Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 42 of 66
Found at i:15161561 original size:27 final size:28
Alignment explanation
Indices: 15161531--15161583 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
15161521 TCGAAGTATA
*
15161531 GGGGCAAAATCG-TAATTTTTTCACCTT
1 GGGGCAAAATCGATAAATTTTTCACCTT
*
15161558 GGGGGAAAATCGATAAATTTTTCACC
1 GGGGCAAAATCGATAAATTTTTCACC
15161584 CCAGCACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (28 bp):
GGGGCAAAATCGATAAATTTTTCACCTT
Found at i:15162330 original size:38 final size:39
Alignment explanation
Indices: 15162288--15162390 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
15162278 ATAGTGCCCG
*
15162288 TGTGCACGATGTGGGGGGATGTACACGAT-AGCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGAGC-CGGATA
* * * * *
15162326 TGTGCACGATGTTGGGGGATGCACATGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGAT-GAGCCGGATA
15162366 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
15162391 TGAGCCGGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 26 0.48
39 3 0.06
40 25 0.46
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGTACACGATGAGCCGGATA
Found at i:15163958 original size:28 final size:27
Alignment explanation
Indices: 15163927--15163988 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
15163917 TTTATGGGAA
15163927 CAAGCATAAGCAATC-CCTTTTGAAGGAT
1 CAAGCATAA-C-ATCACCTTTTGAAGGAT
*
15163955 CAAGCATAACCTCAACCTTTTGAAGGAT
1 CAAGCATAACATC-ACCTTTTGAAGGAT
*
15163983 TAAGCA
1 CAAGCA
15163989 AAACCTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 1 0.03
28 27 0.90
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (27 bp):
CAAGCATAACATCACCTTTTGAAGGAT
Found at i:15163993 original size:28 final size:30
Alignment explanation
Indices: 15163942--15164026 Score: 95
Period size: 28 Copynumber: 2.9 Consensus size: 30
15163932 ATAAGCAATC
* *
15163942 CCTTTTGAAGGATCAAGCATAACCTCA-A-
1 CCTTTTGAAGGATTAAGCAAAACCTCATAG
15163970 CCTTTTGAAGGATTAAGCAAAACCT-ATATG
1 CCTTTTGAAGGATTAAGCAAAACCTCATA-G
* * *
15164000 CCTTTTCAAGGAGTAAACAAAACCTCA
1 CCTTTTGAAGGATTAAGCAAAACCTCA
15164027 GTCTTTTCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
27 1 0.02
28 24 0.50
30 22 0.46
31 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (30 bp):
CCTTTTGAAGGATTAAGCAAAACCTCATAG
Found at i:15166588 original size:73 final size:73
Alignment explanation
Indices: 15166501--15166710 Score: 255
Period size: 73 Copynumber: 2.9 Consensus size: 73
15166491 CTAGTTTCAG
* * *
15166501 GCAGTAAGCT-CTTAGTCAACAAATGATTTCTCTTAGTCGATTAAGTCAATTCTGTTTCTGAACT
1 GCAGTAAG-TACTTAGTCAACTAACGATTTCTCTTAGTCGATTAAGTCAATTCTATTTCTGAACT
15166565 TGG-TTTCTA
65 TGGCTTT-TA
** *
15166574 GCAGTAAGTACTTAGTCAACTAACGATTTCTCTTAGTCGATTAAGTCGGTTCTATTTTTGAACTT
1 GCAGTAAGTACTTAGTCAACTAACGATTTCTCTTAGTCGATTAAGTCAATTCTATTTCTGAACTT
*
15166639 GGCTTTTG
66 GGCTTTTA
* * * * * *
15166647 GCAGTAAGCACTTAGTCGACTAACAATATCTCTTAGTCGATTAAGT-AGGTTCTATTTTTGAACT
1 GCAGTAAGTACTTAGTCAACTAACGATTTCTCTTAGTCGATTAAGTCA-ATTCTATTTCTGAACT
15166711 GGCCATCTTC
Statistics
Matches: 122, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
72 1 0.01
73 118 0.97
74 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (73 bp):
GCAGTAAGTACTTAGTCAACTAACGATTTCTCTTAGTCGATTAAGTCAATTCTATTTCTGAACTT
GGCTTTTA
Found at i:15171392 original size:2 final size:2
Alignment explanation
Indices: 15171385--15171424 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15171375 NNNNNNNNNN
15171385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15171425 CAATCATCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15171494 original size:42 final size:42
Alignment explanation
Indices: 15171448--15171612 Score: 127
Period size: 42 Copynumber: 3.9 Consensus size: 42
15171438 CACCCTCCCA
* * *
15171448 TCATCATCAGCTCATATGCACTCCTACTAGCACATGGCTGGG
1 TCATCATCAGCTCATACGCACTCCTACTAGCACATAGCCGGG
* * * *
15171490 TCATCATCGGCTTATGCGCACTCCTACTCGCACATAGCCGGG
1 TCATCATCAGCTCATACGCACTCCTACTAGCACATAGCCGGG
* * * * * *
15171532 TCAACATCGGCTTATGA-GCACT-CTCATTCGCACATAGCCAGG
1 TCATCATCAGCTCAT-ACGCACTCCT-ACTAGCACATAGCCGGG
* * * * * *
15171574 TCAGCAGCGGCTTATGCGCACTCCTACTCGCACATAGCC
1 TCATCATCAGCTCATACGCACTCCTACTAGCACATAGCC
15171613 TTGTCAATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.02
42 100 0.96
43 2 0.02
ACGTcount: A:0.22, C:0.34, G:0.20, T:0.24
Consensus pattern (42 bp):
TCATCATCAGCTCATACGCACTCCTACTAGCACATAGCCGGG
Found at i:15175763 original size:20 final size:20
Alignment explanation
Indices: 15175738--15175851 Score: 228
Period size: 20 Copynumber: 5.7 Consensus size: 20
15175728 AAATTTTTGA
15175738 AATAAAATAATATTTTATTC
1 AATAAAATAATATTTTATTC
15175758 AATAAAATAATATTTTATTC
1 AATAAAATAATATTTTATTC
15175778 AATAAAATAATATTTTATTC
1 AATAAAATAATATTTTATTC
15175798 AATAAAATAATATTTTATTC
1 AATAAAATAATATTTTATTC
15175818 AATAAAATAATATTTTATTC
1 AATAAAATAATATTTTATTC
15175838 AATAAAATAATATT
1 AATAAAATAATATT
15175852 NNNNNNNNNN
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 94 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
AATAAAATAATATTTTATTC
Found at i:15177149 original size:22 final size:22
Alignment explanation
Indices: 15177107--15177150 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15177097 GGAAAGAAAT
*
15177107 AGAGGAAGCCACTATGATGAAG
1 AGAGGAAGCCACGATGATGAAG
* *
15177129 AGAGGAAGCCACGGTGGTGAAG
1 AGAGGAAGCCACGATGATGAAG
15177151 GGAGTGACGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.39, T:0.11
Consensus pattern (22 bp):
AGAGGAAGCCACGATGATGAAG
Found at i:15177205 original size:5 final size:5
Alignment explanation
Indices: 15177195--15177229 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
15177185 GAAGAGAGAA
15177195 AAAAG AAAAG AAAAG AAAAG AAAAG AAATAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG AAAA
15177230 TAAATGGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:15177234 original size:11 final size:11
Alignment explanation
Indices: 15177195--15177234 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
15177185 GAAGAGAGAA
15177195 AAAAGAAA-AG
1 AAAAGAAATAG
15177205 AAAAGAAA-AG
1 AAAAGAAATAG
15177215 AAAAGAAATAG
1 AAAAGAAATAG
*
15177226 AAAATAAAT
1 AAAAGAAAT
15177235 GGGCTTAGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (11 bp):
AAAAGAAATAG
Found at i:15183975 original size:22 final size:22
Alignment explanation
Indices: 15183933--15183976 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15183923 GGAAAGAAAT
*
15183933 AGAGGAAGCCACTATGATGAAG
1 AGAGGAAGCCACGATGATGAAG
* *
15183955 AGAGGAAGCCACGGTGGTGAAG
1 AGAGGAAGCCACGATGATGAAG
15183977 GGAGTGACGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.39, T:0.11
Consensus pattern (22 bp):
AGAGGAAGCCACGATGATGAAG
Found at i:15184031 original size:5 final size:5
Alignment explanation
Indices: 15184021--15184055 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
15184011 GAAGAGAGAA
15184021 AAAAG AAAAG AAAAG AAAAG AAAAG AAATAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG AAAA
15184056 TAAATGGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:15184060 original size:11 final size:11
Alignment explanation
Indices: 15184021--15184060 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
15184011 GAAGAGAGAA
15184021 AAAAGAAA-AG
1 AAAAGAAATAG
15184031 AAAAGAAA-AG
1 AAAAGAAATAG
15184041 AAAAGAAATAG
1 AAAAGAAATAG
*
15184052 AAAATAAAT
1 AAAAGAAAT
15184061 GGGCTTAGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (11 bp):
AAAAGAAATAG
Found at i:15189885 original size:34 final size:34
Alignment explanation
Indices: 15189847--15189979 Score: 151
Period size: 34 Copynumber: 3.9 Consensus size: 34
15189837 CATAACATTT
* *** *
15189847 ACAATGCCATTTTACGAGCTCAAGCATAACCCTA
1 ACAATGCCTTTTTACGAAAGCAAGCACAACCCTA
*
15189881 ACAATGCCTTTTTACGAAAGCAAGCACAACCTTA
1 ACAATGCCTTTTTACGAAAGCAAGCACAACCCTA
* * *
15189915 ACAATGCCTTTTTACGACAGCAAGCACAAACCTC
1 ACAATGCCTTTTTACGAAAGCAAGCACAACCCTA
* *
15189949 ACAATGCCTTTTTGC-AAGACCAAGCACAACC
1 ACAATGCCTTTTTACGAA-AGCAAGCACAACC
15189980 TACACTAACT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
33 1 0.01
34 83 0.99
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (34 bp):
ACAATGCCTTTTTACGAAAGCAAGCACAACCCTA
Found at i:15189956 original size:68 final size:68
Alignment explanation
Indices: 15189847--15189980 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 68
15189837 CATAACATTT
* * * *
15189847 ACAATGCCATTTTACGAGCTCAAGCATAACCCTAACAATGCCTTTTTACGAA-AGCAAGCACAAC
1 ACAATGCCATTTTACGAGCGCAAGCACAAACCTAACAATGCCTTTTTAC-AAGACCAAGCACAAC
15189911 CTTA
65 CTTA
* * *
15189915 ACAATGCCTTTTTACGA-CAGCAAGCACAAACCTCACAATGCCTTTTTGCAAGACCAAGCACAAC
1 ACAATGCCATTTTACGAGC-GCAAGCACAAACCTAACAATGCCTTTTTACAAGACCAAGCACAAC
15189979 CT
65 CT
15189981 ACACTAACTT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
67 3 0.05
68 54 0.95
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (68 bp):
ACAATGCCATTTTACGAGCGCAAGCACAAACCTAACAATGCCTTTTTACAAGACCAAGCACAACC
TTA
Found at i:15194257 original size:41 final size:41
Alignment explanation
Indices: 15194192--15194273 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
15194182 GTAATTTAAA
*
15194192 GACTGATCAGATCAAAGGAGTGATCTTTGG-TAGATTTCATG
1 GACTGATCAGATCAAAGGAATGATCTTTGGCT-GATTTCATG
*
15194233 GACTGATCAGATCAAGGGAATGATCTTTGGCTGATTTCATG
1 GACTGATCAGATCAAAGGAATGATCTTTGGCTGATTTCATG
15194274 CTTGACAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 37 0.97
42 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (41 bp):
GACTGATCAGATCAAAGGAATGATCTTTGGCTGATTTCATG
Found at i:15195998 original size:38 final size:40
Alignment explanation
Indices: 15195912--15196014 Score: 147
