Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 172 of 295
Found at i:58840715 original size:15 final size:15
Alignment explanation
Indices: 58840683--58840753 Score: 88
Period size: 15 Copynumber: 4.7 Consensus size: 15
58840673 TATATGTCAT
* *
58840683 GAAAACCAAGATAAA
1 GAAATCCAAGAAAAA
* *
58840698 GAAGTCCAGGAAAAA
1 GAAATCCAAGAAAAA
*
58840713 GAAATCCAAGATAAA
1 GAAATCCAAGAAAAA
*
58840728 GAAATCCAAGAAACA
1 GAAATCCAAGAAAAA
58840743 GAAATCCAAGA
1 GAAATCCAAGA
58840754 TACAATATCA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.59, C:0.15, G:0.17, T:0.08
Consensus pattern (15 bp):
GAAATCCAAGAAAAA
Found at i:58840724 original size:30 final size:30
Alignment explanation
Indices: 58840683--58840755 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
58840673 TATATGTCAT
* * *
58840683 GAAAACCAAGATAAAGAAGTCCAGGAAAAA
1 GAAATCCAAGATAAAGAAATCCAAGAAAAA
*
58840713 GAAATCCAAGATAAAGAAATCCAAGAAACA
1 GAAATCCAAGATAAAGAAATCCAAGAAAAA
58840743 GAAATCCAAGATA
1 GAAATCCAAGATA
58840756 CAATATCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.59, C:0.15, G:0.16, T:0.10
Consensus pattern (30 bp):
GAAATCCAAGATAAAGAAATCCAAGAAAAA
Found at i:58846457 original size:31 final size:31
Alignment explanation
Indices: 58846419--58846484 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
58846409 TTCAAAAAAA
58846419 TGGGCTCACACACCCATGTGGCCTGCCTGTG
1 TGGGCTCACACACCCATGTGGCCTGCCTGTG
* *
58846450 TGGGCTCACACGCCCATGTGGCCTGCCTTTG
1 TGGGCTCACACACCCATGTGGCCTGCCTGTG
58846481 TGGG
1 TGGG
58846485 TCCACATGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.11, C:0.33, G:0.32, T:0.24
Consensus pattern (31 bp):
TGGGCTCACACACCCATGTGGCCTGCCTGTG
Found at i:58847799 original size:31 final size:31
Alignment explanation
Indices: 58847754--58847818 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
58847744 TTCAATCTCA
*
58847754 ACATATACTGGGCCGAAGCCTTTTCATAAATC
1 ACATATACTAGGCCGAAGCCTTTT-ATAAATC
* *
58847786 ACAT-TACTAGGCCGAATCCTTTTATAATTC
1 ACATATACTAGGCCGAAGCCTTTTATAAATC
58847816 ACA
1 ACA
58847819 ACTCATATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 9 0.30
31 17 0.57
32 4 0.13
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (31 bp):
ACATATACTAGGCCGAAGCCTTTTATAAATC
Found at i:58848099 original size:25 final size:25
Alignment explanation
Indices: 58848065--58848134 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
58848055 CTCTTTTAAT
*
58848065 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
58848090 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
58848115 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
58848135 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:58848207 original size:20 final size:21
Alignment explanation
Indices: 58848182--58848229 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
58848172 AAATGAATAC
*
58848182 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
*
58848202 ATCATGTGTATATCATATCAA
1 ATCATGTGCATATCATATCAA
58848223 ATCATGT
1 ATCATGT
58848230 ATATCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:58855748 original size:31 final size:31
Alignment explanation
Indices: 58855708--58855772 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
58855698 TTCAATCTCA
*
58855708 ACATATACTGGGCCGAAGCCTTTTCATAAATC
1 ACATATACTGGGCCGAAACCTTTT-ATAAATC
*
58855740 ACAT-TACTGGGCCGAAACCTTTTATAATTC
1 ACATATACTGGGCCGAAACCTTTTATAAATC
58855770 ACA
1 ACA
58855773 ACTCATATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 9 0.29
31 18 0.58
32 4 0.13
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (31 bp):
ACATATACTGGGCCGAAACCTTTTATAAATC
Found at i:58856053 original size:25 final size:25
Alignment explanation
Indices: 58856019--58856088 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
58856009 CTCTTTTAAT
*
58856019 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
58856044 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
58856069 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
58856089 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:58856161 original size:20 final size:21
Alignment explanation
Indices: 58856136--58856183 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
58856126 AAATGAATAC
*
58856136 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
58856156 ATCATGTGCATATCATATCAA
1 ATCATGTGCATATCATATCAA
58856177 ATCATGT
1 ATCATGT
58856184 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:58858169 original size:15 final size:15
Alignment explanation
Indices: 58858137--58858165 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58858127 ATTTTCTATG
58858137 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
58858152 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
58858166 ATTTTCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:58858868 original size:45 final size:45
Alignment explanation
Indices: 58858788--58858915 Score: 134
Period size: 45 Copynumber: 2.8 Consensus size: 45
58858778 CGTAGGATTT
* * * * * *
58858788 GATACATGTGTTTTCGTGCAAGACCAAGTTCGGGACATTGGCATC
1 GATATATGGGTTTTCGAGTAAGACCATGTTTGGGACATTGGCATC
*
58858833 GATATATGGGTTTTCGAGTAAGACCATGTTTGGGACGTTGGCATC
1 GATATATGGGTTTTCGAGTAAGACCATGTTTGGGACATTGGCATC
* * *
58858878 GATATATGTGG-TTAC-ATGTAAGACCATGTCTAGGACAT
1 GATATATG-GGTTTTCGA-GTAAGACCATGTTTGGGACAT
58858916 CGACATCGTA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 1 0.01
45 67 0.96
46 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (45 bp):
GATATATGGGTTTTCGAGTAAGACCATGTTTGGGACATTGGCATC
Found at i:58858923 original size:45 final size:45
Alignment explanation
Indices: 58858819--58859005 Score: 169
Period size: 45 Copynumber: 4.3 Consensus size: 45
58858809 GACCAAGTTC
* *
58858819 GGGACATTGGCATCGATATATG-GGTTTTCGA-GTAAGACCATGTTT
1 GGGACATTGGCATCGATATATGTGG-TTAC-ATGTAAGACCATGTCT
*
58858864 GGGACGTTGGCATCGATATATGTGGTTACATGTAAGACCATGTCT
1 GGGACATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCT
* * * *
58858909 AGGACATCGACATCG-TAT-T-TGATTA-ATGTAAGACTC-TGTCT
1 GGGACATTGGCATCGATATATGTGGTTACATGTAAGAC-CATGTCT
* * * *
58858950 GGGACAATGGCATCG--ATATG-AGATAGCATGTAAGACCACGTCT
1 GGGACATTGGCATCGATATATGTGGTTA-CATGTAAGACCATGTCT
58858993 GGGACATTGGCAT
1 GGGACATTGGCAT
58859006 TGTTCGATAT
Statistics
Matches: 117, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
40 2 0.02
41 28 0.24
42 7 0.06
43 26 0.22
44 4 0.03
45 48 0.41
46 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (45 bp):
GGGACATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCT
Found at i:58863585 original size:45 final size:45
Alignment explanation
Indices: 58863463--58863577 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 45
58863453 CTAGGAATTT
*
58863463 AGAAATCTGAGCTAGTTGAGTTGGTCCAAGTTCGTGATATATGTG
1 AGAAATCCGAGCTAGTTGAGTTGGTCCAAGTTCGTGATATATGTG
* * * *
58863508 AGAAATCCAAACTTGTTGAGTTAGTCCAAGTTCGTGATATATGTG
1 AGAAATCCGAGCTAGTTGAGTTGGTCCAAGTTCGTGATATATGTG
* *
58863553 A-AGCATCCGAGCTCGTTGAGTTGGT
1 AGA-AATCCGAGCTAGTTGAGTTGGT
58863578 TTTAGTTCAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.02
45 58 0.98
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (45 bp):
AGAAATCCGAGCTAGTTGAGTTGGTCCAAGTTCGTGATATATGTG
Found at i:58864996 original size:46 final size:46
Alignment explanation
Indices: 58864929--58865098 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
58864919 AACCCGCCCC
*
58864929 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
58864975 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * * *
58865023 TCA-CGAACTCGGACTCAACTCCACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
58865068 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
58865099 AGATGCTCAA
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 57 0.56
47 26 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:58865041 original size:93 final size:93
Alignment explanation
Indices: 58864934--58865104 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
58864924 GCCCCTAAGT
* * *
58864934 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
58864999 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
* *
58865027 GAACTCGGACTCAACTCCACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58865092 CGAGTTCAGATGC
66 CGAGTTCAGATGC
58865105 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:58872943 original size:45 final size:44
Alignment explanation
Indices: 58872808--58872990 Score: 185
Period size: 45 Copynumber: 4.2 Consensus size: 44
58872798 CTGTAGGATT
**
58872808 TTGATATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCA
1 TTGATATATGTGTTTT-GTGTAAGACCACGTCTGGGACATTGGCA
** * * *
58872853 GCGATATATGTGTTTTTGAGTAAGACCACGTCTAGGACGTTGGCA
1 TTGATATATGTG-TTTTGTGTAAGACCACGTCTGGGACATTGGCA
* *
58872898 TTGATATATGTGTTTATGTGTAAGACCATGTCTGGGACATCGGCA
1 TTGATATATGTGTTT-TGTGTAAGACCACGTCTGGGACATTGGCA
* * *
58872943 TTG-TAT-T-TGATTCGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TTGATATATGTGTTTTGTGTAAGACCAC-GTCTGGGACATTGGCA
*
58872984 TCGATAT
1 TTGATAT
58872991 GAGATAGCAT
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
41 26 0.22
42 7 0.06
43 1 0.01
44 6 0.05
45 72 0.62
46 4 0.03
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (44 bp):
TTGATATATGTGTTTTGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:58883803 original size:12 final size:12
Alignment explanation
Indices: 58883786--58883812 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
58883776 GATCATTATT
58883786 TTTGACATAAAA
1 TTTGACATAAAA
58883798 TTTGACATAAAA
1 TTTGACATAAAA
58883810 TTT
1 TTT
58883813 ATCTTATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (12 bp):
TTTGACATAAAA
Found at i:58888897 original size:45 final size:46
Alignment explanation
Indices: 58888833--58889007 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
58888823 TGTAACCCGC
*
58888833 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
58888878 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
58888928 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
