Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 138 of 362
Found at i:45976004 original size:46 final size:45
Alignment explanation
Indices: 45975843--45976013 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 45
45975833 CCCGCCCCTA
* *
45975843 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCAT
* *
45975888 AAGTGAACTCGGAATCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
* *
45975936 CA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
45975981 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
45976014 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 55 0.53
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:45976470 original size:30 final size:30
Alignment explanation
Indices: 45976436--45976495 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
45976426 ATTTAATACG
45976436 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
45976466 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
45976496 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:45980036 original size:40 final size:40
Alignment explanation
Indices: 45979941--45980143 Score: 265
Period size: 40 Copynumber: 5.1 Consensus size: 40
45979931 TGGATGATAA
*
45979941 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
45979982 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45980022 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45980062 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
45980101 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
45980140 CCGG
1 CCGG
45980144 TTAAATCCTG
Statistics
Matches: 154, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
38 2 0.01
39 57 0.37
40 67 0.44
41 24 0.16
42 4 0.03
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45980114 original size:79 final size:79
Alignment explanation
Indices: 45979941--45980143 Score: 270
Period size: 79 Copynumber: 2.5 Consensus size: 79
45979931 TGGATGATAA
* *
45979941 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATT
*
45980005 TGTGCGAGTTACTATAT
63 TGAGCGAGTTACTATAT
*
45980022 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
45980086 AGCGAG-TAGCTATAT
65 AGCGAGTTA-CTATAT
* *
45980101 CCGGGCTATGTCCCGAAGGCATTGAGCGAG-TAGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTA-CTATATCCGG
45980144 TTAAATCCTG
Statistics
Matches: 112, Mismatches: 6, Indels: 11
0.87 0.05 0.09
Matches are distributed among these distances:
77 2 0.02
78 18 0.16
79 37 0.33
80 28 0.25
81 23 0.21
82 4 0.04
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGA
GCGAGTTACTATAT
Found at i:45988085 original size:39 final size:40
Alignment explanation
Indices: 45987991--45988206 Score: 302
Period size: 39 Copynumber: 5.5 Consensus size: 40
45987981 TGGATGATAA
*
45987991 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
45988032 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-TATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45988071 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
45988111 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
45988150 CCAGGCTAAGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
45988189 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45988207 TACTTGGCTT
Statistics
Matches: 166, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
38 17 0.10
39 91 0.55
40 30 0.18
41 24 0.14
42 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45988133 original size:79 final size:79
Alignment explanation
Indices: 45987991--45988206 Score: 300
Period size: 79 Copynumber: 2.7 Consensus size: 79
45987981 TGGATGATAA
*
45987991 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCA-
45988054 TTGTGCGAGTTA-TATAT
62 TTGTGCGAGTTACTATAT
45988071 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGT
45988136 GCGAGTTACTATAT
66 GCGAGTTACTATAT
* * * *
45988150 CCAGGCTAAGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
45988207 TACTTGGCTT
Statistics
Matches: 127, Mismatches: 5, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
77 16 0.13
78 29 0.23
79 54 0.43
80 24 0.19
81 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGT
GCGAGTTACTATAT
Found at i:45990250 original size:23 final size:23
Alignment explanation
Indices: 45990206--45990251 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
45990196 ATGCGTATTG
* *
45990206 AGTTATAATATGTAATGGCATTT
1 AGTTATAAAATGTAATGCCATTT
45990229 AGTTAGTAAAATGT-ATGCCATTT
1 AGTTA-TAAAATGTAATGCCATTT
45990252 GTGTGGGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (23 bp):
AGTTATAAAATGTAATGCCATTT
Found at i:45990941 original size:39 final size:39
Alignment explanation
Indices: 45990854--45990974 Score: 148
Period size: 39 Copynumber: 3.3 Consensus size: 39
45990844 CGCTAAGATC
* *
45990854 AAGGCATTTGTGCGAGTTACT-ATTCCGGCT-A--CCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCCG
*
45990889 AAGGCATTGGTGCGAGTTACTAAATCCGGGTAAGTCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCCG
*
45990928 AAGGCATTTGTGCGAGTTACTAAA--CGGGCTATGTCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGG-TAAGTCCCG
45990966 AA-GCATTTG
1 AAGGCATTTG
45990975 AACGAGTAGC
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
35 20 0.26
36 7 0.09
37 12 0.16
38 10 0.13
39 27 0.36
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGGTAAGTCCCG
Found at i:45998912 original size:79 final size:81
Alignment explanation
Indices: 45998774--45998955 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
45998764 CGAATGATGT
* *
45998774 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCAAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTT
*
45998838 GTGCGAGTTACTA-ATT
66 GTGCGAGTTACTATA-A
* * * ** *
45998854 TCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCAAAGGCATT
45998916 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTATAA
*
45998933 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
45998956 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 58 0.67
80 28 0.32
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCAAAGGCATTT
GTGCGAGTTACTATAA
Found at i:45998971 original size:40 final size:40
Alignment explanation
Indices: 45998774--45998957 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
45998764 CGAATGATGT
* * *
45998774 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
45998814 CCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
45998854 TCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45998892 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
45998933 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
45998958 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:45998979 original size:79 final size:79
Alignment explanation
Indices: 45998829--45998990 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 79
45998819 CTAAGATCCA
** **
45998829 AAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
*
45998894 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * *
45998908 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
*
45998971 ATCC-GGTTAAATTCCG
63 ATCCGGGTTAAATCCCG
45998987 AAGG
1 AAGG
45998991 TACGTGATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.63
80 24 0.34
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CGGGTTAAATCCCG
Found at i:46004841 original size:57 final size:58
Alignment explanation
Indices: 46004778--46004887 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
46004768 CAATTTCACA
* *
46004778 CACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAAT
1 CACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAAT
* * *
46004835 CACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 CACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCC
46004888 TAGTCACATT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (58 bp):
CACCTGTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAAT
Found at i:46004845 original size:29 final size:29
Alignment explanation
Indices: 46004782--46004887 Score: 135
Period size: 29 Copynumber: 3.7 Consensus size: 29
46004772 TTCACACACC
* * *
46004782 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
46004810 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
46004839 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
46004868 TTTATATGGCCCGTTAGGCC
1 TGTATATGGCCCATTAGGCC
46004888 TAGTCACATT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 49 0.72
30 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:46004969 original size:18 final size:19
Alignment explanation
Indices: 46004946--46004981 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46004936 ATGGGCCCAA
46004946 TAGCCCA-TCAGGCCCATT
1 TAGCCCATTCAGGCCCATT
*
46004964 TAGCCCATTCTGGCCCAT
1 TAGCCCATTCAGGCCCAT
46004982 ATGGCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.19, C:0.39, G:0.17, T:0.25
Consensus pattern (19 bp):
TAGCCCATTCAGGCCCATT
Found at i:46005953 original size:29 final size:28
Alignment explanation
Indices: 46005887--46005954 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
46005877 ACATGTTAAA
46005887 TTCAAAAATTAGTCCTTCAAAACCTCATT
1 TTCAAAAATTAGTCC-TCAAAACCTCATT
* *
46005916 TTCACAAATTAG-CC-CAAATAGCTCATT
1 TTCAAAAATTAGTCCTCAAA-ACCTCATT
46005943 TCATCAAAAATT
1 T--TCAAAAATT
46005955 CAAGAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 4 0.12
27 8 0.24
28 2 0.06
29 19 0.58
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (28 bp):
TTCAAAAATTAGTCCTCAAAACCTCATT
Found at i:46013222 original size:20 final size:20
Alignment explanation
Indices: 46013197--46013259 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
46013187 TGCACTTGAA
46013197 TTAGAATTTATACTAAGTTT
1 TTAGAATTTATACTAAGTTT
* *
46013217 TTAGAATTTATATGCAAACATTT
1 TTAGAATTTATA--CTAA-GTTT
*
46013240 TAAGAATTTATACTAAGTTT
1 TTAGAATTTATACTAAGTTT
46013260 CAAAATATGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 15 0.43
21 3 0.09
22 3 0.09
23 14 0.40
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (20 bp):
TTAGAATTTATACTAAGTTT
Found at i:46016701 original size:14 final size:14
Alignment explanation
Indices: 46016682--46016710 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46016672 TAACTTCAAC
