: 47085623--47085847 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
47085613 TATTTGAATG
*
47085623 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
47085664 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
47085704 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
47085744 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
47085784 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
47085824 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
47085848 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:47085803 original size:80 final size:80
Alignment explanation
Indices: 47085623--47085883 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
47085613 TATTTGAATG
* * * *
47085623 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
47085688 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
47085704 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
47085769 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
47085784 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
47085849 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
47085863 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
47085884 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:47085837 original size:120 final size:120
Alignment explanation
Indices: 47085623--47085883 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
47085613 TATTTGAATG
* * *
47085623 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
47085688 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
47085744 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
47085807 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
47085863 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
47085884 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:47098261 original size:27 final size:27
Alignment explanation
Indices: 47098231--47098445 Score: 227
Period size: 27 Copynumber: 8.0 Consensus size: 27
47098221 GGGGAAAAAT
* * *
47098231 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
47098258 GGTAATTCTACCCTATAGGGGTTTTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47098285 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
47098312 GGTAATTCTACCCTAC-AGGTGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* * *
47098339 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47098366 GGTAACTCTACCCTA-TAGCGTTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
47098393 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
47098420 AGTAATTCTACCCTACTGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
47098446 TGATATTTTA
Statistics
Matches: 155, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.03
27 148 0.95
28 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47098277 original size:54 final size:54
Alignment explanation
Indices: 47098219--47098326 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
47098209 TTTAACACCC
47098219 TAGGGGAAAAATGGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTA
1 TAGGGGAAAAATGGT-ATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
***** * *
47098273 TAGGGGTTTTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTA
1 TAGGGGAAAAATGGTATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
47098327 CAGGTGTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
53 4 0.09
54 42 0.91
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (54 bp):
TAGGGGAAAAATGGTATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTA
Found at i:47098348 original size:54 final size:54
Alignment explanation
Indices: 47098231--47098445 Score: 259
Period size: 54 Copynumber: 4.0 Consensus size: 54
47098221 GGGGAAAAAT
* * * * * *
47098231 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTTTTTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
47098285 GGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGTGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * * * *
47098339 AGTAATTCTATCCTACAGGGGTATTTCGGTAACTCTACCCTATAGCGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
47098393 GGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACTGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
47098446 TGATATTTTA
Statistics
Matches: 135, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 135 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:47098376 original size:81 final size:80
Alignment explanation
Indices: 47098231--47098445 Score: 261
Period size: 81 Copynumber: 2.6 Consensus size: 80
47098221 GGGGAAAAAT
* * * * * * * **
47098231 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTTTTTTGGTATTTCTAC
1 GGTAATTCTACCCTAC-AGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAACTCTAC
47098296 CCTACAAG-GGTATTTC
65 CCTA-AAGCGGTATTTC
*
47098312 GGTAATTCTACCCTACAGGTGTATTTCAGTAATTCTATCCTACAGGGGTATTTCGGTAACTCTAC
1 GGTAATTCTACCCTACAGG-GTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAACTCTAC
* *
47098377 CCTATAGCGTTATTTC
65 CCTAAAGCGGTATTTC
* *
47098393 GGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACTGGGGTATTT
1 GGTAATTCTACCCTACA-GGGTATTTCAGTAATTCTACCCTACAGGGGTATTT
47098446 TGATATTTTA
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 5 0.04
81 109 0.94
82 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (80 bp):
GGTAATTCTACCCTACAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAACTCTACC
CTAAAGCGGTATTTC
Found at i:47098657 original size:27 final size:27
Alignment explanation
Indices: 47098438--47098971 Score: 301
Period size: 27 Copynumber: 19.9 Consensus size: 27
47098428 TACCCTACTG
* *
47098438 GGGTATTTTGAT-ATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * * *
47098464 GAGTATTTTGATAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
47098490 GGGGTATTTTGGTAATTTTA-CAAGCTAA
1 -GGGTATTTTGGTAATTTTATAAATC-GA
* *
47098518 GGGTATTTTGGTAATTTTACAAA-CCA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
47098544 GAGGTATTTTAGTAATTTTACAAA-CTA
1 G-GGTATTTTGGTAATTTTATAAATCGA
* **
47098571 GGGGTATCTTGGTAATTTTATTGATCGA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * *
47098599 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
47098626 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* **** * *
47098653 TGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** * *
47098680 GGGTAAAATGATAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
47098707 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
47098734 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** *
47098761 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** * * *
47098788 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
47098815 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* ** *
47098842 GGGCATTTCAGTAATTTTA-CAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* ** *
47098868 CGGTA-TTCAGTAATTTTATAAA-CTGG
1 GGGTATTTTGGTAATTTTATAAATC-GA
* * *
47098894 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* ** *
47098921 AGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* *
47098948 TGGTATTTTAGTAATTTTAGTAAA
1 GGGTATTTTGGTAATTTTA-TAAA
47098972 CTAAAGTATT
Statistics
Matches: 420, Mismatches: 75, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
25 14 0.03
26 32 0.08
27 364 0.87
28 10 0.02
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:47098912 original size:79 final size:82
Alignment explanation
Indices: 47098815--47098973 Score: 234
Period size: 79 Copynumber: 2.0 Consensus size: 82
47098805 TGTAAATCGA
* * *
47098815 GGGTATTTTGGTAATTTTACAAATTGAGGGCATTTCAGTAATTTTAC-AATCGACGGTA-TTCAG
1 GGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTACAAATCGACGGTATTTCAG
47098878 TAATTTTA-TAAACTGG
66 TAATTTTAGTAAACTGG
* * * *
47098894 GGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGATGGTATTTTAG
1 GGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTACAAATCGACGGTATTTCAG
47098959 TAATTTTAGTAAACT
66 TAATTTTAGTAAACT
47098974 AAAGTATTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
79 42 0.60
80 10 0.14
81 12 0.17
82 6 0.09
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (82 bp):
GGGTACTTTGGTAATTTTACAAATCGAAGGCATTTCAGTAATTTTACAAATCGACGGTATTTCAG
TAATTTTAGTAAACTGG
Found at i:47100671 original size:23 final size:24
Alignment explanation
Indices: 47100640--47100747 Score: 83
Period size: 25 Copynumber: 4.4 Consensus size: 24
47100630 TTGAAGGCCT
47100640 AGCCTCTTTTAAT-AACTGCAGCAA
1 AGCC-CTTTTAATAAACTGCAGCAA
* **
47100664 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGCAGCAA
** **
47100688 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTT-AATAAACTGCAGCAA
* * **
47100713 AGCCCTCTTCAGTAAACTGGGGCAA
1 AGCCCT-TTTAATAAACTGCAGCAA
47100738 AGCCCTTTTA
1 AGCCCTTTTA
47100748 GCACTTCCTC
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 7 0.09
24 25 0.34
25 40 0.54
26 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGCAGCAA
Found at i:47100709 original size:25 final size:25
Alignment explanation
Indices: 47100660--47100746 Score: 140
Period size: 25 Copynumber: 3.5 Consensus size: 25
47100650 AATAACTGCA
*
47100660 GCAAAGCCCTTTT-GATAAACTGGG
1 GCAAAGCCCTTTTCGGTAAACTGGG
47100684 GCAAAGCCCTTTTCGGTAAACTGGG
1 GCAAAGCCCTTTTCGGTAAACTGGG
* *
47100709 GCAAAGCCCTCTTCAGTAAACTGGG
1 GCAAAGCCCTTTTCGGTAAACTGGG
47100734 GCAAAGCCCTTTT
1 GCAAAGCCCTTTT
47100747 AGCACTTCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
24 13 0.22
25 45 0.78
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (25 bp):
GCAAAGCCCTTTTCGGTAAACTGGG
Found at i:47101248 original size:27 final size:27
Alignment explanation
Indices: 47100951--47101246 Score: 430
Period size: 27 Copynumber: 11.0 Consensus size: 27
47100941 GGGGAAAAAT
* * * *
47100951 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47100978 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47101005 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47101032 GGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47101059 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47101086 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47101113 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47101140 GGTAATTCTACCCTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47101167 GGTAATTCTACCGTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
47101194 AGTAATTTTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
47101221 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
47101247 TGATATTTTA
Statistics
Matches: 242, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 242 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Done.