58888971 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58889008 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.32
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:58888998 original size:93 final size:92
Alignment explanation
Indices: 58888840--58889010 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
58888830 CGCCCATAAG
*
58888840 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58888905 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
58888932 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58888997 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
58889011 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58896017 original size:92 final size:93
Alignment explanation
Indices: 58895906--58896076 Score: 301
Period size: 92 Copynumber: 1.8 Consensus size: 93
58895896 CGCCCATAAG
*
58895906 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACT-GGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
58895969 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
58895998 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58896063 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
58896077 TCAATCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
91 2 0.03
92 47 0.63
93 26 0.35
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58896066 original size:46 final size:46
Alignment explanation
Indices: 58895899--58896073 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
58895889 TGTAACCCGC
* *
58895899 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
58895945 CCATAAGTGAACT-GGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
58895994 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
58896037 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58896074 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 4 0.04
45 21 0.19
46 46 0.42
47 25 0.23
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:58907983 original size:24 final size:22
Alignment explanation
Indices: 58907945--58908002 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
58907935 ATGGTGTGGT
*
58907945 TAAACCACTCAAATGGTACAGA
1 TAAAACACTCAAATGGTACAGA
**
58907967 TAAAAGCTACTCAAATGGTATGGA
1 TAAAA-C-ACTCAAATGGTACAGA
58907991 TAAAACACTCAA
1 TAAAACACTCAA
58908003 TGATGCTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 10 0.32
23 2 0.06
24 19 0.61
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (22 bp):
TAAAACACTCAAATGGTACAGA
Found at i:58911542 original size:23 final size:21
Alignment explanation
Indices: 58911480--58911552 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 21
58911470 GAAAAGACGA
* *
58911480 ATGAACAATAAAATTCTTTGGC
1 ATGAACAGTAAAATTCTCT-GC
*
58911502 ATGAACAGTGAAATTCTCTGAC
1 ATGAACAGTAAAATTCTCTG-C
*
58911524 ATGAATAGTAAATATTCTCTGC
1 ATGAACAGTAAA-ATTCTCTGC
58911546 ATGAACA
1 ATGAACA
58911553 ATGAAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.02
22 34 0.79
23 8 0.19
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (21 bp):
ATGAACAGTAAAATTCTCTGC
Found at i:58912155 original size:11 final size:12
Alignment explanation
Indices: 58912126--58912155 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
58912116 TTTATTATTA
58912126 AAATTATATGTT
1 AAATTATATGTT
58912138 AAATTATATGTT
1 AAATTATATGTT
58912150 -AATTAT
1 AAATTAT
58912156 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
AAATTATATGTT
Found at i:58935881 original size:44 final size:42
Alignment explanation
Indices: 58935814--58935911 Score: 117
Period size: 44 Copynumber: 2.3 Consensus size: 42
58935804 ATCTGACATA
* * *
58935814 TCGTGTAAGACCGTGTCTAGGACACAGGCCTCG-ATTTGAGATT
1 TCGTGTAAGACCATGTCTAGGACACAGGCATCGTAATT--GATT
* *
58935857 TACGTGTAAGACCATGTCTGGGACATAGGCATCGTAATTGATT
1 T-CGTGTAAGACCATGTCTAGGACACAGGCATCGTAATTGATT
58935900 TCGTGTAAGACC
1 TCGTGTAAGACC
58935912 CTATTTGGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
42 11 0.23
43 6 0.12
44 28 0.58
45 3 0.06
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTAGGACACAGGCATCGTAATTGATT
Found at i:58937291 original size:24 final size:24
Alignment explanation
Indices: 58937262--58937317 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
58937252 GAAAAATCAA
**
58937262 AAGAAAAAGACCAAGAAAA-AAAG
1 AAGAAAAAGAAAAAGAAAAGAAAG
58937285 AATGAAAAAGAAAAAGAAAAGAAAG
1 AA-GAAAAAGAAAAAGAAAAGAAAG
*
58937310 TAGAAAAA
1 AAGAAAAA
58937318 AAGAGAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 21 0.75
25 5 0.18
ACGTcount: A:0.75, C:0.04, G:0.18, T:0.04
Consensus pattern (24 bp):
AAGAAAAAGAAAAAGAAAAGAAAG
Found at i:58937320 original size:11 final size:11
Alignment explanation
Indices: 58937274--58937321 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
58937264 GAAAAAGACC
58937274 AAGAAAAAAAG
1 AAGAAAAAAAG
*
58937285 AATGAAAAAGAAA
1 AA-GAAAAA-AAG
58937298 AAGAAAAGAAAG
1 AAGAAAA-AAAG
*
58937310 TAGAAAAAAAG
1 AAGAAAAAAAG
58937321 A
1 A
58937322 GAGGAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 6 0.20
12 19 0.63
13 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:58939832 original size:22 final size:22
Alignment explanation
Indices: 58939804--58939847 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
58939794 GCGAAAGGTT
58939804 GAATTTGTGAAACAACTTCATC
1 GAATTTGTGAAACAACTTCATC
58939826 GAATTTGTGAAACAACTTCATC
1 GAATTTGTGAAACAACTTCATC
58939848 AAAGAGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (22 bp):
GAATTTGTGAAACAACTTCATC
Found at i:58943735 original size:44 final size:47
Alignment explanation
Indices: 58943621--58943742 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 47
58943611 AGAGGTGAAT
* *
58943621 GCCAGTGTAATACATGTCTGGGACATGCATCGGCCTCAATGATGGTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAATGATCGTA
* * *
58943668 GCCAGTGTAAGACGTGTCAGGGACATGCATCGG-CT-AA-GTTTCGT-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAATG-ATCGTA
* *
58943712 GCTAGTGTAAGACATGTTTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
58943743 AGCACGTATA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
44 28 0.43
45 5 0.08
46 2 0.03
47 30 0.46
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAATGATCGTA
Found at i:58944619 original size:55 final size:55
Alignment explanation
Indices: 58944554--58944672 Score: 134
Period size: 55 Copynumber: 2.2 Consensus size: 55
58944544 CTTAATCTTT
* * * * *
58944554 TAAA-TCAGTATTGTCCACGGTTAGACCACACGAGTGTGTGCCATAGCGGTG-TC
1 TAAAGTCAGTATTGCCCACGGGTAGACCACACGAGCGTGTGCCATAGCCGTGCCC
* * * *
58944607 TATAAGTCAGTATTGCCCATGGGTAGGCCACACGGGCGTGTGTCATAGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAGACCACACGAGCGTGTGCCATAGCCGTGCCC
58944663 TAAAGTCAGT
1 TAAAGTCAGT
58944673 GTCGCACACG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 47 0.87
56 3 0.06
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (55 bp):
TAAAGTCAGTATTGCCCACGGGTAGACCACACGAGCGTGTGCCATAGCCGTGCCC
Found at i:58951152 original size:94 final size:93
Alignment explanation
Indices: 58951000--58951314 Score: 296
Period size: 94 Copynumber: 3.4 Consensus size: 93
58950990 GTTATGTGAG
* * * * * *
58951000 AGCCAGTATAAGACCATGTCTGGGACATGACATCGGCATTGAGATGAGGGCTACTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
58951065 TCTAGGACATGCATCAGCT-GCATCATGAT
65 TCTAGGACATGCATCAGCTCG-ATCATGAT
* * * * * *
58951094 AGCCCGTGTAGGACCACGTCTTGGACATGGCATCGGCGTAGAGGTGAGTGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
* * * *
58951159 TCTGGGACATGCATCGGCCTCGATGATGTT
65 TCTAGGACATGCATCAG-CTCGATCATGAT
* * * **
58951189 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGACTA-AGTTTTGTGCTAGTGTAAGACATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
** * **
58951251 CTAGGACATGCATCAGCAAGTATACACGGG
66 CTAGGACATGCATCAGCTCG-AT-CATGAT
* *
58951281 AGCTAGTGTAAGATCATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
58951315 AGCCTCGATG
Statistics
Matches: 178, Mismatches: 37, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
90 2 0.01
91 37 0.21
92 16 0.09
93 20 0.11
94 83 0.47
95 19 0.11
96 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
CTAGGACATGCATCAGCTCGATCATGAT
Found at i:58951167 original size:47 final size:46
Alignment explanation
Indices: 58950996--58951358 Score: 179
Period size: 47 Copynumber: 7.7 Consensus size: 46
58950986 TGGGGTTATG
* * *
58950996 TGAGAGCCAGTATAAGACCATGTCTGGGACATGACATCGGCATTGAGA
1 TGAGTGCCAGTGTAAGACCATGTCTGGGACATG-CATCGGC-TAGAGA
* * * * * * *
58951044 TGAGGGCTACTGTAAGA-CGTGTCTAGGACATGCATCAGCT-GCATCA
1 TGAGTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTAG-A-GA
* * * * *
58951090 TGA-TAGCCCGTGTAGGACCACGTCTTGGACATGGCATCGGCGTAGAGG
1 TGAGT-GCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TAGAGA
*
58951138 TGAGTGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGATGA
1 TGAGTGCCAGTGTAAGACCATGTCTGGGACATGCATCGG-CTAGA-GA
* * * *
58951185 TG-TTAGCCAGTGTAAGA-CGTGTCTGGGACATGCATCGACTA-AGT
1 TGAGT-GCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTAGAGA
** * * * * *
58951229 TTTGTGCTAGTGTAAGA-CATGTCTAGGACATGCATCAGCAAGTATACA
1 TGAGTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGC---TAGAGA
* * * * * * *
58951277 CGGGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCAGCCT--CGA
1 TGAGTGCCAGTGTAAGACCATGTCTGGGACAT-GCATC-GGCTAGAGA
*
58951323 TGGAGATAGCCAGCGTAAGACCATGTCTGGGACATG
1 T-GAG-T-GCCAGTGTAAGACCATGTCTGGGACATG
58951359 GCAGTGGTAA
Statistics
Matches: 239, Mismatches: 54, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
44 32 0.13
45 4 0.02
46 32 0.13
47 75 0.31
48 49 0.21
49 40 0.17
50 6 0.03
51 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
TGAGTGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTAGAGA
Found at i:58952240 original size:55 final size:54
Alignment explanation
Indices: 58952125--58952243 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 54
58952115 CTTAATCTTT
* * * *
58952125 TAAA-TCAGTATTGTCCACGGTTAGGCCACACGGGCGCGTGCCATAGCGGTGTC
1 TAAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGCGTGCCATAGCCGTGCC
* * *
58952178 TATAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGCGTGCCATAGCCGTG-CC
58952234 TAAAGTCAGT
1 TAAAGTCAGT