46016682 CTTAAATTAAACAA
1 CTTAAATTAAACAA
46016696 CTTAAATTAAACAA
1 CTTAAATTAAACAA
46016710 C
1 C
46016711 AAAACCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (14 bp):
CTTAAATTAAACAA
Found at i:46026280 original size:13 final size:13
Alignment explanation
Indices: 46026264--46026296 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46026254 TTTGATTAAA
*
46026264 TTAGTTAATTAGT
1 TTAGATAATTAGT
46026277 TTAGATAATTAGT
1 TTAGATAATTAGT
46026290 TTA-ATAA
1 TTAGATAA
46026297 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:46031700 original size:6 final size:6
Alignment explanation
Indices: 46031689--46031741 Score: 79
Period size: 6 Copynumber: 8.7 Consensus size: 6
46031679 CCTCTTATCT
* *
46031689 TTTTTA TTTTTA TTTCTA TTTTTA TTTTTA TTTTTA TGTTTA TTTTTCA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT-A
46031738 TTTT
1 TTTT
46031742 CTGGTCTTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:46036237 original size:40 final size:40
Alignment explanation
Indices: 46036144--46036361 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
46036134 AAGCCAAGTA
* * *
46036144 CCTTCGGGATTTA-ACCGGATATAG-ATACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTA-ACTCGCACAAATG
* *
46036182 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
46036222 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
46036262 CCTTTGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
46036302 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
46036343 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
46036362 TTACCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 11 0.07
39 18 0.11
40 106 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:46043593 original size:23 final size:23
Alignment explanation
Indices: 46043563--46043612 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
46043553 TGCATATACG
46043563 AGCATATTAATTGAAACTATTAC
1 AGCATATTAATTGAAACTATTAC
46043586 AGCATATTAATTGAAACTATTAC
1 AGCATATTAATTGAAACTATTAC
46043609 AGCA
1 AGCA
46043613 AGGTCGCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (23 bp):
AGCATATTAATTGAAACTATTAC
Found at i:46043808 original size:41 final size:40
Alignment explanation
Indices: 46043672--46043814 Score: 218
Period size: 40 Copynumber: 3.5 Consensus size: 40
46043662 CTACTTGCTC
* *
46043672 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
46043712 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
*
46043752 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-A
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACA
46043793 AATGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
46043815 ATTATCATCC
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 69 0.71
41 23 0.24
42 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:46045706 original size:25 final size:25
Alignment explanation
Indices: 46045678--46045747 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
46045668 CTCTTTTAAT
*
46045678 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
46045703 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
46045728 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
46045748 AGCACTTCCT
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:46045959 original size:27 final size:25
Alignment explanation
Indices: 46045916--46045966 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
46045906 TTGCCTACAA
*
46045916 GGGCAAAATAGTCATTTAATACCCTAG
1 GGGCAAAATAGTAATTT--TACCCTAG
*
46045943 GGGCAAAATGGTAATTTTACCCTA
1 GGGCAAAATAGTAATTTTACCCTA
46045967 CAAGGGTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (25 bp):
GGGCAAAATAGTAATTTTACCCTAG
Found at i:46045984 original size:27 final size:27
Alignment explanation
Indices: 46045954--46046210 Score: 286
Period size: 27 Copynumber: 9.9 Consensus size: 27
46045944 GGCAAAATGG
* * *
46045954 TAATTTTACCCTACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
46045981 TAATTCTACCCTACAGGGGCATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
46046008 TAATTCTACCCTACAGGGGT-TTT-GG
1 TAATTCTACCCTACAGGGGTATTTCGA
46046033 TAATTCTACCCTACAGGGGTATTT-G-
1 TAATTCTACCCTACAGGGGTATTTCGA
*
46046058 ------TACCCTATAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
46046079 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
46046106 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
46046133 TAGTTCTACCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
46046159 GTAATTCTACCCTACAGGGGTATTTC-A
1 -TAATTCTACCCTACAGGGGTATTTCGA
* *
46046186 GCAATTCTACCCTACAAGGGTATTT
1 -TAATTCTACCCTACAGGGGTATTT
46046211 TAATATTTTA
Statistics
Matches: 201, Mismatches: 19, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.08
20 1 0.00
25 21 0.10
26 7 0.03
27 155 0.77
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:46046061 original size:19 final size:19
Alignment explanation
Indices: 46046039--46046075 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
46046029 TTGGTAATTC
46046039 TACCCTACAGGGGTATTTG
1 TACCCTACAGGGGTATTTG
*
46046058 TACCCTATAGGGGTATTT
1 TACCCTACAGGGGTATTT
46046076 CGATAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (19 bp):
TACCCTACAGGGGTATTTG
Found at i:46046356 original size:81 final size:80
Alignment explanation
Indices: 46046202--46046406 Score: 238
Period size: 81 Copynumber: 2.6 Consensus size: 80
46046192 CTACCCTACA
** * * *
46046202 AGGGTATTTTAAT-ATTTTACAAATC-GAGGG-ATTTTTGATAATTTCACAAATCAGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTAG-TAATTTCACAAACCAGGGTATTTT
*
46046264 GGTAATTTTACAAGCTAG
64 GGTAATTTTAC-AGATAG
*
46046282 -GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTCACAAACCA-GGGTATTTTG
*
46046346 GTAATTTTACAGATTG
65 GTAATTTTACAGATAG
** * *
46046362 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTT
1 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTT
46046407 GGTAAACTAA
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
79 10 0.09
80 31 0.29
81 67 0.62
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTCACAAACCAGGGTATTTTGG
TAATTTTACAGATAG
Found at i:46046392 original size:27 final size:27
Alignment explanation
Indices: 46046200--46046406 Score: 195
Period size: 27 Copynumber: 7.7 Consensus size: 27
46046190 TTCTACCCTA
** *
46046200 CAAGGGTATTTTAAT-ATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
46046226 CGAGGG-ATTTTTGATAATTTCACAAAT
1 CAAGGGTA-TTTTGGTAATTTTACAAAC
*
46046253 C-AGGGTATTTTGGTAATTTTACAAGC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
46046279 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
46046306 CAGGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
46046333 CAGGGGTATTTTGGTAATTTTACAGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** **
46046360 TGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
46046387 CAAGGGTATTTCAGTAATTT
1 CAAGGGTATTTTGGTAATTT
46046407 GGTAAACTAA
Statistics
Matches: 151, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
25 1 0.01
26 30 0.20
27 120 0.79
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:46046411 original size:27 final size:27
Alignment explanation
Indices: 46046362--46046413 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
46046352 TTACAGATTG
** *
46046362 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCAGTAATTTGGTAAACCA
46046389 AGGGTATTTCAGTAATTTGGTAAAC
1 AGGGTATTTCAGTAATTTGGTAAAC
46046414 TAAAGTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTGGTAAACCA
Found at i:46047965 original size:13 final size:13
Alignment explanation
Indices: 46047949--46047981 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46047939 TTTGATTAAA
*
46047949 TTAGTTAATTAGT
1 TTAGATAATTAGT
46047962 TTAGATAATTAGT
1 TTAGATAATTAGT
46047975 TTA-ATAA
1 TTAGATAA
46047982 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:46050202 original size:56 final size:56
Alignment explanation
Indices: 46050071--46050205 Score: 198
Period size: 56 Copynumber: 2.4 Consensus size: 56
46050061 TCCCAGACAG
* * * *
46050071 GGTCTTACTCGCACACATAAATCAGAATCGCTTATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATAATAAACGT
* **
46050127 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCTAATGTAATAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATAATAAACGT
*
46050183 GGTCTTACTTGCACACATATATC
1 GGTCTTACTCGCACACATATATC
46050206 GATTCCATGT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 71 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAACATAATAAACGT
Found at i:46051191 original size:21 final size:19
Alignment explanation
Indices: 46051153--46051191 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
46051143 ATTCATTTAC
*
46051153 TAATATAACCTTAATAATT
1 TAATATAACCTCAATAATT
46051172 TAATATAACAACTCAATAAT
1 TAATATAAC--CTCAATAAT
46051192 GCTTTCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATATAACCTCAATAATT
Found at i:46053213 original size:51 final size:51
Alignment explanation
Indices: 46053151--46053584 Score: 262
Period size: 50 Copynumber: 8.6 Consensus size: 51
46053141 AGGTCGTATC
* * * *
46053151 TGTAGAACTAAGTGTAGGCTACTATGCGTACCCAACAACTTCGATTACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCAACAACTTAGATCACGTG
* * * * * *
46053202 TGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGA-TAGTTAGGTCACATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ACAACTTAGATCACGTG
* ** * *
46053252 TGTAGTACTAAGTGGAGGCTACTATGCGTACCTGACAACTTTGATCATGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCAACAACTTAGATCACGTG
* ** * *** *
46053303 TGTAGTACTAAGTGCAGGCTACTACGTTTA-TCAGA-TGGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ACAACTTAGATCACGTG
* * * * * **
46053353 TGTAGTACTAAGTGCAGGTTACTACGTGTA-CCAA-ATAGTTAGGTCAAATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCAACA-ACTTAGATCACGTG
* * * *
46053403 TGTAGTACTAAGTACAAGCTACTATGCATACCCGACAACTTCA-ATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCAACAACTT-AGATCACGTG
* * * ** *** * *
46053454 TGTAGTACTAAGTGCAAGATACTATGTGTA-TTAGA-TGGTTAGGTCACATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ACAACTTAGATCACGTG
* * * * * * * *
46053504 TGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-A-GATTGTTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCAACAACT-TAGATCACGTG
