Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 60 of 259
Found at i:19374311 original size:21 final size:21
Alignment explanation
Indices: 19374270--19374311 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
19374260 GAATTTTTTA
* *
19374270 AATGTTTTCATAAATTTTAAT
1 AATGTTTTCACAAATTATAAT
19374291 AATGTTTT-ACAAATTCATAAT
1 AATGTTTTCACAAATT-ATAAT
19374312 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (21 bp):
AATGTTTTCACAAATTATAAT
Found at i:19380246 original size:18 final size:21
Alignment explanation
Indices: 19380200--19380240 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
19380190 ATTTTCAACC
19380200 TAAATTAAATTGAAATTCAAAAT
1 TAAA-TAAATTGAAATT-AAAAT
19380223 TAAATAAATTG-AATTAAA
1 TAAATAAATTGAAATTAAA
19380241 TAAATATGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 4 0.22
22 7 0.39
23 4 0.22
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (21 bp):
TAAATAAATTGAAATTAAAAT
Found at i:19382368 original size:46 final size:47
Alignment explanation
Indices: 19382251--19382471 Score: 220
Period size: 47 Copynumber: 4.7 Consensus size: 47
19382241 ATTATGAGAA
* * *
19382251 CCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAAACG-AGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGACGTA-AG
* * *
19382299 CTAGTGCAAGA-CATGTCTAGGACAT-GCATCGGGCTCGAGACGTAAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTCGAGACGTAAG
* *
19382345 CCAGTGTAAGA-CATGTCTGGGACAT-GCGTCGGCTACGAGATGGT-AG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGA-CGTAAG
* * * * *
19382391 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATGTGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGACGTAAG
* *
19382438 CCATTGTAAGACCATGTATGGGACATGGCATCGG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG
19382472 TACCTTACAC
Statistics
Matches: 146, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
45 4 0.03
46 57 0.39
47 69 0.47
48 16 0.11
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGACGTAAG
Found at i:19389795 original size:46 final size:46
Alignment explanation
Indices: 19389742--19389960 Score: 178
Period size: 46 Copynumber: 4.7 Consensus size: 46
19389732 GTTGTTGGCT
* *
19389742 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGA-GACGAGAGCC
* * ** * *
19389788 AGTGTAAGACCATTTCTGGGACATGGCAT-TGATATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGACGAGAGCC
* * *
19389836 AGTGTAAGACTTGTCCGGGACATGCATC-GACCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CCACGAGACG-AGAGCC
* * * *
19389882 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATG-GTAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACGAG-AGCC
*
19389928 AGTGTAAGACCATGTTTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
19389961 ACCTTACCAA
Statistics
Matches: 137, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
46 68 0.50
47 41 0.30
48 27 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGACGAGAGCC
Found at i:19392564 original size:28 final size:28
Alignment explanation
Indices: 19392519--19392574 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
19392509 GTAATTGGAA
*
19392519 TCCTCAAAGCAAGACCATCAAACGACAC
1 TCCTAAAAGCAAGACCATCAAACGACAC
* *
19392547 TCCTAAAAGTAAGGCCATCAAACGACAC
1 TCCTAAAAGCAAGACCATCAAACGACAC
19392575 AATTTCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.32, G:0.12, T:0.12
Consensus pattern (28 bp):
TCCTAAAAGCAAGACCATCAAACGACAC
Found at i:19399876 original size:30 final size:30
Alignment explanation
Indices: 19399842--19399908 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
19399832 CTATAAGATG
19399842 TATGATTATAATTGAGCATGCCATTTTAAA
1 TATGATTATAATTGAGCATGCCATTTTAAA
*
19399872 TATGATTATAATTGAGCATGTCATTTTAAA
1 TATGATTATAATTGAGCATGCCATTTTAAA
19399902 TAT-ATTA
1 TATGATTA
19399909 AATACATGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 4 0.11
30 32 0.89
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.43
Consensus pattern (30 bp):
TATGATTATAATTGAGCATGCCATTTTAAA
Found at i:19418038 original size:20 final size:21
Alignment explanation
Indices: 19418013--19418052 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
19418003 GGGTTGATTA
*
19418013 CTCGA-TAAATTTCGATTTCC
1 CTCGATTAAATTCCGATTTCC
*
19418033 CTCGATTGAATTCCGATTTC
1 CTCGATTAAATTCCGATTTC
19418053 TTTCTTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.40
Consensus pattern (21 bp):
CTCGATTAAATTCCGATTTCC
Found at i:19428937 original size:43 final size:43
Alignment explanation
Indices: 19428868--19428973 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
19428858 TCCTAGATAT
*
19428868 GGTCTTACATGTTATCACATATCAATGCCACTAT-TC-CAAACAG
1 GGTCTTACATGTAATCACATATCAATGCCA--ATGTCTCAAACAG
* * *
19428911 GGTCTTACATGTAATCTCA-ATACAATGCCAATGTCTCAGACAT
1 GGTCTTACATGTAATCACATAT-CAATGCCAATGTCTCAAACAG
19428954 GGTCTTACATGTAATCACAT
1 GGTCTTACATGTAATCACAT
19428974 CTCGATAACC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 2 0.04
42 4 0.07
43 48 0.89
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCAATGCCAATGTCTCAAACAG
Found at i:19438100 original size:47 final size:50
Alignment explanation
Indices: 19438017--19438152 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 50
19438007 TGTAACCCGC
* *
19438017 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCAT
* *
19438067 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCAT
* *
19438110 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA
19438153 AATATCCTAA
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
43 7 0.10
44 2 0.03
45 2 0.03
46 28 0.39
47 28 0.39
48 2 0.03
49 2 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (50 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCAT
Found at i:19475666 original size:9 final size:9
Alignment explanation
Indices: 19475654--19475703 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
19475644 GTTAATACTT
19475654 TAATTCGGG
1 TAATTCGGG
*
19475663 TAATTCGAG
1 TAATTCGGG
* *
19475672 TAATTCAGT
1 TAATTCGGG
*
19475681 TAATTCAGG
1 TAATTCGGG
*
19475690 TAATTCGGT
1 TAATTCGGG
19475699 TAATT
1 TAATT
19475704 TGATTAATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (9 bp):
TAATTCGGG
Found at i:19475666 original size:17 final size:17
Alignment explanation
Indices: 19475630--19475666 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
19475620 GTAGTGATTC
*
19475630 AATACTTTAATTCAGTT
1 AATACTTTAATTCAGGT
*
19475647 AATACTTTAATTCGGGT
1 AATACTTTAATTCAGGT
19475664 AAT
1 AAT
19475667 TCGAGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
AATACTTTAATTCAGGT
Found at i:19475677 original size:18 final size:18
Alignment explanation
Indices: 19475654--19475703 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
19475644 GTTAATACTT
*
19475654 TAATTCGGGTAATTC-GAG
1 TAATTCGGTTAATTCAG-G
*
19475672 TAATTCAGTTAATTCAGG
1 TAATTCGGTTAATTCAGG
19475690 TAATTCGGTTAATT
1 TAATTCGGTTAATT
19475704 TGATTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (18 bp):
TAATTCGGTTAATTCAGG
Found at i:19475711 original size:18 final size:18
Alignment explanation
Indices: 19475654--19475712 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
19475644 GTTAATACTT
* *
19475654 TAATTCGGGTAATTCGAG
1 TAATTCGGTTAATTTGAG
* *
19475672 TAATTCAGTTAA-TTCAGG
1 TAATTCGGTTAATTTGA-G
*
19475690 TAATTCGGTTAATTTGAT
1 TAATTCGGTTAATTTGAG
19475708 TAATT
1 TAATT
19475713 TTTATATGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 27 0.84
19 3 0.09
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (18 bp):
TAATTCGGTTAATTTGAG
Found at i:19478913 original size:47 final size:47
Alignment explanation
Indices: 19478831--19479040 Score: 332
Period size: 47 Copynumber: 4.5 Consensus size: 47
19478821 ATATATGAGC
* * *
19478831 TAAGGCCGAATGG-CAAAGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
19478877 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
19478924 TAAGACCGAATGACCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
19478971 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
19479018 TAAGGCCGAATGGCCAATGTGAT
1 TAAGGCCGAATGGCCAATGTGAT
19479041 AAACGTGGAA
Statistics
Matches: 150, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 13 0.09
47 137 0.91
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:19478993 original size:22 final size:22
Alignment explanation
Indices: 19478965--19479042 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 22
19478955 ACATGTATAT
19478965 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
19478987 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
19479009 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
19479034 ATGTGATAA
1 ATGTGATAA
19479043 ACGTGGAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
22 18 0.42
23 8 0.19
24 8 0.19
25 9 0.21
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:19479058 original size:94 final size:93
Alignment explanation
Indices: 19478831--19479086 Score: 291
Period size: 94 Copynumber: 2.7 Consensus size: 93
19478821 ATATATGAGC
* * * * * * * *
19478831 TAAGGCCGAATG-GCAAAGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAAT
1 TAAGACCGAATGACCAATGTGATAAACGTGAACATGTATATATGTG-TAAGGCCGAATGGCAAAT
*
19478895 GTGATGAATGTGAACATGCATTTGTGTGA
65 GTGATGAATGTGAACATGCATATGTGTGA
* * *
19478924 TAAGACCGAATGACCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAAT
1 TAAGACCGAATGACCAATGTGATAAACGTGAACATGTATATATGTG-TAAGGCCGAATGGCAAAT
19478989 GTGATGAATGTGAACATGCATATGTGTGA
65 GTGATGAATGTGAACATGCATATGTGTGA
* * * * * **
19479018 TAAGGCCGAATGGCCAATGTGATAAACGTGGAA-GTTTATATATGTGTGAAAGCCGAATGGTTAA
1 TAAGACCGAATGACCAATGTGATAAACGT-GAACATGTATATATGTGT-AAGGCCGAATGGCAAA
19479082 TGTGA
64 TGTGA
19479087 AATGTGTATG
Statistics
Matches: 142, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
93 12 0.08
94 127 0.89
95 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (93 bp):
TAAGACCGAATGACCAATGTGATAAACGTGAACATGTATATATGTGTAAGGCCGAATGGCAAATG
TGATGAATGTGAACATGCATATGTGTGA
Found at i:19479073 original size:47 final size:46
Alignment explanation
Indices: 19478800--19479086 Score: 236
Period size: 47 Copynumber: 6.1 Consensus size: 46
19478790 TTAGGATTTT
* * * * * *
19478800 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAATATATATATGTGTGATAA-GCCGAATGGCCA
* * ** * * *
19478846 AAGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAATATATATATGTGTGATAA-GCCGAATGGCCA
* ** * *
19478893 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGACCA
1 ATGTGATGAATGTGAATATATATATGTGTGATAAG-CCGAATGGCCA
* * *
19478940 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATATATATGTGTGATAA-GCCGAATGGCCA
* **
19478987 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATATATATGTGTGATAA-GCCGAATGGCCA
* * * **
19479034 ATGTGATAAACGTGGAAGTTTATATATGTGTGA-AAGCCGAATGGTTA
1 ATGTGATGAATGT-GAA-TATATATATGTGTGATAAGCCGAATGGCCA
19479081 ATGTGA
1 ATGTGA
19479087 AATGTGTATG
Statistics
Matches: 209, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
46 37 0.18
47 155 0.74
48 6 0.03
49 11 0.05
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
ATGTGATGAATGTGAATATATATATGTGTGATAAGCCGAATGGCCA
Found at i:19479123 original size:46 final size:46
Alignment explanation
Indices: 19479057--19479147 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
19479047 GGAAGTTTAT
* * *
19479057 ATATGTGTGAAAGCCGAATGGTTAATGTGA-AATGTGTATGAGATGG
1 ATATGTGTGAAAGCCAAATGGCTAATGTGAGAA-ATGTATGAGATGG
19479103 ATATGT-TGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGTG-AAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