58952244 GTCGCACACG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 49 0.88
56 3 0.05
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (54 bp):
TAAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGCGTGCCATAGCCGTGCC
Found at i:58952254 original size:55 final size:55
Alignment explanation
Indices: 58952140--58952256 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
58952130 CAGTATTGTC
* * * * *
58952140 CACGGTTAGGCCACACGGGCGCGTGCCATAGCGGTGTCTATAAGTCAGTATTGCC
1 CACGGGTAGGCCACACGGGCGCGTGCCATAGCCGTGCCTATAAGTCAGTATCGCA
* * * *
58952195 CACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTGCCCTA-AAGTCAGTGTCGCA
1 CACGGGTAGGCCACACGGGCGCGTGCCATAGCCGTG-CCTATAAGTCAGTATCGCA
58952250 CACGGGT
1 CACGGGT
58952257 TGAGGACGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 49 0.94
56 3 0.06
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (55 bp):
CACGGGTAGGCCACACGGGCGCGTGCCATAGCCGTGCCTATAAGTCAGTATCGCA
Found at i:58954437 original size:39 final size:39
Alignment explanation
Indices: 58954394--58954560 Score: 253
Period size: 39 Copynumber: 4.3 Consensus size: 39
58954384 GGTCTTTAAC
** *
58954394 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* *
58954433 CCGGATATATTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
58954472 CCAGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
58954511 CCGAATAGTTTTCCAACATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
58954550 CCGGATATTTT
1 CCGGATATTTT
58954561 CAATCTCATA
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:58962467 original size:39 final size:39
Alignment explanation
Indices: 58962424--58962590 Score: 253
Period size: 39 Copynumber: 4.3 Consensus size: 39
58962414 GGTCTTTAAC
** *
58962424 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
58962463 CCGGATATATTTCTAGCATATAGCTTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
58962502 CCGGATATTTTTCCAGCATATAGCCTGCAGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* *
58962541 CCGAATATTTTTCCAACATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
58962580 CCGGATATTTT
1 CCGGATATTTT
58962591 CAATCTCATA
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:58965756 original size:20 final size:20
Alignment explanation
Indices: 58965719--58965757 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
58965709 GAACACAAGC
*
58965719 TGTCCAATCAGCTCACTTAG
1 TGTCCAATCAGCTAACTTAG
* *
58965739 TGTCCATTCGGCTAACTTA
1 TGTCCAATCAGCTAACTTA
58965758 TGTAGTGAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTCCAATCAGCTAACTTAG
Found at i:58971977 original size:31 final size:32
Alignment explanation
Indices: 58971939--58972005 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
58971929 GAAATAGGGT
* *
58971939 CACACGCCCGTGTGGG-TAGGCCGTGTGGTCA
1 CACACGCCCATGTGGGTTAGGCCGTATGGTCA
58971970 CACACGCCCATGTGGGTTAGGCCGTATGGTCA
1 CACACGCCCATGTGGGTTAGGCCGTATGGTCA
58972002 CACA
1 CACA
58972006 TGCTCGTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.18, C:0.30, G:0.33, T:0.19
Consensus pattern (32 bp):
CACACGCCCATGTGGGTTAGGCCGTATGGTCA
Found at i:58973709 original size:28 final size:28
Alignment explanation
Indices: 58973667--58973743 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
58973657 ATCTTCGATG
58973667 TCTCGCACACTAAGTGCCATACCCAATA
1 TCTCGCACACTAAGTGCCATACCCAATA
* ** * *
58973695 TCTCGCACACCAAGTGTTATTCTCAATA
1 TCTCGCACACTAAGTGCCATACCCAATA
*
58973723 TTTCGCACACTAAGTGCCATA
1 TCTCGCACACTAAGTGCCATA
58973744 TATATATATA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACCCAATA
Found at i:58973810 original size:40 final size:40
Alignment explanation
Indices: 58973752--58973827 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
58973742 TATATATATA
*
58973752 TAGCCGAGGCTATCTCAAATC-GCACATC-AAGTGCCACATT
1 TAGCCGAAGCTATCTCAAA-CAGCACA-CGAAGTGCCACATT
*
58973792 TAGCCGAAGCTATTTCAAACAGCACACGAAGTGCCA
1 TAGCCGAAGCTATCTCAAACAGCACACGAAGTGCCA
58973828 TTCTTAACCG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCAAACAGCACACGAAGTGCCACATT
Found at i:58977103 original size:20 final size:20
Alignment explanation
Indices: 58977074--58977114 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
58977064 TGCTTGCTCT
*
58977074 GTTTCTTTCCTATAAAAATA
1 GTTTCCTTCCTATAAAAATA
58977094 GTTTCCTTCCTATAAAAATA
1 GTTTCCTTCCTATAAAAATA
58977114 G
1 G
58977115 ACTCAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (20 bp):
GTTTCCTTCCTATAAAAATA
Found at i:58979462 original size:19 final size:20
Alignment explanation
Indices: 58979425--58979462 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58979415 ATAAGGTGGT
58979425 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58979445 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58979463 TGGTGTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58982890 original size:27 final size:27
Alignment explanation
Indices: 58982873--58983050 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
58982863 ATATTAAGTC
58982873 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
58982900 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
58982927 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *** ** *
58982955 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
58982982 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
58983009 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
58983036 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
58983051 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:58983012 original size:82 final size:81
Alignment explanation
Indices: 58982894--58983049 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58982884 TGCTATATAA
* *
58982894 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
58982959 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
58982976 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
58983040 CACTTAGTGC
65 CACTTAGTGC
58983050 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:58983033 original size:54 final size:54
Alignment explanation
Indices: 58982873--58983049 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
58982863 ATATTAAGTC
* * * *
58982873 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
58982927 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
58982982 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
58983036 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58983050 TGTACAATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 45 0.43
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:58990965 original size:27 final size:27
Alignment explanation
Indices: 58990948--58991125 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
58990938 ATATTAAGTC
58990948 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* ** *
58990975 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
58991002 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* *** ** *
58991030 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
58991057 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
58991084 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
58991111 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
58991126 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:58991087 original size:82 final size:81
Alignment explanation
Indices: 58990969--58991124 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58990959 TGCTATATAA
* *
58990969 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
58991034 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
58991051 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
58991115 CACTTAGTGC
65 CACTTAGTGC
58991125 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:58991108 original size:54 final size:54
Alignment explanation
Indices: 58990948--58991124 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
58990938 ATATTAAGTC
* * * *
58990948 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
58991002 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
58991057 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
58991111 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58991125 TGTACAATTT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
54 57 0.55
55 45 0.43
56 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:58997820 original size:46 final size:46
Alignment explanation
Indices: 58997770--58997942 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
58997760 TGGTTGAGCA
*
58997770 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
58997816 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
58997863 TCCGAACTCGTTGAGTTGAGTCCGACTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
58997909 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58997943 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 58 0.55
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58997926 original size:93 final size:93
Alignment explanation
Indices: 58997767--58997937 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
58997757 GGATGGTTGA
* *
58997767 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
58997832 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
58997860 GCATCCGAACTCGTTGAGTTGAGTCCGACTTCATTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
58997924 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
58997938 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGACTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58998204 original size:19 final size:20
Alignment explanation
Indices: 58998167--58998204 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58998157 ATAAGGTGGT
58998167 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
58998187 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
58998205 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:58999370 original size:55 final size:54
Alignment explanation
Indices: 58999261--58999436 Score: 183
Period size: 55 Copynumber: 3.3 Consensus size: 54
58999251 GGGCGTTACA
* * * **
58999261 TACATGGTATCCTTGCCTTAT-GAACTCACCATTGCCATGCCTTGGCATGGTCT