46053553 TGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACC
46053585 AGATAGCTTC
Statistics
Matches: 295, Mismatches: 76, Indels: 25
0.74 0.19 0.06
Matches are distributed among these distances:
48 2 0.01
49 39 0.13
50 150 0.51
51 102 0.35
52 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (51 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCCAACAACTTAGATCACGTG
Found at i:46053232 original size:101 final size:101
Alignment explanation
Indices: 46053095--46053584 Score: 373
Period size: 101 Copynumber: 4.9 Consensus size: 101
46053085 TAGTTGTAGG
* * * * **
46053095 TCACGTGTGTTGTACTAACTGTAGGTTACTAC-TGTACCAGATAGTTAGGTCGTATCTGTAGAAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATCTGTAGAAC
*
46053159 TAAGTGTAGGCTACTATGCGTACCCAACAACTTCGA
66 TAAGTGGAGGCTACTATGCGTACCCAACAACTTCGA
* * *
46053195 TTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATCTGTAGAAC
** *
46053260 TAAGTGGAGGCTACTATGCGTACCTGACAACTTTGA
66 TAAGTGGAGGCTACTATGCGTACCCAACAACTTCGA
* * * * * * *
46053296 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTTTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATCTGTAGAAC
* * * * * * *
46053361 TAAGTGCAGGTTACTACGTGTA-CCAA-ATAGTTAGG
66 TAAGTGGAGGCTACTATGCGTACCCAACA-ACTTCGA
** * * * ** * * * * * * *
46053396 TCAAATGTGTAGTACTAAGTACAAGCTACTATGCATACCCGACAACTTCA-ATCACGTGTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGTCACATCTGTAGA
* * * * ** *** * *
46053460 ACTAAGTGCAAGATACTATGTGTA-TTAGA-TGGTTAGG
64 ACTAAGTGGAGGCTACTATGCGTACCCA-ACAACTTCGA
* * * * *
46053497 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT-GGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATCTGTAGAAC
*
46053561 TAAGTGCAGGCTACTATGCGTACC
66 TAAGTGGAGGCTACTATGCGTACC
46053585 AGATAGCTTC
Statistics
Matches: 318, Mismatches: 65, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
99 33 0.10
100 68 0.21
101 215 0.68
102 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATCTGTAGAAC
TAAGTGGAGGCTACTATGCGTACCCAACAACTTCGA
Found at i:46053377 original size:151 final size:151
Alignment explanation
Indices: 46053197--46053584 Score: 598
Period size: 151 Copynumber: 2.6 Consensus size: 151
46053187 AACTTCGATT
46053197 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTA
* * ** * * *
46053262 AGTGGAGGCTACTATGCGTACCTGACAACTTTGATCATGTGTGTAGTACTAAGTGCAGGCTACTA
66 AGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGCAAGATACTA
*
46053327 CGTTTATCAGATGGTTAGGTC
131 CGTGTATCAGATGGTTAGGTC
* * *
46053348 ACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAAATAGTTAGGTCAAATGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTA
* * *
46053413 AGTACAAGCTACTATGCATACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGCAAGATACTA
66 AGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGCAAGATACTA
* *
46053478 TGTGTATTAGATGGTTAGGTC
131 CGTGTATCAGATGGTTAGGTC
* * *
46053499 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT-GGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTA
46053563 AGTGCAGGCTACTATGCGTACC
66 AGTGCAGGCTACTATGCGTACC
46053585 AGATAGCTTC
Statistics
Matches: 212, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
150 36 0.17
151 176 0.83
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (151 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTA
AGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGCAAGATACTA
CGTGTATCAGATGGTTAGGTC
Found at i:46053497 original size:252 final size:253
Alignment explanation
Indices: 46053048--46053527 Score: 680
Period size: 252 Copynumber: 1.9 Consensus size: 253
46053038 TGAGAACACA
* * * *
46053048 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTATGATAGTTGTAGGTCACGTGTGTTGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTTTATGATAGGTGTAGGTCACGTGTGTAGTACTAA
* * ** ** *
46053113 CTGTAGGTTACTACTGTACCAGATAGTTAGGTCGTATCTGTAGAACTAAGTGTAGGCTACTATGC
66 CTGCAGGTTACTACTGTACCAAATAGTTAGGTCAAATCTGTAGAACTAAGTACAAGCTACTATGC
* * * * *
46053178 GTACCCAACAACTTCGATTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA
131 ATACCCAACAACTTCAATCACGTGTGTAGTACTAAGTGCAAGATACTACGTGTACCAGATAGTTA
*
46053243 GGTCACATGTGTAGTACTAAGTGGAGGCTACTATGCGTACCTGACAACTTTGATCATG
196 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGACAACTTTGATCATG
46053301 TGTGTAGTACTAAGTGCAGGCTACTAC--GTTTATCAGAT-GGT-TAGGTCACGTGTGTAGTACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTTTAT--GATAGGTGTAGGTCACGTGTGTAGTACT
* * *
46053362 AAGTGCAGGTTACTACGTGTACCAAATAGTTAGGTCAAATGTGTAGTACTAAGTACAAGCTACTA
64 AACTGCAGGTTACTAC-TGTACCAAATAGTTAGGTCAAATCTGTAGAACTAAGTACAAGCTACTA
* * ** *
46053427 TGCATACCCGACAACTTCAATCACGTGTGTAGTACTAAGTGCAAGATACTATGTGTATTAGATGG
128 TGCATACCCAACAACTTCAATCACGTGTGTAGTACTAAGTGCAAGATACTACGTGTACCAGATAG
46053492 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
193 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
46053528 CGTGTACCAG
Statistics
Matches: 199, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
251 39 0.20
252 132 0.66
253 28 0.14
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (253 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTTTATGATAGGTGTAGGTCACGTGTGTAGTACTAA
CTGCAGGTTACTACTGTACCAAATAGTTAGGTCAAATCTGTAGAACTAAGTACAAGCTACTATGC
ATACCCAACAACTTCAATCACGTGTGTAGTACTAAGTGCAAGATACTACGTGTACCAGATAGTTA
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGACAACTTTGATCATG
Found at i:46053806 original size:16 final size:15
Alignment explanation
Indices: 46053785--46053814 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46053775 GAATGGAGTA
46053785 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
46053801 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
46053815 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:46059661 original size:23 final size:26
Alignment explanation
Indices: 46059635--46059682 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
46059625 ATTATCATTA
46059635 TTATTC-TTTATT-T-GTTATTGTTG
1 TTATTCTTTTATTGTCGTTATTGTTG
46059658 TTATTCTTTTATTGTCGTTATTGTT
1 TTATTCTTTTATTGTCGTTATTGTT
46059683 AATATTGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.27
24 6 0.27
25 1 0.05
26 9 0.41
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (26 bp):
TTATTCTTTTATTGTCGTTATTGTTG
Found at i:46062656 original size:27 final size:26
Alignment explanation
Indices: 46062612--46062663 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
46062602 CTTGCTGCAA
*
46062612 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
46062639 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
46062664 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:46067404 original size:47 final size:48
Alignment explanation
Indices: 46067256--46067574 Score: 174
Period size: 47 Copynumber: 6.7 Consensus size: 48
46067246 TTTGTGTGCC
* ** * * *
46067256 AGTGTAAGA-CATGTCTGGGACATGCATCAACCAC-ATTATGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCCTCGATGATGATAGCT
* * * * * * * *
46067302 AGTGTAAGACCATGTGTAAGACAAGGCATCAGCAT-TAAGACGAGT-GCT
1 AGTGTAAGACCATGTCTAGGAC-ATGCATCGGCCTCGATGATGA-TAGCT
*
46067350 AGTGTAAGA-CATGTCTAGGACATGCATCGGCCTCGATGATGATAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCCTCGATGATGATAGCT
* * * *
46067397 AGTGTAAGA-CAGGTCTGGGACATGCATCGG-CTAAGA-GTTG-T-GCT
1 AGTGTAAGACCATGTCTAGGACATGCATCGGCCT-CGATGATGATAGCT
* * * ** * * *
46067441 AGTATAAGACCATGTTTGGGACATGGCATC-AACACGTATATATACGAGAGCT
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGCCTCG-AT-GAT--GATAGCT
* * *
46067493 AGTGTAAGACCATGTCTTGGACATGGCATCGGCCTCGATGACGATAGCC
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGCCTCGATGATGATAGCT
** *
46067542 AAAGTAAGACCATGTCTAGGAGATGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACAT-GCATCGGC
46067575 AACTTATCCC
Statistics
Matches: 207, Mismatches: 48, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
44 10 0.05
45 14 0.07
46 31 0.15
47 56 0.27
48 25 0.12
49 34 0.16
50 1 0.00
51 1 0.00
52 32 0.15
53 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGGCCTCGATGATGATAGCT
Found at i:46077585 original size:47 final size:45
Alignment explanation
Indices: 46077473--46077645 Score: 149
Period size: 47 Copynumber: 3.8 Consensus size: 45
46077463 GGTTATTTGT
* *
46077473 GTGCTAGTGTAA-AACATGTCTAAGACATGCATCGGCCACATTATGAGA
1 GTGCTAGTGTAAGACCATGTCTGAGACATGCATCGG---CATTA-GAGA
*
46077521 --GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGA
1 GTGCTAGTGTAAGACCATGTCTGAGACAT-GCATCGGCATT-AGA-GA
* * * *
46077567 GTGCTAGTGTAAGA-CATGTCTGGGATATGCATCGGC-TAAGAGTT
1 GTGCTAGTGTAAGACCATGTCTGAGACATGCATCGGCATTAGAG-A
* *
46077611 GTGCTAGTATAAGACCATGTCTGGGACATGGCATC
1 GTGCTAGTGTAAGACCATGTCTGAGACAT-GCATC
46077646 AACACGTATA
Statistics
Matches: 106, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
43 1 0.01
44 16 0.15
45 20 0.19
46 25 0.24
47 26 0.25
48 18 0.17
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
GTGCTAGTGTAAGACCATGTCTGAGACATGCATCGGCATTAGAGA
Found at i:46081077 original size:18 final size:19
Alignment explanation
Indices: 46081050--46081085 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46081040 GAATGTACTA
46081050 TTCATATACA-CATATATT
1 TTCATATACATCATATATT
*
46081068 TTCATTTACATCATATAT
1 TTCATATACATCATATAT
46081086 AAATTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (19 bp):
TTCATATACATCATATATT
Found at i:46081413 original size:56 final size:56
Alignment explanation
Indices: 46081320--46081507 Score: 306
Period size: 56 Copynumber: 3.4 Consensus size: 56
46081310 CAGACAGGGA
* *
46081320 CTTACTCGCACACATA-AACGGAATCACATATCAATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
*
46081375 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
* *
46081431 CTTACTCGCACACATATATTGGAATCACATATTGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
* *
46081487 CTTAATCGTACACATATATCG
1 CTTACTCGCACACATATATCG
46081508 ATGCCATGGT
Statistics
Matches: 123, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
55 16 0.13
56 107 0.87
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
CTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
Found at i:46084249 original size:27 final size:27