Period size: 38 Copynumber: 2.6 Consensus size: 40
15195902 ACCCGGCTCA
*
15195912 TGTACATCCCCCCACATCGTGCACATAGCCGGCGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
* * *
15195952 TGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
*
15195990 TGTACATCCCCCCACATTGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
15196015 CAGGCACTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 32 0.56
39 1 0.02
40 24 0.42
ACGTcount: A:0.21, C:0.41, G:0.17, T:0.20
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
Found at i:15213246 original size:20 final size:20
Alignment explanation
Indices: 15213223--15213260 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15213213 CCTTCATGCT
*
15213223 CCCAATGCCATTTTCACCCA
1 CCCAAGGCCATTTTCACCCA
15213243 CCCAAGGCCATTTTCACC
1 CCCAAGGCCATTTTCACC
15213261 TCGCCACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.45, G:0.08, T:0.24
Consensus pattern (20 bp):
CCCAAGGCCATTTTCACCCA
Found at i:15214443 original size:35 final size:36
Alignment explanation
Indices: 15214407--15214476 Score: 95
Period size: 37 Copynumber: 1.9 Consensus size: 36
15214397 GCATGTAATG
15214407 ATATTAAAATGTGCGTGTAAAGAGTGCACATGATGA
1 ATATTAAAATGTGCGTGTAAAGAGTGCACATGATGA
* * **
15214443 TATATTGAAGTGTGCGTGTAGGGAGTGCACATGA
1 -ATATTAAAATGTGCGTGTAAAGAGTGCACATGA
15214477 GCTGAGTAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (36 bp):
ATATTAAAATGTGCGTGTAAAGAGTGCACATGATGA
Found at i:15215058 original size:2 final size:2
Alignment explanation
Indices: 15215042--15215090 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
15215032 TTGGGGATGT
*
15215042 TA TA CA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15215083 TA TA TA TA
1 TA TA TA TA
15215091 CTTGGTTTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15215128 original size:2 final size:2
Alignment explanation
Indices: 15215121--15215155 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15215111 NNNNNNNNNN
15215121 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15215156 GTACACTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15234229 original size:77 final size:77
Alignment explanation
Indices: 15234118--15234281 Score: 249
Period size: 77 Copynumber: 2.1 Consensus size: 77
15234108 AATGCCATCT
* *
15234118 ATTTTAATTTTGGGTGATTCATAAAAATTAGAAAATTATTTCCTACTTAAAAAGCAATTCCTAAA
1 ATTTTAATTTTGGGTGATTCATAAAAATGAGAAAATTATTTCCTACTTAAAAAGAAATTCCTAAA
15234183 ATTAAGGATAGA
66 ATTAAGGATAGA
* * * *
15234195 ATTTTAATTTTGGGTGATTCATAAAGAA-GAGAAAATTGTTTTCTACTTTAAAAGAAATTTCTAA
1 ATTTTAATTTTGGGTGATTCATAAA-AATGAGAAAATTATTTCCTACTTAAAAAGAAATTCCTAA
*
15234259 AATTAAGGATAGT
65 AATTAAGGATAGA
15234272 ATTTTAATTT
1 ATTTTAATTT
15234282 GAGAAATTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
77 77 0.97
78 2 0.03
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.40
Consensus pattern (77 bp):
ATTTTAATTTTGGGTGATTCATAAAAATGAGAAAATTATTTCCTACTTAAAAAGAAATTCCTAAA
ATTAAGGATAGA
Found at i:15234327 original size:71 final size:74
Alignment explanation
Indices: 15234147--15234330 Score: 205
Period size: 77 Copynumber: 2.5 Consensus size: 74
15234137 CATAAAAATT
* * * * **
15234147 AGAAAATTA-TTTCCTACTTAAAAAGCAATTCCTAAAATTAAGGATAGAATTTTAATTTTGGGTG
1 AGAAAA-TAGTTTCCTACTTTAAAAGAAATTTCTAAAATTAAGGATAGAATTTTAATTTTGAGAA
15234211 ATTCATAAAGAAG
65 ATTCAT--A-AAG
* * *
15234224 AGAAAATTGTTTTCTACTTTAAAAGAAATTTCTAAAATTAAGGATAGTATTTTAA-TTTGAGAAA
1 AGAAAATAGTTTCCTACTTTAAAAGAAATTTCTAAAATTAAGGATAGAATTTTAATTTTGAGAAA
15234288 TTCAT-AAG
66 TTCATAAAG
* *
15234296 A-AATATAGTTTCCTACTTTAGAAGAAATTTCTAAA
1 AGAAAATAGTTTCCTACTTTAAAAGAAATTTCTAAA
15234331 GAAAAGTTAT
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
71 30 0.32
72 4 0.04
76 12 0.13
77 47 0.51
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.36
Consensus pattern (74 bp):
AGAAAATAGTTTCCTACTTTAAAAGAAATTTCTAAAATTAAGGATAGAATTTTAATTTTGAGAAA
TTCATAAAG
Found at i:15234986 original size:18 final size:18
Alignment explanation
Indices: 15234959--15234994 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15234949 CACCTAACTC
*
15234959 TCCTCGAATGTCACTCAA
1 TCCTCAAATGTCACTCAA
15234977 TCCTCAAATGTCACTCAA
1 TCCTCAAATGTCACTCAA
15234995 GATTTCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (18 bp):
TCCTCAAATGTCACTCAA
Found at i:15239126 original size:53 final size:52
Alignment explanation
Indices: 15239046--15239151 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 52
15239036 ACACAAAATT
15239046 TTTTACTTCATTTTCAAAAAAAGGGAAATGAAAATATTTAAATATTATTTAA
1 TTTTACTTCATTTTCAAAAAAAGGGAAATGAAAATATTTAAATATTATTTAA
15239098 NTTTTACTTCATTTTCAAAAAAAGGGAAATGAAAATATTTAAATATTATTTAA
1 -TTTTACTTCATTTTCAAAAAAAGGGAAATGAAAATATTTAAATATTATTTAA
15239151 T
1 T
15239152 ATATTAATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 1 0.02
53 52 0.98
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (52 bp):
TTTTACTTCATTTTCAAAAAAAGGGAAATGAAAATATTTAAATATTATTTAA
Found at i:15239219 original size:45 final size:45
Alignment explanation
Indices: 15239159--15239252 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
15239149 AATATATTAA
* * * *
15239159 TATTATTTCACTATAATAAATATTATAAAGCATATTACTTAATAT
1 TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
* * * *
15239204 TATTATTTGAATATAATAAATGTAACAAAGAATATTATTTAGTAT
1 TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
15239249 TATT
1 TATT
15239253 TAAATTTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (45 bp):
TATTATTTCAATATAATAAATATAACAAAGAATATTACTTAATAT
Found at i:15240566 original size:43 final size:43
Alignment explanation
Indices: 15240496--15240614 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 43
15240486 GTAATTATAT
* *
15240496 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GA
1 TGACCCGGCTATGTGCGAGTAGAGAGTGCGCATAA-CCAAGTGA
* *
15240539 TGACCCGGTTATGTGCGAGTAGAGAGTGCGCATAACCCAGTGA
1 TGACCCGGCTATGTGCGAGTAGAGAGTGCGCATAACCAAGTGA
*** * *
15240582 TGACGTAGCCATGTACGAGTAGAGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGAGAGTGCGCAT
15240615 GAGCTGGTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 4 0.06
43 61 0.94
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.20
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGAGAGTGCGCATAACCAAGTGA
Found at i:15240649 original size:19 final size:19
Alignment explanation
Indices: 15240619--15240673 Score: 101
Period size: 19 Copynumber: 2.8 Consensus size: 19
15240609 GCGCATGAGC
15240619 TGGTGATGATGATGATGGGA
1 TGGTG-TGATGATGATGGGA
15240639 TGGTGTGATGATGATGGGA
1 TGGTGTGATGATGATGGGA
15240658 TGGTGTGATGATGATG
1 TGGTGTGATGATGATG
15240674 ATGGGTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 30 0.86
20 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (19 bp):
TGGTGTGATGATGATGGGA
Found at i:15241087 original size:39 final size:39
Alignment explanation
Indices: 15241027--15241270 Score: 317
Period size: 39 Copynumber: 6.3 Consensus size: 39
15241017 ACATTCTCGT
* * * * * *
15241027 TGCAGCGATAAACTTTTTGTTTTTAGGTTACAATTTCAC
1 TGCAGCGAGAAACATTCTGTTTCTGGGTTACAATTTCGC
*
15241066 TGCAGTGAGAAACATTCTGTTTCTGGGTTACAATTTCGC
1 TGCAGCGAGAAACATTCTGTTTCTGGGTTACAATTTCGC
* *
15241105 TGCAGCGAGAAACTTTTTGTTTCTGGGTTACAATTTCGC
1 TGCAGCGAGAAACATTCTGTTTCTGGGTTACAATTTCGC
* *
15241144 TGCAGCGAGAAACATTATGTTTCTGGTTTACAATTTCGC
1 TGCAGCGAGAAACATTCTGTTTCTGGGTTACAATTTCGC
* *
15241183 TGCAGTGAGAAACATTGTGTTTCTGGGTTACAATTTCGC
1 TGCAGCGAGAAACATTCTGTTTCTGGGTTACAATTTCGC
* * ** *
15241222 TGTAGCGAGAAACTTTCTGTTTCTGGGTTGTAATTTCAC
1 TGCAGCGAGAAACATTCTGTTTCTGGGTTACAATTTCGC
*
15241261 TGCAACGAGA
1 TGCAGCGAGA
15241271 TTGAATTTCG
Statistics
Matches: 180, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 180 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (39 bp):
TGCAGCGAGAAACATTCTGTTTCTGGGTTACAATTTCGC
Found at i:15241233 original size:117 final size:117
Alignment explanation
Indices: 15241027--15241270 Score: 364
Period size: 117 Copynumber: 2.1 Consensus size: 117
15241017 ACATTCTCGT
* * * *
15241027 TGCAGCGATAAACTTTTTGTTTTTAGGTTACAATTTCACTGCAGTGAGAAACATTCTGTTTCTGG
1 TGCAGCGAGAAACATTATGTTTCTAGGTTACAATTTCACTGCAGTGAGAAACATTCTGTTTCTGG
* *
15241092 GTTACAATTTCGCTGCAGCGAGAAACTTTTTGTTTCTGGGTTACAATTTCGC
66 GTTACAATTTCGCTGCAGCGAGAAACTTTCTGTTTCTGGGTTACAATTTCAC
* *
15241144 TGCAGCGAGAAACATTATGTTTCT-GGTTTACAATTTCGCTGCAGTGAGAAACATTGTGTTTCTG
1 TGCAGCGAGAAACATTATGTTTCTAGG-TTACAATTTCACTGCAGTGAGAAACATTCTGTTTCTG
* **
15241208 GGTTACAATTTCGCTGTAGCGAGAAACTTTCTGTTTCTGGGTTGTAATTTCAC
65 GGTTACAATTTCGCTGCAGCGAGAAACTTTCTGTTTCTGGGTTACAATTTCAC
*
15241261 TGCAACGAGA
1 TGCAGCGAGA
15241271 TTGAATTTCG
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 2 0.02
117 112 0.98
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (117 bp):
TGCAGCGAGAAACATTATGTTTCTAGGTTACAATTTCACTGCAGTGAGAAACATTCTGTTTCTGG
GTTACAATTTCGCTGCAGCGAGAAACTTTCTGTTTCTGGGTTACAATTTCAC
Found at i:15241716 original size:39 final size:39
Alignment explanation
Indices: 15241662--15241751 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 39
15241652 AAATACATTC
* *
15241662 TCGCTGGAGCGAGAAACATTCTATTTCTGGGTTACAATT
1 TCGCTGCAGCGAGAAACATTCTATTTCTAGGTTACAATT
* *
15241701 TCGCTGCAGCGAGAAACATTCTGTTTCTAGGTTATAATT
1 TCGCTGCAGCGAGAAACATTCTATTTCTAGGTTACAATT
*
15241740 TCCCTGCAGCGA
1 TCGCTGCAGCGA
15241752 CATTGAAACT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (39 bp):
TCGCTGCAGCGAGAAACATTCTATTTCTAGGTTACAATT
Found at i:15242024 original size:21 final size:21
Alignment explanation
Indices: 15241960--15242024 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
15241950 AATCCCAACG
15241960 TCGCTGCAGCG-GAAAAGCATTC
1 TCGCTGCAGCGAG-AAA-CATTC
* *
15241982 TCGTTGCAGC-AAAATACATTC