19479148 TGTATATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
45 2 0.05
46 36 0.90
47 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (46 bp):
ATATGTGTGAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATGG
Found at i:19480642 original size:40 final size:40
Alignment explanation
Indices: 19480587--19481183 Score: 995
Period size: 40 Copynumber: 14.9 Consensus size: 40
19480577 AAGTTCAGTA
*
19480587 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* *
19480627 TGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCTGG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
19480667 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
19480707 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGC-AGG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA-G
19480747 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
19480787 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
19480827 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
19480867 TGATTTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* ** *
19480907 TGATGTATCTAGGCTAAGTCCCGAAAAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
19480947 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
19480987 TGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
19481027 TGATATATCCGGGCTAAGTCCCGATGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
19481067 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* *
19481107 TGATGTATCCGGGCTAAG-CCCTGAAAAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAGTCCC-GAAGAGCATTCGTGCTAG
*
19481147 TGATATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCT
1 TGATATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCT
19481184 GGGATCATGA
Statistics
Matches: 526, Mismatches: 26, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.03
40 509 0.97
41 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
Found at i:19481227 original size:28 final size:28
Alignment explanation
Indices: 19481195--19481379 Score: 140
Period size: 28 Copynumber: 6.5 Consensus size: 28
19481185 GGATCATGAG
* **
19481195 GCACTGTGTGTGCAAGTTCTTCAGCCGA
1 GCACTATGTGTGCAAGTTCTTCAATCGA
* * * * * *
19481223 GCACTATGTGTGCCAGATCAGT-AGTTGGG
1 GCACTATGTGTGCAAGTTC-TTCA-ATCGA
* *
19481252 GCACCATGTGTGCGAGTTCTTCAATCGA
1 GCACTATGTGTGCAAGTTCTTCAATCGA
*
19481280 GCACTATGTGTGCTAGTTCTTCAATCGA
1 GCACTATGTGTGCAAGTTCTTCAATCGA
* ** *
19481308 GCACTATGTGTGCGAGATTGGT-AATTGA
1 GCACTATGTGTGCAAG-TTCTTCAATCGA
* *
19481336 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCAAGTTCTTCAATCGA
* *
19481365 GCGCAATGTGTGCAA
1 GCACTATGTGTGCAA
19481380 AATCAGTCAG
Statistics
Matches: 124, Mismatches: 27, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
28 81 0.65
29 43 0.35
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCAAGTTCTTCAATCGA
Found at i:19481340 original size:85 final size:85
Alignment explanation
Indices: 19481195--19481379 Score: 253
Period size: 85 Copynumber: 2.2 Consensus size: 85
19481185 GGATCATGAG
* * * *
19481195 GCACTGTGTGTGCAAGTTCTTCAGCCGAGCACTATGTGTGCCAGATCAGTAGTTGGGGCACCATG
1 GCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAATTGAGGCACCATG
19481260 TGTGCGAGTTCTTCAATCGA
66 TGTGCGAGTTCTTCAATCGA
* * * ** *
19481280 GCACTATGTGTGCTAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAATTGAGGCACTATG
1 GCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAATTGAGGCACCATG
*
19481345 TGTGCGAGTTCTTTAATCGA
66 TGTGCGAGTTCTTCAATCGA
* *
19481365 GCGCAATGTGTGCAA
1 GCACTATGTGTGCAA
19481380 AATCAGTCAG
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (85 bp):
GCACTATGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAATTGAGGCACCATG
TGTGCGAGTTCTTCAATCGA
Found at i:19485122 original size:47 final size:47
Alignment explanation
Indices: 19485040--19485249 Score: 332
Period size: 47 Copynumber: 4.5 Consensus size: 47
19485030 ATATATGAGC
* * *
19485040 TAAGGCCGAATGG-CAAAGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
19485086 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
19485133 TAAGACCGAATGACCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
19485180 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
19485227 TAAGGCCGAATGGCCAATGTGAT
1 TAAGGCCGAATGGCCAATGTGAT
19485250 AAACGTGGAA
Statistics
Matches: 150, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 13 0.09
47 137 0.91
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:19485202 original size:22 final size:22
Alignment explanation
Indices: 19485174--19485251 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 22
19485164 ACATGTATAT
19485174 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
19485196 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
19485218 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
19485243 ATGTGATAA
1 ATGTGATAA
19485252 ACGTGGAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
22 18 0.42
23 8 0.19
24 8 0.19
25 9 0.21
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:19485267 original size:94 final size:93
Alignment explanation
Indices: 19485040--19485295 Score: 291
Period size: 94 Copynumber: 2.7 Consensus size: 93
19485030 ATATATGAGC
* * * * * * * *
19485040 TAAGGCCGAATG-GCAAAGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAAT
1 TAAGACCGAATGACCAATGTGATAAACGTGAACATGTATATATGTG-TAAGGCCGAATGGCAAAT
*
19485104 GTGATGAATGTGAACATGCATTTGTGTGA
65 GTGATGAATGTGAACATGCATATGTGTGA
* * *
19485133 TAAGACCGAATGACCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAAT
1 TAAGACCGAATGACCAATGTGATAAACGTGAACATGTATATATGTG-TAAGGCCGAATGGCAAAT
19485198 GTGATGAATGTGAACATGCATATGTGTGA
65 GTGATGAATGTGAACATGCATATGTGTGA
* * * * * **
19485227 TAAGGCCGAATGGCCAATGTGATAAACGTGGAA-GTTTATATATGTGTGAAAGCCGAATGGTTAA
1 TAAGACCGAATGACCAATGTGATAAACGT-GAACATGTATATATGTGT-AAGGCCGAATGGCAAA
19485291 TGTGA
64 TGTGA
19485296 AATGTGTATG
Statistics
Matches: 142, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
93 12 0.08
94 127 0.89
95 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (93 bp):
TAAGACCGAATGACCAATGTGATAAACGTGAACATGTATATATGTGTAAGGCCGAATGGCAAATG
TGATGAATGTGAACATGCATATGTGTGA
Found at i:19485282 original size:47 final size:46
Alignment explanation
Indices: 19485009--19485295 Score: 236
Period size: 47 Copynumber: 6.1 Consensus size: 46
19484999 TTAGGATTTT
* * * * * *
19485009 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAATATATATATGTGTGATAA-GCCGAATGGCCA
* * ** * * *
19485055 AAGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAATATATATATGTGTGATAA-GCCGAATGGCCA
* ** * *
19485102 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGACCA
1 ATGTGATGAATGTGAATATATATATGTGTGATAAG-CCGAATGGCCA
* * *
19485149 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATATATATGTGTGATAA-GCCGAATGGCCA
* **
19485196 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAATATATATATGTGTGATAA-GCCGAATGGCCA
* * * **
19485243 ATGTGATAAACGTGGAAGTTTATATATGTGTGA-AAGCCGAATGGTTA
1 ATGTGATGAATGT-GAA-TATATATATGTGTGATAAGCCGAATGGCCA
19485290 ATGTGA
1 ATGTGA
19485296 AATGTGTATG
Statistics
Matches: 209, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
46 37 0.18
47 155 0.74
48 6 0.03
49 11 0.05
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
ATGTGATGAATGTGAATATATATATGTGTGATAAGCCGAATGGCCA
Found at i:19485332 original size:46 final size:49
Alignment explanation
Indices: 19485265--19485365 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 49
19485255 TGGAAGTTTA
* * *
19485265 TATATG-TGTGAAAGCCGAATGGTTAATGTGA-AATGTGTATGAGATG-G
1 TATATGTTGTGAAAGCCAAATGGCTAATGTGAGAA-ATGTATGAGATGTG
19485312 -ATATGTTGT-AAAGCCAAATGGCTAATGTGAGAAATGTATGAGATGTG
1 TATATGTTGTGAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATGTG
19485359 TATATGT
1 TATATGT
19485366 ATATTGTGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
46 35 0.74
47 6 0.13
48 6 0.13
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.33
Consensus pattern (49 bp):
TATATGTTGTGAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATGTG
Found at i:19487575 original size:41 final size:41
Alignment explanation
Indices: 19487508--19487587 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
19487498 GCTATATATG
* *
19487508 GCACTTAGTGTGCGAGATCGAGATAGCTT-AGGCTATGTAAA
1 GCACTTAGTGTGCGAGATCAAAATAGCTTCA-GCTATGTAAA
*
19487549 GCACTTAGTGTGCGAGATTAAAATAGCTTCAGCTATGTA
1 GCACTTAGTGTGCGAGATCAAAATAGCTTCAGCTATGTA
19487588 TTGGCACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (41 bp):
GCACTTAGTGTGCGAGATCAAAATAGCTTCAGCTATGTAAA
Found at i:19495495 original size:79 final size:82
Alignment explanation
Indices: 19495384--19495568 Score: 240
Period size: 79 Copynumber: 2.3 Consensus size: 82
19495374 GCTACTCATT
* *
19495384 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
19495447 GGAT-TTAGTAAC-TCGCA
65 GGATATT-GTAACTTAGCA
* **
19495464 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
19495527 GATATTGTCACTTAGCA
66 GATATTGTAACTTAGCA
19495544 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19495569 CATCATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
78 3 0.03
79 54 0.58
80 36 0.39
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATTGTAACTTAGCA
Found at i:19495568 original size:40 final size:41
Alignment explanation
Indices: 19495384--19495568 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
19495374 GCTACTCATT
* *
19495384 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* *
19495424 CAAATGCCTTCAGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
19495464 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * *
19495503 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
19495544 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19495569 CATCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 77 0.61
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:19502757 original size:27 final size:27
Alignment explanation
Indices: 19502725--19502787 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
19502715 CTCAAATTGT
19502725 AAAATTACTAAAGTACCCTCGATTTAC
1 AAAATTACTAAAGTACCCTCGATTTAC
* * *** *
19502752 AGAATTACCATTTTACCCTCGATTTAT
1 AAAATTACTAAAGTACCCTCGATTTAC
19502779 AAAATTACT
1 AAAATTACT
19502788 GTTTTACCCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (27 bp):
AAAATTACTAAAGTACCCTCGATTTAC
Found at i:19502771 original size:54 final size:54
Alignment explanation
Indices: 19502724--19503041 Score: 339
Period size: 54 Copynumber: 5.7 Consensus size: 54
19502714 CCTCAAATTG
***
19502724 TAAAATTACTAAAGTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
* * * *
19502778 TAAAATTACTGTTTTACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTATAGAATTA
1 TAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCG----AT----TTA
* * *
19502840 CCTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTA
1 --TA-A-AATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
* * *
19502898 TAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
* * * *
19502952 TAGAATTACCATTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
* * * *
19503006 CAGAATTACCATTTTACCCTCGATTTACAAAATTAC
1 TAAAATTACTATTTTACCCTCGATTTACAGAATTAC
19503042 TGAAATACCC
Statistics
Matches: 230, Mismatches: 22, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
54 172 0.75
56 2 0.01
58 5 0.02
62 5 0.02
64 2 0.01
65 1 0.00
66 43 0.19