Alignment explanation
Indices: 46084219--46084558 Score: 168
Period size: 27 Copynumber: 12.6 Consensus size: 27
46084209 TAATACAAAG
* *
46084219 AAATTACCGAAGTACCCCCGGTTTGTA
1 AAATTACCAAAATACCCCCGGTTTGTA
*
46084246 AAATTACCAAAATACCCTCGGTTTGTA
1 AAATTACCAAAATACCCCCGGTTTGTA
** * *
46084273 AAATTACCAAAATACCTTCGATTTGCA
1 AAATTACCAAAATACCCCCGGTTTGTA
* * * *
46084300 AAATTACTAAAATACCCTCGATTTGCA
1 AAATTACCAAAATACCCCCGGTTTGTA
** *** *
46084327 AAATTAGTAAAATACCATTGATTTGTA
1 AAATTACCAAAATACCCCCGGTTTGTA
* * ** *
46084354 AAATTACCGAAATATCCTAGATTATG--
1 AAATTACCAAAATACCCCCGGTT-TGTA
** * * **
46084380 AAATTACTGAAATA-TCTCAATTTGTA
1 AAATTACCAAAATACCCCCGGTTTGTA
* * * *
46084406 AAATTACTAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCCGGTTTGTA
* ** *
46084433 AAATTA-CAGAAACACCCTTGATTTGTA
1 AAATTACCA-AAATACCCCCGGTTTGTA
* * * ** *
46084460 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTACCAAAATACCCCCGGTTTGTA
* * *
46084487 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCCCGGTTTGTA
*
46084514 AAATTACCAAAA-ACACCCCTGATTTGTA
1 AAATTACCAAAATAC-CCCC-GGTTTGTA
* * *
46084542 AAAGTATCGAAATACCC
1 AAATTACCAAAATACCC
46084559 TTGTAGTATA
Statistics
Matches: 263, Mismatches: 41, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
24 2 0.01
25 5 0.02
26 29 0.11
27 203 0.77
28 22 0.08
29 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCCGGTTTGTA
Found at i:46084306 original size:54 final size:54
Alignment explanation
Indices: 46084240--46084544 Score: 284
Period size: 54 Copynumber: 5.7 Consensus size: 54
46084230 GTACCCCCGG
*
46084240 TTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCTTCGA
1 TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCGA
* * * **
46084294 TTTGCAAAATTACTAAAATACCCTCGATTTGCAAAATTAGTAAAATACCATT-GA
1 TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACC-TTCGA
* * * ** * *
46084348 TTTGTAAAATTACCGAAATATCCTAGATTATG--AAATTACTGAAATATC-TCAA
1 TTTGTAAAATTACCAAAATACCCTCGATT-TGTAAAATTACCAAAATACCTTCGA
* * *
46084400 TTTGTAAAATTACTAAAATACCC-CTGATTTGTGAAATTA-CAGAAACACCCTT-GA
1 TTTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTACCA-AAATA-CCTTCGA
* * * * * *
46084454 TTTGTAAAATTATCGAAACACCCTTGATTTGTAAAATTACCGAAATACCCTCGA
1 TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCGA
*
46084508 TTTGTAAAATTACCAAAA-ACACCCCTGATTTGTAAAA
1 TTTGTAAAATTACCAAAATAC-CCTC-GATTTGTAAAA
46084545 GTATCGAAAT
Statistics
Matches: 200, Mismatches: 37, Indels: 27
0.76 0.14 0.10
Matches are distributed among these distances:
51 3 0.01
52 25 0.12
53 28 0.14
54 127 0.63
55 17 0.09
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCTTCGA
Found at i:46084582 original size:82 final size:80
Alignment explanation
Indices: 46084403--46084582 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 80
46084393 ATCTCAATTT
* * * *
46084403 GTAAAATTACTAAAATACCCCTGATTTGTGAAATTACAGAAACACCCTTGATTTGTAAAATTATC
1 GTAAAATTACTAAAATACCCCTGATTTGTAAAATTACAAAAACACCCCTGATTTGTAAAAGTATC
*
46084468 GAAACACCCTTGATTT
66 GAAACACCCTTGA-TA
**
46084484 GTAAAATTACCGAAATA-CCCTCGATTTGTAAAATTACCAAAAACACCCCTGATTTGTAAAAGTA
1 GTAAAATTACTAAAATACCCCT-GATTTGTAAAATTA-CAAAAACACCCCTGATTTGTAAAAGTA
*
46084548 TCGAAATACCCTTG-TA
64 TCGAAACACCCTTGATA
46084564 GTATAGAATTACTAAAATA
1 GTA-A-AATTACTAAAATA
46084583 TGTAGTGTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
80 8 0.09
81 29 0.34
82 48 0.56
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (80 bp):
GTAAAATTACTAAAATACCCCTGATTTGTAAAATTACAAAAACACCCCTGATTTGTAAAAGTATC
GAAACACCCTTGATA
Found at i:46103014 original size:18 final size:19
Alignment explanation
Indices: 46102985--46103030 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
46102975 CAGGTTAAGG
*
46102985 GGTGTTACAGCTCCAATCA
1 GGTGTAACAGCTCCAATCA
46103004 GGTG-AACAGCTCCAATCA
1 GGTGTAACAGCTCCAATCA
46103022 GGTGTAACA
1 GGTGTAACA
46103031 ATTATTGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (19 bp):
GGTGTAACAGCTCCAATCA
Found at i:46112381 original size:20 final size:20
Alignment explanation
Indices: 46112352--46112396 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
46112342 AGCACATGTA
* *
46112352 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
46112372 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
46112392 TTCAT
1 TTCAT
46112397 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:46115181 original size:29 final size:28
Alignment explanation
Indices: 46115115--46115238 Score: 149
Period size: 29 Copynumber: 4.4 Consensus size: 28
46115105 CAAATGCCAT
* * *
46115115 ACATGTATCTGGCCCATTAAGCCCAATC
1 ACATTTATATGGCCCATTAGGCCCAATC
* *
46115143 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTTATATGGCCCATTAGGCCC-AATC
*
46115172 ACATTTATATGGCCCATTAGACCCAAATC
1 ACATTTATATGGCCCATTAGGCCC-AATC
* *
46115201 ACATTTATATGGCCCGTTAGGCCCAGTC
1 ACATTTATATGGCCCATTAGGCCCAATC
*
46115229 ACATTCATAT
1 ACATTTATAT
46115239 TCATGCTCAC
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 31 0.37
29 52 0.63
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
ACATTTATATGGCCCATTAGGCCCAATC
Found at i:46115197 original size:57 final size:57
Alignment explanation
Indices: 46115115--46115238 Score: 153
Period size: 57 Copynumber: 2.2 Consensus size: 57
46115105 CAAATGCCAT
* * *
46115115 ACATGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCC-AATC
* * *
46115172 ACATTTATATGGCCCATT-AGACCCAAATCACATTTATATGGCCCGTTAGGCCCAGTC
1 ACATTTATATGGCCCATTAAG-CCCAAATCACATTCATATGGCCCATTAGGCCCAATC
*
46115229 ACATTCATAT
1 ACATTTATAT
46115239 TCATGCTCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 2 0.03
57 31 0.53
58 25 0.43
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (57 bp):
ACATTTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAATC
Found at i:46118180 original size:39 final size:39
Alignment explanation
Indices: 46118135--46118255 Score: 217
Period size: 39 Copynumber: 3.1 Consensus size: 39
46118125 AAGCAAGACA
*
46118135 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
46118174 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
46118213 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTC-TG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGC-TTCGTG
46118252 CTGG
1 CTGG
46118256 TAACATAATT
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
39 77 0.96
40 3 0.04
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:46124875 original size:39 final size:39
Alignment explanation
Indices: 46124830--46124950 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
46124820 AAGCAAGACA
*
46124830 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
46124869 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
46124908 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
46124947 CTGG
1 CTGG
46124951 TAACATAATT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:46131884 original size:50 final size:50
Alignment explanation
Indices: 46131823--46132048 Score: 255
Period size: 50 Copynumber: 4.5 Consensus size: 50
46131813 TGAGTACACG
* *
46131823 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAAGTCACA
* * *
46131873 TGTGTAGTACTAAGTGCAAGCTACTATGTGTACTCA-A-TGACTTCAA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG--TT-AAGTCACA
* * * *
46131924 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAAGTCACA
* * * *
46131974 TGTGTAGTACTAAGTGCAGACTACTACGTGGA-CAGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATTGTTAAGTCACA
46132023 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
46132049 TGCGTATCAG
Statistics
Matches: 151, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
49 36 0.24
50 74 0.49
51 38 0.25
52 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAAGTCACA
Found at i:46138480 original size:40 final size:40
Alignment explanation
Indices: 46138436--46138662 Score: 393
Period size: 40 Copynumber: 5.7 Consensus size: 40
46138426 GCAAACACAT
* * *
46138436 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46138476 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
46138516 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46138556 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46138596 TTGCCTTCGGGTCTTAG-CCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46138635 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
46138663 TCCAATGCTC
Statistics
Matches: 179, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 39 0.22
40 140 0.78
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:46143225 original size:28 final size:28
Alignment explanation
Indices: 46143194--46143278 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
46143184 GACTTCGATC
*
46143194 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTATAGTACTAAGTGCAGGCTACT
* *
46143222 ACGTGTATCAG-A-T-GGTG-A-GAT-C-
1 ACGTGTAT-AGTACTAAGTGCAGGCTACT
46143244 ACGTGTATAGTACTAAGTGCAGGCTACT
1 ACGTGTATAGTACTAAGTGCAGGCTACT
46143272 ACGTGTA
1 ACGTGTA
46143279 CAGGATTGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
21 2 0.05
22 9 0.20
23 2 0.05
24 5 0.11
25 2 0.05
26 5 0.11
27 2 0.05
28 15 0.34
29 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (28 bp):
ACGTGTATAGTACTAAGTGCAGGCTACT
Found at i:46143265 original size:50 final size:50
Alignment explanation
Indices: 46143092--46143333 Score: 221
Period size: 50 Copynumber: 4.8 Consensus size: 50
46143082 ATTGTGAGTA
** * * * *
46143092 CACGTGTGTAGTACTAAGTTTAGGCTACTACATGTACCATACTGTTAAG-T
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTTGAGAT
* * * *
46143142 CGCATGTGTAGTACTAAGTGCAGGCTACT-CTGCGTACTCA-ATGACTT-CGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTAC-GTGTA-TCAGATG--TTGAGAT
*
46143193 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTTGAGAT
* *
46143243 CACGTGTATAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATTGTTG-GTT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-GA-TGTTGAGAT
* *
46143293 GCA--TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 -CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
46143334 AGCTTCAGCT
Statistics
Matches: 161, Mismatches: 19, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 77 0.48