1 TCGCTGCAGCGAGAA-ACATTC
*
15242003 TCGCTGCAGCGAGAAACTTTC
1 TCGCTGCAGCGAGAAACATTC
15242024 T
1 T
15242025 GTTTCTGGCT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 22 0.63
22 13 0.37
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (21 bp):
TCGCTGCAGCGAGAAACATTC
Found at i:15242257 original size:302 final size:302
Alignment explanation
Indices: 15241701--15242286 Score: 958
Period size: 302 Copynumber: 1.9 Consensus size: 302
15241691 GGTTACAATT
*
15241701 TCGCTGCAGCGAGAAACATTCTGTTTCTAGGTTATAATTTCCCTGCAGCGACATTGAAACTCGCT
1 TCGCTGCAGCGAGAAACATTCTGTTTCTAGGTTATAATTTCCCTGCAACGACATTGAAACTCGCT
** *
15241766 GCAGCAAAAAACTTTCTATTTTGGTATCCTATCTTGTCCAATTGTTGACCTATCTTTCACTACTT
66 GCAGCAAAAAACTTTCTATTTTGGTATCCTATCTTGTCCAATTCCTAACCTATCTTTCACTACTT
*
15241831 TGCTACCATATCGGAGCATGGACTTCCAACATTAAGGATTAAATGAGTTAAGTTTAAAATGACGA
131 TCCTACCATATCGGAGCATGGACTTCCAACATTAAGGATTAAATGAGTTAAGTTTAAAATGACGA
* *
15241896 GGTTTAGTAAGAAATCCTCGGCCTGTTGAGAAACCCTCGTTCGGTAAATAACCAAATCCCAACGT
196 GGTTTAGTAAGAAATCCTCGACCAGTTGAGAAACCCTCGTTCGGTAAATAACCAAATCCCAACGT
15241961 CGCTGCAGCGGAAAAGCATTCTCGTTGCAGCAAAATACATTC
261 CGCTGCAGCGGAAAAGCATTCTCGTTGCAGCAAAATACATTC
* * * * **
15242003 TCGCTGCAGCGAGAAACTTTCTGTTTCT-GGCTTGTAATTTCGCTGCAACGAGATTGAATTTCGC
1 TCGCTGCAGCGAGAAACATTCTGTTTCTAGG-TTATAATTTCCCTGCAACGACATTGAAACTCGC
* *
15242067 TGCAGCGAAAAACTTTCTGTTTTGGTATCCTATCTTGTCCAATTCCTAACCTATCTTTCACTACT
65 TGCAGCAAAAAACTTTCTATTTTGGTATCCTATCTTGTCCAATTCCTAACCTATCTTTCACTACT
*
15242132 TTCCTACCATATCGGAGCATGGACTTCCAACATTAAGGATTAAATGAGTTAAGTTTAAAATGAGG
130 TTCCTACCATATCGGAGCATGGACTTCCAACATTAAGGATTAAATGAGTTAAGTTTAAAATGACG
* * * *
15242197 AGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACCCTCGTTCGGTTAATAGCTAAATCCCAACG
195 AGGTTTAGTAAGAAATCCTCGACCAGTTGAGAAACCCTCGTTCGGTAAATAACCAAATCCCAACG
* *
15242262 TCGTTGCAGCGGAAAGGCATTCTCG
260 TCGCTGCAGCGGAAAAGCATTCTCG
15242287 CTGCTGCGAT
Statistics
Matches: 261, Mismatches: 22, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
301 2 0.01
302 259 0.99
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (302 bp):
TCGCTGCAGCGAGAAACATTCTGTTTCTAGGTTATAATTTCCCTGCAACGACATTGAAACTCGCT
GCAGCAAAAAACTTTCTATTTTGGTATCCTATCTTGTCCAATTCCTAACCTATCTTTCACTACTT
TCCTACCATATCGGAGCATGGACTTCCAACATTAAGGATTAAATGAGTTAAGTTTAAAATGACGA
GGTTTAGTAAGAAATCCTCGACCAGTTGAGAAACCCTCGTTCGGTAAATAACCAAATCCCAACGT
CGCTGCAGCGGAAAAGCATTCTCGTTGCAGCAAAATACATTC
Found at i:15243091 original size:422 final size:422
Alignment explanation
Indices: 15242307--15243132 Score: 1490
Period size: 422 Copynumber: 2.0 Consensus size: 422
15242297 AAACTCCCGG
15242307 GTTTTGAAAGGGTAGGCTAGCCGAAAACTCGCTGCAGCGAGGATGCATTTTCGTCACAGCGAGAA
1 GTTTTGAAAGGGTAGGCTAGCCGAAAACTCGCTGCAGCGAGGATGCATTTTCGTCACAGCGAGAA
* *
15242372 TGGCACTGTAGCTTCTCGCTGAAGCAAAATATATTCTCGCTGCAACGAGAAACTTTCTGTTTTTG
66 TGACACTGTAGCTTCTCGCTGAAGCAAAATATATTCTCGCTGCAACGAGAAACTTTCTGTTTCTG
* *
15242437 GGTTGTAATTTCGCTGCAACGAGATTGAATTTCGCTACAGCGAGAAACATTCTGTTTCTGGGTTA
131 GGTTATAATTTCGCTGCAACGACATTGAATTTCGCTACAGCGAGAAACATTCTGTTTCTGGGTTA
*
15242502 CAATCTCGCTGCAGTGAAAAACTTTCTGTTTTGGTATCCTATCTTATCCAATTGCTGACCTATCT
196 CAATCTCGCTGCAGCGAAAAACTTTCTGTTTTGGTATCCTATCTTATCCAATTGCTGACCTATCT
*
15242567 TTCACTACTTTGCTACCATATCGGAGCATGGACTTCTAACATTAAGGATTAAATGAGTTAAGTTT
261 TTCACTACTTTGCTACCATATCGGAGCATGGACTTCCAACATTAAGGATTAAATGAGTTAAGTTT
*
15242632 AAAAGGAGGAGGTTTAGTGAGAATTCCTCGACCAGTTGAGAAACCATCGTTCGGTTAATAGCTAA
326 AAAAGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACCATCGTTCGGTTAATAGCTAA
*
15242697 ATCTCAACGTCGCTACAGCGAGAAACTCTTAA
391 ATCCCAACGTCGCTACAGCGAGAAACTCTTAA
* * * *
15242729 GTTTTGAAAGGGTAGGCTGGCTGAAAACTCGTTGCAGCGAGGATGCATTTTCGTCGCAGCGAGAA
1 GTTTTGAAAGGGTAGGCTAGCCGAAAACTCGCTGCAGCGAGGATGCATTTTCGTCACAGCGAGAA
* ** *
15242794 TGACACTGTAGCTTCTCGCTGCAGTGAATTATATTCTCGCTGCAACGAGAAACTTTCTGTTTCTG
66 TGACACTGTAGCTTCTCGCTGAAGCAAAATATATTCTCGCTGCAACGAGAAACTTTCTGTTTCTG
*
15242859 GGTTATAATTTCGCTGCAACGACATTGAATTTCGCTGCAGCGAGAAACATTCTGTTTCTGGGTTA
131 GGTTATAATTTCGCTGCAACGACATTGAATTTCGCTACAGCGAGAAACATTCTGTTTCTGGGTTA
15242924 CAATCTCGCTGCAGCGAAAAACTTTCTGTTTTGGTATCCTATCTTATCCAATTGCTGACCTATCT
196 CAATCTCGCTGCAGCGAAAAACTTTCTGTTTTGGTATCCTATCTTATCCAATTGCTGACCTATCT
15242989 TTCACTACTTTGCTACCATATCGGAGCATGGACTTCCAACATTAAGGATTAAATGAGTTAAGTTT
261 TTCACTACTTTGCTACCATATCGGAGCATGGACTTCCAACATTAAGGATTAAATGAGTTAAGTTT
*
15243054 AAAAGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACCCTCGTTCGGTTAATAGCTAA
326 AAAAGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACCATCGTTCGGTTAATAGCTAA
15243119 ATCCCAACGTCGCT
391 ATCCCAACGTCGCT
15243133 NNNNNNNNNN
Statistics
Matches: 386, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
422 386 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (422 bp):
GTTTTGAAAGGGTAGGCTAGCCGAAAACTCGCTGCAGCGAGGATGCATTTTCGTCACAGCGAGAA
TGACACTGTAGCTTCTCGCTGAAGCAAAATATATTCTCGCTGCAACGAGAAACTTTCTGTTTCTG
GGTTATAATTTCGCTGCAACGACATTGAATTTCGCTACAGCGAGAAACATTCTGTTTCTGGGTTA
CAATCTCGCTGCAGCGAAAAACTTTCTGTTTTGGTATCCTATCTTATCCAATTGCTGACCTATCT
TTCACTACTTTGCTACCATATCGGAGCATGGACTTCCAACATTAAGGATTAAATGAGTTAAGTTT
AAAAGGAGGAGGTTTAGTGAGAAATCCTCGACCAGTTGAGAAACCATCGTTCGGTTAATAGCTAA
ATCCCAACGTCGCTACAGCGAGAAACTCTTAA
Found at i:15251324 original size:23 final size:22
Alignment explanation
Indices: 15251268--15251341 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
15251258 TTTTAATATT
15251268 AAATATTATT-TAATTATAATAA
1 AAATATTATTAT-ATTATAATAA
* * *
15251290 AAGGT-TTAATTATCTTCTAATATA
1 AA-ATATT-ATTATATTATAATA-A
*
15251314 AAATATTATTAAATTATAATAA
1 AAATATTATTATATTATAATAA
15251336 AAATAT
1 AAATAT
15251342 GTTTGTATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
22 11 0.28
23 23 0.57
24 6 0.15
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (22 bp):
AAATATTATTATATTATAATAA
Found at i:15256802 original size:22 final size:22
Alignment explanation
Indices: 15256760--15256800 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15256750 TTACCCTTTT
*
15256760 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
15256782 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
15256801 TCCATCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:15257563 original size:17 final size:17
Alignment explanation
Indices: 15257543--15257576 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15257533 TAAAAATAAT
*
15257543 AAAAAAAAA-GAGGAAA
1 AAAAAAAAACAAGGAAA
15257559 AAAAAAAAACAAGGAAA
1 AAAAAAAAACAAGGAAA
15257576 A
1 A
15257577 GACTGAACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAGGAAA
Found at i:15258259 original size:14 final size:13
Alignment explanation
Indices: 15258242--15258280 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
15258232 AAGGAGAAGA
15258242 AAAAAAATAAAAAC
1 AAAAAAA-AAAAAC
*
15258256 AAAAAAAAGAAAC
1 AAAAAAAAAAAAC
15258269 AAAAAGAAAAAA
1 AAAAA-AAAAAA
15258281 GGAAGAGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:15258263 original size:19 final size:19
Alignment explanation
Indices: 15258241--15258280 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15258231 AAAGGAGAAG
*
15258241 AAAAAAAATAAAAACAAAA
1 AAAAAAAACAAAAACAAAA
* *
15258260 AAAAGAAACAAAAAGAAAA
1 AAAAAAAACAAAAACAAAA
15258279 AA
1 AA
15258281 GGAAGAGAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.03
Consensus pattern (19 bp):
AAAAAAAACAAAAACAAAA
Found at i:15271137 original size:121 final size:121
Alignment explanation
Indices: 15270846--15271281 Score: 590
Period size: 121 Copynumber: 3.6 Consensus size: 121
15270836 TGACATTAGA
* * * * * *
15270846 TTTTTTAAATCGAACCTGTTGTAAGATAGGTCGAGTCTAGATCAAGTTTAGAAACTTCAGTTTTT
1 TTTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTT
* * * * * *
15270911 AAATCAAACCTGTTGTGAGATTGGTCGAGCTTAGATCAAGTCTAGGAATTTCAA--
66 AAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATGTCAATT
* * * *
15270965 TCTTTT-AATCGAACCTGTTTTGAGATAGGCCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTT
1 TTTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTT
15271029 AAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATGTCAATT
66 AAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATGTCAATT
* * *
15271085 TTTTTTTAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAATTTTT
1 TTTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTT
** * *
15271150 AAATCGAAATTGTTTTAAGATAGGTAGAGCCTAGATCAAGTCTAGGAATGTTAATT
66 AAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATGTCAATT
* * * *
15271206 TTTTTTAAAAATCGTATCTATTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTC
1 TTTTTT--AAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTT
15271271 TTAAATCGAAC
64 TTAAATCGAAC
15271282 TTGTCATGAG
Statistics
Matches: 282, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
118 97 0.34
119 5 0.02
120 5 0.02
121 115 0.41
123 60 0.21
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (121 bp):
TTTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATTTTT
AAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATGTCAATT
Found at i:15271173 original size:180 final size:180
Alignment explanation
Indices: 15270845--15271269 Score: 547
Period size: 180 Copynumber: 2.3 Consensus size: 180
15270835 TTGACATTAG
* * * *
15270845 ATTTTTTAAATCGAACCTGTTGTAAGATAGGTCGAGTCTAGATCAAGTTTAGAAACTTC-A--GT
1 ATTTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAA-TTCAATTGT
* *
15270907 TTTTAAATCAAACCTGTTGTGAGATTGGTCGAGCTTAGATCAAGTCTAGGAATTTCAATCTTTTA
65 TTTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATCTTTTA
* * * *
15270972 ATCGAACCTGTTTTGAGATAGGCCGAGCCTAGATTAAGTCTAGGAAT-TTCA
130 ATCGAAACTGTTTTAAGATAGGCAGAGCCTAGATCAAGTCTAGGAATGTT-A
*