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (54 bp):
TAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
Found at i:19502792 original size:27 final size:27
Alignment explanation
Indices: 19502738--19502841 Score: 154
Period size: 27 Copynumber: 3.9 Consensus size: 27
19502728 ATTACTAAAG
* *
19502738 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
**
19502765 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCATTT
*
19502792 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
*
19502819 TACCCTCGATTTATAGAATTACC
1 TACCCTCGATTTATAAAATTACC
19502842 TACAGAATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCATTT
Found at i:19502837 original size:81 final size:81
Alignment explanation
Indices: 19502738--19503084 Score: 363
Period size: 81 Copynumber: 4.1 Consensus size: 81
19502728 ATTACTAAAG
** *
19502738 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCAATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
*
19502803 TATAAAATTACCATTT
66 TACAAAATTACCATTT
* *
19502819 TACCCTCGATTTATAGAATTACCTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCATT
1 TACCCTC--------G-ATT---TACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATT
* * **
19502884 TTACCCTCGATTTATAGAATTACTGTTT
54 TTACCCTCGATTTACAAAATTACCATTT
* * *
19502912 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGACT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
* *
19502977 TACAGAATTACCGTTT
66 TACAAAATTACCATTT
* * ** *
19502993 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGA-AATACCCTTGAT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTAC-CATTTTACCCTCGAT
***
19503057 TTACAAAATTACCAAAA
65 TTACAAAATTACCATTT
19503074 TACCCTCGATT
1 TACCCTCGATT
19503085 AGTAAAATTA
Statistics
Matches: 227, Mismatches: 26, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
81 149 0.66
82 1 0.00
84 3 0.01
85 1 0.00
89 1 0.00
90 3 0.01
93 69 0.30
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCGATT
TACAAAATTACCATTT
Found at i:19502875 original size:27 final size:27
Alignment explanation
Indices: 19502842--19503041 Score: 310
Period size: 27 Copynumber: 7.4 Consensus size: 27
19502832 TAGAATTACC
*
19502842 TACAGAATTACCATTTTACCCTCAATT
1 TACAGAATTACCATTTTACCCTCGATT
*
19502869 TATAGAATTACCATTTTACCCTCGATT
1 TACAGAATTACCATTTTACCCTCGATT
* **
19502896 TATAGAATTACTGTTTTACCCTCGATT
1 TACAGAATTACCATTTTACCCTCGATT
*
19502923 TACAGAATTACCGTTTTACCCTCGATT
1 TACAGAATTACCATTTTACCCTCGATT
* *
19502950 TATAGAATTACCATTTTACCCTCGACT
1 TACAGAATTACCATTTTACCCTCGATT
*
19502977 TACAGAATTACCGTTTTACCCTCGATT
1 TACAGAATTACCATTTTACCCTCGATT
19503004 TACAGAATTACCATTTTACCCTCGATT
1 TACAGAATTACCATTTTACCCTCGATT
*
19503031 TACAAAATTAC
1 TACAGAATTAC
19503042 TGAAATACCC
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 159 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
TACAGAATTACCATTTTACCCTCGATT
Found at i:19502940 original size:120 final size:120
Alignment explanation
Indices: 19502738--19503084 Score: 397
Period size: 120 Copynumber: 2.8 Consensus size: 120
19502728 ATTACTAAAG
*
19502738 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCAATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCAATT
*
19502803 TATAAAATTACCATTTTACCCTCGATTTATAGAATTACCTACAGAATTACCATTT
66 TACAAAATTACCATTTTACCCTCGATTTATAGAATTACCTACAGAATTACCATTT
* * *
19502858 TACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCAATT
* *
19502923 TACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTAC
66 TACAAAATTACCATTTTACCCTCGATTTATAG----A--A--TTA-CCT--AC--A--GAATTAC
*
19502988 CGTTT
116 CATTT
* * *** **
19502993 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTTGATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCAATT
***
19503058 TACAAAATTACCAAAATACCCTCGATT
66 TACAAAATTACCATTTTACCCTCGATT
19503085 AGTAAAATTA
Statistics
Matches: 191, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
120 90 0.47
124 1 0.01
126 1 0.01
128 3 0.02
129 3 0.02
131 2 0.01
133 1 0.01
135 90 0.47
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (120 bp):
TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCAATT
TACAAAATTACCATTTTACCCTCGATTTATAGAATTACCTACAGAATTACCATTT
Found at i:19503050 original size:27 final size:27
Alignment explanation
Indices: 19502858--19503295 Score: 276
Period size: 27 Copynumber: 16.2 Consensus size: 27
19502848 ATTACCATTT
* * ***
19502858 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* *****
19502885 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * ****
19502912 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
19502939 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * * ****
19502966 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * ***
19502993 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* **
19503020 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
19503047 TACCCTTGATTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
19503074 TACCCTCGA-TTAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * *
19503101 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
*
19503128 TACCCT-TAGTTTATAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* *
19503155 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * *
19503182 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
19503209 TACCC-CTAGTTTGTAAAAGTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * *
19503236 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
19503263 TACCC-CTGATTTGTGAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
19503290 TACCCT
1 TACCCT
19503296 TGTAGGCTAG
Statistics
Matches: 345, Mismatches: 54, Indels: 23
0.82 0.13 0.05
Matches are distributed among these distances:
26 4 0.01
27 339 0.98
28 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:19503051 original size:54 final size:54
Alignment explanation
Indices: 19502842--19503084 Score: 308
Period size: 54 Copynumber: 4.5 Consensus size: 54
19502832 TAGAATTACC
* *
19502842 TACAGAATTACCATTTTACCCTCAATTTATAGAATTACC-ATTTTACCCTCGATT
1 TACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGA-TTTACCCTCGATT
* ** *
19502896 TATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGATTTACCCTCGATT
* * *
19502950 TATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATT
1 TACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGATTTACCCTCGATT
* * ** *
19503004 TACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTTGATT
1 TACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGATTTACCCTCGATT
* ***
19503058 TACAAAATTACCAAAATACCCTCGATT
1 TACAGAATTACCATTTTACCCTCGATT
19503085 AGTAAAATTA
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 167 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.37
Consensus pattern (54 bp):
TACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGATTTACCCTCGATT
Found at i:19503324 original size:54 final size:54
Alignment explanation
Indices: 19503020--19503297 Score: 362
Period size: 54 Copynumber: 5.1 Consensus size: 54
19503010 ATTACCATTT
* * ** * **
19503020 TACCCTCGATTTACAAAATTACTGAAATACCCTTGATTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
* * * * *
19503074 TACCC-TCGATTAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
* * *
19503128 TACCCTTAGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
*
19503182 TACCCTTGGTTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAAGTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAA
* *
19503236 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
19503290 TACCCTTG
1 TACCCTTG
19503298 TAGGCTAGAA
Statistics
Matches: 198, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
53 3 0.02
54 189 0.95
55 6 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAA
Found at i:19503601 original size:24 final size:25
Alignment explanation
Indices: 19503544--19503612 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
19503534 AGGAAGTGCT
*
19503544 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTC
19503569 AAAAGGGCTTTGCCCCAGTTTAC-C
1 AAAAGGGCTTTGCCCCAGTTTACTC
*
19503593 AAAAGGGCTTTTCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
19503613 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
24 19 0.45
25 23 0.55
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTC
Found at i:19503625 original size:24 final size:24
Alignment explanation
Indices: 19503543--19503625 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
19503533 GAGGAAGTGC
19503543 TAAAAGGGCTTTGCCCCAGTTTACT
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
19503568 GAAAAGGGCTTTGCCCCAGTTTAC
1 TAAAAGGGCTTTGCCCCAGTTTAT
* *
19503592 CAAAAGGGCTTTTCCCCAG-TTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
19503615 TAAAAGAGGCT
1 TAAAAG-GGCT
19503626 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 8 0.16
24 21 0.41
25 22 0.43
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:19503636 original size:49 final size:49
Alignment explanation
Indices: 19503544--19503637 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
19503534 AGGAAGTGCT
**
19503544 AAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTACC
* *
19503593 AAAAGGGCTTTTCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACTGAAAAG-GGCTAGGCC-CCAGTT
19503638 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 6 0.15
48 10 0.26
49 23 0.59
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (49 bp):
AAAAGGGCTTTGCCCCAGTTTACTGAAAAGGGCTAGGCCCCAGTTTACC
Found at i:19505515 original size:43 final size:43
Alignment explanation
Indices: 19505368--19505516 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
19505358 ATATCGTACA
* ** *
19505368 ATGCCAACGTCCCAGATGTGGTCTTACAT-GAAATCACATGTCG
1 ATGCCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
* * * *
19505411 ATGCCACTGTCTCAGACAGGGTCTTACACG-AATCACA-ATTACG
1 ATGCCAATGTCCCAGACATGGTCTTACTCGAAATCACATA-T-CG
* *
19505454 ATGTCGATGTCCCAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACTCGAAATCACATATCG
19505497 ATGCCAATGTCCCAGACATG
1 ATGCCAATGTCCCAGACATG
19505517 ATTTTACACA
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
42 8 0.09
43 68 0.80
44 8 0.09
45 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACTCGAAATCACATATCG
Found at i:19505535 original size:43 final size:44
Alignment explanation
Indices: 19505368--19505539 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 44
19505358 ATATCGTACA
* ** * * *
19505368 ATGCCAACGTCCCAGATGTGGTCTTACATGAA-ATCACATGTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATAACACATATCG
* * * *
19505411 ATGCCACTGTCTCAGACAGGGTCTTACACGAATCACA-AT-TACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATAACACATAT-CG
* * * *
19505454 ATGTCGATGTCCCAGACATGGTCTTACTCGAA-ATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATAACACATATCG
* *
19505497 ATGCCAATGTCCCAGACATGATTTTACAC-AATAACACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATAACACATATCG
19505540 GAAATCCTAT
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
42 5 0.05
43 93 0.92
44 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATAACACATATCG
Found at i:19508948 original size:30 final size:29
Alignment explanation
Indices: 19508913--19509160 Score: 115
Period size: 30 Copynumber: 8.3 Consensus size: 29
19508903 ACCTTATTTT
19508913 TATATTATATATTATATAATTATTTTATTA
1 TATATTATATATTATAT-ATTATTTTATTA
19508943 TATATTATTTATATTAT-TATTATTTT-TTA
1 TATATTA--TATATTATATATTATTTTATTA
* * * *
19508972 TATATTAT-TTTTCACAAATTATTATTATTT
1 TATATTATATATT-ATATATTATT-TTATTA