51 45 0.28
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTTGAGAT
Found at i:46149028 original size:24 final size:24
Alignment explanation
Indices: 46148994--46149048 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
46148984 TCATGTACAA
46148994 ATATC-ATCATCCCATATTACCAT
1 ATATCAATCATCCCATATTACCAT
* **
46149017 ATATCAATCATCTCATATTTTCAT
1 ATATCAATCATCCCATATTACCAT
46149041 ATATCAAT
1 ATATCAAT
46149049 TGTCATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATCAATCATCCCATATTACCAT
Found at i:46156054 original size:46 final size:44
Alignment explanation
Indices: 46155995--46156109 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
46155985 ACAGGACAGA
* *
46155995 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGAAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGAAG
* * *
46156041 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGAAG
* **
46156085 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
46156110 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGAAG
Found at i:46156090 original size:44 final size:45
Alignment explanation
Indices: 46155995--46156127 Score: 142
Period size: 46 Copynumber: 2.9 Consensus size: 45
46155985 ACAGGACAGA
* *
46155995 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGAAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGAAG
* * *
46156041 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGAAG
* ** * * *
46156085 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTG
46156128 GCAGGATATT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 36 0.50
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGAAG
Found at i:46172719 original size:17 final size:17
Alignment explanation
Indices: 46172693--46172726 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46172683 TATATATTTG
*
46172693 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
46172710 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
46172727 TTAAGTGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:46174138 original size:24 final size:24
Alignment explanation
Indices: 46174051--46174138 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
46174041 GAAATAAAAT
* *
46174051 TGGCACTATGTGTGCAGATTTGA-A
1 TGGCACTATGTGTGCGGA-TTAACA
* * *
46174075 TGGCACTACGTGTGTGGATTAGCA
1 TGGCACTATGTGTGCGGATTAACA
* *
46174099 AGGCACTATGTGTGCGGGTTAACA
1 TGGCACTATGTGTGCGGATTAACA
46174123 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
46174139 AATTTCCTTG
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 2 0.04
24 50 0.96
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.30
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTAACA
Found at i:46174465 original size:38 final size:38
Alignment explanation
Indices: 46174414--46174491 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
46174404 GTGATAGTTG
*
46174414 ATTTTTCAAAAGAATATTATTATAATAAGTAGATGTCA
1 ATTTTGCAAAAGAATATTATTATAATAAGTAGATGTCA
46174452 ATTTTGCAAAAGAATATTATTATAATAAGTAGATGTCA
1 ATTTTGCAAAAGAATATTATTATAATAAGTAGATGTCA
46174490 AT
1 AT
46174492 CAGAGTGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (38 bp):
ATTTTGCAAAAGAATATTATTATAATAAGTAGATGTCA
Found at i:46181817 original size:24 final size:25
Alignment explanation
Indices: 46181785--46181900 Score: 136
Period size: 24 Copynumber: 4.8 Consensus size: 25
46181775 GAAATGGCAT
46181785 TGGCACTATGTGTGCGGAATT-GAA
1 TGGCACTATGTGTGCGGAATTAGAA
*
46181809 TGGCACTATGTGTGCGG-ATTTGAA
1 TGGCACTATGTGTGCGGAATTAGAA
* *
46181833 TGGCACTACGTGTGTGG-ATTAGCAA
1 TGGCACTATGTGTGCGGAATTAG-AA
* *
46181858 -GGCACTATGTGTGCGG-GTTAGCA
1 TGGCACTATGTGTGCGGAATTAGAA
46181881 TGGCACTATGTGTGC-GAATT
1 TGGCACTATGTGTGCGGAATT
46181901 TCCTTGACCG
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.06
24 73 0.91
25 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.30
Consensus pattern (25 bp):
TGGCACTATGTGTGCGGAATTAGAA
Found at i:46181840 original size:48 final size:49
Alignment explanation
Indices: 46181785--46181900 Score: 150
Period size: 48 Copynumber: 2.4 Consensus size: 49
46181775 GAAATGGCAT
*
46181785 TGGCACTATGTGTGCGGAATT-G-AATGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGAATTAGCAA-GGCACTATGTGTGCGGATTAGAA
* * * *
46181833 TGGCACTACGTGTGTGG-ATTAGCAAGGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGAATTAGCAAGGCACTATGTGTGCGGATTAGAA
46181881 TGGCACTATGTGTGC-GAATT
1 TGGCACTATGTGTGCGGAATT
46181901 TCCTTGACCG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
47 4 0.07
48 52 0.90
49 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.34, T:0.30
Consensus pattern (49 bp):
TGGCACTATGTGTGCGGAATTAGCAAGGCACTATGTGTGCGGATTAGAA
Found at i:46183851 original size:46 final size:46
Alignment explanation
Indices: 46183728--46183852 Score: 178
Period size: 46 Copynumber: 2.7 Consensus size: 46
46183718 TGTAACCCGC
* * * * * *
46183728 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
* *
46183774 CAATAAGTGAACTCGGACTTAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
46183820 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
46183853 TGGATGCCCA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:46186294 original size:15 final size:15
Alignment explanation
Indices: 46186247--46186317 Score: 67
Period size: 15 Copynumber: 4.7 Consensus size: 15
46186237 CAAGAAAACT
*
46186247 GAATAAAGAAATTCA
1 GAATAAAGAAATCCA
*
46186262 -AGATAGAA-AAACCCA
1 GA-ATA-AAGAAATCCA
46186277 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
46186292 GAATAAA-AAGATCCA
1 GAATAAAGAA-ATCCA
*
46186307 GGATAAAGAAA
1 GAATAAAGAAA
46186318 CCCAAGATAC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
14 5 0.11
15 36 0.78
16 5 0.11
ACGTcount: A:0.61, C:0.11, G:0.15, T:0.13
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:46186313 original size:30 final size:30
Alignment explanation
Indices: 46186247--46186326 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
46186237 CAAGAAAACT
*
46186247 GAATAAAGAAATTCAAGATAGAAAAACCCA
1 GAATAAAGAAATCCAAGATAGAAAAACCCA
*
46186277 GAATAAAGAAATCC-AGAATA-AAAAGATCCA
1 GAATAAAGAAATCCAAG-ATAGAAAA-ACCCA
* *
46186307 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
46186327 CGATACTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 6 0.14
30 35 0.81
31 2 0.05
ACGTcount: A:0.59, C:0.14, G:0.15, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAGAAAAACCCA
Found at i:46186326 original size:15 final size:15
Alignment explanation
Indices: 46186249--46186326 Score: 56
Period size: 15 Copynumber: 5.2 Consensus size: 15
46186239 AGAAAACTGA
*
46186249 ATAAAGAAATTCAAG
1 ATAAAGAAATCCAAG
*
46186264 ATAGAA-AAA-CCCAG
1 ATA-AAGAAATCCAAG
46186278 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
46186293 AATAAA-AAGATCCAGG
1 -ATAAAGAA-ATCCAAG
*
46186309 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
46186324 ATA
1 ATA
46186327 CGATACTATG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.14
15 37 0.73
16 7 0.14
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:46202218 original size:22 final size:22
Alignment explanation
Indices: 46202193--46202237 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46202183 GATGCATTTC
*
46202193 ATGC-ATTTTCATGCCATTAATA
1 ATGCAATTATCATG-CATTAATA
*
46202215 ATGCAATTATCATGCATTCATA
1 ATGCAATTATCATGCATTAATA
46202237 A
1 A
46202238 ATCATACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (22 bp):
ATGCAATTATCATGCATTAATA
Found at i:46206196 original size:30 final size:30
Alignment explanation
Indices: 46206162--46206222 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46206152 TCCTTAACTC
46206162 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46206192 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46206222 A
1 A
46206223 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:46212912 original size:17 final size:16
Alignment explanation
Indices: 46212890--46212923 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46212880 TCGAACCTGG
46212890 CTTTTGTTATTTCTTTT
1 CTTTTGTT-TTTCTTTT
*
46212907 CTTTTGTTTTTGTTTT
1 CTTTTGTTTTTCTTTT
46212923 C
1 C
46212924 AGTGGATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.03, C:0.12, G:0.09, T:0.76
Consensus pattern (16 bp):
CTTTTGTTTTTCTTTT
Found at i:46270500 original size:30 final size:30
Alignment explanation
Indices: 46270466--46270526 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46270456 TCCTTAACTC
46270466 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
46270496 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
46270526 A
1 A
46270527 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:46277220 original size:17 final size:16
Alignment explanation
Indices: 46277198--46277231 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46277188 TCGAACCTGG
46277198 CTTTTGTTATTTCTTTT
1 CTTTTGTT-TTTCTTTT
*
46277215 CTTTTGTTTTTGTTTT
1 CTTTTGTTTTTCTTTT
46277231 C
1 C
46277232 AGTGGATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.03, C:0.12, G:0.09, T:0.76
Consensus pattern (16 bp):
CTTTTGTTTTTCTTTT
Found at i:46291806 original size:27 final size:26
Alignment explanation
Indices: 46291758--46291817 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
46291748 GCAAGGCTGC
*
46291758 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
46291785 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
46291811 TAGATAT
1 CAGATAT
46291818 ATATATGCGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46292590 original size:27 final size:27
Alignment explanation
Indices: 46292560--46292732 Score: 211
Period size: 27 Copynumber: 6.4 Consensus size: 27
46292550 GGGGCAAAAT
* * * *
46292560 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46292587 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
46292614 GGTATTTCTACCCAACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46292641 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
46292668 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
46292695 AATAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
46292722 GGTAATTCTAC
1 GGTAATTCTAC
46292733 AACTTATCCA
Statistics