15271023 A-TTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATGTCAATTTT
1 ATTTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAAT-TCAATTGT
* * * *
15271087 TTTTTAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAAT-TTTTA
65 TTTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATCTTTT-
* *
15271151 AATCGAAATTGTTTTAAGATAGGTAGAGCCTAGATCAAGTCTAGGAATGTTA
129 AATCGAAACTGTTTTAAGATAGGCAGAGCCTAGATCAAGTCTAGGAATGTTA
* * *
15271203 ATTTTTTTTAAAAATCGTATCTATTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA
1 A--TTTTTT--AAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAA-TTCAA
15271268 TT
61 TT
15271270 CTTAAATCGA
Statistics
Matches: 215, Mismatches: 20, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
176 1 0.00
177 51 0.24
178 2 0.01
179 4 0.02
180 98 0.46
181 2 0.01
183 5 0.02
185 51 0.24
186 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (180 bp):
ATTTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTCAATTGTT
TTTAAATCAAACCTGTTGTGAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAATCTTTTAA
TCGAAACTGTTTTAAGATAGGCAGAGCCTAGATCAAGTCTAGGAATGTTA
Found at i:15271312 original size:59 final size:59
Alignment explanation
Indices: 15270847--15271281 Score: 541
Period size: 59 Copynumber: 7.2 Consensus size: 59
15270837 GACATTAGAT
* * * * * *
15270847 TTTTTAAATCGAACCTGTTGTAAGATAGGTCGAGTCTAGATCAAGTTTAGAAACTTCAG
1 TTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA
* * * * *
15270906 TTTTTAAATCAAACCTGTTGTGAGATTGGTCGAGCTTAGATCAAGTCTAGGAATTTCAA
1 TTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA
* * *
15270965 TCTTTT-AATCGAACCTGTTTTGAGATAGGCCGAGCCTAGATTAAGTCTAGGAATTTCAA
1 T-TTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA
*
15271024 TTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATGTCAA
1 TTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA
* * *
15271083 TTTTTTTTTAATCGAACCTGTTTTGAGATAGGTCGAGCCTAGATTAAGTCTAGGAATTTCAA
1 ---TTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA
** *
15271145 TTTTTAAATCGAAATTGTTTTAAGATAGGTAGAGCCTAGATCAAGTCTAGGAATGTT-AA
1 TTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAAT-TTCAA
* * *
15271204 TTTTTTTTAAAAATCGTATCTATTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA
1 ---TTTTT--AAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA
*
15271268 TTCTTAAATCGAAC
1 TTTTTAAATCGAAC
15271282 TTGTCATGAG
Statistics
Matches: 327, Mismatches: 37, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
58 4 0.01
59 205 0.63
60 6 0.02
61 4 0.01
62 60 0.18
63 2 0.01
64 46 0.14
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (59 bp):
TTTTTAAATCGAACCTGTTTTAAGATAGGTCGAGCCTAGATCAAGTCTAGGAATTTCAA
Found at i:15272259 original size:18 final size:17
Alignment explanation
Indices: 15272220--15272260 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
15272210 AAAAAGAGAA
15272220 GAAAAAAAAACAAAAAC
1 GAAAAAAAAACAAAAAC
* *
15272237 AAAAAAAGAAACAAAAAG
1 GAAAAAA-AAACAAAAAC
15272255 GAAAAA
1 GAAAAA
15272261 GGAAGAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAACAAAAAC
Found at i:15278730 original size:18 final size:19
Alignment explanation
Indices: 15278703--15278739 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
15278693 GTCAAGTGGC
15278703 TTTTTGTTTTAATTTTTGA
1 TTTTTGTTTTAATTTTTGA
15278722 TTTTT-TTTTAATTTTTGA
1 TTTTTGTTTTAATTTTTGA
15278740 AAATTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (19 bp):
TTTTTGTTTTAATTTTTGA
Found at i:15278746 original size:18 final size:18
Alignment explanation
Indices: 15278709--15278748 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15278699 TGGCTTTTTG
***
15278709 TTTTAATTTTTGATTTTT
1 TTTTAATTTTTGAAAATT
15278727 TTTTAATTTTTGAAAATT
1 TTTTAATTTTTGAAAATT
15278745 TTTT
1 TTTT
15278749 CATTATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTTAATTTTTGAAAATT
Found at i:15279213 original size:62 final size:61
Alignment explanation
Indices: 15279138--15279391 Score: 305
Period size: 62 Copynumber: 4.1 Consensus size: 61
15279128 AATTCTCTTG
* * *
15279138 TGCCAACATAACTA-ACCTTAAACATCTTGGATTTAAGCTAAATTGGGGTTAAACTCTTTTCG
1 TGCCAACATAACTAGA-CTTAAACATCTTGGATCT-AGCTAAATTGGGCTTAAACTCTTTTCA
* * *
15279200 TGCTAACATAACTAGACTTAAACATCTT-TAGTGCTAGCTAAATTGGGCTTAAAATCTTTTCA
1 TGCCAACATAACTAGACTTAAACATCTTGGA-T-CTAGCTAAATTGGGCTTAAACTCTTTTCA
* * * *
15279262 TGCCAATATAACTAGACTTAAACATCTTGGATGTCAGCTAAATTGGGCTTAAACTCATTGCA
1 TGCCAACATAACTAGACTTAAACATCTTGGATCT-AGCTAAATTGGGCTTAAACTCTTTTCA
* * * * *
15279324 TGCCAACATAACTGGACTTAAACATCTTGGAAGCTAGCTAAATTAGGCTTTAACTCTTTGCA
1 TGCCAACATAACTAGACTTAAACATCTTGG-ATCTAGCTAAATTGGGCTTAAACTCTTTTCA
15279386 TGCCAA
1 TGCCAA
15279392 TTCATAAGAA
Statistics
Matches: 166, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
61 2 0.01
62 159 0.96
63 5 0.03
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (61 bp):
TGCCAACATAACTAGACTTAAACATCTTGGATCTAGCTAAATTGGGCTTAAACTCTTTTCA
Found at i:15279221 original size:31 final size:32
Alignment explanation
Indices: 15279186--15279289 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 32
15279176 TAAATTGGGG
15279186 TTAAAC-TCTTTTCGTGCTAACATAACTAGAC
1 TTAAACATCTTTTCGTGCTAACATAACTAGAC
* * * * *
15279217 TTAAACATC-TTTAGTGCTAGC-TAAATTGGGC
1 TTAAACATCTTTTCGTGCTAACAT-AACTAGAC
* * *
15279248 TTAAA-ATCTTTTCATGCCAATATAACTAGAC
1 TTAAACATCTTTTCGTGCTAACATAACTAGAC
15279279 TTAAACATCTT
1 TTAAACATCTT
15279290 GGATGTCAGC
Statistics
Matches: 55, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
30 4 0.07
31 43 0.78
32 8 0.15
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.37
Consensus pattern (32 bp):
TTAAACATCTTTTCGTGCTAACATAACTAGAC
Found at i:15279282 original size:124 final size:124
Alignment explanation
Indices: 15279138--15279392 Score: 343
Period size: 124 Copynumber: 2.1 Consensus size: 124
15279128 AATTCTCTTG
* * * * * *
15279138 TGCCAACATAACTAACCTTAAACATCTTGGATTTAAGCTAAATTGGGGTTAAACTCTTTTCGTGC
1 TGCCAATATAACTAACCTTAAACATCTTGGATGTAAGCTAAATTGGGCTTAAACTCATTGCATGC
* * * *
15279203 TAACATAACTAGACTTAAACATCTTTAG-TGCTAGCTAAATTGGGCTTAAAATCTTTTCA
66 CAACATAACTAGACTTAAACATC-TTAGAAGCTAGCTAAATTAGGCTTAAAATCTTTGCA
*
15279262 TGCCAATATAACTAGA-CTTAAACATCTTGGATGTCAGCTAAATTGGGCTTAAACTCATTGCATG
1 TGCCAATATAACTA-ACCTTAAACATCTTGGATGTAAGCTAAATTGGGCTTAAACTCATTGCATG
* * * *
15279326 CCAACATAACTGGACTTAAACATCTTGGAAGCTAGCTAAATTAGGCTTTAACTCTTTGCA
65 CCAACATAACTAGACTTAAACATCTTAGAAGCTAGCTAAATTAGGCTTAAAATCTTTGCA
15279386 TGCCAAT
1 TGCCAAT
15279393 TCATAAGAAA
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
123 3 0.03
124 110 0.96
125 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (124 bp):
TGCCAATATAACTAACCTTAAACATCTTGGATGTAAGCTAAATTGGGCTTAAACTCATTGCATGC
CAACATAACTAGACTTAAACATCTTAGAAGCTAGCTAAATTAGGCTTAAAATCTTTGCA
Found at i:15279313 original size:31 final size:29
Alignment explanation
Indices: 15279278--15279381 Score: 75
Period size: 31 Copynumber: 3.4 Consensus size: 29
15279268 TATAACTAGA
15279278 CTTAAACATCTTGGATGTCAGCTAAATTGGG
1 CTTAAAC-TCTTGGATG-CAGCTAAATTGGG
* * * *
15279309 CTTAAACTCATTGCATGCCAAC-ATAACTGGA
1 CTTAAACTC-TTGGATG-CAGCTA-AATTGGG
* *
15279340 CTTAAACATCTTGGAAGCTAGCTAAATTAGG
1 CTTAAAC-TCTTGGATGC-AGCTAAATTGGG
*
15279371 CTTTAACTCTT
1 CTTAAACTCTT
15279382 TGCATGCCAA
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
30 8 0.14
31 45 0.80
32 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (29 bp):
CTTAAACTCTTGGATGCAGCTAAATTGGG
Found at i:15296260 original size:14 final size:11
Alignment explanation
Indices: 15296228--15296259 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
15296218 ACGCGTTCAA
15296228 AAATAATAATT
1 AAATAATAATT
15296239 AAATAATAATT
1 AAATAATAATT
15296250 AAATAATAAT
1 AAATAATAAT
15296260 ATTTTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATAATAATT
Found at i:15297407 original size:35 final size:35
Alignment explanation
Indices: 15297344--15297416 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
15297334 TGGGCTATTG
* *
15297344 AAAATTTGAGCTGTTTGCTGCCAATTTGTGCAGAA
1 AAAAATTGAGCTGTTTGCTGCCAATTTGTACAGAA
** * *
15297379 AAAAATTGAGCTGTTTGCTGGTAGTTTGTATAGAA
1 AAAAATTGAGCTGTTTGCTGCCAATTTGTACAGAA
15297414 AAA
1 AAA
15297417 TTAGACAGCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (35 bp):
AAAAATTGAGCTGTTTGCTGCCAATTTGTACAGAA
Found at i:15297585 original size:22 final size:22
Alignment explanation
Indices: 15297557--15297603 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
15297547 GAGAGGAAAG
*
15297557 GAAGAGAGGAAGCCATGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
15297579 GAAGAGAGGAAGCCACGGTGGT
1 GAAGAGAGGAAGCCACGGTGGT
15297601 GAA
1 GAA
15297604 CGGAGTGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.11, G:0.45, T:0.11
Consensus pattern (22 bp):
GAAGAGAGGAAGCCACGGTGGT
Found at i:15297670 original size:16 final size:17
Alignment explanation
Indices: 15297649--15297686 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
15297639 CGTGGAAGAG
15297649 AGAAAAAG-AAATAAAA
1 AGAAAAAGAAAATAAAA
*
15297665 AG-AAAAGAAAATAAAT
1 AGAAAAAGAAAATAAAA
15297681 AGAAAA
1 AGAAAA
15297687 TAAGTGGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 5 0.26
16 11 0.58
17 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (17 bp):
AGAAAAAGAAAATAAAA
Found at i:15297713 original size:32 final size:32
Alignment explanation
Indices: 15297677--15297743 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
15297667 AAAAGAAAAT
*
15297677 AAATAGAAAATAAGTGGGCAT-GTCCC-AATAGG
1 AAATA-AAAATAAATGGGCATAG-CCCAAATAGG
*
15297709 AAATAAAAATAAATGGGCTTAGCCCAAATAGG
1 AAATAAAAATAAATGGGCATAGCCCAAATAGG
15297741 AAA
1 AAA
15297744 AATGGAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.49, C:0.12, G:0.21, T:0.18