1 TACATGGTATCTTTGCCTTATAAAACTTACCAACGCCATGCCTTGGCATGGTCT
* ** * * *
58999314 TACATGGGATCTTTGCCTTATAGAAGTTTATCAACGCCATGTCTTGACATGGTCT
1 TACATGGTATCTTTGCCTTATA-AAACTTACCAACGCCATGCCTTGGCATGGTCT
* * * * *
58999369 TACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTTGGCATGGTCT
1 TACATGGTATCTTTGCCTTATAAAACTTACCAACGCCATGCCTTGGCATGGTCT
*
58999423 TACTTGGTATCTTT
1 TACATGGTATCTTT
58999437 AAACCCTAAT
Statistics
Matches: 95, Mismatches: 26, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 19 0.20
54 36 0.38
55 40 0.42
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
TACATGGTATCTTTGCCTTATAAAACTTACCAACGCCATGCCTTGGCATGGTCT
Found at i:59007966 original size:21 final size:20
Alignment explanation
Indices: 59007932--59007970 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
59007922 GCATGTATTT
59007932 TGAATTTTCTTGATAGATTA
1 TGAATTTTCTTGATAGATTA
*
59007952 TGAATGTTTGTTGATAGAT
1 TGAAT-TTTCTTGATAGAT
59007971 ATAAAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (20 bp):
TGAATTTTCTTGATAGATTA
Found at i:59007982 original size:21 final size:22
Alignment explanation
Indices: 59007936--59007984 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
59007926 GTATTTTGAA
* * *
59007936 TTTTCTTGATAGATTATGAATG
1 TTTTGTTGATAGATTATAAAAG
59007958 -TTTGTTGATAGA-TATAAAAG
1 TTTTGTTGATAGATTATAAAAG
59007978 TTTTGTT
1 TTTTGTT
59007985 AAGTGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (22 bp):
TTTTGTTGATAGATTATAAAAG
Found at i:59010607 original size:37 final size:35
Alignment explanation
Indices: 59010565--59010641 Score: 104
Period size: 34 Copynumber: 2.2 Consensus size: 35
59010555 AGGCTTGAAA
59010565 TAGGGAAT-AAATTGCATAAATTTTATTTTTTCGAGCC
1 TAGGGAATGAAATTG---AAATTTTATTTTTTCGAGCC
*
59010602 TAGGG-ATGAAATTGGAATTTTATTTTTTCGAGCC
1 TAGGGAATGAAATTGAAATTTTATTTTTTCGAGCC
59010636 TAGGGA
1 TAGGGA
59010642 CGAAAAATGG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
34 24 0.65
36 2 0.05
37 11 0.30
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (35 bp):
TAGGGAATGAAATTGAAATTTTATTTTTTCGAGCC
Found at i:59011342 original size:57 final size:58
Alignment explanation
Indices: 59011219--59011359 Score: 158
Period size: 57 Copynumber: 2.4 Consensus size: 58
59011209 CTCATTCCTA
* * ** * * *
59011219 AAAGGATTTAGCCCAGACGAGTAATCTTGATATAAGCCCTCTCGAGCATATGTTATAG
1 AAAGGATTTAGCCTAGACGGGTAATCCAGATACAAGCCCTCTAGAGCATATGTCATAG
** * *
59011277 ATTGGATTTAGCCTAGACGGGTAATCCAGAT-CAAGCTCTTTAGAGCATATGTCATAG
1 AAAGGATTTAGCCTAGACGGGTAATCCAGATACAAGCCCTCTAGAGCATATGTCATAG
* *
59011334 AAAGGATTTAGCCTGGACTGGTAATC
1 AAAGGATTTAGCCTAGACGGGTAATC
59011360 TTGTTGTATA
Statistics
Matches: 68, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
57 43 0.63
58 25 0.37
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (58 bp):
AAAGGATTTAGCCTAGACGGGTAATCCAGATACAAGCCCTCTAGAGCATATGTCATAG
Found at i:59016464 original size:40 final size:39
Alignment explanation
Indices: 59016414--59016615 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 39
59016404 CTAAGTCCCA
*
59016414 AAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGATCCG
1 AAGGCATTTGTGCTAGTGACTATATCCGG-CTAAGATCCG
* *
59016454 AAGGCATTTGTGCGAGTTG-CTATATCCAGGCTAAGACCCG
1 AAGGCATTTGTGCTAG-TGACTATATCC-GGCTAAGATCCG
*
59016494 AAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TCCCG
1 AAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGAT-CCG
* *
59016534 AAGGCATTTATGCTAGTGACTATATTCGGGCTAAGA-CCTG
1 AAGGCATTTGTGCTAGTGACTATA-TCCGGCTAAGATCC-G
* *
59016574 AAGGCATTTGTGCGAGTTG-TTATATCCGGCTAA-ATCCCG
1 AAGGCATTTGTGCTAG-TGACTATATCCGGCTAAGAT-CCG
59016613 AAG
1 AAG
59016616 ATACTTGGGT
Statistics
Matches: 138, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
38 1 0.01
39 15 0.11
40 114 0.83
41 8 0.06
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (39 bp):
AAGGCATTTGTGCTAGTGACTATATCCGGCTAAGATCCG
Found at i:59016535 original size:80 final size:80
Alignment explanation
Indices: 59016402--59016586 Score: 248
Period size: 80 Copynumber: 2.3 Consensus size: 80
59016392 ATGATATACG
* * * * *
59016402 GGCTAAGTCCCAAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGC
1 GGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGATCCGAAGGCATTTATGC
59016467 GAGTTG-CTATATCCA
66 GAG-TGACTATATCCA
*
59016482 GGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAG-TCCCGAAGGCATTTATG
1 GGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGAT-CCGAAGGCATTTATG
* * *
59016546 CTAGTGACTATATTCG
65 CGAGTGACTATATCCA
*
59016562 GGCTAAGACCTGAAGGCATTTGTGC
1 GGCTAAGACCCGAAGGCATTTGTGC
59016587 GAGTTGTTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (80 bp):
GGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGACTAAGATCCGAAGGCATTTATGC
GAGTGACTATATCCA
Found at i:59016598 original size:80 final size:80
Alignment explanation
Indices: 59016402--59016615 Score: 238
Period size: 80 Copynumber: 2.7 Consensus size: 80
59016392 ATGATATACG
* * * * * * *
59016402 GGCTAAGTCCCAAAGGCTTTTGTGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGCGACTATATCCGGGCTAAG-TCCCGAAGGCATTTATG
59016466 CGAGTTGCTATATCCA
65 CGAGTTGCTATATCCA
*
59016482 GGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGC
1 GGCTAAGACCCGAAGGCATTTGTGCGAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGC
* * *
59016547 TAG-TGACTATATTCG
66 GAGTTG-CTATATCCA
* * * *
59016562 GGCTAAGACCTGAAGGCATTTGTGCGAGTTG-TTATATCC-GGCTAAATCCCGAAG
1 GGCTAAGACCCGAAGGCATTTGTGCGAG-CGACTATATCCGGGCTAAGTCCCGAAG
59016616 ATACTTGGGT
Statistics
Matches: 117, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
79 17 0.15
80 99 0.85
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGC
GAGTTGCTATATCCA
Found at i:59018071 original size:16 final size:16
Alignment explanation
Indices: 59018050--59018080 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59018040 ATAAATTTGA
59018050 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
59018066 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
59018081 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:59019723 original size:93 final size:93
Alignment explanation
Indices: 59019593--59019765 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
59019583 CGCCCATAAT
* * * *
59019593 CGAACTCAGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAATTTAGACTCAACTCA
1 CGAACTCAGACTCAACTCAAAGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
59019658 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * *
59019686 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAAAGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
59019751 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
59019766 CAAATATCCC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAAAGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:59019753 original size:46 final size:45
Alignment explanation
Indices: 59019586--59019761 Score: 158
Period size: 46 Copynumber: 3.8 Consensus size: 45
59019576 TGTAACCCGC
* * *
59019586 CCATAATCGAACTCAGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAT-GAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
59019632 CCATAAGTGAATTTAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAA-TGAACTCAGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * * *
59019682 -C-TCACGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAATGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
59019725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAA-TGAACTCAGACTCAACTCAACGAGCTCGGA
59019762 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 64 0.61
47 29 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAATGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:59019780 original size:46 final size:45
Alignment explanation
Indices: 59019647--59019780 Score: 119
Period size: 46 Copynumber: 2.9 Consensus size: 45
59019637 AGTGAATTTA
* * * *
59019647 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA-CGAACTCG
1 GACTCAACTCAACGAGTTCGGATGCCCA---ACATCCCAGTGAACTCG
* * * *
59019694 GACTCAACTCAACGAGTTCGGACGCTC-GCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGATGCCCAACATCC--CAGTGAACTCG
*
59019740 GACTCAACTCAACGAGTTCGGATGCCCAAATATCCCAGTGA
1 GACTCAACTCAACGAGTTCGGATGCCC-AACATCCCAGTGA
59019781 CATGTCACTT
Statistics
Matches: 69, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
43 4 0.06
45 1 0.01
46 37 0.54
47 23 0.33
48 4 0.06
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (45 bp):
GACTCAACTCAACGAGTTCGGATGCCCAACATCCCAGTGAACTCG
Found at i:59027974 original size:55 final size:52
Alignment explanation
Indices: 59027874--59028073 Score: 174
Period size: 55 Copynumber: 3.7 Consensus size: 52
59027864 TTAAGGATAC
* *
59027874 CATGTAAGACCATGCCAAGG-CATGACAATTGGTAAGGTTTC-TAAGGCAAGGAAAT
1 CATGTAAGACCATGTC-AGGACATGGC-ATTGGTAA-G-TTCATAAGGCAAGG-AAT
* ***
59027929 CATGTAAGACCATGTCAGGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGTCAGGACATGGCATTGGTAAGTT-C-ATAAGGC-AAGGAAT
* * *
59027984 CATGTAAGACCATGGCAAGG-CATGGCATTGGTGAGTTCATAAGG-AAAGAAT
1 CATGTAAGACCATGTC-AGGACATGGCATTGGTAAGTTCATAAGGCAAGGAAT
* *
59028035 ACTATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 -C-ATGTAAGACCATGTCAGGACATGGCATTGGTAAGTT
59028074 TCAAAAGGAT
Statistics
Matches: 119, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
51 3 0.03
52 5 0.04
53 37 0.31
54 11 0.09
55 56 0.47
56 7 0.06
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (52 bp):
CATGTAAGACCATGTCAGGACATGGCATTGGTAAGTTCATAAGGCAAGGAAT
Found at i:59028072 original size:108 final size:110
Alignment explanation
Indices: 59027873--59028073 Score: 277
Period size: 108 Copynumber: 1.8 Consensus size: 110
59027863 TTTAAGGATA
*
59027873 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAAGAAATCATGTAAGA
* *
59027938 CCATGTCAGGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
59027983 CCATGTAAGACCATGGCAAGGCATGGC-ATTGGTGA-G-TTCATAAGG-AAAG-AATACTATGTA
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAAGAAAT-C-ATGTA
*
59028043 AGACCATGTCAAGACATGGCAATGGTAAGTT
63 AGACCATGTCAAGACATGGCAATGATAAGTT