Matches: 123, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:46292633 original size:54 final size:54
Alignment explanation
Indices: 46292560--46292732 Score: 240
Period size: 54 Copynumber: 3.2 Consensus size: 54
46292550 GGGGCAAAAT
* *
46292560 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCAACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
*
46292614 GGTATTTCTACCCAACAAGGGTATCTCGGTAATTCTATCC-TACAGGGGTATTTC
1 GGTAATTCTACCCAACAAGGGTATCTCGGTAATTCTA-CCTTACAGGGGTATTTC
* * * * ** *
46292668 AGTAATTCTACCCTACAGGGGTATTTCAATAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCAACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
46292722 GGTAATTCTAC
1 GGTAATTCTAC
46292733 AACTTATCCA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.02
54 101 0.96
55 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCAACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
Found at i:46299048 original size:20 final size:18
Alignment explanation
Indices: 46299011--46299053 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
46299001 CTATAGCAAC
46299011 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
46299028 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
46299048 TTACAA
1 TCACAA
46299054 ACTTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:46300480 original size:48 final size:48
Alignment explanation
Indices: 46300419--46300689 Score: 355
Period size: 48 Copynumber: 5.7 Consensus size: 48
46300409 CCGTGCCAAA
* * * * *
46300419 ATGTGCCTGTGTAAGACCATGTCTGGGACATGACATCAGCGGTGACAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
* * **
46300467 ATGTGTCTATGTAAGACCATGTCTAGGACATGGCATCAACGATGATAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
* * *
46300515 ATATGCCTATGTAAGACCATGTCTGGGACTTGGCATCAGTGATGGTAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
* ** *
46300563 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGTGACGATAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
** *
46300611 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATTTGTGACGATAT
1 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
*
46300659 ATGTGCCTGTGTAAG-CCATGTCTGGGACATG
1 ATGTGCCTATGTAAGACCATGTCTGGGACATG
46300690 ACATTCCGAT
Statistics
Matches: 199, Mismatches: 24, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
47 16 0.08
48 183 0.92
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (48 bp):
ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCAGTGATGATAT
Found at i:46300784 original size:48 final size:48
Alignment explanation
Indices: 46300707--46300806 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
46300697 GATGATATGT
**
46300707 GCATCAGCAATGATATGTGTGCCAGTGTAAGACCATGTTTGGGACATG
1 GCATCAGCAATGATATGTGTGCCAGTGTAAGACCATGTCGGGGACATG
* *
46300755 GCATCAGCGATGATATGTG-GATTCA-TGTAAGACCATGTCGGGGACATG
1 GCATCAGCAATGATATGTGTG--CCAGTGTAAGACCATGTCGGGGACATG
46300803 GCAT
1 GCAT
46300807 TGGTACTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
47 1 0.02
48 43 0.93
49 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GCATCAGCAATGATATGTGTGCCAGTGTAAGACCATGTCGGGGACATG
Found at i:46307245 original size:43 final size:43
Alignment explanation
Indices: 46307138--46307264 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 43
46307128 CTCGTACAAC
* * * *
46307138 GCCAACGTCCTAGACGTGGTCTTACATGTAATCATATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACATGTAATCACAAATCAAT
**
46307181 GCC-ACTGTCCCAGACAAGGTCTTACATGTAAATCACAAATCAAT
1 GCCAAC-GTCCCAGACGTGGTCTTACATGT-AATCACAAATCAAT
* *
46307225 GCCAACGTCCCAG-CGTGGTCTTACACG-AATCACATATCAA
1 GCCAACGTCCCAGACGTGGTCTTACATGTAATCACAAATCAA
46307265 AATCCTATGT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 12 0.17
42 2 0.03
43 34 0.48
44 21 0.30
45 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACATGTAATCACAAATCAAT
Found at i:46308336 original size:13 final size:13
Alignment explanation
Indices: 46308318--46308342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46308308 TCAAATGATA
46308318 AAATTTTCACACG
1 AAATTTTCACACG
46308331 AAATTTTCACAC
1 AAATTTTCACAC
46308343 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:46312475 original size:27 final size:28
Alignment explanation
Indices: 46312437--46312489 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
46312427 ATGGTAATTT
46312437 TACACTAGGGGTACATCA-GTAATTTCCA
1 TACACTAGGGGTA-ATCAGGTAATTTCCA
*
46312465 TACA-TAGGGGTATTCAGGTAATTTC
1 TACACTAGGGGTAATCAGGTAATTTC
46312490 ACTATTCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 3 0.13
27 16 0.70
28 4 0.17
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (28 bp):
TACACTAGGGGTAATCAGGTAATTTCCA
Found at i:46319610 original size:27 final size:26
Alignment explanation
Indices: 46319573--46319681 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 26
46319563 AGCATGGCTG
*
46319573 CCAGAACAGATAATGTGACACAGCCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
46319599 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
46319627 CCAGAACAGATATATGT-AGCAGAGCCA
1 CCAGAACAGATA-ATGTGA-CAGAGCCA
* *
46319654 CCA-AATCAGATAATTGTGGCATAGCCA
1 CCAGAA-CAGATAA-TGTGACAGAGCCA
46319681 C
1 C
46319682 AAGGACGCTT
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
26 8 0.11
27 46 0.65
28 17 0.24
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:46319664 original size:54 final size:54
Alignment explanation
Indices: 46319573--46319681 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
46319563 AGCATGGCTG
*
46319573 CCAGAACAGATAATGTGACACAGCCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACACAGCCACCAAATACAGATAATCGTGGCAGAGCCA
* * *
46319627 CCAGAACAGATATATGT-AGCAGAGCCACCAAAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGA-CACAGCCACCAAATACAGATAATCGTGGCAGAGCCA
46319681 C
1 C
46319682 AAGGACGCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 33 0.67
55 16 0.33
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACACAGCCACCAAATACAGATAATCGTGGCAGAGCCA
Found at i:46322705 original size:39 final size:39
Alignment explanation
Indices: 46322660--46322819 Score: 284
Period size: 39 Copynumber: 4.1 Consensus size: 39
46322650 AAGCAAGACA
46322660 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
46322699 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
46322738 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* * *
46322777 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
46322816 CTGG
1 CTGG
46322820 TTATATAATT
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 118 1.00
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:46326740 original size:53 final size:53
Alignment explanation
Indices: 46326665--46326820 Score: 170
Period size: 55 Copynumber: 2.9 Consensus size: 53
46326655 TTTTGAACTT
* *
46326665 ACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATAAAATC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAAATC
* * * * * * *
46326718 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTGTATTAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TATAAAATC
* * *
46326773 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
46326821 GAACTTATCA
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 37 0.45
54 2 0.02
55 39 0.48
56 2 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAAAATC
Found at i:46326795 original size:55 final size:54
Alignment explanation
Indices: 46326645--46326804 Score: 182
Period size: 53 Copynumber: 3.0 Consensus size: 54
46326635 TTACTCGGGA
* * *
46326645 ACCTTTTCCTTT-TTGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGT
1 ACCTTTTCCTTTATT-AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGG
* * * * * *
46326699 ATCC-TTGCC-TTATAAAATCACCAATGCCATGCCTTGGCATGGTCTTACATGGG
1 A-CCTTTTCCTTTATTAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGG
*
46326752 ACCTTTTCCTTGTATTAACTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 ACCTTTTCCTT-TATTAACTTACCAATGCCATGTCTTGACATGGTCTTACATG
46326805 ATTTCCTTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
52 2 0.02
53 39 0.46
54 7 0.08
55 37 0.44
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
ACCTTTTCCTTTATTAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGG
Found at i:46326848 original size:33 final size:33
Alignment explanation
Indices: 46326806--46326868 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
46326796 TCTTACATGA
46326806 TTTCCTTGCCTTATAGAACTTATCAATGCCTGC
1 TTTCCTTGCCTTATAGAACTTATCAATGCCTGC
*
46326839 TTTCCTTGCCTTATAGAACTTATCAGTGCC
1 TTTCCTTGCCTTATAGAACTTATCAATGCC
46326869 ATGCCTTGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.40
Consensus pattern (33 bp):
TTTCCTTGCCTTATAGAACTTATCAATGCCTGC
Found at i:46327756 original size:30 final size:30
Alignment explanation
Indices: 46327713--46327773 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
46327703 TCCCTAACTC
* *
46327713 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACCTTTCCAAAATTACAATTTTGCCCCT
*
46327743 AAACCTTTCCAAAATTACAATTTTGTCCCT
1 AAACCTTTCCAAAATTACAATTTTGCCCCT
46327773 A
1 A
46327774 GGCTCAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (30 bp):
AAACCTTTCCAAAATTACAATTTTGCCCCT
Found at i:46334131 original size:44 final size:43
Alignment explanation
Indices: 46334033--46334149 Score: 109
Period size: 44 Copynumber: 2.7 Consensus size: 43
46334023 GCCAACGTCT
*
46334033 CAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCC
1 CAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCC
*
46334076 CAAACAG-GGTCTTACACGTAAATCACAA-ATCGATGCCAACAT-T-C
1 CAGAC-GTGGTCTTACACGT-AATCA-AATATCGATGCC-AC-TGTCC
* * *
46334120 GAGACGTGGTCTTACA-ATAATCACATATCG
1 CAGACGTGGTCTTACACGTAATCAAATATCG
46334150 GAATCCTATG
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
41 1 0.02
42 9 0.15
43 17 0.28
44 28 0.46
45 5 0.08
46 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
CAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTGTCC
Found at i:46335253 original size:13 final size:13
Alignment explanation
Indices: 46335235--46335259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46335225 TCAAACGATA
46335235 AAATTTTCACACG
1 AAATTTTCACACG
46335248 AAATTTTCACAC
1 AAATTTTCACAC