Consensus pattern (32 bp):
AAATAAAAATAAATGGGCATAGCCCAAATAGG
Found at i:15300328 original size:21 final size:21
Alignment explanation
Indices: 15300290--15300330 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15300280 AAGTAAGTTA
*
15300290 TTTTAATTTTATATTTATTTC
1 TTTTAATTTGATATTTATTTC
15300311 TTTTAATTTGAT-TATTATTT
1 TTTTAATTTGATAT-TTATTT
15300331 ATTAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTAATTTGATATTTATTTC
Found at i:15300900 original size:42 final size:41
Alignment explanation
Indices: 15300822--15300903 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
15300812 ATATTAAAAG
*
15300822 CAAATATATTCTTCATTAAATTTAAATAATTTAAATAATAC
1 CAAATATATTCTTCATTAAATTTAAATAATTCAAATAATAC
* * *
15300863 CAAATAATATTCTTTATTACATTTATCAT-ATTCAAATAATA
1 CAAAT-ATATTCTTCATTAAATTTA-AATAATTCAAATAATA
15300904 ATATTAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 5 0.14
42 28 0.80
43 2 0.06
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (41 bp):
CAAATATATTCTTCATTAAATTTAAATAATTCAAATAATAC
Found at i:15300932 original size:45 final size:45
Alignment explanation
Indices: 15300855--15300948 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
15300845 AAATAATTTA
*
15300855 AATAATACCAAATAATATTCTTTATTACATTTA-TCATA-TTCAAAT
1 AATAATACCAAATAATATTCTTTATAACATTTACT-ATAGTT-AAAT
** *
15300900 AATAATATTAAATAATATTCTTTATAATATTTACTATAGTTAAAT
1 AATAATACCAAATAATATTCTTTATAACATTTACTATAGTTAAAT
15300945 AATA
1 AATA
15300949 TTCATATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 40 0.93
46 3 0.07
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.44
Consensus pattern (45 bp):
AATAATACCAAATAATATTCTTTATAACATTTACTATAGTTAAAT
Found at i:15300972 original size:29 final size:31
Alignment explanation
Indices: 15300890--15300974 Score: 77
Period size: 32 Copynumber: 2.7 Consensus size: 31
15300880 TACATTTATC
15300890 ATATTCAAATAATAATATTAAATAATATTCTTTATA
1 ATATT-AAATAAT-AT-TTAAATAATATTC--TATA
* * *
15300926 ATATTTACT-ATAGTTAAATAATATTC-AT-
1 ATATTAAATAATATTTAAATAATATTCTATA
15300954 ATATTAAATAATATTTAAATA
1 ATATTAAATAATATTTAAATA
15300975 TTTTTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
28 7 0.17
29 12 0.29
32 13 0.31
33 1 0.02
34 2 0.05
35 2 0.05
36 5 0.12
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (31 bp):
ATATTAAATAATATTTAAATAATATTCTATA
Found at i:15300975 original size:18 final size:18
Alignment explanation
Indices: 15300923--15300976 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
15300913 AATATTCTTT
15300923 ATAATATTTACTATAGTTAA
1 ATAATATTTA-TATA-TTAA
*
15300943 ATAATATTCATATATTAA
1 ATAATATTTATATATTAA
*
15300961 ATAATATTTAAATATT
1 ATAATATTTATATATT
15300977 TTTATTTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 18 0.58
19 4 0.13
20 9 0.29
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (18 bp):
ATAATATTTATATATTAA
Found at i:15312732 original size:22 final size:22
Alignment explanation
Indices: 15312704--15312747 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15312694 TTAAAACAAC
*
15312704 TTTAAAACTAAAACCTTTGATA
1 TTTAAAACCAAAACCTTTGATA
**
15312726 TTTAAAACCAAAGGCTTTGATA
1 TTTAAAACCAAAACCTTTGATA
15312748 CCAATCGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (22 bp):
TTTAAAACCAAAACCTTTGATA
Found at i:15318012 original size:21 final size:21
Alignment explanation
Indices: 15317988--15318030 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15317978 TTCAAACAAT
15317988 TAAAATCAA-AATTAAAACTAA
1 TAAAAT-AATAATTAAAACTAA
*
15318009 TAAACTAATAATTAAAACTAA
1 TAAAATAATAATTAAAACTAA
15318030 T
1 T
15318031 CTAAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAATAATAATTAAAACTAA
Found at i:15320284 original size:22 final size:24
Alignment explanation
Indices: 15320259--15320305 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
15320249 TACCTTTTGT
15320259 CACTTGTTTC-CTTG-AATT-TTCA
1 CACTT-TTTCTCTTGAAATTCTTCA
15320281 CACTTTTTCTCTTGAAATTCTTCA
1 CACTTTTTCTCTTGAAATTCTTCA
15320305 C
1 C
15320306 CTAGGGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 4 0.18
24 5 0.23
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.49
Consensus pattern (24 bp):
CACTTTTTCTCTTGAAATTCTTCA
Found at i:15331089 original size:22 final size:24
Alignment explanation
Indices: 15331064--15331110 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
15331054 TACCTTTTGT
15331064 CACTTGTTTC-CTTG-AATT-TTCA
1 CACTT-TTTCTCTTGAAATTCTTCA
15331086 CACTTTTTCTCTTGAAATTCTTCA
1 CACTTTTTCTCTTGAAATTCTTCA
15331110 C
1 C
15331111 CTAGGGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.18
22 9 0.41
23 4 0.18
24 5 0.23
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.49
Consensus pattern (24 bp):
CACTTTTTCTCTTGAAATTCTTCA
Found at i:15335884 original size:35 final size:35
Alignment explanation
Indices: 15335818--15335890 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
15335808 CTTACTTAGC
* *
15335818 TCATGTGCACTCCTTACACGCATAAGGCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
***
15335853 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACAAGGCAATATCA
15335888 TCA
1 TCA
15335891 AACGCATTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.30, C:0.32, G:0.11, T:0.27
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACAAGGCAATATCA
Found at i:15337258 original size:26 final size:26
Alignment explanation
Indices: 15337229--15337285 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
15337219 TCTAGAAAGA
* *
15337229 GAAAGAAAAAATTTTCAGAATAATTT
1 GAAAGAAAAAATTTTCACAATAAATT
15337255 GAAAGAAAAAATTTTCACAATAAATT
1 GAAAGAAAAAATTTTCACAATAAATT
15337281 GAAAG
1 GAAAG
15337286 CTTTTGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.26
Consensus pattern (26 bp):
GAAAGAAAAAATTTTCACAATAAATT
Found at i:15337556 original size:30 final size:30
Alignment explanation
Indices: 15337520--15337612 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
15337510 AGAATTATGG
15337520 TTATGTGAATTAAGTTGATTTGTGATGCTA
1 TTATGTGAATTAAGTTGATTTGTGATGCTA
* * * *
15337550 TTATGTGTGA-TAGGTTAGA-AT-T-ATG--G
1 TTATGTG-AATTAAGTT-GATTTGTGATGCTA
*
15337576 TTATGTGAATTGAGTTGATTTGTGATGCTA
1 TTATGTGAATTAAGTTGATTTGTGATGCTA
15337606 TTATGTG
1 TTATGTG
15337613 TGATAGGTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
25 3 0.07
26 12 0.26
27 1 0.02
28 6 0.13
29 1 0.02
30 20 0.43
31 3 0.07
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (30 bp):
TTATGTGAATTAAGTTGATTTGTGATGCTA
Found at i:15337592 original size:56 final size:56
Alignment explanation
Indices: 15337508--15337621 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
15337498 GAGATAGCTT
15337508 TTAGAATTATGGTTATGTGAATTAAGTTGATTTGTGATGCTATTATGTGTGATAGG
1 TTAGAATTATGGTTATGTGAATTAAGTTGATTTGTGATGCTATTATGTGTGATAGG
*
15337564 TTAGAATTATGGTTATGTGAATTGAGTTGATTTGTGATGCTATTATGTGTGATAGG
1 TTAGAATTATGGTTATGTGAATTAAGTTGATTTGTGATGCTATTATGTGTGATAGG
15337620 TT
1 TT
15337622 CCAATGAGAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (56 bp):
TTAGAATTATGGTTATGTGAATTAAGTTGATTTGTGATGCTATTATGTGTGATAGG
Found at i:15337958 original size:43 final size:43
Alignment explanation
Indices: 15337910--15338048 Score: 215
Period size: 43 Copynumber: 3.2 Consensus size: 43
15337900 TGTGATAATT
* *
15337910 ATGACCCAGCTATGTGCAGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* *
15337953 ATGACCCAACCAAGTGCGGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
* *
15337996 ATGACCCAGCCATGTGTGGTGTAGGAGTGCACATGAGCCGATG
1 ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
*
15338039 ATGACTCAGC
1 ATGACCCAGC
15338049 TGAGGGAGAG
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 87 1.00
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (43 bp):
ATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGCTGATG
Found at i:15344150 original size:19 final size:19
Alignment explanation
Indices: 15344110--15344151 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
15344100 AGACCTAAGG
* *
15344110 AATAAATGAATGATGGTAA
1 AATAAATGAATGAAGATAA
15344129 AATAAATGAA-GAAGATAGA
1 AATAAATGAATGAAGATA-A
15344148 AATA
1 AATA
15344152 TTGATAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.19, T:0.21
Consensus pattern (19 bp):
AATAAATGAATGAAGATAA
Found at i:15344959 original size:43 final size:43
Alignment explanation
Indices: 15344906--15345135 Score: 298
Period size: 43 Copynumber: 5.3 Consensus size: 43
15344896 TATTGTGTGA
* * *
15344906 TAATTATGACCTAGCTATGTGCGGTGTAGGAGTGCACATGAGC
1 TAATGATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGC
* * *
15344949 TAATAATGACCTAGCCATGTGCGGTGTAGGAGTGCACATGAGT
1 TAATGATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGC
* * *
15344992 TGATGATGACCCAGCTATGTGCGGTGTAGGAGTGCATATGAGC
1 TAATGATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGC
* * * **
15345035 TTATGATGACCCAACCATGTGCGATGTAGGAGTGCACATGAAT
1 TAATGATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGC
* * *
15345078 TGATGATGACCCAACCATGTGCGGTGTAGGAGTGCACATGAGT
1 TAATGATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGC
*
15345121 TGATGATGACCCAGC
1 TAATGATGACCCAGC
15345136 TGAGGGAGAG
Statistics
Matches: 167, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 167 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (43 bp):
TAATGATGACCCAGCCATGTGCGGTGTAGGAGTGCACATGAGC
Found at i:15345056 original size:86 final size:86
Alignment explanation
Indices: 15344911--15345133 Score: 340
Period size: 86 Copynumber: 2.6 Consensus size: 86
15344901 TGTGATAATT
* * * * * *
15344911 ATGACCTAGCTATGTGCGGTGTAGGAGTGCACATGAGCTAATAATGACCTAGCCATGTGCGGTGT
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTTATGATGACCCAACCATGTGCGATGT
*