*
19509002 TACATTAT-TATTTATATATTATTATTA-TA
1 TATATTATATA-TTATATATTATT-TTATTA
* *
19509031 TTATATT-TTTATTA-AT-TATATATATATTA
1 -TATATTATATATTATATAT-TAT-TTTATTA
* *
19509060 TATATTACTTTTTTATATATATACTCTTATATTA
1 TATATTA-TATATTATATAT-TA-T-TT-TATTA
*
19509094 TATATTATA-ATTAT-T-TTATATTATTA
1 TATATTATATATTATATATTATTTTATTA
* * *
19509120 TGTCATTTTTATATTAT-TATACATTTTTATCTA
1 TAT-A-TTATATATTATATAT-TA-TTTTAT-TA
19509153 TATATTAT
1 TATATTAT
19509161 TATCATTAAA
Statistics
Matches: 170, Mismatches: 23, Indels: 49
0.70 0.10 0.20
Matches are distributed among these distances:
26 10 0.06
27 5 0.03
28 24 0.14
29 28 0.16
30 52 0.31
31 10 0.06
32 22 0.13
33 7 0.04
34 12 0.07
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (29 bp):
TATATTATATATTATATATTATTTTATTA
Found at i:19508951 original size:3 final size:3
Alignment explanation
Indices: 19508906--19509168 Score: 99
Period size: 3 Copynumber: 86.0 Consensus size: 3
19508896 ATTTTTAACC
* *
19508906 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* **
19508950 TT- TATA TTA TTA TTA TT- TT- TTA TATA TTA TTT TTCA CAAA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TT-A -TTA TTA TTA
* *
19508996 TTA TT- TTA -CA TTA TTA TTTA TATA TTA TTA TTA -TA TTA -TA TTT
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* *
19509039 TTA TTAA TTA TATA TATA TTA TATA TTA CTT- TT- TTA TATA TATA CTC
1 TTA TT-A TTA T-TA T-TA TTA T-TA TTA -TTA TTA TTA T-TA T-TA TTA
* *
19509086 TTA -TA TTA TATA TTA TAA TTA TT- TTA -TA TTA TTA TGTCA TTT TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA
* * *
19509131 -TA TTA TTA TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 TTA TTA TTA T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
19509169 AAGGTTTTAA
Statistics
Matches: 199, Mismatches: 29, Indels: 64
0.68 0.10 0.22
Matches are distributed among these distances:
2 30 0.15
3 116 0.58
4 51 0.26
5 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:19509082 original size:19 final size:19
Alignment explanation
Indices: 19509053--19509159 Score: 57
Period size: 19 Copynumber: 5.7 Consensus size: 19
19509043 TAATTATATA
19509053 TATATTATATATTACTTTTT
1 TATA-TATATATTACTTTTT
* *
19509073 TATATATATACT-CTTATAT
1 TATATATATATTACTT-TTT
*
19509092 TATATAT-TA-TAATTATTT
1 TATATATATATTACTT-TTT
*
19509110 TATAT-TATTATGT-CATTTT
1 TATATATA-TAT-TACTTTTT
*
19509129 TATAT-TAT-TATACATTTT
1 TATATATATAT-TACTTTTT
*
19509147 TATCTATATATTA
1 TATATATATATTA
19509160 TTATCATTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
17 4 0.06
18 26 0.37
19 33 0.47
20 6 0.09
21 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.60
Consensus pattern (19 bp):
TATATATATATTACTTTTT
Found at i:19509113 original size:78 final size:73
Alignment explanation
Indices: 19509009--19509156 Score: 181
Period size: 78 Copynumber: 2.0 Consensus size: 73
19508999 TTTTACATTA
* * *
19509009 TTATTTATATATTATTATTATATTATATTTTTAT-TAATTATATATATATTATATATTACTTTTT
1 TTATTTATATATTATAATTATATTATATTATTATGTAATT-T-T-TATATTAT-TA-TACATTTT
19509073 TATATATATACTC
61 TATATATATACTC
* * *
19509086 TTATATTATATATTATAATTATTTTATATTATTATGTCATTTTTATATTATTATACATTTTTATC
1 TTAT-TTATATATTATAATTATATTATATTATTATGTAATTTTTATATTATTATACATTTTTATA
19509151 TATATA
65 TATATA
19509157 TTATTATCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
74 16 0.25
75 2 0.03
76 8 0.13
77 5 0.08
78 28 0.44
79 4 0.06
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (73 bp):
TTATTTATATATTATAATTATATTATATTATTATGTAATTTTTATATTATTATACATTTTTATAT
ATATACTC
Found at i:19509472 original size:31 final size:33
Alignment explanation
Indices: 19509412--19509480 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
19509402 CAATATATTT
*
19509412 TATA-TTTTTTATGTAATTATTATTCTTTTAAA
1 TATATTTTTTTATGTAATTATTATTATTTTAAA
19509444 TATATTTTTTTAT-T-ATATATTA-TATTTTAAA
1 TATATTTTTTTATGTAAT-TATTATTATTTTAAA
*
19509475 TTTATT
1 TATATT
19509481 ATTAAATATC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 15 0.45
32 10 0.30
33 8 0.24
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (33 bp):
TATATTTTTTTATGTAATTATTATTATTTTAAA
Found at i:19512463 original size:40 final size:40
Alignment explanation
Indices: 19512408--19512663 Score: 347
Period size: 40 Copynumber: 6.4 Consensus size: 40
19512398 GATGATAACT
** * *
19512408 GGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
19512448 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
19512488 AGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
19512528 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
19512568 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATAT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
19512608 GGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* * *
19512647 CGGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
19512664 TACTTGGCTT
Statistics
Matches: 196, Mismatches: 18, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
39 16 0.08
40 180 0.92
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:19517934 original size:39 final size:40
Alignment explanation
Indices: 19517820--19518004 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
19517810 GCTACTCGTT
*
19517820 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
19517860 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
19517900 CCAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
19517939 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
19517980 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19518005 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:19517988 original size:79 final size:80
Alignment explanation
Indices: 19517820--19518004 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
19517810 GCTACTCGTT
* * *
19517820 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATACCTTCGGGACTTAACCCG
* *
19517884 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * **
19517901 CAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* *
19517964 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
19517980 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
19518005 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 24 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:19523933 original size:40 final size:40
Alignment explanation
Indices: 19523878--19524095 Score: 300
Period size: 40 Copynumber: 5.5 Consensus size: 40
19523868 TGGATGATAA
* *
19523878 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGT-CTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-TACTA-TAT
19523918 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19523958 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19523998 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
19524038 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
19524077 CCCGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19524096 TACTTGGCTT
Statistics
Matches: 165, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 19 0.12
40 146 0.88
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19525759 original size:15 final size:16
Alignment explanation
Indices: 19525733--19525767 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
19525723 CCTCAAACTT
19525733 TAGAACCAACCTCATA
1 TAGAACCAACCTCATA
19525749 TAGAA-CAACCTCATA
1 TAGAACCAACCTCATA
19525764 TAGA
1 TAGA
19525768 GTTAAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.46, C:0.26, G:0.09, T:0.20
Consensus pattern (16 bp):
TAGAACCAACCTCATA
Found at i:19528076 original size:15 final size:15
Alignment explanation
Indices: 19528040--19528089 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
19528030 CGATATCCTT
19528040 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
19528054 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
19528070 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
19528083 TTTGCAT
1 TTTGCAT
19528090 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:19536635 original size:205 final size:205
Alignment explanation
Indices: 19536141--19536639 Score: 701
Period size: 205 Copynumber: 2.4 Consensus size: 205
19536131 ACAGGCCACA
** * *
19536141 ACATAGCAGATCTGGCATTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGGCATCATTG
1 ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATCCTTG
* * * *
19536206 TGCTTACAAGGAACAAATCAAAGACATAGTTGATTTGGCTTTCATGTGTTTACAATGAAGCAAAT
65 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAAT
* * *
19536271 CTAAGATGATTTATCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAAT
130 CTAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAAT
*
19536336 GGGGAGCAGAT
195 GGAGAGCAGAT
* * *
19536347 ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTAGCATCCTTAT
1 ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * * * **
19536412 GCCTACAATGAGCAAATCGAAGACATGGCTGATTTGGCTTTCACGTGCTTACGCTGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAATC
* * * * **
19536477 TAAGATGATTTGGCATCTCTGTATTATCAGAGAACGAATCGAAGTCTAGCTTCTTCACTTTGATG
131 TAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATG
19536542 GAGAGCAGAT
196 GAGAGCAGAT
* * * *
19536552 ACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAAGATGGTTTGGTACCCTTGT
1 ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
*
19536617 GTTTACAAGGAACAAATCGAAGA
66 GCTTACAAGGAACAAATCGAAGA
19536640 AGCAGATTTG
Statistics
Matches: 255, Mismatches: 38, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
205 205 0.80
206 50 0.20
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
ACATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAATC
TAAGATGATTTAGCATCTCTGTATTATCAGAGAACAAATCGAAGTCTAGCATCTCCACTTCAATG
GAGAGCAGAT
Found at i:19538326 original size:30 final size:30
Alignment explanation
Indices: 19538291--19538483 Score: 90
Period size: 31 Copynumber: 6.5 Consensus size: 30
19538281 ACCTTATTTT
19538291 TATATTATATATTATATAATTATTTTATTA
1 TATATTATATATTATATAATTATTTTATTA
*
19538321 TATA-T-TAT-TTATATTATTATTATTATTTA
1 TATATTATATATTATATAATTATT-TTA-TTA
* ** *
19538350 TATATTAT-TTTTCGCA-AATTATTATTATTT
1 TATATTATATATT-ATATAATTATT-TTATTA
*
19538380 TACATTAT-TATT-TAT-A-TA--TTATTA
1 TATATTATATATTATATAATTATTTTATTA
* *
19538404 TTATATTATATGTT-TATTAATTATATATATTA
1 -TATATTATATATTATA-TAATTAT-TTTATTA
* *
19538436 TATATTACTTTTTTATAT-ATATACTCTTATATTA
1 TATATTA-TATATTATATAAT-TA-T-TT-TATTA
19538470 TATATTATA-ATTAT
1 TATATTATATATTAT
19538484 TTTATATTAT
Statistics
Matches: 125, Mismatches: 18, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
24 5 0.04
25 7 0.06
26 5 0.04
27 15 0.12
28 9 0.07
29 10 0.08
30 18 0.14
31 22 0.18
32 17 0.14
33 5 0.04
34 12 0.10
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (30 bp):
TATATTATATATTATATAATTATTTTATTA
Found at i:19538329 original size:3 final size:3
Alignment explanation
Indices: 19538284--19538544 Score: 88
Period size: 3 Copynumber: 86.0 Consensus size: 3
19538274 ATTTTTAACC
* *
19538284 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * ** *
19538328 TT- TATA TTA TTA TTA TTA TTTA TATA TTA TTT TTC GCA -AA TTA TTA
1 TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA
*
19538374 TTA TT- TTA -CA TTA TTA TTTA TATA TTA TTA TTA -TA TTA -TA TGT-
1 TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA T-TA
* *
19538417 TTA TTAA TTA -TA TATA TTA TATA TTA CTT- TT- TTA TATA TATA CTC
1 TTA TT-A TTA TTA T-TA TTA T-TA TTA -TTA TTA TTA T-TA T-TA TTA
* *