59028074 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
106 3 0.04
107 7 0.09
108 39 0.48
109 7 0.09
110 25 0.31
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAAGAAATCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:59028333 original size:16 final size:16
Alignment explanation
Indices: 59028312--59028342 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59028302 ATAAATTTGA
59028312 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
59028328 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
59028343 AGTGAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:59033340 original size:43 final size:43
Alignment explanation
Indices: 59033178--59033340 Score: 116
Period size: 43 Copynumber: 3.8 Consensus size: 43
59033168 CATAGGATTC
* * * * **
59033178 CGATATGTGATTTCATGTAAGACCACGTCTGGGACATTGTTAT
1 CGATATTTGATTACATGTAAGACCATGTCTGGGACAATGACAT
* ** * *
59033221 CGAT-TTGAGATTTATGTGTAAAACCATGTCTGGGA-TATCGACAT
1 CGATATT-TGA-TTACATGTAAGACCATGTCTGGGACAAT-GACAT
* * * * * *
59033265 CG-TATTTCATTTCGTGTAATACCCTGTCTGGGACAATGGCAT
1 CGATATTTGATTACATGTAAGACCATGTCTGGGACAATGACAT
*
59033307 CGATATTTGATTACATGTAAGACCATGTTTGGGA
1 CGATATTTGATTACATGTAAGACCATGTCTGGGA
59033341 TGTTGGCATT
Statistics
Matches: 89, Mismatches: 25, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 26 0.29
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCATGTCTGGGACAATGACAT
Found at i:59040879 original size:43 final size:43
Alignment explanation
Indices: 59040722--59040880 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
59040712 TATGTGGTTT
* *
59040722 CGTGTAAGACCACGTCTGGGACATTGGCATCGAT-TTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATT-TGA-TTA
* * * * *
59040766 CGTGTAAGACCATGTTTGGGATATCGACATCG-TATTTGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
* * *
59040808 TGTGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
* * **
59040851 CATGTAAGACCATGTTTGGGATGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
59040881 TGTATGAGCT
Statistics
Matches: 91, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 27 0.30
43 35 0.38
44 29 0.32
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:59045218 original size:49 final size:49
Alignment explanation
Indices: 59045151--59045388 Score: 235
Period size: 49 Copynumber: 4.8 Consensus size: 49
59045141 TAGCCAAAGC
* *
59045151 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* * * ** *
59045200 TATCCAGTACACATAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACC-AAT
* * * * * * *
59045250 CATCTGATACACGTAGTAGCCTGCATTTAGTACTACACACGTG-ATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-T
* * * *
59045301 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* **
59045350 TATCCGGTACACGTAGTAGCCTATACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
59045389 CGTGACCTCA
Statistics
Matches: 148, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
49 75 0.51
50 39 0.26
51 33 0.22
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:59045339 original size:101 final size:99
Alignment explanation
Indices: 59045164--59045393 Score: 275
Period size: 100 Copynumber: 2.3 Consensus size: 99
59045154 CTGGTACGCA
59045164 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAATTATCCAGTACACATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTG-AACCAATTATCCAGTACACATAGTAGCCTACACT
* *
59045227 TAGTACTACACACGTGACCTAACCATCTGATACACG
65 TAGTACTACACACGCGACC-AACCATCCGATACACG
* * * ** * * *
59045263 TAGTAGCCTGCATTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCTTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGAACCAA-TTATCCAGTACACATAGTAGCCTACACT
* ** *
59045328 TAGTACTACACATGCGACCAATTATCCGGTACACG
65 TAGTACTACACACGCGACCAACCATCCGATACACG
**
59045363 TAGTAGCCTATACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
59045394 CCTCACAATA
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
99 25 0.23
100 44 0.40
101 42 0.38
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGAACCAATTATCCAGTACACATAGTAGCCTACACTT
AGTACTACACACGCGACCAACCATCCGATACACG
Found at i:59056689 original size:38 final size:38
Alignment explanation
Indices: 59056603--59056777 Score: 187
Period size: 38 Copynumber: 4.7 Consensus size: 38
59056593 AAACCCGAAC
* * *
59056603 ATAACACCAGCACAAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGA-TTT-AACTCGGAT
* * *
59056643 ATAGTACCAGCACTAGGCCTGCGGGATTTAACTCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACTCGGAT
*
59056681 ATAATACCAGCACGAAGCCTGCGGGATTTAACTCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACTCGGAT
** * * *
59056719 ATAATACCAGCATGAAGCTTGCAGGATTTAACCCGGA-
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACTCGGAT
*
59056756 AT--T-CCAGCATAAAGCCTGCGGG
1 ATAATACCAGCACAAAGCCTGCGGG
59056778 CCTTTAAGCC
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
34 16 0.13
35 1 0.01
37 2 0.02
38 76 0.64
39 3 0.03
40 21 0.18
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCGGGATTTAACTCGGAT
Found at i:59072425 original size:30 final size:30
Alignment explanation
Indices: 59072389--59072558 Score: 177
Period size: 30 Copynumber: 5.6 Consensus size: 30
59072379 TCCACTTGAC
* * *
59072389 TTAGATAGCCACAGAGGCATCCATACATCA
1 TTAGATAGCCACAAAGGCATCCATATAACA
* *
59072419 TTAGATAGCCACAAAGGCGTCCACATAACA
1 TTAGATAGCCACAAAGGCATCCATATAACA
*
59072449 TATAGAT--CCTCAAAGGCATCCTCATATAACA
1 T-TAGATAGCCACAAAGGCAT-C-CATATAACA
* *
59072480 TTAGATAGCCACAAAAGCATCCACATAACA
1 TTAGATAGCCACAAAGGCATCCATATAACA
*
59072510 TATAGAT--CCACAAAGGCATCCTCGTATAACA
1 T-TAGATAGCCACAAAGGCAT-C-CATATAACA
59072541 TTAGATAGCCACAAAGGC
1 TTAGATAGCCACAAAGGC
59072559 TTTCTCATAT
Statistics
Matches: 116, Mismatches: 14, Indels: 18
0.78 0.09 0.12
Matches are distributed among these distances:
29 21 0.18
30 47 0.41
31 28 0.24
32 20 0.17
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (30 bp):
TTAGATAGCCACAAAGGCATCCATATAACA
Found at i:59072463 original size:29 final size:29
Alignment explanation
Indices: 59072427--59072558 Score: 133
Period size: 29 Copynumber: 4.3 Consensus size: 29
59072417 CATTAGATAG
*
59072427 CCACAAAGGCGTCCACATAACATATAGAT
1 CCACAAAGGCATCCACATAACATATAGAT
* *
59072456 CCTCAAAGGCATCCTCATATAACAT-TAGAT
1 CCACAAAGGCAT-C-CACATAACATATAGAT
*
59072486 AGCCACAAAAGCATCCACATAACATATAGAT
1 --CCACAAAGGCATCCACATAACATATAGAT
*
59072517 CCACAAAGGCATCCTCGTATAACAT-TAGAT
1 CCACAAAGGCATCCAC--ATAACATATAGAT
59072547 AGCCACAAAGGC
1 --CCACAAAGGC
59072559 TTTCTCATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
29 24 0.28
30 20 0.23
31 22 0.26
32 20 0.23
ACGTcount: A:0.41, C:0.27, G:0.13, T:0.19
Consensus pattern (29 bp):
CCACAAAGGCATCCACATAACATATAGAT
Found at i:59072488 original size:61 final size:61
Alignment explanation
Indices: 59072417--59072558 Score: 248
Period size: 61 Copynumber: 2.3 Consensus size: 61
59072407 ATCCATACAT
* *
59072417 CATTAGATAGCCACAAAGGCGTCCACATAACATATAGATCCTCAAAGGCATCCTCATATAA
1 CATTAGATAGCCACAAAGGCATCCACATAACATATAGATCCACAAAGGCATCCTCATATAA
* *
59072478 CATTAGATAGCCACAAAAGCATCCACATAACATATAGATCCACAAAGGCATCCTCGTATAA
1 CATTAGATAGCCACAAAGGCATCCACATAACATATAGATCCACAAAGGCATCCTCATATAA
59072539 CATTAGATAGCCACAAAGGC
1 CATTAGATAGCCACAAAGGC
59072559 TTTCTCATAT
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 76 1.00
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.20
Consensus pattern (61 bp):
CATTAGATAGCCACAAAGGCATCCACATAACATATAGATCCACAAAGGCATCCTCATATAA
Found at i:59077781 original size:48 final size:48
Alignment explanation
Indices: 59077727--59077838 Score: 138
Period size: 48 Copynumber: 2.3 Consensus size: 48
59077717 TATCTAGGGT
* **
59077727 ATGGCTTCGGCAGTGA-CATGTGATCCCATGAAAGACCATGTCTTGGAC
1 ATGGCTTCGGCA-TCATCATGTGATCCCATGAAAGACCATGTCCGGGAC
* * *
59077775 ATGGCTTTGGCATCATTATGTGATCCCATGTAAGACCATGTCCGGGAC
1 ATGGCTTCGGCATCATCATGTGATCCCATGAAAGACCATGTCCGGGAC
59077823 ATGGCATT-GGCATCAT
1 ATGGC-TTCGGCATCAT
59077839 AATGAGACAT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 2 0.04
48 52 0.93
49 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (48 bp):
ATGGCTTCGGCATCATCATGTGATCCCATGAAAGACCATGTCCGGGAC
Found at i:59077853 original size:48 final size:48
Alignment explanation
Indices: 59077748--59077861 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
59077738 AGTGACATGT
* ** * * *
59077748 GATCCCATGAAAGACCATGTCTTGGACATGGCTTTGGCATCATTATGT
1 GATCCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCATAATGA
59077796 GATCCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCATAATGA
1 GATCCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCATAATGA
*
59077844 GA-CATCATGTAAGACCAT
1 GATC-CCATGTAAGACCAT
59077862 AGCTAGGCTA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.02
48 57 0.98
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCATAATGA
Found at i:59080634 original size:29 final size:28
Alignment explanation
Indices: 59080588--59080670 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
59080578 AGCATGACTG
*
59080588 TAAAAGTGATTGGGCCTAGTGGGCCAGA
1 TAAATGTGATTGGGCCTAGTGGGCCAGA
* * *
59080616 TAGATGTGATTTGGGCCTAATGGGCCATA
1 TAAATGTGA-TTGGGCCTAGTGGGCCAGA
* *
59080645 TAAATGAGATTGGGCCTAGTAGGCCA
1 TAAATGTGATTGGGCCTAGTGGGCCA
59080671 TAAGCATGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 22 0.48
29 24 0.52
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAGTGGGCCAGA
Found at i:59081359 original size:11 final size:11
Alignment explanation
Indices: 59081343--59081368 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
59081333 ATTGCACGTA
59081343 TGATATTATTG
1 TGATATTATTG
59081354 TGATATTATTG
1 TGATATTATTG
59081365 TGAT
1 TGAT
59081369 GTTGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:59081486 original size:46 final size:46
Alignment explanation
Indices: 59081419--59081510 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
59081409 CAAAGGCCAC
59081419 CGTTATTGAATTGGGCTCAGGCCCAAAATGACTGATGATTGCTTTA
1 CGTTATTGAATTGGGCTCAGGCCCAAAATGACTGATGATTGCTTTA
59081465 CGTTATTGAATTGGGCTCAGGCCCAAAATGACTGATGATTGCTTTA
1 CGTTATTGAATTGGGCTCAGGCCCAAAATGACTGATGATTGCTTTA