15344976 AGGAGTGCACATGAGTTGATG
66 AGGAGTGCACATGAATTGATG
*
15344997 ATGACCCAGCTATGTGCGGTGTAGGAGTGCATATGAGCTTATGATGACCCAACCATGTGCGATGT
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTTATGATGACCCAACCATGTGCGATGT
15345062 AGGAGTGCACATGAATTGATG
66 AGGAGTGCACATGAATTGATG
* *
15345083 ATGACCCAACCATGTGCGGTGTAGGAGTGCACATGAG-TTGATGATGACCCA
1 ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTT-ATGATGACCCA
15345134 GCTGAGGGAG
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
85 2 0.02
86 123 0.98
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (86 bp):
ATGACCCAGCTATGTGCGGTGTAGGAGTGCACATGAGCTTATGATGACCCAACCATGTGCGATGT
AGGAGTGCACATGAATTGATG
Found at i:15345189 original size:2 final size:2
Alignment explanation
Indices: 15345177--15345213 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
15345167 TATGTATGTT
15345177 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15345214 GGTTATGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15346385 original size:19 final size:19
Alignment explanation
Indices: 15346361--15346402 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15346351 GGTGGTAAGG
15346361 TGAAAATGGCATGGAAGCT
1 TGAAAATGGCATGGAAGCT
** *
15346380 TGAAAATGGTGTGGGAGCT
1 TGAAAATGGCATGGAAGCT
15346399 TGAA
1 TGAA
15346403 GGAGAAAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.36, T:0.24
Consensus pattern (19 bp):
TGAAAATGGCATGGAAGCT
Found at i:15359000 original size:68 final size:67
Alignment explanation
Indices: 15358885--15359150 Score: 244
Period size: 68 Copynumber: 3.9 Consensus size: 67
15358875 CACATATAAG
* * * * * * *
15358885 CTTACTCATCTCATAAGGTACATGAAAAATACATCACATACAAAATCTCATGGCATTCATCATGC
1 CTTAATCATCTCAT-ATGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
* *
15358950 TTT
65 ATA
* * * * * *
15358953 CTCAATCATCTTATATAGTATATAGAATATACATCATATACATAATCTCATGCCATTTATTATGC
1 CTTAATCATCTCATAT-GTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
15359018 ATA
65 ATA
* * * * * * * *
15359021 CTTAATCACCTCATATGGTATATGGAGTTTACATCATATACACAATCTTATAGTATACATCATGC
1 CTTAATCATCTCATAT-GTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGC
15359086 ATA
65 ATA
* * * *
15359089 CTTAATCATCTCATATGATATATGGAATTTACTTCATATACTTAAATCTTATGGCATTCATC
1 CTTAATCATCTCATATG-TATATGGAATATACATCATATACAT-AATCTCATGGCATTCATC
15359151 GTACCAAACA
Statistics
Matches: 157, Mismatches: 38, Indels: 5
0.79 0.19 0.03
Matches are distributed among these distances:
67 2 0.01
68 140 0.89
69 15 0.10
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (67 bp):
CTTAATCATCTCATATGTATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCA
TA
Found at i:15367655 original size:60 final size:60
Alignment explanation
Indices: 15367569--15367717 Score: 163
Period size: 60 Copynumber: 2.5 Consensus size: 60
15367559 ATAGGAGACC
* * ** * ** *
15367569 AAAACATAAAGTTTTTTGCTGCAGCGAGATTCTTTCTCGCTACGGTGAAATTGTAACCCA
1 AAAACATAAAGTTTCTAGCTGCAGCGAGATTCAATCTCGCTACAGCAAAATTGCAACCCA
* * * *
15367629 AAAACATAAGGTTTCTAGCTGTAGCGAAATTCAATCTCGCTGCAGCAAAATTGCAACCCA
1 AAAACATAAAGTTTCTAGCTGCAGCGAGATTCAATCTCGCTACAGCAAAATTGCAACCCA
* * *
15367689 GAAACAGAAAGTTTCTCGCTGCAGCGAGA
1 AAAACATAAAGTTTCTAGCTGCAGCGAGA
15367718 ATGTATTTCG
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (60 bp):
AAAACATAAAGTTTCTAGCTGCAGCGAGATTCAATCTCGCTACAGCAAAATTGCAACCCA
Found at i:15384082 original size:2 final size:2
Alignment explanation
Indices: 15384075--15384119 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
15384065 CAGGGTTTGG
*
15384075 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15384117 TA T
1 TA T
15384120 GTACCCATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15384173 original size:20 final size:20
Alignment explanation
Indices: 15384148--15384186 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15384138 TCAGAAACCC
15384148 ATCATCATCATCACCAGCTT
1 ATCATCATCATCACCAGCTT
*
15384168 ATCATCGTCATCACCAGCT
1 ATCATCATCATCACCAGCT
15384187 CATGCGCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (20 bp):
ATCATCATCATCACCAGCTT
Found at i:15384222 original size:43 final size:43
Alignment explanation
Indices: 15384174--15384332 Score: 212
Period size: 43 Copynumber: 3.7 Consensus size: 43
15384164 GCTTATCATC
* * * ****
15384174 GTCATCACCAGCTCATGCGCACTCCCTACTCGCACATGGTTGG
1 GTCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACCGG
15384217 GTCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACCGG
1 GTCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACCGG
*
15384260 GTCATCACCGGGTTATGCACACTCCCTACTCGCACATAACCGG
1 GTCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACCGG
* *
15384303 GTCATC-CTCGGCTTATGTGCACTCCCTACT
1 GTCATCAC-CGGGTTATGCGCACTCCCTACT
15384333 TGCATATAGC
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 1 0.01
43 103 0.99
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.24
Consensus pattern (43 bp):
GTCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACCGG
Found at i:15387509 original size:60 final size:60
Alignment explanation
Indices: 15387427--15387574 Score: 188
Period size: 60 Copynumber: 2.5 Consensus size: 60
15387417 TAGGAGACCA
* ** * * * *
15387427 AAACAGAAAGTTTTTCGCTGCAGCGAGATTCTTTCTCGCTACAGTGAAATTGTAACCTAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTCAATCTCACTACAGCGAAATTGCAACCCAG
* * * *
15387487 AAACATAAGGTTTCTCGCTGCAGCGAAATTCAATCTCACTGCAGCGAAATTGCAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGATTCAATCTCACTACAGCGAAATTGCAACCCAG
*
15387547 AAACAGAAAGTTTCTCACTGCAGCGAGA
1 AAACAGAAAGTTTCTCGCTGCAGCGAGA
15387575 ATGTATTTCG
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAGATTCAATCTCACTACAGCGAAATTGCAACCCAG
Found at i:15387589 original size:60 final size:59
Alignment explanation
Indices: 15387427--15387593 Score: 176
Period size: 60 Copynumber: 2.8 Consensus size: 59
15387417 TAGGAGACCA
* * * * * *
15387427 AAACAGAAAGTTTTTCGCTGCAGCGAG-ATTCTTTCTCGCTACAGTGAAATTGTAACCTAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGAATT-ATT-TCGCTGCAGCGAAATTGCAACCCAG
* * * *
15387487 AAACATAAGGTTTCTCGCTGCAGCGA-AATTCAATCTCACTGCAGCGAAATTGCAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGAATT--ATTTCGCTGCAGCGAAATTGCAACCCAG
*
15387547 AAACAGAAAGTTTCTCACTGCAGCGAGAATGTATTTCGCTGCAGCGA
1 AAACAGAAAGTTTCTCGCTGCAGCGAGAAT-TATTTCGCTGCAGCGA
15387594 TAAGCTACAG
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
60 82 0.94
61 4 0.05
62 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (59 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAGAATTATTTCGCTGCAGCGAAATTGCAACCCAG
Found at i:15388016 original size:43 final size:43
Alignment explanation
Indices: 15387941--15388050 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
15387931 TCACCAGCTC
** ** *
15387941 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATTAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCA-TACTCGGCTT
* *
15387984 ATGCGCACTCCTTACTCGCACATAACCAGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATACTCGGCTT
*
15388027 ATGCGCACTCCCTACTAGCACATA
1 ATGCGCACTCCCTACTCGCACATA
15388051 GCCGTGTCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 2 0.04
43 55 0.96
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATACTCGGCTT
Found at i:15396632 original size:58 final size:57
Alignment explanation
Indices: 15396542--15396661 Score: 188
Period size: 58 Copynumber: 2.1 Consensus size: 57
15396532 CATAATCATC
* *
15396542 CAAAGTAGTTTGCATGTGATAGGTTTATTTTATGCAATTTAATAAATGCTATGCAATG
1 CAAAGTAGTATGCATGTGATAGGTTTATTTTATGCAATTTAATAAATGCCATGC-ATG
*
15396600 CAAAGTAGTATGCATGTGAT-GGATTTATTTTATGCGATTTAATAAATGCCATGCATG
1 CAAAGTAGTATGCATGTGATAGG-TTTATTTTATGCAATTTAATAAATGCCATGCATG
15396657 CAAAG
1 CAAAG
15396662 ATGAGACCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
57 10 0.17
58 48 0.83
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (57 bp):
CAAAGTAGTATGCATGTGATAGGTTTATTTTATGCAATTTAATAAATGCCATGCATG
Found at i:15405238 original size:16 final size:16
Alignment explanation
Indices: 15405213--15405244 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15405203 ATAAAAATGT
15405213 CAAAAAAATCAAAATC
1 CAAAAAAATCAAAATC
*
15405229 CAAAAGAATCAAAATC
1 CAAAAAAATCAAAATC
15405245 TTTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.19, G:0.03, T:0.12
Consensus pattern (16 bp):
CAAAAAAATCAAAATC
Found at i:15409195 original size:19 final size:20
Alignment explanation
Indices: 15409155--15409199 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
15409145 AATTATGTGC
15409155 AAATAA-AATAAAAGATCCT
1 AAATAATAATAAAAGATCCT
**
15409174 AAATAATAA-AAAAGATTTT
1 AAATAATAATAAAAGATCCT
15409193 AAATAAT
1 AAATAAT
15409200 TATGTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (20 bp):
AAATAATAATAAAAGATCCT
Found at i:15409210 original size:33 final size:33
Alignment explanation
Indices: 15409173--15409243 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
15409163 TAAAAGATCC
* *
15409173 TAAATAATAA-AAAAGATTTTAAATAATTATGTG
1 TAAATAA-AATAAAAGATCTTAAACAATTATGTG
15409206 TAAATAAAATAAAAGATCTTAAACAATTATGTG
1 TAAATAAAATAAAAGATCTTAAACAATTATGTG
*
15409239 CAAAT
1 TAAAT
15409244 GCACTCGAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.32
Consensus pattern (33 bp):
TAAATAAAATAAAAGATCTTAAACAATTATGTG
Found at i:15410701 original size:18 final size:17
Alignment explanation
Indices: 15410661--15410701 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
15410651 TATATGGAGT
15410661 AATATTAAAAAATTTAA
1 AATATTAAAAAATTTAA
**
15410678 TTTATTAATAAAATTTAA
1 AATATTAA-AAAATTTAA
15410696 AATATT
1 AATATT
15410702 TAAATTTGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTAAAAAATTTAA
Found at i:15412343 original size:20 final size:20