19538462 TTA -TA TTA TATA TTA TAA TTA TT- TTA -TA TTA TTA TGTCA TTT TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA
* * *
19538507 -TA TTA TTA TACA TTT TTA TCTA TATA TTA TTA TCA TTA
1 TTA TTA TTA T-TA TTA TTA T-TA T-TA TTA TTA TTA TTA
19538545 AAGGTTTTAA
Statistics
Matches: 196, Mismatches: 28, Indels: 68
0.67 0.10 0.23
Matches are distributed among these distances:
2 30 0.15
3 114 0.58
4 50 0.26
5 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:19538399 original size:24 final size:24
Alignment explanation
Indices: 19538288--19538494 Score: 62
Period size: 29 Copynumber: 8.1 Consensus size: 24
19538278 TTAACCTTAT
19538288 TTTTATATTA-TATATTATATAATTA
1 TTTTATATTATTAT-TTATAT-ATTA
19538313 TTTTATTATATATTA-TT-TATATTA
1 TTTTA-TAT-TATTATTTATATATTA
19538337 ---T-TATTATTATTTATATATTA
1 TTTTATATTATTATTTATATATTA
*
19538357 TTTTTCGCAAATTATTATTATTTTACATTATTA
1 -TTTT-----A-TATTATTA-TTTATA-TATTA
19538390 TTTATATATTATTA-TTATAT-TATA
1 TTT-TATATTATTATTTATATAT-TA
19538414 TGTTTATTAATTATATATATTATATATTA
1 T-TTTA-T-ATTAT-TAT-TTATATATTA
*
19538443 CTTTTTTATATATATACTCTTATAT-TATA
1 -TTTTATAT-TAT-TA-T-TTATATAT-TA
*
19538472 TATTATA--ATTATTT-TATATTA
1 TTTTATATTATTATTTATATATTA
19538493 TT
1 TT
19538495 ATGTCATTTT
Statistics
Matches: 143, Mismatches: 7, Indels: 68
0.66 0.03 0.31
Matches are distributed among these distances:
18 5 0.03
19 5 0.03
20 7 0.05
21 7 0.05
22 3 0.02
23 2 0.01
24 13 0.09
25 17 0.12
26 10 0.07
27 14 0.10
28 16 0.11
29 20 0.14
30 2 0.01
31 8 0.06
32 8 0.06
33 6 0.04
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (24 bp):
TTTTATATTATTATTTATATATTA
Found at i:19538520 original size:18 final size:19
Alignment explanation
Indices: 19538483--19538525 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
19538473 ATTATAATTA
*
19538483 TTTTATATTATTATGTCAT
1 TTTTATATTATTATGACAT
19538502 TTTTATATTATTAT-ACAT
1 TTTTATATTATTATGACAT
19538520 TTTTAT
1 TTTTAT
19538526 CTATATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATATTATTATGACAT
Found at i:19538533 original size:76 final size:75
Alignment explanation
Indices: 19538387--19538532 Score: 183
Period size: 76 Copynumber: 2.0 Consensus size: 75
19538377 TTTTACATTA
*
19538387 TTATTTATATATTATTATTATATTATATGTTTATTAATTATATATATTATATATTACTTTTTTAT
1 TTATTTATATATTATAATTATATTATATGTTTATTAATTATATATATTATATATTACTTTTTTAT
19538452 ATATATACTC
66 ATATATACTC
* * * *
19538462 TTATATTATATATTATAATTATTTTATAT-TATTATGTCATT-TTTATATTAT-TA-TACATTTT
1 TTAT-TTATATATTATAATTATATTATATGT-TTAT-TAATTATATATATTATATATTACTTTTT
*
19538523 TATCTATATA
63 TATATATATA
19538533 TTATTATCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
74 16 0.26
75 7 0.11
76 35 0.56
77 4 0.06
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (75 bp):
TTATTTATATATTATAATTATATTATATGTTTATTAATTATATATATTATATATTACTTTTTTAT
ATATATACTC
Found at i:19542058 original size:47 final size:47
Alignment explanation
Indices: 19542006--19542699 Score: 1077
Period size: 47 Copynumber: 14.6 Consensus size: 47
19541996 GATAATTGTG
* * *
19542006 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19542053 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19542102 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19542151 ACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
19542198 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19542245 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19542292 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19542341 ATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19542388 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19542437 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19542484 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT--
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19542531 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
19542580 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
19542627 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19542674 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
19542700 TCCCGAAGGG
Statistics
Matches: 604, Mismatches: 33, Indels: 20
0.92 0.05 0.03
Matches are distributed among these distances:
47 372 0.62
49 232 0.38
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:19542106 original size:96 final size:96
Alignment explanation
Indices: 19542006--19542699 Score: 1120
Period size: 96 Copynumber: 7.3 Consensus size: 96
19541996 GATAATTGTG
*
19542006 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
19542069 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
19542102 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
19542167 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
19542198 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
19542261 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
19542292 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
19542357 ATGTGATAAGGTCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
19542388 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
19542453 ATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
19542484 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT--ATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
19542547 ATATGTGATAAGGCCTAATGGTCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
19542580 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
19542643 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
19542674 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
19542700 TCCCGAAGGG
Statistics
Matches: 560, Mismatches: 28, Indels: 22
0.92 0.05 0.04
Matches are distributed among these distances:
94 180 0.32
95 1 0.00
96 328 0.59
97 2 0.00
98 49 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:19542407 original size:239 final size:237
Alignment explanation
Indices: 19542005--19542695 Score: 1125
Period size: 239 Copynumber: 2.9 Consensus size: 237
19541995 GGATAATTGT
* * *
19542005 GATGTGAATGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 GATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
19542070 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
*
19542135 ATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
129 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
19542200 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
194 GTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
19542244 GATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 GATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
19542309 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
19542374 GGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
131 GGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * *
19542439 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
194 GTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
*
19542483 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT--ATGTGAAAGTGTATA
1 GATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
19542546 TATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* * * * * * *
19542611 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
129 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
19542676 GTGAAAGTGTATAAATGTGA
194 GTGAAAGTGTATATATGTGA
19542696 TAAGTCCCGA
Statistics
Matches: 426, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
237 95 0.22
239 297 0.70
241 34 0.08
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (237 bp):
GATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
GAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
Found at i:19545327 original size:41 final size:41
Alignment explanation
Indices: 19545214--19545311 Score: 178
Period size: 41 Copynumber: 2.4 Consensus size: 41
19545204 AAAAATAGAA
*
19545214 CATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAGACTATAG
1 CATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAGACCATAG
19545255 CATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAGACCATAG
1 CATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAGACCATAG
*
19545296 CATTAGCGACGCTTTC
1 CATTAGCGGCGCTTTC
19545312 AGAAAAGTGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (41 bp):
CATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAGACCATAG
Found at i:19546697 original size:81 final size:82
Alignment explanation
Indices: 19546510--19546704 Score: 252
Period size: 80 Copynumber: 2.4 Consensus size: 82
19546500 AGAGATTAGT
* * * *
19546510 GGCGTTTATTTAAAAAACGCCGA-AAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTG
1 GGCGTTTTTTTAAAAAACGCC-ACAAAAACAAAGCAATTTAACGAAAACAGCGTCGTTTTAATTG
*
19546574 GATATTTAGGAGAGTAGC
65 GATATTTAGGAGAGTACC
* * *
19546592 GGCATTTTTTGAAAAAA-GCCACAAAAA-AAAGCAATTTAACGAAAACAGCGTCGTTTTTATTGG
1 GGCGTTTTTTTAAAAAACGCCACAAAAACAAAGCAATTTAACGAAAACAGCGTCGTTTTAATTGG
* *
19546655 ATTTTTAGGGGAGTACC
66 ATATTTAGGAGAGTACC
*
19546672 GGCGTTTTTTTCAAAAACGCCACAAAAAGCAAA
1 GGCGTTTTTTTAAAAAACGCCACAAAAA-CAAA
19546705 AAAAAAATAT
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
80 61 0.64
81 18 0.19
82 14 0.15
83 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (82 bp):
GGCGTTTTTTTAAAAAACGCCACAAAAACAAAGCAATTTAACGAAAACAGCGTCGTTTTAATTGG
ATATTTAGGAGAGTACC
Found at i:19552048 original size:241 final size:241
Alignment explanation
Indices: 19551739--19552225 Score: 870
Period size: 241 Copynumber: 2.0 Consensus size: 241
19551729 ATGAATTAAT
19551739 TTTATTACCATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
**
19551804 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACAGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGACTGGAAACCTGACAGGTTGCCTTATATCGAG
*
19551869 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAACAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAAAAAATTC
*
19551934 AAAAAGACTT-GAAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAAGACTTAG-AAAAAGTTCTATCGATCTCATTTACTATTAAATA
* *
19551980 TTTATTATCATGTAGCTTGCTTGT-TCATTAAAATTACAACAATAGCTGACCTTCTCTCCAATCT
1 TTTATTACCATGTAGCTTGCTTGTCT-ATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCT
*
19552044 TATTTTAAATATTTTAAAGATTCAAAGTATATAGACTGGAAACCTGACGGGTTGCCTTATATCGA
65 TATTTTAAATATTTTAAAGATTCAAAGTATATAGACTGGAAACCTGACAGGTTGCCTTATATCGA
*
19552109 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
130 GCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAAAAAATT
19552174 CAAAAAGACTTAGAAAAAGTTCTATCGATCTCATTTACTATTAAATA
195 CAAAAAGACTTAGAAAAAGTTCTATCGATCTCATTTACTATTAAATA
19552221 TTTAT
1 TTTAT
19552226 ATAACCTTAA
Statistics
Matches: 236, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
240 1 0.00
241 234 0.99
242 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCTATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGACTGGAAACCTGACAGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATAAATCTTAAAAAATTC
AAAAAGACTTAGAAAAAGTTCTATCGATCTCATTTACTATTAAATA
Found at i:19552428 original size:9 final size:9
Alignment explanation
Indices: 19552405--19552493 Score: 90
Period size: 9 Copynumber: 9.7 Consensus size: 9
19552395 ATTGATCATT
*
19552405 ACTTAAATA
1 ACTTACATA
*
19552414 AATTACATA
1 ACTTACATA
19552423 ACTTACATA
1 ACTTACATA
* *
19552432 ACTCATATA
1 ACTTACATA
19552441 ACTTACATA
1 ACTTACATA
*
19552450 ATTTACATAACA
1 ACTTACAT---A
19552462 ACTTACATA
1 ACTTACATA
*
19552471 ACTCACATA
1 ACTTACATA
19552480 ACTTACATA
1 ACTTACATA
19552489 A-TTAC
1 ACTTAC
19552494 TGTAACACCC
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