59081511 TACTCGTTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (46 bp):
CGTTATTGAATTGGGCTCAGGCCCAAAATGACTGATGATTGCTTTA
Found at i:59087903 original size:24 final size:24
Alignment explanation
Indices: 59087871--59087917 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
59087861 GTTTAGGCTT
59087871 TAGCCCATCTCAATACAAAATCAG
1 TAGCCCATCTCAATACAAAATCAG
59087895 TAGCCCATCTCAATACAAAATCA
1 TAGCCCATCTCAATACAAAATCA
59087918 ATCATGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.30, G:0.06, T:0.21
Consensus pattern (24 bp):
TAGCCCATCTCAATACAAAATCAG
Found at i:59088270 original size:27 final size:27
Alignment explanation
Indices: 59088238--59088487 Score: 257
Period size: 27 Copynumber: 9.3 Consensus size: 27
59088228 AAACATATAT
*
59088238 CACATAGGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
59088265 CACATAAGGGCAAAACAATTATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* **
59088292 CACATGAGGGCAAAGCAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * *
59088319 CACATAAGGGCGAAACAATCATTTTAT
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * * * *
59088346 CAAAAAAAGGAAAAATAGTTATTTTAT
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * *
59088373 AACATAAAGGTAAAATAGTCATTTTAT
1 CACATAAGGGCAAAATAGTCATTTTAC
59088400 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
59088427 CACATGAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * * * *
59088454 CACACAAAGGAAAAATAGCCATTTTAT
1 CACATAAGGGCAAAATAGTCATTTTAC
59088481 CACATAA
1 CACATAA
59088488 AGGGGTCTAG
Statistics
Matches: 185, Mismatches: 38, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 185 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:59088630 original size:17 final size:18
Alignment explanation
Indices: 59088598--59088631 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59088588 CATATCGTGG
59088598 GCCCATGTGAGCCCACAC
1 GCCCATGTGAGCCCACAC
59088616 GCCCATGTG-GCCCACA
1 GCCCATGTGAGCCCACA
59088632 AAGCCCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCATGTGAGCCCACAC
Found at i:59088637 original size:18 final size:18
Alignment explanation
Indices: 59088598--59088638 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
59088588 CATATCGTGG
*
59088598 GCCCATGTGAGCCCACAC
1 GCCCATGTGAGCCCACAA
59088616 GCCCATGTG-GCCCACAAA
1 GCCCATGTGAGCCCAC-AA
59088634 GCCCA
1 GCCCA
59088639 AAAATGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.24, C:0.44, G:0.22, T:0.10
Consensus pattern (18 bp):
GCCCATGTGAGCCCACAA
Found at i:59090392 original size:46 final size:46
Alignment explanation
Indices: 59090329--59090597 Score: 241
Period size: 46 Copynumber: 5.8 Consensus size: 46
59090319 TATTTAGGCA
*
59090329 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* * * *
59090375 TCTGAACTCGTTCAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G
* *
59090420 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G
* * *
59090467 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
**
59090514 TCCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* * *
59090561 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59090598 GCGGGTTACA
Statistics
Matches: 194, Mismatches: 18, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
42 3 0.02
43 5 0.03
45 6 0.03
46 97 0.50
47 75 0.39
48 2 0.01
50 4 0.02
51 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
Found at i:59090441 original size:47 final size:47
Alignment explanation
Indices: 59090323--59090497 Score: 225
Period size: 47 Copynumber: 3.7 Consensus size: 47
59090313 TTCAGATATT
* * *
59090323 TAGGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AAC
* *
59090374 ---G--TCTGAACTCGTTCAGTTGAGTCCGAGTTCGTGAGATGTAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
59090416 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
*
59090463 TAGGCATCCGAACTCATTGAGTTGAGTCCGAGTTC
1 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
59090498 ACTTATGGAT
Statistics
Matches: 111, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
45 3 0.03
46 26 0.23
47 73 0.66
48 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (47 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAAC
Found at i:59091011 original size:49 final size:49
Alignment explanation
Indices: 59090939--59091035 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
59090929 AGCATTTATG
59090939 CTTACTCCCTCTCTTCCATTCCTTGTAGTTTTGACAAGCCGGTTTGGAA
1 CTTACTCCCTCTCTTCCATTCCTTGTAGTTTTGACAAGCCGGTTTGGAA
59090988 CTTACTCCCTCTCTTCCATTCCTTGTAGTTTTGACAAGCCGGTTTGGA
1 CTTACTCCCTCTCTTCCATTCCTTGTAGTTTTGACAAGCCGGTTTGGA
59091036 GATCAGGACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.15, C:0.29, G:0.16, T:0.39
Consensus pattern (49 bp):
CTTACTCCCTCTCTTCCATTCCTTGTAGTTTTGACAAGCCGGTTTGGAA
Found at i:59093649 original size:15 final size:15
Alignment explanation
Indices: 59093629--59093684 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
59093619 GTATCTTGGG
59093629 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
59093644 TTTCTTTATTCTAGG-
1 TTTCTTTATTCT-GGA
* *
59093659 TTTC-TCAATCTTGGA
1 TTTCTTTATTC-TGGA
59093674 TTTCTTTATTC
1 TTTCTTTATTC
59093685 AGTTTTCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 6 0.18
15 21 0.64
16 6 0.18
ACGTcount: A:0.14, C:0.16, G:0.11, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59093663 original size:30 final size:30
Alignment explanation
Indices: 59093627--59093693 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
59093617 TCGTATCTTG
* *
59093627 GGTTTCTTTATTC-TGGATTTCTTTATTCTA
1 GGTTTCTTCAATCTTGGATTTCTTTATTC-A
59093657 GGTTTC-TCAATCTTGGATTTCTTTATTCA
1 GGTTTCTTCAATCTTGGATTTCTTTATTCA
*
59093686 GTTTTCTT
1 GGTTTCTT
59093694 GTTATCTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.58
Consensus pattern (30 bp):
GGTTTCTTCAATCTTGGATTTCTTTATTCA
Found at i:59096471 original size:47 final size:46
Alignment explanation
Indices: 59096418--59096592 Score: 178
Period size: 47 Copynumber: 3.8 Consensus size: 46
59096408 TTCAGATATT
*
59096418 TAGGCATCCGAACTCGTTGAGTTGAGTTTGAGTTCGTGAGATGTAAC
1 TAGGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCGT-AGATGTAAC
* * * * *
59096465 TAGGCATCTGAACTCATTGAGTTGAGTTCGAGTTCACT-TATG-GA-
1 TAGGCATCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTAGATGTAAC
* *
59096509 T-GCGAATTCCCGAACTCGTTGAGTTGAGTCCGAGTTCGTAAGATGTAAC
1 TAG-GCA-T-CCGAACTCGTTGAGTTGAGTTCGAGTTCGT-AGATGTAAC
* *
59096558 TAGGTATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TAGGCATCCGAACTCGTTGAGTTGAGTTCGAGTTC
59096593 ACTTATGGAT
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 28 0.27
47 63 0.60
48 3 0.03
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (46 bp):
TAGGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCGTAGATGTAAC
Found at i:59096543 original size:46 final size:45
Alignment explanation
Indices: 59096474--59096646 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
59096464 CTAGGCATCT
*
59096474 GAACTCATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATTCCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATTCCC
* * * * *
59096520 GAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGTAACTAGGTATCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T---T-CCC
* **
59096567 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAGGAACACCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGAT-GGAATTCCC
* *
59096613 GAGCTCATTGAGTTGAGTCCAAGTTCACTTATGG
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
59096647 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
46 57 0.55
47 27 0.26
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (45 bp):
GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGGAATTCCC
Found at i:59096584 original size:93 final size:93
Alignment explanation
Indices: 59096425--59096638 Score: 304
Period size: 93 Copynumber: 2.3 Consensus size: 93
59096415 ATTTAGGCAT
** * *
59096425 CCGAACTCGTTGAGTTGAGTTTGAGTTCGTGAGATGTAACTAGGCATCTGAACTCATTGAGTTGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTAAGATGTAACTAGGCATCCGAACTCATTGAGTTGA
* **
59096490 GTTCGAGTTCACTTATGGAT-GCGAATTC
66 GTCCGAGTTCACTTATGGATAG-GAACAC
* *
59096518 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTAAGATGTAACTAGGTATCCGAACTCGTTGAGTTGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTAAGATGTAACTAGGCATCCGAACTCATTGAGTTGA
59096583 GTCCGAGTTCACTTATGGATAGGAACAC
66 GTCCGAGTTCACTTATGGATAGGAACAC
* * *
59096611 CCGAGCTCATTGAGTTGAGTCCAAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
59096639 ACTTATGGGC
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
93 107 0.99
94 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (93 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCGTAAGATGTAACTAGGCATCCGAACTCATTGAGTTGA
GTCCGAGTTCACTTATGGATAGGAACAC
Found at i:59099280 original size:36 final size:35
Alignment explanation
Indices: 59099232--59099302 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 35
59099222 TATTTTTATG
*
59099232 TTTCATGTAGATTAAGAAAGTTTGATGTGTGATAA
1 TTTCATGTAGATTAAGAAAGTTTGATCTGTGATAA
*
59099267 TTTCATGGTAGATTATGAAAGTTTGATCTGTGATAA
1 TTTCAT-GTAGATTAAGAAAGTTTGATCTGTGATAA
59099303 ACATCTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 6 0.18
36 27 0.82
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (35 bp):
TTTCATGTAGATTAAGAAAGTTTGATCTGTGATAA
Found at i:59099933 original size:344 final size:345
Alignment explanation
Indices: 59099304--59099989 Score: 1187
Period size: 344 Copynumber: 2.0 Consensus size: 345
59099294 CTGTGATAAA
* *
59099304 CATCTTTTACTAAGTGATTTTTTTATGAAAACACCTAAAAAGGGTTTATTTGTAAAACTTATAAA
1 CATCTTTTACTAAGTGATTTTTTGATGAAAACACCTAAAAAGGGCTTATTTGTAAAACTTATAAA
* *
59099369 AATGGGTTGTAGAAATGTGATTTGATGAAAAATGTGGGCTGGTATAAGCATGATATAGGCTCGGC
66 AATGGGTAGTAGAAATGTGATTTGATGAAAAATGTGGGCTGGTATAA-CATGATATAGGCTCAGC
*
59099434 TAGGCTTGGGTAACAAATAAAATGAGTACATTTCATTTTACGAGCCTAAGGACTAATTTATAAAT
130 TAGGCTTGGGTAACAAATAAAATGAGTACATTTCATTTTACGAGCCTAAGAACTAATTTATAAAT
* *
59099499 ATGTGAAAGTTTAGAGGCAAAACTATAATTTTTCCAAAGTATGGTTTTTGGACTGATTTGAACAA
195 ATGTGAAAGTTTAGAGGCAAAACTATAATTTTACCAAAGTATGATTTTTGGACTGATTTGAACAA