Alignment explanation
Indices: 15412315--15412353 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15412305 CACGGATGCA
*
15412315 TAATATTCTTTTGGTCTCGT
1 TAATATTCTTGTGGTCTCGT
*
15412335 TAATTTTCTTGTGGTCTCG
1 TAATATTCTTGTGGTCTCG
15412354 ATTTTCTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.15, G:0.18, T:0.54
Consensus pattern (20 bp):
TAATATTCTTGTGGTCTCGT
Found at i:15422060 original size:23 final size:23
Alignment explanation
Indices: 15422030--15422143 Score: 99
Period size: 23 Copynumber: 5.0 Consensus size: 23
15422020 AACAAAGCTA
*
15422030 CTAA-ATGTTACACACCATGGTT
1 CTAAGATGTTACACACCATGGCT
*
15422052 CTAGGATGTTACACACCATGGCT
1 CTAAGATGTTACACACCATGGCT
** *
15422075 CTAAGATGTTACATGCCAAGGCT
1 CTAAGATGTTACACACCATGGCT
** **
15422098 -TCAAGATGTTACACGTCAAAGCT
1 CT-AAGATGTTACACACCATGGCT
*
15422121 GCT-GGATGTTACACACCATGGCT
1 -CTAAGATGTTACACACCATGGCT
15422144 GTAGCAAGCT
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
22 4 0.05
23 69 0.93
25 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (23 bp):
CTAAGATGTTACACACCATGGCT
Found at i:15428114 original size:105 final size:106
Alignment explanation
Indices: 15427927--15428138 Score: 302
Period size: 105 Copynumber: 2.0 Consensus size: 106
15427917 AATCAATAGA
* * * *
15427927 AAGTTACCATTGCCAATCTCCATTTTGGTTCTAAAGCTAGCATCAAATACCAAAAAATTGTTCTT
1 AAGTCACCATTGCCAATCTCCATTTTGGTTCTAAACCTACCATCAAACACCAAAAAATTGTTCTT
* * * *
15427992 GTATCCAGTTAAATGATTTGAGCGCCC-ATATCTAGCAACC
66 GCATCCAGTTAAATGATTTAAGCACCCAATAACTAGCAACC
15428032 AAGTCACCATTGCCAATCTCCATTTTGGTTCTAAACCTACCATCAAACACCAAAAAATTGTTCTT
1 AAGTCACCATTGCCAATCTCCATTTTGGTTCTAAACCTACCATCAAACACCAAAAAATTGTTCTT
** *
15428097 GCAT-TTGTTAAAGTGATTTAAGTACCCAATAACTAGCAACC
66 GCATCCAGTTAAA-TGATTTAAGCACCCAATAACTAGCAACC
15428138 A
1 A
15428139 CGTATCTTGT
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
104 6 0.06
105 75 0.80
106 13 0.14
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.31
Consensus pattern (106 bp):
AAGTCACCATTGCCAATCTCCATTTTGGTTCTAAACCTACCATCAAACACCAAAAAATTGTTCTT
GCATCCAGTTAAATGATTTAAGCACCCAATAACTAGCAACC
Found at i:15431599 original size:22 final size:22
Alignment explanation
Indices: 15431573--15431629 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
15431563 AGAGTTTCCT
15431573 GCTGCAGCGAGAATCCATTTTC
1 GCTGCAGCGAGAATCCATTTTC
* *
15431595 GCTGCAGCGAGAATTCTTTTTC
1 GCTGCAGCGAGAATCCATTTTC
15431617 GCTGCAGCGAGAA
1 GCTGCAGCGAGAA
15431630 ACAGGGCTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.26, T:0.26
Consensus pattern (22 bp):
GCTGCAGCGAGAATCCATTTTC
Found at i:15435505 original size:20 final size:21
Alignment explanation
Indices: 15435466--15435506 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15435456 AGAAGAATAA
*
15435466 GAAGCTGCTGGAAAAAATGAG
1 GAAGCTGCTAGAAAAAATGAG
*
15435487 GAAGCTGCTAG-AGAAATGAG
1 GAAGCTGCTAGAAAAAATGAG
15435507 ATATTTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.41, C:0.10, G:0.34, T:0.15
Consensus pattern (21 bp):
GAAGCTGCTAGAAAAAATGAG
Found at i:15441598 original size:21 final size:20
Alignment explanation
Indices: 15441574--15441621 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
15441564 ATCTTACCTT
* *
15441574 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTAAA
*
15441595 TTTTCACACTTTTCCCTTAAA
1 TTTT-TCACTTTTCCCTTAAA
15441616 TTTTTC
1 TTTTTC
15441622 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.17, C:0.23, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTAAA
Found at i:15443534 original size:19 final size:19
Alignment explanation
Indices: 15443485--15443534 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
15443475 GCTATAAATA
*
15443485 TCTTCTCCTTCCAACAGCT
1 TCTTCTTCTTCCAACAGCT
* *
15443504 TCTTCAAT-TTCCAGCAGCT
1 TCTTC-TTCTTCCAACAGCT
15443523 TCTTCTTCTTCC
1 TCTTCTTCTTCC
15443535 TCCTCCCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.14, C:0.38, G:0.06, T:0.42
Consensus pattern (19 bp):
TCTTCTTCTTCCAACAGCT
Found at i:15444250 original size:42 final size:42
Alignment explanation
Indices: 15444189--15444314 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
15444179 GTAATGATAT
* *
15444189 TGACTCGGCTATGTGCGAGTATGAGTGCGCATAAGCCGTTGC
1 TGACTCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
* * *
15444231 TGACTTGGCTATGTACGAGTGGGAGTGCACATAAGCCGTTGC
1 TGACTCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
* * * * *
15444273 TGACCCGGCTATGTGCGAGTAGAAATGCACATATGTCGTTGC
1 TGACTCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
15444315 ATATGAGCTG
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (42 bp):
TGACTCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
Found at i:15447224 original size:22 final size:21
Alignment explanation
Indices: 15447198--15447260 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
15447188 CTGCTTCTCA
*
15447198 CTGCAACGAGAAACCATTCTTG
1 CTGCAGCGAGAAA-CATTCTTG
*
15447220 TTGCAGCGAGAAAGCATTCTTG
1 CTGCAGCGAGAAA-CATTCTTG
*
15447242 CTGCAGTGAGAAACATTCT
1 CTGCAGCGAGAAACATTCT
15447261 GTTTTGGCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 6 0.17
22 30 0.83
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (21 bp):
CTGCAGCGAGAAACATTCTTG
Found at i:15462726 original size:6 final size:6
Alignment explanation
Indices: 15462697--15462736 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
15462687 AACTTAGGGT
* * *
15462697 TCTTTC TCTTTT TCTTTT TCTTTC TCTTTC TCATTC TCTT
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC TCTT
15462737 CAATGGGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.70
Consensus pattern (6 bp):
TCTTTC
Found at i:15468679 original size:13 final size:13
Alignment explanation
Indices: 15468661--15468686 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15468651 AGGAGAAATT
15468661 ATGATTTTATAAA
1 ATGATTTTATAAA
15468674 ATGATTTTATAAA
1 ATGATTTTATAAA
15468687 TTTTCTGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:15476210 original size:42 final size:42
Alignment explanation
Indices: 15476157--15476282 Score: 171
Period size: 42 Copynumber: 3.0 Consensus size: 42
15476147 CAGCTCATAT
* *
15476157 GCAACAGCTTATGCGCACTCCCACTAGCACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTAGCACATAGCCGGGTCA
* * * * **
15476199 GTAATGGCTTATGTGCACTCCCACTCGCACATTGTTGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTAGCACATAGCCGGGTCA
*
15476241 GCAACGGCTTATGTGCACTCCTACTAGCACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCCACTAGCACATAGCCGGGTCA
15476283 ATATCATTAC
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCCACTAGCACATAGCCGGGTCA
Found at i:15480129 original size:13 final size:13
Alignment explanation
Indices: 15480111--15480147 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
15480101 CTAGAATATT
*
15480111 CACCAATCAATTA
1 CACCAAGCAATTA
15480124 CACCAAGCAATTA
1 CACCAAGCAATTA
15480137 CACCAAGCAAT
1 CACCAAGCAAT
15480148 AGACACACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.46, C:0.32, G:0.05, T:0.16
Consensus pattern (13 bp):
CACCAAGCAATTA
Found at i:15480829 original size:19 final size:20
Alignment explanation
Indices: 15480805--15480842 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15480795 CTATAAATAC
15480805 CTTGAA-TTTCCAGCAGCTT
1 CTTGAATTTTCCAGCAGCTT
*
15480824 CTTGAATTTTCTAGCAGCT
1 CTTGAATTTTCCAGCAGCT
15480843 GGTCTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (20 bp):
CTTGAATTTTCCAGCAGCTT
Found at i:15481685 original size:43 final size:43
Alignment explanation
Indices: 15481628--15481746 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
15481618 GTAATTATAT
* *
15481628 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
15481671 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
15481714 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
15481747 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:15481756 original size:43 final size:43
Alignment explanation
Indices: 15481638--15481759 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
15481628 TGACTCGGCT
* **
15481638 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
15481681 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
15481724 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
15481760 TGATGATGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:15482176 original size:39 final size:40
Alignment explanation
Indices: 15482093--15482178 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 40
15482083 TAGCTTCTCG
* * *** **
15482093 CTGCAGCGAGAAACTTTCTGTTTTCTGGGTTGCAATTTTG
1 CTGCAGCGAGAAACATTCTGTTTTATGGGTAAAAATTTCA
15482133 CTGCAGCGAGAAACATTCTG-TTTATGGGTAAAAATTTCA
1 CTGCAGCGAGAAACATTCTGTTTTATGGGTAAAAATTTCA
15482172 CTGCAGC
1 CTGCAGC
15482179 ATGCTGCAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 20 0.51
40 19 0.49
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (40 bp):
CTGCAGCGAGAAACATTCTGTTTTATGGGTAAAAATTTCA
Found at i:15488541 original size:25 final size:25
Alignment explanation
Indices: 15488513--15488595 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
15488503 ATGTGCATCT
15488513 CATCCAGCTCATATGCATCCCACCA
1 CATCCAGCTCATATGCATCCCACCA
** * * * *
15488538 CATCGTGCACATAGACGGACATCCCATCT
1 CATCCAGCTCAT--A-TG-CATCCCACCA
* *
15488567 CACCCAGCTCATGTGCATCCCACCA
1 CATCCAGCTCATATGCATCCCACCA
15488592 CATC
1 CATC
15488596 ATGCACATAG
Statistics
Matches: 39, Mismatches: 15, Indels: 8
0.63 0.24 0.13
Matches are distributed among these distances:
25 20 0.51
26 1 0.03
27 1 0.03
28 1 0.03
29 16 0.41
ACGTcount: A:0.27, C:0.42, G:0.12, T:0.19
Consensus pattern (25 bp):
CATCCAGCTCATATGCATCCCACCA
Found at i:15488590 original size:54 final size:54