8 4 0.06
9 54 0.82
12 8 0.12
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:19552466 original size:21 final size:21
Alignment explanation
Indices: 19552422--19552481 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
19552412 TAAATTACAT
*
19552422 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
19552440 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
19552461 AACTTACATAACTCACATAAC
1 AACTTACATAACTCACATAAC
19552482 TTACATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.34
20 3 0.09
21 20 0.57
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:19553488 original size:81 final size:79
Alignment explanation
Indices: 19553335--19553513 Score: 250
Period size: 81 Copynumber: 2.2 Consensus size: 79
19553325 TTAGTTTACC
* * *
19553335 AAATTACCAAAATATCCCTGGTTTGTAAAATTACTAAATACCCTTTGTTTATAAAATTACCAAAA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACAAAATACCCCTAGTTTATAAAATTACCAAAA
*
19553400 TACCCCTGGTTTGTA
65 TACCCCTGATTTGTA
* *
19553415 AAATTACCAAAATACCATTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACCAAAATACC-CTGGTTTGTAAAATTA-CAAAATACCCCTAGTTTATAAAATTACCAAA
* *
19553480 ATATCCCTGATTTGTG
64 ATACCCCTGATTTGTA
*
19553496 AAATTACTAAAATACCCT
1 AAATTACCAAAATACCCT
19553514 CAACCTGTAA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 30 0.34
81 55 0.63
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (79 bp):
AAATTACCAAAATACCCTGGTTTGTAAAATTACAAAATACCCCTAGTTTATAAAATTACCAAAAT
ACCCCTGATTTGTA
Found at i:19553568 original size:27 final size:27
Alignment explanation
Indices: 19553335--19553568 Score: 222
Period size: 27 Copynumber: 8.7 Consensus size: 27
19553325 TTAGTTTACC
*
19553335 AAATTACCAAAATATCCC-TGGTTTGTA
1 AAATTACCAAAATA-CCCTTAGTTTGTA
* * *
19553362 AAATTA-CTAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
19553388 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
19553415 AAATTACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
19553442 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* *
19553469 AAATTACCAAAATATCCCTGA-TTTGTG
1 AAATTACCAAAATA-CCCTTAGTTTGTA
* * ***
19553496 AAATTACTAAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
*** **
19553523 AAATTATTGAAATACCCTTAACTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
*
19553550 AAATTACCAAAGTACCCTT
1 AAATTACCAAAATACCCTT
19553569 GATTTATAGA
Statistics
Matches: 173, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
25 3 0.02
26 24 0.14
27 142 0.82
28 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTAGTTTGTA
Found at i:19553645 original size:27 final size:27
Alignment explanation
Indices: 19553609--19554189 Score: 613
Period size: 27 Copynumber: 21.1 Consensus size: 27
19553599 TTAAAAAAAA
*
19553609 TACCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
19553636 TATCAAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
19553663 TACCGAAAAACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
19553690 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* **
19553717 TACTGAAATACCCCTGTAGAATAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
19553744 TATCAAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
19553771 TACCGAAATACCCCTGTAGAGTATAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
19553798 AGGGTAAAATTACCGAAATACCCCTATAGGGTAGAAT
1 ----T---A--CCG-AAATACCCCTGTAGGGTAGAAT
* *
19553835 TATCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
19553862 TACCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
19553889 TATCGAAATACCCCTGTAGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* **
19553916 TACTGAAATACCCCTGTAGAATAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
19553943 TACCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
19553970 TACAGAAATACCCCTGTAGGGTAGAGT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
19553997 TACTGAAATACCCCTATAGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
** * *
19554024 TACTAAAATACCCCTATATGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*** * * * *
19554051 TATTTATATACACTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
19554078 TACCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
19554105 TACTGAAATATCCCTGTATGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
19554132 TACCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
19554159 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
19554186 TACC
1 TACC
19554190 ATTTTGCCCC
Statistics
Matches: 464, Mismatches: 80, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
27 439 0.95
28 1 0.00
30 1 0.00
31 1 0.00
33 1 0.00
34 1 0.00
36 1 0.00
37 19 0.04
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:19554570 original size:22 final size:22
Alignment explanation
Indices: 19554537--19554595 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
19554527 CACGTTATTG
19554537 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
19554559 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
19554581 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
19554596 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:19554782 original size:27 final size:27
Alignment explanation
Indices: 19554752--19554816 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
19554742 CTTCTGTTAA
*
19554752 GTGGCTTTGCCAC-ATTATCTGATTCTG
1 GTGGCTTTGCCACAAATATCT-ATTCTG
*
19554779 GTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTTTGCCACAAATATCTATTCTG
*
19554806 GAGGCTTTGCC
1 GTGGCTTTGCC
19554817 TCAACTTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
GTGGCTTTGCCACAAATATCTATTCTG
Found at i:19554990 original size:6 final size:6
Alignment explanation
Indices: 19554959--19555046 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
19554949 TTGCATTCAC
* *
19554959 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
19555008 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
19555047 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:19554997 original size:31 final size:31
Alignment explanation
Indices: 19554959--19555037 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
19554949 TTGCATTCAC
*
19554959 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
19554990 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
19555021 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
19555038 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:19555707 original size:9 final size:9
Alignment explanation
Indices: 19555690--19555761 Score: 81
Period size: 9 Copynumber: 7.7 Consensus size: 9
19555680 ATTACATAAC
19555690 AACTTACAT
1 AACTTACAT
*
19555699 AACTCACAT
1 AACTTACAT
19555708 AACTTACAT
1 AACTTACAT
*
19555717 AATTTACAT
1 AACTTACAT
*
19555726 AACTCACAT
1 AACTTACAT
*
19555735 AACGTACAT
1 AACTTACAT
19555744 AACAACTTACAT
1 ---AACTTACAT
19555756 AACTTA
1 AACTTA
19555762 ACTAATACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
9 44 0.85
12 8 0.15
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:19555727 original size:27 final size:27
Alignment explanation
Indices: 19555693--19555745 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
19555683 ACATAACAAC
*
19555693 TTACATAACTCACATAACTTACATAAT
1 TTACATAACTCACATAACGTACATAAT
19555720 TTACATAACTCACATAACGTACATAA
1 TTACATAACTCACATAACGTACATAA
19555746 CAACTTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (27 bp):
TTACATAACTCACATAACGTACATAAT
Found at i:19555846 original size:17 final size:16
Alignment explanation
Indices: 19555815--19555854 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
19555805 TAGTTTAAAG
19555815 TTCA-AATTTCATAAC
1 TTCATAATTTCATAAC
19555830 TTCATAATTTACATAAC
1 TTCATAATTT-CATAAC
19555847 TTACATAA
1 TT-CATAA
19555855 AACATACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 5 0.23
17 8 0.36
18 5 0.23
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (16 bp):
TTCATAATTTCATAAC
Found at i:19559680 original size:27 final size:27
Alignment explanation
Indices: 19559641--19559818 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
19559631 ACATTGAGCC
* * *
19559641 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * * *
19559668 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
19559695 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
** * *
19559723 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
19559750 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
19559777 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
19559804 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19559819 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:19559780 original size:82 final size:81
Alignment explanation
Indices: 19559662--19559817 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
19559652 TGCTATATAA
* * *
19559662 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
19559727 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19559744 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
19559808 CACTTAGTGC
65 CACTTAGTGC
19559818 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19564482 original size:21 final size:21
Alignment explanation
Indices: 19564456--19564503 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
19564446 TCAACTTAGA
*
19564456 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
19564477 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
19564498 GCGGAG
1 GCGGAG
19564504 CAGAATAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:19565276 original size:20 final size:20
Alignment explanation
Indices: 19565253--19565297 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
19565243 TTTTATTAAG
19565253 TTTTAATTTTATAAA-ATACT
1 TTTTAATTTTATAAATATA-T
* *
19565273 TTTTTATTTTTTAAATATAT
1 TTTTAATTTTATAAATATAT
19565293 TTTTA
1 TTTTA
19565298 TGTACTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAATTTTATAAATATAT
Found at i:19565283 original size:21 final size:20
Alignment explanation
Indices: 19565253--19565296 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
19565243 TTTTATTAAG
19565253 TTTTAATTTTATAAA-ATACTT
1 TTTTAATTTT-TAAATATA-TT
*
19565274 TTTTATTTTTTAAATATATT
1 TTTTAATTTTTAAATATATT
19565294 TTT
1 TTT
19565297 ATGTACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAATTTTTAAATATATT
Found at i:19570871 original size:49 final size:48
Alignment explanation
Indices: 19570801--19571013 Score: 181
Period size: 49 Copynumber: 4.5 Consensus size: 48
19570791 TTACCGCTGC
* * *
19570801 CATGTCCCAGACATGGGCTTACACTGGCTATC-TCCATCAAGGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATCATGCATCAAGGCTGATG
* * * *
19570849 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTAT-ACGTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTATCATGCATCAAG-GCTGATG
* * * * * *
19570899 CATGTCTCAGACATGTCTTACGCTAGC-A-C--GAAACTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATGCATC-AAGGCTGATG
* * *
19570943 CATGTCTCAGACACGTCTTACACTAGCTAACAT-CATCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATGCATCAAGGCTGATG
19570990 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
19571014 GGCACTCACC
Statistics
Matches: 133, Mismatches: 22, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
44 33 0.25
45 1 0.01
46 3 0.02
47 30 0.23
48 12 0.09
49 44 0.33
50 10 0.08
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATGCATCAAGGCTGATG
Found at i:19571041 original size:47 final size:46
Alignment explanation
Indices: 19570801--19571042 Score: 152