59099564 TGTGATAATTAAATGAGCTAAATTTGCTATTATAGATCAAGAAAAATGGACTCTAGACCTAGACC
260 TGTGATAATTAAATGAGCTAAATTTGCTATTATAGATCAAGAAAAATGGACTCTAGACCTAGACC
*
59099629 GGGGAACA-AACAAAGTTAGTC
325 AGGGAA-AGAACAAAGTTAGTC
* **
59099650 CATCTTTTACTAAGTGATTTTTTGATGAAAACACCTAAAAAGGGCTTATTTGTAGATGTTATAAA
1 CATCTTTTACTAAGTGATTTTTTGATGAAAACACCTAAAAAGGGCTTATTTGTAAAACTTATAAA
59099715 AATGGGTAGTAGAAATGTGATTTGATGAAAAATGTGGGCTGGTATAA-ATGATATAGGCTCAGCT
66 AATGGGTAGTAGAAATGTGATTTGATGAAAAATGTGGGCTGGTATAACATGATATAGGCTCAGCT
*
59099779 AGGCTTGGGTAACAAATAAAATGAGTACATTTCATTTTACGAGCCTAAGAACTAATTTGTAAATA
131 AGGCTTGGGTAACAAATAAAATGAGTACATTTCATTTTACGAGCCTAAGAACTAATTTATAAATA
*
59099844 TGTGAAAGTTTAGGGGCAAAACTATAATTTTACCAAAGTATGATTTTTGGACTGATTTGAACAAT
196 TGTGAAAGTTTAGAGGCAAAACTATAATTTTACCAAAGTATGATTTTTGGACTGATTTGAACAAT
* * * *
59099909 GTGATAATTAAATGAGCTAAATTTGCTATTATAGATCGAGAAAAATGGAGTCTGGACCTAGACTA
261 GTGATAATTAAATGAGCTAAATTTGCTATTATAGATCAAGAAAAATGGACTCTAGACCTAGACCA
59099974 GGGAAAGAACAAAGTT
326 GGGAAAGAACAAAGTT
59099990 GTGGACTAAA
Statistics
Matches: 322, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
343 1 0.00
344 215 0.67
346 106 0.33
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (345 bp):
CATCTTTTACTAAGTGATTTTTTGATGAAAACACCTAAAAAGGGCTTATTTGTAAAACTTATAAA
AATGGGTAGTAGAAATGTGATTTGATGAAAAATGTGGGCTGGTATAACATGATATAGGCTCAGCT
AGGCTTGGGTAACAAATAAAATGAGTACATTTCATTTTACGAGCCTAAGAACTAATTTATAAATA
TGTGAAAGTTTAGAGGCAAAACTATAATTTTACCAAAGTATGATTTTTGGACTGATTTGAACAAT
GTGATAATTAAATGAGCTAAATTTGCTATTATAGATCAAGAAAAATGGACTCTAGACCTAGACCA
GGGAAAGAACAAAGTTAGTC
Found at i:59100253 original size:42 final size:42
Alignment explanation
Indices: 59100208--59100360 Score: 173
Period size: 42 Copynumber: 3.6 Consensus size: 42
59100198 TGAGTTTACG
* *
59100208 TGTAAGACCATATCTGGGATATGGCATCGTTATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
** * * *
59100250 TGTAAGACCACGTCTAGGACATGGCATCGATATGAGA-ATCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
* * * **
59100291 TGTAAGACCATAGCTGGGCTATTAGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTCA
*
59100334 TGTAAGACCATATCTGGGTTATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
59100361 TGGTATGATT
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
41 17 0.19
42 52 0.58
43 21 0.23
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
Found at i:59107477 original size:29 final size:29
Alignment explanation
Indices: 59107358--59107474 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
59107348 TGGCCCATCT
* *
59107358 CATTCATATAGCCCATCT-GGCCCAATTCA
1 CATTCATATGGCCCAT-TAGGCCCAAATCA
* * *
59107387 CATTCATATAGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* * *
59107416 TATTCATATGGCCTATTAGACCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* * *
59107445 CCTTTATATGGCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
59107474 C
1 C
59107475 CTTATATTCA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAAATCA
Found at i:59108434 original size:25 final size:23
Alignment explanation
Indices: 59108396--59108451 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
59108386 GGTTTTCGGC
*
59108396 TTTTTGGATCTTGAAAAGAAAAGGG
1 TTTTTGGCTCTTG--AAGAAAAGGG
* *
59108421 TTTTTGGCTTTTGAAGAAAGGGG
1 TTTTTGGCTCTTGAAGAAAAGGG
*
59108444 TTTCTGGC
1 TTTTTGGC
59108452 AACAAGGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 16 0.59
25 11 0.41
ACGTcount: A:0.25, C:0.07, G:0.30, T:0.38
Consensus pattern (23 bp):
TTTTTGGCTCTTGAAGAAAAGGG
Found at i:59111621 original size:29 final size:29
Alignment explanation
Indices: 59111550--59111686 Score: 131
Period size: 29 Copynumber: 4.8 Consensus size: 29
59111540 ACCCCTACAT
* *
59111550 ACATGCATATGTCCCACTT-GGCCC-A-TC
1 ACATTCATATGGCCCA-TTAGGCCCAATTC
* *
59111577 ATATTCATATGACCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* *
59111606 ACATTCATATAGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAATTC
* * *
59111635 ATATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAATTC
*
59111664 AC-TGT-ATATGGCCCGTTAGGCCC
1 ACAT-TCATATGGCCCATTAGGCCC
59111687 CAATCACCTT
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.02
27 18 0.20
28 18 0.20
29 53 0.58
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAATTC
Found at i:59113244 original size:16 final size:17
Alignment explanation
Indices: 59113212--59113250 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
59113202 GCAAAAAAAG
59113212 TTTGGGATTTCAGGATT
1 TTTGGGATTTCAGGATT
59113229 TTTGGG-TTTC-GAGATT
1 TTTGGGATTTCAG-GATT
59113245 TTTGGG
1 TTTGGG
59113251 GTGTTACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 14 0.67
17 6 0.29
ACGTcount: A:0.13, C:0.05, G:0.33, T:0.49
Consensus pattern (17 bp):
TTTGGGATTTCAGGATT
Found at i:59114894 original size:9 final size:9
Alignment explanation
Indices: 59114881--59114948 Score: 91
Period size: 9 Copynumber: 7.6 Consensus size: 9
59114871 ATAAGTATAA
*
59114881 AATTAACCA
1 AATTAACCG
59114890 AATTAACCG
1 AATTAACCG
*
59114899 AATTACCCG
1 AATTAACCG
* *
59114908 AATTACCCA
1 AATTAACCG
59114917 AATTAACCG
1 AATTAACCG
59114926 AATTAACCG
1 AATTAACCG
*
59114935 AATTAATCG
1 AATTAACCG
59114944 AATTA
1 AATTA
59114949 TTTGTATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:59114948 original size:27 final size:27
Alignment explanation
Indices: 59114881--59114940 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
59114871 ATAAGTATAA
*
59114881 AATTAACCAAATTAACCGAATTACCCG
1 AATTAACCAAATTAACCGAATTAACCG
*
59114908 AATTACCCAAATTAACCGAATTAACCG
1 AATTAACCAAATTAACCGAATTAACCG
59114935 AATTAA
1 AATTAA
59114941 TCGAATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (27 bp):
AATTAACCAAATTAACCGAATTAACCG
Found at i:59114983 original size:5 final size:6
Alignment explanation
Indices: 59114968--59115008 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
59114958 AATTATATGT
*
59114968 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
59115009 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:59115049 original size:13 final size:13
Alignment explanation
Indices: 59115033--59115057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59115023 AATTTTTATG
59115033 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
59115046 ATTGGGTTGGGT
1 ATTGGGTTGGGT
59115058 TGGGTACTTG
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:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:59115057 original size:18 final size:18
Alignment explanation
Indices: 59115034--59115070 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
59115024 ATTTTTATGA
59115034 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
59115052 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
59115070 T
1 T
59115071 CAATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.03, G:0.49, T:0.41
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:59117119 original size:20 final size:20
Alignment explanation
Indices: 59117094--59117136 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
59117084 AATAATGCAT
59117094 GGTGAAATTTAATGTAGTAG
1 GGTGAAATTTAATGTAGTAG
59117114 GGTGAAATTTAATGTAGTAG
1 GGTGAAATTTAATGTAGTAG
59117134 GGT
1 GGT
59117137 CCTGATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (20 bp):
GGTGAAATTTAATGTAGTAG
Found at i:59117270 original size:48 final size:48
Alignment explanation
Indices: 59117199--59117518 Score: 315
Period size: 48 Copynumber: 6.7 Consensus size: 48
59117189 TATGTATGCT
* * * *
59117199 AGTGTAAGTCCATGTCTGGGACATGGCCTTGACCACATCATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
*** * * *
59117247 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT-ATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATCATGAGAGCC
*
59117295 AGTGTAAGACCATCTCTGGGACATGGCATCGGCCACATCATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
*** * * *
59117343 AGTGTAAGACCATGTCTGGGACATGGCATCAGTG-TTGAT-ATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-GCCACATCATGAGAGCC
* * * *
59117391 AGTGTAAGACCATATCTAGGACATGGCATCGACCACATCATGAGAACC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
* * * * * * *
59117439 AATGTAAGACTATGTCTGTGTCATGGCGTCGGCCGCGA-CATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATCATGAGAGCC
*
59117487 AGTGTAAGACCATGTTTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
59117519 TAATTTACCC
Statistics
Matches: 214, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
47 5 0.02
48 202 0.94
49 6 0.03
50 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCC
Found at i:59117350 original size:96 final size:96
Alignment explanation
Indices: 59117186--59117517 Score: 450
Period size: 96 Copynumber: 3.5 Consensus size: 96
59117176 GACATTTGGG
* * * *
59117186 TGATATGTATGCTAGTGTAAGTCCATGTCTGGGACATGGCCTTGACCACATCATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
59117251 TAAGACCATGTCTGGGACATGGCATCGGCGT
66 TAAGACCATGTCTGGGACATGGCATCGGCGT
* * *
59117282 TGATATGTGCGCTAGTGTAAGACCATCTCTGGGACATGGCATCGGCCACATCATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
* *
59117347 TAAGACCATGTCTGGGACATGGCATCAGTGT
66 TAAGACCATGTCTGGGACATGGCATCGGCGT
* * * *
59117378 TGATATGTGTGCTAGTGTAAGACCATATCTAGGACATGGCATCGACCACATCATGAGAACCAATG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
* * * *
59117443 TAAGACTATGTCTGTGTCATGGCGTCGGCCG-
66 TAAGACCATGTCTGGGACATGGCATCGG-CGT
* * * * *
59117474 CGACATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
59117518 GTAATTTACC
Statistics
Matches: 207, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
96 206 1.00
97 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCGGCGT
Found at i:59125063 original size:48 final size:47
Alignment explanation
Indices: 59124991--59125358 Score: 258
Period size: 48 Copynumber: 7.7 Consensus size: 47
59124981 TATGTGTGCT
* * *
59124991 AGTGTAAGACCATGTCTGGCACATGGAATCGGACATATTATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATATCATAAGAGCC
* * ** * **
59125039 AGTGTAAGACCATGTCTAGGACATGGCATCGGCGTTTAT-ATGTGTGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC--ATATCATAAGAGCC
* *