46335260 ATATAAATTA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:46340520 original size:48 final size:48
Alignment explanation
Indices: 46340445--46340876 Score: 625
Period size: 48 Copynumber: 9.0 Consensus size: 48
46340435 ACCGTGCTAA
*
46340445 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* * **
46340493 ATGTGCCTGTGTAAGACCATGTATGGGACACGGCATCGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* * ** *
46340541 ATGTGCCCGTGTAAGACCATGTCTAGGATGTGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
46340589 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
46340637 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
*
46340685 ATGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* * * *
46340733 GTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* * *
46340781 GTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
* ** * *
46340829 GTG-GATTCATGTAAGACCATG-CTTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCT-GTGTAAGACCATGTC-TGGGACATGGCATCGGTGATGATAT
46340877 GTGGATTCAT
Statistics
Matches: 350, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 1 0.00
48 349 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
Found at i:46351193 original size:27 final size:27
Alignment explanation
Indices: 46351156--46351359 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
46351146 TAAATTGTAC
*
46351156 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
46351183 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * **
46351210 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
46351236 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
46351264 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
46351292 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
46351318 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
46351345 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
46351360 GACTCAATAT
Statistics
Matches: 155, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 25 0.16
27 107 0.69
28 23 0.15
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:46360081 original size:27 final size:26
Alignment explanation
Indices: 46360044--46360154 Score: 134
Period size: 27 Copynumber: 4.1 Consensus size: 26
46360034 CCATGGCTGG
* *
46360044 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
46360070 CAGATACAGATAATTGTGGCAGAGCCAC
1 CAGA-ACAGATAA-TGTGGCAGAGCCAC
*
46360098 CAGAATAGATATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
*
46360125 CAGATCAGATAATTGTGGC-GTAGCCAC
1 CAGAACAGATAA-TGTGGCAG-AGCCAC
46360152 CAG
1 CAG
46360155 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:46360135 original size:54 final size:54
Alignment explanation
Indices: 46360044--46360154 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
46360034 CCATGGCTGG
*
46360044 CAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATTGTGGCAG-AGCCAC
1 CAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATTGTGGC-GTAGCCAC
* *
46360098 CAGAATAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCGTAGCCAC
1 CAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATTGTGGCGTAGCCAC
46360152 CAG
1 CAG
46360155 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.63
55 18 0.35
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (54 bp):
CAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATTGTGGCGTAGCCAC
Found at i:46360593 original size:16 final size:15
Alignment explanation
Indices: 46360572--46360601 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
46360562 CAAAAAACTG
46360572 GCTTTTCGGCATTTTA
1 GCTTTTCGGC-TTTTA
46360588 GCTTTTCGGCTTTT
1 GCTTTTCGGCTTTT
46360602 GCCGATCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.53
Consensus pattern (15 bp):
GCTTTTCGGCTTTTA
Found at i:46367943 original size:27 final size:27
Alignment explanation
Indices: 46367912--46368016 Score: 144
Period size: 27 Copynumber: 3.9 Consensus size: 27
46367902 GTGCCAGAAT
*
46367912 AGATAATGTGACAGAGCCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
46367939 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
46367966 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
46367993 AGATAATTGTGGC-GTAGCCACCAG
1 AGATAA-TGTGGCAG-AGCCACCAG
46368017 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
26 2 0.03
27 52 0.72
28 18 0.25
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:46367996 original size:54 final size:54
Alignment explanation
Indices: 46367905--46368016 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
46367895 AGCATAGGTG
*
46367905 CCAGAATAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAG-AGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGC-GTAGCCA
* *
46367959 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCGTAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCGTAGCCA
46368013 CCAG
1 CCAG
46368017 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.62
55 19 0.36
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCGTAGCCA
Found at i:46373063 original size:8 final size:8
Alignment explanation
Indices: 46373038--46373068 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
46373028 TCGGCTAAAC
46373038 TTGTGATT
1 TTGTGATT
46373046 TTGTGTATT
1 TTGTG-ATT
46373055 TTGTGATT
1 TTGTGATT
46373063 TTGTGA
1 TTGTGA
46373069 AATAGGGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
TTGTGATT
Found at i:46375289 original size:40 final size:40
Alignment explanation
Indices: 46375235--46375468 Score: 380
Period size: 40 Copynumber: 5.9 Consensus size: 40
46375225 GATATAGGTT
*
46375235 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
46375275 CTCGCACAATTGCCTTCGGGACTTAACCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * * *
46375315 CTCTCACAATTGCCTTCGGGACTTGGCCCGATTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
46375355 CTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
46375395 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
46375435 CTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
46375469 CAATCCGAAT
Statistics
Matches: 181, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 13 0.07
40 168 0.93
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:46378267 original size:24 final size:24
Alignment explanation
Indices: 46378239--46378288 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
46378229 AAAACTAAGC
46378239 ACAAAACATACCATTTGCTAGCCA
1 ACAAAACATACCATTTGCTAGCCA
46378263 ACAAAACATACCATTTGCTAGCCA
1 ACAAAACATACCATTTGCTAGCCA
46378287 AC
1 AC
46378289 TCTCATGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.30, G:0.08, T:0.20
Consensus pattern (24 bp):
ACAAAACATACCATTTGCTAGCCA
Found at i:46380910 original size:39 final size:39
Alignment explanation
Indices: 46380856--46380933 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
46380846 TAGATATAGG
46380856 AATATATAACTCGGCTAATTTATCGAGTGACTAATCAGA
1 AATATATAACTCGGCTAATTTATCGAGTGACTAATCAGA
46380895 AATATATAACTCGGCTAATTTATCGAGTGACTAATCAGA
1 AATATATAACTCGGCTAATTTATCGAGTGACTAATCAGA
46380934 TCGAATCGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (39 bp):
AATATATAACTCGGCTAATTTATCGAGTGACTAATCAGA
Found at i:46398385 original size:27 final size:27
Alignment explanation
Indices: 46398357--46398513 Score: 147
Period size: 27 Copynumber: 5.7 Consensus size: 27
46398347 TGCTATACAA
* *
46398357 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAACTCGCACACTTAGTGCCACATAG
* * *
46398384 TCAAATCGTACACTTAGTGCTACATAG
1 TCAACTCGCACACTTAGTGCCACATAG
* * *
46398411 TTAGACTCGCACACTTAGTGCCGCATGG
1 TCA-ACTCGCACACTTAGTGCCACATAG
* *
46398439 TCAATTCGCACACTATAGTG-CATCATAT
1 TCAACTCGCACACT-TAGTGCCA-CATAG
** *
46398467 TCATTTCGCACACTTAGTGCAACATAG
1 TCAACTCGCACACTTAGTGCCACATAG
46398494 TCGAA-TCGCACACTTAGTGC
1 TC-AACTCGCACACTTAGTGC
46398514 TGTACAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
27 61 0.58
28 44 0.42
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (27 bp):
TCAACTCGCACACTTAGTGCCACATAG
Found at i:46398452 original size:55 final size:54
Alignment explanation
Indices: 46398336--46398514 Score: 179
Period size: 55 Copynumber: 3.3 Consensus size: 54
46398326 ATATTGAGCC
* * *
46398336 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTC-AAT
* * *
46398390 CGTACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAA-T
** *
46398445 CGCACACTATAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACT-TAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTC-AAT
46398500 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46398515 GTACAATTTA
Statistics
Matches: 103, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 23 0.22
55 64 0.62
56 13 0.13
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAT
Found at i:46398457 original size:28 final size:27
Alignment explanation
Indices: 46398336--46398513 Score: 146
Period size: 27 Copynumber: 6.5 Consensus size: 27
46398326 ATATTGAGCC
* *
46398336 CGCACACTCAGTGCTATACA-A-TCAACT
1 CGCACACTTAGTGC-A-ACATAGTCAATT
* * * *
46398363 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCAACATAGTCAATT
* * * *
46398390 CGTACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCAACATAGTCA-ATT
** *
46398418 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAATT
* * *
46398445 CGCACACTATAGTGCATCATATTCATTT
1 CGCACACT-TAGTGCAACATAGTCAATT
46398473 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AATT
46398500 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46398514 TGTACAATTT
Statistics
Matches: 122, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
25 2 0.02
26 1 0.01
27 75 0.61
28 44 0.36
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAATT
Found at i:46406428 original size:27 final size:27
Alignment explanation
Indices: 46406398--46406582 Score: 108
Period size: 27 Copynumber: 6.8 Consensus size: 27
46406388 ATATTGAGCC
* *
46406398 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTATACAATCAAAT
* **
46406425 CGCACACTTAGTGCCATGTAATCAAAT
1 CGCACACTTAGTGCTATACAATCAAAT
* * * * *
46406452 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTATACAATCA-AAT
*** *** *
46406480 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATACAATCAAAT
**
46406507 CGCACACTTAGTGC-AT-CATATTCATTT
1 CGCACACTTAGTGCTATACA-A-TCAAAT
*
46406534 CGCACACTTAGTGC-A-ACATAGTCGAAT
1 CGCACACTTAGTGCTATACA-A-TCAAAT
*
46406561 CGCACACTTAGTGCTGTACAAT
1 CGCACACTTAGTGCTATACAAT
46406583 TTAATCCCGC
Statistics
Matches: 125, Mismatches: 27, Indels: 12
0.76 0.16 0.07
Matches are distributed among these distances:
27 99 0.79
28 23 0.18
29 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATACAATCAAAT
Found at i:46406491 original size:55 final size:55
Alignment explanation
Indices: 46406398--46406575 Score: 181
Period size: 54 Copynumber: 3.3 Consensus size: 55
46406388 ATATTGAGCC
* *
46406398 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCATGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCATGTAGTCAAAT
*
46406452 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATG--GTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTG-C-CATGTAGTCAAAT
** * ** *
46406507 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCATGTAGTCAAAT
46406561 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46406576 GTACAATTTA
Statistics
Matches: 103, Mismatches: 10, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
52 3 0.03
53 2 0.02
54 52 0.50
55 41 0.40
56 1 0.01
57 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCATGTAGTCAAAT
Found at i:46406537 original size:82 final size:81
Alignment explanation
Indices: 46406419--46406574 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
46406409 TGCTATACAA
* * *
46406419 TCAACTCGCACACTTAGTGCCATGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCATATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
46406484 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
46406501 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCAT-ATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
46406565 CACTTAGTGC
65 CACTTAGTGC
46406575 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 21 0.32
82 44 0.68
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCATATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46409238 original size:33 final size:33
Alignment explanation
Indices: 46409201--46409313 Score: 86
Period size: 33 Copynumber: 3.3 Consensus size: 33
46409191 GTAACTAAAT
46409201 TGTGTTTATTTTATGCTTGAATTGAGTGTGGTA
1 TGTGTTTATTTTATGCTTGAATTGAGTGTGGTA
** ** * **
46409234 TGTGTTTATATGAATTATAT-AAGTTCA-TGTAACTAAA
1 TGTGTTTAT-TTTATGCT-TGAA-TTGAGTGT-GGT--A
46409271 TTGTGTTTATTTTATGCTTGAATTGAGTGTGGTA
1 -TGTGTTTATTTTATGCTTGAATTGAGTGTGGTA
46409305 TGTGTTTAT
1 TGTGTTTAT
46409314 ATGAATTATA
Statistics
Matches: 57, Mismatches: 14, Indels: 18
0.64 0.16 0.20
Matches are distributed among these distances:
33 18 0.32
34 10 0.18
35 5 0.09
36 5 0.09
37 10 0.18
38 9 0.16
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.50
Consensus pattern (33 bp):
TGTGTTTATTTTATGCTTGAATTGAGTGTGGTA
Found at i:46409283 original size:71 final size:71
Alignment explanation
Indices: 46409182--46409326 Score: 290
Period size: 71 Copynumber: 2.0 Consensus size: 71
46409172 TTTATTGAGG
46409182 TAAGTTCATGTAACTAAATTGTGTTTATTTTATGCTTGAATTGAGTGTGGTATGTGTTTATATGA
1 TAAGTTCATGTAACTAAATTGTGTTTATTTTATGCTTGAATTGAGTGTGGTATGTGTTTATATGA
46409247 ATTATA
66 ATTATA
46409253 TAAGTTCATGTAACTAAATTGTGTTTATTTTATGCTTGAATTGAGTGTGGTATGTGTTTATATGA
1 TAAGTTCATGTAACTAAATTGTGTTTATTTTATGCTTGAATTGAGTGTGGTATGTGTTTATATGA
46409318 ATTATA
66 ATTATA
46409324 TAA
1 TAA
46409327 ATGTTATAAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.48
Consensus pattern (71 bp):
TAAGTTCATGTAACTAAATTGTGTTTATTTTATGCTTGAATTGAGTGTGGTATGTGTTTATATGA
ATTATA
Found at i:46411508 original size:23 final size:24
Alignment explanation
Indices: 46411482--46411526 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46411472 CAGTACAATT
46411482 TTATA-TAATGAAATTCACAAGAC
1 TTATACTAATGAAATTCACAAGAC
* *
46411505 TTATACTAATTAAGTTCACAAG
1 TTATACTAATGAAATTCACAAG
46411527 CGTTAAACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (24 bp):
TTATACTAATGAAATTCACAAGAC
Found at i:46412695 original size:41 final size:41
Alignment explanation
Indices: 46412623--46412881 Score: 288
Period size: 41 Copynumber: 6.4 Consensus size: 41
46412613 CGTTTGCAAT
* * *
46412623 AAACGCCGCAAAAAACTGAGCAATAGAGGCATTTTTGGTCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
46412664 AAACCCCGCTAAAAACTGAGCAATAGCGGCATGTCTGGTCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * *
46412705 AAACACCACTAAAAACTGAGCAATAGCGGCCTTTTAGGTAC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
** *
46412746 AAACGCCATTAAAAACTGAGCAATAGCAGCGTTTTTGGTCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
** * * * *
46412787 AAACGCCATTAAAAACTAAGCAATAGTGGTGTTTTTGGTCT
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * *
46412828 AAACACAGCTAAAAACTGAGCAATAGTGGCGTTTTT-GTCC
1 AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
46412868 AAACGCCG-TAAAAA
1 AAACGCCGCTAAAAA
46412882 ATTGAGCAGC
Statistics
Matches: 186, Mismatches: 32, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
39 6 0.03
40 9 0.05
41 171 0.92
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (41 bp):
AAACGCCGCTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:46417150 original size:39 final size:39
Alignment explanation
Indices: 46417105--46417226 Score: 192
Period size: 39 Copynumber: 3.1 Consensus size: 39
46417095 TAAGCAAGAC
*
46417105 GCTGGAAATGTATCCGGGCTAAAGACCCGTAGGCTTCGT
1 GCTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGT
*
46417144 GCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGT
1 GCTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGT
* *
46417183 GCTGGAAATGTATCTGGGCTAAAGTCCCTTAGGCCTT-GT
1 GCTGGAAATGTATCCGGGCTAAAGTCCCGTAGG-CTTCGT
46417222 GCTGG
1 GCTGG
46417227 TAACATAATT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 74 0.96
40 3 0.04
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.25
Consensus pattern (39 bp):
GCTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGT
Found at i:46420357 original size:7 final size:7
Alignment explanation
Indices: 46420339--46420372 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
46420329 ATGGCCTTCT
46420339 CTAAACCC
1 CTAAA-CC
46420347 CTAAACC
1 CTAAACC
46420354 CTAAACC
1 CTAAACC
46420361 CTAAACC
1 CTAAACC
*
46420368 ATAAA
1 CTAAA
46420373 TCTTAAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:46420619 original size:14 final size:14
Alignment explanation
Indices: 46420597--46420657 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
46420587 GGTTTGTTAT
46420597 TTTAG-GTTTAGGG
1 TTTAGTGTTTAGGG
**
46420610 TTTAGTGTTTTAAAG
1 TTTAGTG-TTTAGGG
46420625 TTT-GTTGTTTAGGG
1 TTTAG-TGTTTAGGG
*
46420639 TTTAGTGTTTAGGA
1 TTTAGTGTTTAGGG
46420653 TTTAG
1 TTTAG
46420658 AGTCTTGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 5 0.13
14 23 0.59
15 11 0.28
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTAGTGTTTAGGG
Found at i:46420641 original size:36 final size:34
Alignment explanation
Indices: 46420588--46420683 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 34
46420578 ATGGTTTAGG
* *
46420588 GTTTGTTATTTTAGGTTTAGGGTTTAGTGTTTTAAA
1 GTTTGTT-GTTTAGGTTTAGGGTTTAG-GATTTAAA
* *
46420624 GTTTGTTGTTTAGGGTTTAGTGTTTAGGATTTAGA
1 GTTTGTTGTTTA-GGTTTAGGGTTTAGGATTTAAA
46420659 GTCTTG-TGTTTATGGTTTAAGGGTT
1 GT-TTGTTGTTTA-GGTTT-AGGGTT
46420684 AGGGTATTAG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
35 23 0.45
36 28 0.55
ACGTcount: A:0.17, C:0.01, G:0.29, T:0.53
Consensus pattern (34 bp):
GTTTGTTGTTTAGGTTTAGGGTTTAGGATTTAAA
Found at i:46420686 original size:35 final size:33
Alignment explanation
Indices: 46420588--46420686 Score: 83
Period size: 35 Copynumber: 2.8 Consensus size: 33
46420578 ATGGTTTAGG
* *
46420588 GTTTGTTATTTTAGGTTTAGGGTTTAGTGTTTTAAA
1 GTTTGTT-GTTTAGGTTTAGGG-TTAG-GATTTAAA
* *
46420624 GTTTGTTGTTTAGGGTTTAGTGTTTAGGATTTAGA
1 GTTTGTTGTTTA-GGTTTAG-GGTTAGGATTTAAA
46420659 GTCTTG-TGTTTATGGTTTAAGGGTTAGG
1 GT-TTGTTGTTTA-GGTTT-AGGGTTAGG
46420687 GTATTAGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
35 29 0.55
36 23 0.43
37 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.30, T:0.52
Consensus pattern (33 bp):
GTTTGTTGTTTAGGTTTAGGGTTAGGATTTAAA
Found at i:46420703 original size:8 final size:7
Alignment explanation
Indices: 46420631--46420709 Score: 56
Period size: 7 Copynumber: 11.1 Consensus size: 7
46420621 AAAGTTTGTT
46420631 GTTTAGG
1 GTTTAGG
*
46420638 GTTTAGT
1 GTTTAGG
46420645 GTTTAGG
1 GTTTAGG
* *
46420652 ATTTAGA
1 GTTTAGG
*
46420659 GTCTT-GT
1 GT-TTAGG
*
46420666 GTTTATG
1 GTTTAGG
46420673 GTTTAAGG
1 GTTT-AGG
46420681 G-TTAGG
1 GTTTAGG
46420687 GTATTAGG
1 GT-TTAGG
46420695 GTTTAAGG
1 GTTT-AGG
46420703 G-TTAGG
1 GTTTAGG
46420709 G
1 G
46420710 ATTTTGATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 13
0.72 0.11 0.16
Matches are distributed among these distances:
6 10 0.18
7 31 0.54
8 16 0.28
ACGTcount: A:0.19, C:0.01, G:0.37, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:46425049 original size:27 final size:26
Alignment explanation
Indices: 46425001--46425060 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
46424991 TCATGGCTAC
*
46425001 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
46425028 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
46425054 CAAATAT
1 CAGATAT
46425061 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46425826 original size:27 final size:26
Alignment explanation
Indices: 46425793--46425948 Score: 188
Period size: 27 Copynumber: 5.8 Consensus size: 26
46425783 TTACCCCACA
* * *
46425793 AGGGTATCTCGATAATTCTGCCTTAC
1 AGGGTATTTCGGTAATTCTACCTTAC
*
46425819 AGGTGTATTTCAGTAATTCTACCTTAC
1 AGG-GTATTTCGGTAATTCTACCTTAC
*
46425846 AAGGGTATTTCGGTAATTATATCC-TAC
1 -AGGGTATTTCGGTAATTCTA-CCTTAC
* *
46425873 AGGGGCATTTCGGTAATTCTACCCTAC
1 A-GGGTATTTCGGTAATTCTACCTTAC
46425900 AGGGGTATTTCGGTAATTCTACCTTAC
1 A-GGGTATTTCGGTAATTCTACCTTAC
46425927 AAGGGTATTTCGGTAATTCTAC
1 -AGGGTATTTCGGTAATTCTAC
46425949 AACTTATCCA
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
26 6 0.05
27 102 0.89
28 6 0.05
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTCTACCTTAC
Done.