Period size: 47 Copynumber: 5.1 Consensus size: 46
19570791 TTACCGCTGC
* * * * *
19570801 CATGTCCCAGACATGGGCTTACACTGGCTATCTC-CATCAAGGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-A-CTCACCTCTACGCTGATG
* *** *
19570849 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCACCTCTAC--GCTGATG
* * ** * *
19570899 CATGTCTCAGACATGTCTTACGCTAGCACGAAACT-TA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTACGCTGATG
* * * *
19570943 CATGTCTCAGACACGTCTTACACTAGCTAACATCA--TCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGC--AC-TCACCTCTACGCTGATG
* *
19570990 CATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTACGCTGATG
19571036 CCATGTC
1 -CATGTC
19571043 TTAAACGTGG
Statistics
Matches: 153, Mismatches: 29, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
44 34 0.22
45 3 0.02
46 12 0.08
47 42 0.27
48 16 0.10
49 39 0.25
50 7 0.05
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTACGCTGATG
Found at i:19571398 original size:18 final size:18
Alignment explanation
Indices: 19571375--19571412 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
19571365 TTGACTAGTC
19571375 GGCTTAATCAAATTGCTT
1 GGCTTAATCAAATTGCTT
**
19571393 GGCTTAATCTGATTGCTT
1 GGCTTAATCAAATTGCTT
19571411 GG
1 GG
19571413 TTTTGCCCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (18 bp):
GGCTTAATCAAATTGCTT
Found at i:19572268 original size:15 final size:15
Alignment explanation
Indices: 19572248--19572279 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
19572238 GCAATCGGGC
19572248 TTGAAAATATTAAAA
1 TTGAAAATATTAAAA
19572263 TTGAAAATATTAAAA
1 TTGAAAATATTAAAA
19572278 TT
1 TT
19572280 AGCTCACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
TTGAAAATATTAAAA
Found at i:19578177 original size:47 final size:47
Alignment explanation
Indices: 19578117--19578295 Score: 125
Period size: 47 Copynumber: 3.8 Consensus size: 47
19578107 CATCGAGACT
*
19578117 GATGCATGACCCAAACAT-GTCTTACACTGGCACTCACCTCTACGCC
1 GATGCATGTCCCAAACATGGTCTTACACTGGCACTCACCTCTACGCC
* * * * *
19578163 GATGCCATGTCCCAAACGTGGTCTTACACGGGCTA-TCA--TGATGCGGCT
1 GATG-CATGTCCCAAACATGGTCTTACACTGGC-ACTCACCT-CTAC-GCC
* * * ** * *
19578211 GATGCATGTCCCAGACAT-GTCTTACACTAGCCCTCGTCTCAATGCC
1 GATGCATGTCCCAAACATGGTCTTACACTGGCACTCACCTCTACGCC
* * * *
19578257 AATGCCATGTCCCATACATGGTCTTATACTGGCTCTCAC
1 GATG-CATGTCCCAAACATGGTCTTACACTGGCACTCAC
19578296 ATAACCCAAT
Statistics
Matches: 99, Mismatches: 24, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
46 23 0.23
47 39 0.39
48 36 0.36
49 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (47 bp):
GATGCATGTCCCAAACATGGTCTTACACTGGCACTCACCTCTACGCC
Found at i:19582830 original size:21 final size:21
Alignment explanation
Indices: 19582780--19582837 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
19582770 CATATGAAAG
* * *
19582780 AAGGCACACGACCATGTGGCC
1 AAGGCACATGCCCATGTGACC
19582801 AAGGCACATGCCCATGTGACC
1 AAGGCACATGCCCATGTGACC
* * *
19582822 TAGGGACATGGCCATG
1 AAGGCACATGCCCATG
19582838 CGATCCGACC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.29, G:0.29, T:0.14
Consensus pattern (21 bp):
AAGGCACATGCCCATGTGACC
Found at i:19588241 original size:45 final size:45
Alignment explanation
Indices: 19588177--19588392 Score: 323
Period size: 45 Copynumber: 4.9 Consensus size: 45
19588167 TATTGTACAG
*
19588177 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
19588222 TACTATTCGGGCCTTTGAGCCTGGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
19588267 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
19588312 TACTATTCGGGCCTTCGAGCCTAGCAAGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
19588357 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC-AAAATGCCG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCG
19588393 ATGGATGAAT
Statistics
Matches: 160, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
42 8 0.05
43 16 0.10
44 5 0.03
45 130 0.81
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:19592073 original size:31 final size:31
Alignment explanation
Indices: 19592035--19592093 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
19592025 CACGTATTTG
19592035 AAATAAGCTTCACAACCCTTTCTAACAAGGA
1 AAATAAGCTTCACAACCCTTTCTAACAAGGA
19592066 AAATAAGCTTCACAACCCTTTCTAACAA
1 AAATAAGCTTCACAACCCTTTCTAACAA
19592094 AACTCAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (31 bp):
AAATAAGCTTCACAACCCTTTCTAACAAGGA
Found at i:19595451 original size:6 final size:6
Alignment explanation
Indices: 19595440--19595475 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
19595430 GAAAGGAAAC
19595440 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
19595476 TTCAACAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:19597084 original size:92 final size:92
Alignment explanation
Indices: 19596973--19597142 Score: 254
Period size: 92 Copynumber: 1.8 Consensus size: 92
19596963 GCCCATAAGT
*
19596973 GAACTCGAACTCAATCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAATCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
19597037 CGAGCTCGGATGCCTAGTTACATCTTTC
65 CAAGCTCGGATGCCTAGTTACATCTTTC
* * *
19597065 GAACTCG-GCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAA-TCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
19597129 CAAGTTCGGATGCC
65 CAAGCTCGGATGCC
19597143 CAAATATCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
91 8 0.11
92 62 0.89
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGAACTCAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
AAGCTCGGATGCCTAGTTACATCTTTC
Found at i:19597123 original size:46 final size:45
Alignment explanation
Indices: 19596965--19597138 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
19596955 TGTGACACGC
* *
19596965 CCATAAGTGAACTCGAACTCAA-TCAACGAGCTCGGGAGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGAATTCGCAT
* *
19597010 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGC-A--T
* *** *
19597056 ACATCTTTCGAACTCGG-CTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGA-ATTCGCAT
* *
19597102 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
19597139 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 30 0.29
46 58 0.56
47 7 0.07
48 4 0.04
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAATTCGCAT
Found at i:19599568 original size:30 final size:30
Alignment explanation
Indices: 19599524--19599612 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
19599514 CAAAGATAAC
19599524 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
19599553 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * * *
19599583 AAGAGATCCAGGATAAAAAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
19599613 CGATACTATA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:19599572 original size:15 final size:15
Alignment explanation
Indices: 19599524--19599599 Score: 84
Period size: 15 Copynumber: 5.1 Consensus size: 15
19599514 CAAAGATAAC
*
19599524 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
19599538 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
19599553 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
19599568 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
19599583 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
19599598 AA
1 AA
19599600 AAAACCCAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.58, C:0.14, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:19602666 original size:91 final size:92
Alignment explanation
Indices: 19602560--19602728 Score: 270
Period size: 91 Copynumber: 1.8 Consensus size: 92
19602550 GCCCATAAGT
**
19602560 GAACTCGAACTCAACTCAACGAGCTCGG-GGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGG-CTCAACTCAA
19602624 C-AGCTCGGATGCCTAGTTACATCTCTC
65 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
19602651 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGCTCAACTCAAC
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGCTCAACTCAAC
*
19602716 GAGTTCGGATGCC
66 GAGCTCGGATGCC
19602729 CAAATATCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 37 0.52
92 34 0.48
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGCTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:19602724 original size:45 final size:44
Alignment explanation
Indices: 19602552--19602725 Score: 183
Period size: 45 Copynumber: 3.9 Consensus size: 44
19602542 ATGTAACCGC
* *
19602552 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATTCGCAT
*
19602597 CCATAAGTGAACTCGGACTCAACTCAAC-AGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* *** *
19602642 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCAT
*
19602689 CCATAAGTGAACTCGG-CTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
19602726 GCCCAAATAT
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 5 0.05
45 51 0.47
46 28 0.26
47 11 0.10
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Found at i:19613996 original size:15 final size:15
Alignment explanation
Indices: 19613944--19613996 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
19613934 NNNNNNNAAT
*
19613944 CCAAGATAGAGAAAC
1 CCAAGATAAAGAAAC
* *
19613959 CC-AGAATAAAGAGAT
1 CCAAG-ATAAAGAAAC
*
19613974 CCAGGATAAAGAAAC
1 CCAAGATAAAGAAAC
19613989 CCAAGATA
1 CCAAGATA
19613997 CGATACTATG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 2 0.07
15 26 0.90
16 1 0.03
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (15 bp):
CCAAGATAAAGAAAC
Found at i:19616773 original size:89 final size:90
Alignment explanation
Indices: 19616647--19616812 Score: 248
Period size: 89 Copynumber: 1.9 Consensus size: 90
19616637 CCCCATAAGT
*
19616647 GAACTCGAACTCAACTCAACGAGCTCGGGAGTCGCATCCATAAGTGAACTC-GA-TCAACTCAAC
1 GAACTCGAACTCAACTCAACGAGCTCGGCAGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
19616710 GAGCTCGGATGCCTAGTTACATCTTC
66 -AGCTCGGATGCCTAGTTACATCTTC
* * *
19616736 GAACTCG-GCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGG-CAGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
19616800 CAGTTCGGATGCC
65 CAGCTCGGATGCC
19616813 CAAATATCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
88 18 0.26
89 28 0.41
90 13 0.19
91 10 0.14
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (90 bp):
GAACTCGAACTCAACTCAACGAGCTCGGCAGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
AGCTCGGATGCCTAGTTACATCTTC
Found at i:19616805 original size:45 final size:44
Alignment explanation
Indices: 19616639--19616809 Score: 165
Period size: 45 Copynumber: 3.9 Consensus size: 44
19616629 CATGTAACCC
* *
19616639 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGAGTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATTCGCAT
*
19616684 CCATAAGTGAACTC-GA-TCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* ** *
19616728 ACAT-CTTCGAACTCGG-CTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCAT
*
19616773 CCATAAGTGAACTCGGACTCAACTCAAC-AGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
19616810 GCCCAAATAT
Statistics
Matches: 104, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 19 0.18
44 11 0.11
45 51 0.49
46 12 0.12
47 4 0.04
48 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Found at i:19619184 original size:30 final size:29
Alignment explanation
Indices: 19619140--19619207 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
19619130 CAAAGATAAC
*
19619140 AAGAAAACC-GAATAAAGAAATCCAAGAT
1 AAGAAACCCAGAATAAAGAAATCCAAGAT
* *
19619168 AGAGAAACCCAGAATAAAGAGATCCAGGAT
1 A-AGAAACCCAGAATAAAGAAATCCAAGAT
*