Alignment explanation
Indices: 15488508--15488673 Score: 278
Period size: 54 Copynumber: 3.1 Consensus size: 54
15488498 TCATTATGTG
* * *
15488508 CATCTCATCCAGCTCATATGCATCCCACCACATCGTGCACATAGACGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
*
15488562 CATCTCACCCAGCTCATGTGCATCCCACCACATCATGCACATAGCCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
* *
15488616 CATTTCACCCAGCTCATGTGCATCCCACCACATCGTACACATAGCCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
15488670 CATC
1 CATC
15488674 CATCTCCCTC
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.27, C:0.41, G:0.13, T:0.20
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
Found at i:15492648 original size:23 final size:23
Alignment explanation
Indices: 15492617--15492675 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
15492607 TTTATATATA
* *
15492617 CCCAACATCATCATGCACACCAT
1 CCCATCATCATCACGCACACCAT
15492640 CCCATCATCATCACGCACACCAT
1 CCCATCATCATCACGCACACCAT
*
15492663 CCCCTCATCATCA
1 CCCATCATCATCA
15492676 GCTCATGTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.47, G:0.03, T:0.19
Consensus pattern (23 bp):
CCCATCATCATCACGCACACCAT
Found at i:15492714 original size:43 final size:42
Alignment explanation
Indices: 15492667--15492832 Score: 172
Period size: 43 Copynumber: 3.9 Consensus size: 42
15492657 CACCATCCCC
* ** *
15492667 TCATCATCAGCTCATGTGCACTCCCTACTCGCACATGGCTGGG
1 TCATCATCAGCTTATG-GCACTCCCTACTCGCACATAACCGGG
* * *
15492710 TCATCACCGGGTTATGAGCACTCCCTACTCGCACATAACCGGG
1 TCATCATCAGCTTATG-GCACTCCCTACTCGCACATAACCGGG
* * *
15492753 TCAACA-CAGGGTTATGGACACTCCCTACTCGCACATAACCAGG
1 TCATCATCA-GCTTATGG-CACTCCCTACTCGCACATAACCGGG
* *
15492796 TCATCATCGGCTTATGCGCACTCCCTACTCACACATA
1 TCATCATCAGCTTATG-GCACTCCCTACTCGCACATA
15492833 GCTGAGTCAA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.02
43 100 0.96
44 2 0.02
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATCATCAGCTTATGGCACTCCCTACTCGCACATAACCGGG
Found at i:15492842 original size:86 final size:86
Alignment explanation
Indices: 15492685--15492842 Score: 217
Period size: 86 Copynumber: 1.8 Consensus size: 86
15492675 AGCTCATGTG
** ** * *
15492685 CACTCCCTACTCGCACATGGCTGGGTCATCACCGGGTTATGAGCACTCCCTACTCGCACATAACC
1 CACTCCCTACTCGCACATAACCAGGTCATCACCGGCTTATGAGCACTCCCTACTCACACATAACC
*
15492750 GGGTCAACACAGGGTTATGGA
66 GAGTCAACACAGGGTTATGGA
* * * *
15492771 CACTCCCTACTCGCACATAACCAGGTCATCATCGGCTTATGCGCACTCCCTACTCACACATAGCT
1 CACTCCCTACTCGCACATAACCAGGTCATCACCGGCTTATGAGCACTCCCTACTCACACATAACC
15492836 GAGTCAA
66 GAGTCAA
15492843 TATCATTACA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
86 61 1.00
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.22
Consensus pattern (86 bp):
CACTCCCTACTCGCACATAACCAGGTCATCACCGGCTTATGAGCACTCCCTACTCACACATAACC
GAGTCAACACAGGGTTATGGA
Found at i:15495824 original size:22 final size:21
Alignment explanation
Indices: 15495799--15495855 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
15495789 CCCATAACAA
15495799 AAAAGAAAAGAGAAAGGAGAAG
1 AAAAGAAAAGAGAAAGGA-AAG
*
15495821 AAAAGAAGAGAGAAAGGAAAG
1 AAAAGAAAAGAGAAAGGAAAG
*
15495842 AAAA-AAAAAAGAAA
1 AAAAGAAAAGAGAAA
15495856 CATCCAAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 8 0.25
21 7 0.22
22 17 0.53
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAGAGAAAGGAAAG
Found at i:15510730 original size:20 final size:20
Alignment explanation
Indices: 15510685--15510722 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15510675 TTTTGCCCCC
15510685 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
15510705 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
15510723 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:15519624 original size:21 final size:22
Alignment explanation
Indices: 15519599--15519639 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15519589 CCTAGGTAGA
*
15519599 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
15519620 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
15519640 AAAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:15519640 original size:20 final size:21
Alignment explanation
Indices: 15519599--15519643 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
15519589 CCTAGGTAGA
*
15519599 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
15519620 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
15519640 AAAA
1 AAAA
15519644 AAGGTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:15519644 original size:21 final size:20
Alignment explanation
Indices: 15519597--15519644 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
15519587 ACCCTAGGTA
*
15519597 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
15519617 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
15519639 GAAAAA
1 GAAAAA
15519645 AGGTAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:15522187 original size:28 final size:25
Alignment explanation
Indices: 15522171--15522225 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
15522161 AATCTGTGAT
15522171 TATACGTGGCAAGGCCACAAGATGA
1 TATACGTGGCAAGGCCACAAGATGA
* *
15522196 TATACGTGGCTAGGCCACTAG-TGA
1 TATACGTGGCAAGGCCACAAGATGA
15522220 TATACG
1 TATACG
15522226 CGGTTGCAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (25 bp):
TATACGTGGCAAGGCCACAAGATGA
Found at i:15523470 original size:35 final size:35
Alignment explanation
Indices: 15523402--15523651 Score: 209
Period size: 35 Copynumber: 7.2 Consensus size: 35
15523392 CACTTGATTA
**
15523402 AAATTATTTAATTAA-T--TTATGCCTAATTAATT
1 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
* *
15523434 AAATTATTTAATTAAATCATTGGGTCTAATTAATT
1 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
*
15523469 AAATTATTTAATTAAGTAATTGGGCCTAATTAATT
1 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
*** * * * *
15523504 AAATTAAACAATTAAGTTACTAGGCCTAATTGATT
1 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
* * *
15523539 AAATTTGTTTAAGTAAGTCATTGGGCCTAATTGATT
1 AAA-TTATTTAATTAAGTCATTGGGCCTAATTAATT
* * * ** **
15523575 AAAATTGTTTAGTTAAATTGTTGGGTTTAATTAATT
1 -AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
* * ** * *
15523611 AAATTGTTTAATTAAGTTATTAAGCGTAATTGATT
1 AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
15523646 AAATTA
1 AAATTA
15523652 AACAATTAAG
Statistics
Matches: 175, Mismatches: 38, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
32 15 0.09
33 1 0.01
35 108 0.62
36 48 0.27
37 3 0.02
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (35 bp):
AAATTATTTAATTAAGTCATTGGGCCTAATTAATT
Found at i:15523618 original size:71 final size:70
Alignment explanation
Indices: 15523422--15523651 Score: 244
Period size: 71 Copynumber: 3.3 Consensus size: 70
15523412 ATTAATTTAT
* *
15523422 GCCTAATTAATTAAATTATTTAATTAAATCATTGGGTCTAATTAATTAAATTATTTAATTAAGTA
1 GCCTAATTAATTAAATTATTTAATTAAATTATTGGGTCTAATTAATTAAATTGTTTAATTAAGTA
15523487 ATTGG
66 ATTGG
*** * * * * * *
15523492 GCCTAATTAATTAAATTAAACAATTAAGTTACTAGGCCTAATTGATTAAATTTGTTTAAGTAAGT
1 GCCTAATTAATTAAATTATTTAATTAAATTATTGGGTCTAATTAATTAAA-TTGTTTAATTAAGT
*
15523557 CATTGG
65 AATTGG
* * * * *
15523563 GCCTAATTGATTAAAATTGTTTAGTTAAATTGTTGGGTTTAATTAATTAAATTGTTTAATTAAGT
1 GCCTAATTAATT-AAATTATTTAATTAAATTATTGGGTCTAATTAATTAAATTGTTTAATTAAGT
* **
15523628 TATTAA
65 AATTGG
* *
15523634 GCGTAATTGATTAAATTA
1 GCCTAATTAATTAAATTA
15523652 AACAATTAAG
Statistics
Matches: 127, Mismatches: 31, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
70 46 0.36
71 55 0.43
72 26 0.20
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (70 bp):
GCCTAATTAATTAAATTATTTAATTAAATTATTGGGTCTAATTAATTAAATTGTTTAATTAAGTA
ATTGG
Found at i:15524684 original size:23 final size:23
Alignment explanation
Indices: 15524567--15524689 Score: 99
Period size: 23 Copynumber: 5.3 Consensus size: 23
15524557 TAGATCTGCT
*
15524567 AGATGTTACACACCATGG-TTCCA
1 AGATGTTACACACCAAGGCTT-CA
*
15524590 AGATGTTACACACCATGGC-TCTA
1 AGATGTTACACACCAAGGCTTC-A
* *
15524613 ACATGTTACACACCAAGGCATCA
1 AGATGTTACACACCAAGGCTTCA
* ** **
15524636 ATATGTTACAC-GTAAAACATTCA
1 AGATGTTACACACCAAGGC-TTCA
* *
15524659 AGATGTTACACGCCAAGGCTTTA
1 AGATGTTACACACCAAGGCTTCA
15524682 AGATGTTA
1 AGATGTTA
15524690 TTGTCACAAC
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
22 4 0.05
23 72 0.89
24 5 0.06
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (23 bp):
AGATGTTACACACCAAGGCTTCA
Found at i:15525804 original size:37 final size:37
Alignment explanation
Indices: 15525754--15525946 Score: 327
Period size: 37 Copynumber: 5.2 Consensus size: 37
15525744 AATGCAATAT
*
15525754 CATCATCATGTGTGCACTCCTTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
15525791 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
*
15525828 CATTATCATGTGTGCACTCCCTACTCGCACAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
*
15525865 CATCATCATGTATGCACTCCCTACTCGCACAC-TCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTC-AA
15525902 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
15525939 CATCATCA
1 CATCATCA
15525947 CACAACATTA
Statistics
Matches: 149, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
36 2 0.01
37 145 0.97
38 2 0.01
ACGTcount: A:0.25, C:0.37, G:0.10, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTTCAA
Found at i:15534166 original size:28 final size:27
Alignment explanation
Indices: 15534120--15534173 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
15534110 ATGTCCTGGT
**
15534120 GGTGGAAAATTACTGTTTTACCCCTAG
1 GGTGGAAAATTACCATTTTACCCCTAG
*
15534147 GGTGGTAAAATTACCATTTTGCCCCTA
1 GGTGG-AAAATTACCATTTTACCCCTA
15534174 TGCTCCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTGGAAAATTACCATTTTACCCCTAG
Done.