59125087 AGTGTAAGACTATGTCTGGGACATGGCATCGGCCACATCATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATATCATAAGAGCC
* * * * * * * *
59125135 GGTGTAAAACCATGTCTGGGTCATGGCATCAGCGT-TGATATGTGCGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATATCATAAGAGC-C
* * * *
59125182 TAGTGTAAGACCATGTCTGGGGCATGGCATTGGCCACATCATGAGAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATATCATAAGAGCC
* * ** * * *
59125231 AGTGTAAGACAATGTCTTGGACATGGCATTAGCAT-TGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATATCATA--AGAGCC
* * * * ** *
59125279 AGTGTAAGACCGTGTTTGGGACATGGCATTGGCCTCGA-CATGTGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT--ATCATAAGAGCC
*
59125327 AGTGTAAGACCATGTCTAGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
59125359 TAATTTACCC
Statistics
Matches: 245, Mismatches: 62, Indels: 26
0.74 0.19 0.08
Matches are distributed among these distances:
46 9 0.04
47 7 0.03
48 216 0.88
49 6 0.02
50 7 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATATCATAAGAGCC
Found at i:59125102 original size:96 final size:96
Alignment explanation
Indices: 59124978--59125356 Score: 454
Period size: 96 Copynumber: 3.9 Consensus size: 96
59124968 GACATTTGGG
* * * * *
59124978 TGATATGTGTGCTAGTGTAAGACCATGTCTGGCACATGGAATCGGACATATTATAAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATAAGAGCCAGTG
*
59125043 TAAGACCATGTCTAGGACATGGCATCGGCGT
66 TAAGACCATGTCTAGGACATGGCATCAGCGT
* * * *
59125074 TTATATGTGTGATAGTGTAAGACTATGTCTGGGACATGGCATCGGCCACATCATAAGAGCCGGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATAAGAGCCAGTG
* * *
59125139 TAAAACCATGTCTGGGTCATGGCATCAGCGT
66 TAAGACCATGTCTAGGACATGGCATCAGCGT
* * * *
59125170 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGGCATGGCATTGGCCACATCATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATAAGAGCCAGTG
* * * *
59125235 TAAGACAATGTCTTGGACATGGCATTAGCAT
66 TAAGACCATGTCTAGGACATGGCATCAGCGT
* * * * * * * * ** *
59125266 TGAGACGAGAGCTAGTGTAAGACCGTGTTTGGGACATGGCATTGGCCTCGA-CATGTGAGCTAGT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATCATAAGAGCCAGT
59125330 GTAAGACCATGTCTAGGACATGGCATC
65 GTAAGACCATGTCTAGGACATGGCATC
59125357 GGTAATTTAC
Statistics
Matches: 242, Mismatches: 40, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
96 241 1.00
97 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATAAGAGCCAGTG
TAAGACCATGTCTAGGACATGGCATCAGCGT
Found at i:59140297 original size:22 final size:22
Alignment explanation
Indices: 59140269--59140312 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
59140259 GGCCATTCCA
59140269 ATGGCTAATCATTTACAAACAC
1 ATGGCTAATCATTTACAAACAC
59140291 ATGGCTAATCATTTACAAACAC
1 ATGGCTAATCATTTACAAACAC
59140313 TTTTCTTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (22 bp):
ATGGCTAATCATTTACAAACAC
Found at i:59143939 original size:43 final size:42
Alignment explanation
Indices: 59143892--59144032 Score: 115
Period size: 42 Copynumber: 3.3 Consensus size: 42
59143882 TCCCAGATGT
* * * *
59143892 GGTCTTACATGGAATTTAG-TATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACA-CGAAATTAGATA-CGATGCCTATGTCCCAAACAG
*
59143935 GGTCTTACACGAAATTAGATACGATGCCTATGTCCCAAACAT
1 GGTCTTACACGAAATTAGATACGATGCCTATGTCCCAAACAG
* * * * * *
59143977 GGTTTTACACGTAAATCTCAAAT-CAAGGCCTGTGTCCCAAACAC
1 GGTCTTACACG-AAAT-T-AGATACGATGCCTATGTCCCAAACAG
*
59144021 AGTCTTACACGA
1 GGTCTTACACGA
59144033 TATCTCAGAT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 35 0.43
43 16 0.20
44 27 0.33
45 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATTAGATACGATGCCTATGTCCCAAACAG
Found at i:59144015 original size:44 final size:43
Alignment explanation
Indices: 59143960--59144045 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
59143950 TAGATACGAT
** *
59143960 GCCTATGTCCCAAACATGGTTTTACACGTAAATCTCAAATCAAG
1 GCCTATGTCCCAAACACAGTCTTACACG-AAATCTCAAATCAAG
* * *
59144004 GCCTGTGTCCCAAACACAGTCTTACACGATATCTCAGATCAA
1 GCCTATGTCCCAAACACAGTCTTACACGAAATCTCAAATCAA
59144046 TGTCAACGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 12 0.33
44 24 0.67
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
GCCTATGTCCCAAACACAGTCTTACACGAAATCTCAAATCAAG
Found at i:59148194 original size:12 final size:12
Alignment explanation
Indices: 59148177--59148208 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
59148167 GATAGCATAA
59148177 GCTTTGGCAGGT
1 GCTTTGGCAGGT
59148189 GCTTTGGCAGGT
1 GCTTTGGCAGGT
*
59148201 GCTCTGGC
1 GCTTTGGC
59148209 CTTAGATCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.41, T:0.31
Consensus pattern (12 bp):
GCTTTGGCAGGT
Found at i:59150963 original size:42 final size:42
Alignment explanation
Indices: 59150897--59151053 Score: 133
Period size: 44 Copynumber: 3.7 Consensus size: 42
59150887 AACGGGTACA
* * ** *
59150897 ATGCCTACGTCCCAAACATGGTCTTACATGGAATTCAG-TATCG
1 ATGCCTATGTCCCAGACATGGTCTTACA-CAAAATCAGATA-CG
* *
59150940 ATGCCTCTGTCCTAGACA-GGTCTTACACAAAATCAGATACG
1 ATGCCTATGTCCCAGACATGGTCTTACACAAAATCAGATACG
* *
59150981 ATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCTATGTCCCAGACATGGTCTTACAC--AAA-ATCAGATACG
* *
59151025 A-GACCTGTGTCCCAGACACGGTCTTACAC
1 ATG-CCTATGTCCCAGACATGGTCTTACAC
59151054 GATATCTCAG
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 24 0.25
42 21 0.22
43 15 0.16
44 30 0.32
45 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCTATGTCCCAGACATGGTCTTACACAAAATCAGATACG
Found at i:59164942 original size:27 final size:27
Alignment explanation
Indices: 59164865--59164965 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
59164855 CGTAGCTGAA
* *
59164865 CCCTTATGAGACAAAATGACTATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
*
59164892 CCCTTATGTGGT-AAATGACTATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* *
59164918 CCCTCATGTGATAAAATGACGATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
*
59164945 CCCTTATGAGATAAAATGACT
1 CCCTTATGTGATAAAATGACT
59164966 GAAATACCCC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.38
27 40 0.62
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACTATTTTG
Found at i:59164986 original size:27 final size:27
Alignment explanation
Indices: 59164956--59165075 Score: 143
Period size: 27 Copynumber: 4.4 Consensus size: 27
59164946 CCTTATGAGA
59164956 TAAAATGACTGAAATACCCCTATAAGG
1 TAAAATGACTGAAATACCCCTATAAGG
* * * *
59164983 TAAAATGACTGTAATACCCTTGTAGGG
1 TAAAATGACTGAAATACCCCTATAAGG
* * * *
59165010 TGAAATGACTGTAATACCCCTGTAGGG
1 TAAAATGACTGAAATACCCCTATAAGG
*
59165037 TAAAATGACT-ATAATACCCTTATAAGG
1 TAAAATGACTGA-AATACCCCTATAAGG
59165064 TAAAATGACTGA
1 TAAAATGACTGA
59165076 TTTGCCCTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 79 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCCTATAAGG
Found at i:59164990 original size:54 final size:53
Alignment explanation
Indices: 59164929--59165075 Score: 161
Period size: 54 Copynumber: 2.7 Consensus size: 53
59164919 CCTCATGTGA
** * *
59164929 TAAAATGACGATTTTGCCCTTATGAGATAAAATGACTGAAATACCCCTATAAGG
1 TAAAATGACGATAATACCCTTAT-AGGTAAAATGACTGAAATACCCCTATAAGG
* * * * *
59164983 TAAAATGACTG-TAATACCCTTGTAGGGTGAAATGACTGTAATACCCCTGTAGGG
1 TAAAATGAC-GATAATACCCTTATA-GGTAAAATGACTGAAATACCCCTATAAGG
*
59165037 TAAAATGACTATAATACCCTTATAAGGTAAAATGACTGA
1 TAAAATGACGATAATACCCTTAT-AGGTAAAATGACTGA
59165076 TTTGCCCTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
53 1 0.01
54 73 0.96
55 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (53 bp):
TAAAATGACGATAATACCCTTATAGGTAAAATGACTGAAATACCCCTATAAGG
Found at i:59185137 original size:30 final size:30
Alignment explanation
Indices: 59185103--59185160 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59185093 CCTTAACTCT
*
59185103 AACTTTTGTAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* * *
59185133 AACTTTTGCATAATTACACTTTTTCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
59185161 AAAGCTCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:59196264 original size:16 final size:16
Alignment explanation
Indices: 59196225--59196255 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59196215 GAGAATGTCC
*
59196225 AAAAAGAAAAGAAAAG
1 AAAAAAAAAAGAAAAG
59196241 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
59196256 ATAATAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAG
Found at i:59200838 original size:138 final size:138
Alignment explanation
Indices: 59200604--59200878 Score: 369
Period size: 138 Copynumber: 2.0 Consensus size: 138
59200594 AAATGATTTA
* *
59200604 AAAAAACAGATTTTTATTTTTCAAAATCCGAACTTTCTCCCTTTTTTTAAAAAAAAATTATTTTC
1 AAAAAACAGATTTTTATTTTTCAAAATCCAAACTTTCT-CCTTTCTTTAAAAAAAAATTATTTTC
** * * *
59200669 TTAAAAATTAAAGCTTTTATTTTAAAATAGTTGAAAAAAAATCAAAATTTTGTTTTAAAAATTTA
65 TTAAAAATTAAAAATTTTACTTTAAAATAGTTGAAAAAAAATCAAAACTTTGTTTAAAAAATTTA
59200734 AACTTTTCTT
130 AA-TTTTCTT
* * *
59200744 AAAAAACATATTTTTATTTTTCAAAATCTAAAC-TT-T-C-TTCTTTAAAAAAAACACTATTTTT
1 AAAAAACAGATTTTTATTTTTCAAAATCCAAACTTTCTCCTTTCTTTAAAAAAAA-A-T-TATTT
* *
59200805 TCTTAAAAATTAAAAATTTTACTTTGAAATAGTTGAAAAAAACTCAAAACTTTGTTTAAAAAATT
63 TCTTAAAAATTAAAAATTTTACTTTAAAATAGTTGAAAAAAAATCAAAACTTTGTTTAAAAAATT
59200870 TAAATTTTC
128 TAAATTTTC
59200879 CTTTCAAATA
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
135 13 0.11
136 2 0.02
137 6 0.05
138 67 0.56
139 2 0.02
140 30 0.25
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.43
Consensus pattern (138 bp):
AAAAAACAGATTTTTATTTTTCAAAATCCAAACTTTCTCCTTTCTTTAAAAAAAAATTATTTTCT
TAAAAATTAAAAATTTTACTTTAAAATAGTTGAAAAAAAATCAAAACTTTGTTTAAAAAATTTAA
ATTTTCTT
Found at i:59201705 original size:34 final size:34
Alignment explanation
Indices: 59201660--59201741 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
59201650 ATAAGTGATT
59201660 CATTATGAAATGGTTGATCTTGTAAATTG-TATTG
1 CATTATGAAATGGTTGATCTTGTAAA-TGATATTG
*
59201694 CATTATTAAATGGTTGATCTTGTAAATGATATTG
1 CATTATGAAATGGTTGATCTTGTAAATGATATTG
* *
59201728 CACTATGAATTGGT
1 CATTATGAAATGGT
59201742 AAGATACACA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 2 0.05
34 41 0.95
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (34 bp):
CATTATGAAATGGTTGATCTTGTAAATGATATTG
Done.