19619198 AAAAAACCCA
1 AAGAAACCCA
19619208 AGATACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.03
29 15 0.44
30 18 0.53
ACGTcount: A:0.57, C:0.18, G:0.16, T:0.09
Consensus pattern (29 bp):
AAGAAACCCAGAATAAAGAAATCCAAGAT
Found at i:19619199 original size:15 final size:15
Alignment explanation
Indices: 19619151--19619200 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
19619141 AGAAAACCGA
*
19619151 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAGG
* * *
19619166 ATAGAGAAACCCAGA
1 ATAAAGAAATCCAGG
*
19619181 ATAAAGAGATCCAGG
1 ATAAAGAAATCCAGG
19619196 ATAAA
1 ATAAA
19619201 AAACCCAAGA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAGG
Found at i:19622203 original size:46 final size:44
Alignment explanation
Indices: 19622136--19622310 Score: 167
Period size: 46 Copynumber: 3.9 Consensus size: 44
19622126 TGTAACCGGC
*
19622136 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGAGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGA-TTCGCAT
* *
19622182 CCATAAGTGAACTCGGACTCAACTTAAC-AGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* *** *
19622227 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCAT
* *
19622274 CCATAAGTGAACTCGG-CTCAACTCAACAAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
19622311 GCCCAAATAT
Statistics
Matches: 106, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 3 0.03
45 28 0.26
46 53 0.50
47 11 0.10
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Found at i:19622249 original size:92 final size:92
Alignment explanation
Indices: 19622144--19622313 Score: 263
Period size: 92 Copynumber: 1.8 Consensus size: 92
19622134 GCCCATAAGT
* *
19622144 GAACTCGAACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 GAACTCGAACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGG-CTCAACTCA
19622208 AC-AGCTCGGATGCCTAGTTACATCTCTC
64 ACAAGCTCGGATGCCTAGTTACATCTCTC
* *
19622236 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGCTCAACTCAAC
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGCTCAACTCAAC
*
19622301 AAGTTCGGATGCC
66 AAGCTCGGATGCC
19622314 CAAATATCCT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
91 13 0.18
92 58 0.82
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGCTCAACTCAAC
AAGCTCGGATGCCTAGTTACATCTCTC
Found at i:19633583 original size:37 final size:37
Alignment explanation
Indices: 19633533--19633611 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
19633523 TTATTACGAA
* *
19633533 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
19633570 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
19633607 GTCTT
1 GTCTT
19633612 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:19633808 original size:47 final size:47
Alignment explanation
Indices: 19633730--19633936 Score: 324
Period size: 47 Copynumber: 4.4 Consensus size: 47
19633720 CCCTTCGGGA
* * * * * * *
19633730 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19633777 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19633824 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19633871 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19633918 CTTATCACATATATACACT
1 CTTATCACATATATACACT
19633937 GTCTTGGCTG
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 147 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19636929 original size:29 final size:29
Alignment explanation
Indices: 19636866--19636933 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
19636856 TAATCAACCG
*
19636866 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
19636895 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
19636924 CGCACACTTA
1 CGCACACTTA
19636934 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:19637045 original size:173 final size:174
Alignment explanation
Indices: 19636755--19637081 Score: 629
Period size: 173 Copynumber: 1.9 Consensus size: 174
19636745 AACTCAAGGT
* *
19636755 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
19636820 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
19636885 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
19636929 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTC-CACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
19636993 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
19637058 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
19637082 TGTACAATTT
Statistics
Matches: 151, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
173 112 0.74
174 39 0.26
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:19637075 original size:29 final size:30
Alignment explanation
Indices: 19637041--19637112 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
19637031 ATCAACCGCG
*
19637041 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
19637070 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
19637099 CACACTTAGTGCCA
1 CACACTTAGTGCCA
19637113 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:19642865 original size:29 final size:30
Alignment explanation
Indices: 19642831--19642902 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
19642821 ATCAACCGCG
*
19642831 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
19642860 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
19642889 CACACTTAGTGCCA
1 CACACTTAGTGCCA
19642903 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:19650948 original size:39 final size:38
Alignment explanation
Indices: 19650882--19650991 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 38
19650872 CAGTGATGTT
* *
19650882 TATCCAGACTTGGGGTACGCAGCCTATGTGCTGGAATTA
1 TATCCAGACTTAGGGT-CGCAGGCTATGTGCTGGAATTA
19650921 TATCCAGACTTAGGGTCGGCAGGCTATGTGCTGGAATTA
1 TATCCAGACTTAGGGTC-GCAGGCTATGTGCTGGAATTA
* * * *
19650960 TAACCGGACTTAAGGTCCGCAGGCTACGTGCT
1 TATCCAGACTTAGGGT-CGCAGGCTATGTGCT
19650992 AGAAGTACGT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.02
39 61 0.97
40 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (38 bp):
TATCCAGACTTAGGGTCGCAGGCTATGTGCTGGAATTA
Found at i:19659936 original size:13 final size:13
Alignment explanation
Indices: 19659918--19659942 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19659908 TTAATTTTAT
19659918 TTGGCCACACGGA
1 TTGGCCACACGGA
19659931 TTGGCCACACGG
1 TTGGCCACACGG
19659943 GCGTGTGACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
TTGGCCACACGGA
Found at i:19664485 original size:83 final size:83
Alignment explanation
Indices: 19664346--19664507 Score: 324
Period size: 83 Copynumber: 2.0 Consensus size: 83
19664336 TTTTATGAAT
19664346 TTCCATGGATTAGATAGCACATTAAGCATACATAACACCAAATATGAACTTGATTAGCCATTCCA
1 TTCCATGGATTAGATAGCACATTAAGCATACATAACACCAAATATGAACTTGATTAGCCATTCCA
19664411 ATGGCTAATCATTAGCCA
66 ATGGCTAATCATTAGCCA
19664429 TTCCATGGATTAGATAGCACATTAAGCATACATAACACCAAATATGAACTTGATTAGCCATTCCA
1 TTCCATGGATTAGATAGCACATTAAGCATACATAACACCAAATATGAACTTGATTAGCCATTCCA
19664494 ATGGCTAATCATTA
66 ATGGCTAATCATTA
19664508 CCAAGCATTT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (83 bp):
TTCCATGGATTAGATAGCACATTAAGCATACATAACACCAAATATGAACTTGATTAGCCATTCCA
ATGGCTAATCATTAGCCA
Found at i:19666944 original size:43 final size:43
Alignment explanation
Indices: 19666882--19667088 Score: 271
Period size: 43 Copynumber: 4.9 Consensus size: 43
19666872 TACCATACCA
*
19666882 ATGCCATATCCCAGATATGGTCTTACATAG-GATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
* * *
19666924 ATGCCAATAGCCCAGCTATGGTCTTACA-CGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
* *
19666967 ATTCCATATCCCAGATATGGTCTTACATAG-GATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
* * *
19667009 ATGCCAATAGCCCAGCTATGGTCTTACGT-GAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
*
19667052 ATGCCATATCCCAGATATGGTCTTACA-CGAAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATAGAAATCTCA
19667089 ACTAACCCTA
Statistics
Matches: 142, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
42 70 0.49
43 72 0.51
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTACATAGAAATCTCATATCG
Found at i:19667088 original size:85 final size:85
Alignment explanation
Indices: 19666882--19667078 Score: 367
Period size: 85 Copynumber: 2.3 Consensus size: 85
19666872 TACCATACCA
19666882 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
19666947 TTACACGAAATCTCATATCG
66 TTACACGAAATCTCATATCG
*
19666967 ATTCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
**
19667032 TTACGTGAAATCTCATATCG
66 TTACACGAAATCTCATATCG
19667052 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
19667079 CGAAATCTCA
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 108 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (85 bp):
ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
TTACACGAAATCTCATATCG
Found at i:19672344 original size:43 final size:43
Alignment explanation
Indices: 19672286--19672542 Score: 333
Period size: 43 Copynumber: 6.0 Consensus size: 43
19672276 TATATAGCTC
* * * *
19672286 ATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCTC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * * *
19672327 ATATCGATGCCAATATCCCA-ACTATGGTCTTACACGAAATCAC-
1 ATA-CAATGCCAATGTCCCAGAC-ATGGTCTTACATGTAATCACA
*
19672370 ATAACGATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 AT-ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
19672414 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* * *
19672457 ATACAATGCCAATGTCCTAGACATGGTCTTGCACGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
* *
19672500 ATACAATACCAATGTCCCAGACATGGCCTTACATGTAATCACA
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
19672543 TCTTAGTAAT
Statistics
Matches: 192, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
41 3 0.02
42 7 0.04
43 177 0.92
44 5 0.03
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
Found at i:19673194 original size:19 final size:19
Alignment explanation
Indices: 19673167--19673206 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
19673157 TTAAGCATTT
19673167 ATCAATGGC-ACTTCACAAA
1 ATCAATGGCAACTTCA-AAA
*
19673186 ATCATTGGCAACTTCAAAA
1 ATCAATGGCAACTTCAAAA
19673205 AT
1 AT
19673207 TAAGGCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (19 bp):
ATCAATGGCAACTTCAAAA
Found at i:19679637 original size:33 final size:33
Alignment explanation
Indices: 19679595--19679660 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
19679585 TCACTATTGG
19679595 TAAACTATTTAAATCATCTGACTCAATCTGGAT
1 TAAACTATTTAAATCATCTGACTCAATCTGGAT
* *
19679628 TAAACTATTTAAATTATCTGACTCAATTTGGAT
1 TAAACTATTTAAATCATCTGACTCAATCTGGAT
19679661 AATCTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (33 bp):
TAAACTATTTAAATCATCTGACTCAATCTGGAT
Found at i:19682993 original size:43 final size:43
Alignment explanation
Indices: 19682945--19683094 Score: 205
Period size: 43 Copynumber: 3.5 Consensus size: 43
19682935 TAGCCCAACT
*
19682945 ATGGTCTTACACGAAATCAC-ATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCACAAT-ACAATGCCAATGTCCCAGAC
19682988 ATGGTCTTACAC-ATAATCACAATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGA-AATCACAATACAATGCCAATGTCCCAGAC
* * * *
19683031 ATGGTCTTACAAGTAATCACAATACAATGCCAATCTCCTAGAC
1 ATGGTCTTACACGAAATCACAATACAATGCCAATGTCCCAGAC
* *
19683074 ATGGTCTTACATGTAATCACA
1 ATGGTCTTACACGAAATCACA
19683095 TCTCGGTAAT
Statistics
Matches: 98, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
42 1 0.01
43 95 0.97
44 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCACAATACAATGCCAATGTCCCAGAC
Done.