Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 728 of 770
Found at i:230359774 original size:79 final size:80
Alignment explanation
Indices: 230359647--230360041 Score: 672
Period size: 79 Copynumber: 5.0 Consensus size: 80
230359637 GAATACACAT
* * *
230359647 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
* *
230359712 TTAACCCTGATATAA
66 TTAGCCCGGATATAA
* * *
230359727 CTCTAGCACGAATGCTCTTCGAGACTTAGCCC-GATATAACACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
230359791 TTAGCCCGGATAT-A
66 TTAGCCCGGATATAA
*
230359805 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
230359870 TTAGCCCGGATATAA
66 TTAGCCCGGATATAA
230359885 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC-GGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
230359949 TTAGCCCGGATATAA
66 TTAGCCCGGATATAA
230359964 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTT-GGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
*
230360028 TTAGCCCAGATATA
66 TTAGCCCGGATATA
230360042 TAACTCTAAT
Statistics
Matches: 298, Mismatches: 14, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
78 30 0.10
79 182 0.61
80 86 0.29
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (80 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
TTAGCCCGGATATAA
Found at i:230359891 original size:119 final size:120
Alignment explanation
Indices: 230359647--230360041 Score: 672
Period size: 119 Copynumber: 3.3 Consensus size: 120
230359637 GAATACACAT
* * *
230359647 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
* * * * *
230359712 TTAACCCTGATATAACTCTAGCACGAATGCTCTTCGAGACTTAGCCC-GATATAA
66 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
230359766 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT-ACACCAGCACGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
*
230359830 TTAGCCCGGATATATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
66 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
230359885 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTC-GGAC
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
230359949 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
66 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
230360004 CACCAGCACGAATGCTCTT-GGGACTTAGCCCAGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
230360042 TAACTCTAAT
Statistics
Matches: 263, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
118 85 0.32
119 157 0.60
120 21 0.08
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (120 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGAC
TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:230364047 original size:25 final size:25
Alignment explanation
Indices: 230364018--230364068 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
230364008 TACACATAAG
230364018 TCCTATTAACTAAATTCACATGCAA
1 TCCTATTAACTAAATTCACATGCAA
230364043 TCCTATTAACTAAATTCACATGCAA
1 TCCTATTAACTAAATTCACATGCAA
230364068 T
1 T
230364069 TTACTAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (25 bp):
TCCTATTAACTAAATTCACATGCAA
Found at i:230371062 original size:39 final size:39
Alignment explanation
Indices: 230370962--230371141 Score: 168
Period size: 40 Copynumber: 4.6 Consensus size: 39
230370952 TACTCGAATG
* *
230370962 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGC-ATTGTGCT-AGTGACT
* * *
230371003 ACATCCGGACTAAGAT-CCGAAGGCATTGTGCTAGTAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTGTGCTAGTGACT
* *
230371042 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACT
* * * **
230371082 ATATCCGGGCTAAGACCCGAAAGGCCTTGGGC-AGTGGTT
1 ATATCCGGGCTAAGTCCCG-AAGGCATTGTGCTAGTGACT
**
230371121 ATATCC-GGCTAAACCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
230371142 ATGCTTGATT
Statistics
Matches: 116, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
37 3 0.03
38 11 0.09
39 36 0.31
40 40 0.34
41 25 0.22
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTGTGCTAGTGACT
Found at i:230371086 original size:40 final size:40
Alignment explanation
Indices: 230370962--230371102 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
230370952 TACTCGAATG
* *
230370962 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * *
230371003 ACATCCGGACTAAGAT-CCGAAGGCA-TTGTGCTAGTAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
230371042 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
230371082 ATATCCGGGCTAAGACCCGAA
1 ATATCCGGGCTAAGTCCCGAA
230371103 AGGCCTTGGG
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 26 0.30
40 38 0.44
41 20 0.23
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:230373121 original size:90 final size:89
Alignment explanation
Indices: 230372848--230373150 Score: 391
Period size: 90 Copynumber: 3.4 Consensus size: 89
230372838 CGATCCTGAG
* * *
230372848 CTCAACTCTCGCAATTTGAGTTGGTCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
1 CTCACCTCTCGCAATATGAGTTGATCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
*
230372913 CCTCATCATGTGACCCGAGGCTCCA
66 CCTCATCATGTGA-CCGAGGCTCAA
* * *
230372938 CTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAATATAAATTG-AAAG-A-A--TTGAAAA
1 CTCACCTCTCGCAATATGAGTTGATCTTTTTTG-AAACT-TAATTTGAAAAGTAGATTTTGAAAA
* * * *
230372998 TAGCTCAGCAAGTGAACCAAGGCTCAA
64 TACCTCATCATGTG-ACCGAGGCTCAA
* * *
230373025 CTCACCTCTCACAATATGAGTTGGTCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAGTA
1 CTCACCTCTCGCAATATGAGTTGATCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
230373090 CCTCATCATGTGACTCGAGGCTCAA
66 CCTCATCATGTGAC-CGAGGCTCAA
*
230373115 CTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAA
1 CTCACCTCTCGCAATATGAGTTGATCTTTTTTGAAA
230373151 AATATAAATT
Statistics
Matches: 180, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
85 6 0.03
86 8 0.04
87 58 0.32
88 2 0.01
89 3 0.02
90 89 0.49
91 8 0.04
92 6 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (89 bp):
CTCACCTCTCGCAATATGAGTTGATCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
CCTCATCATGTGACCGAGGCTCAA
Found at i:230373844 original size:89 final size:86
Alignment explanation
Indices: 230373669--230374118 Score: 372
Period size: 90 Copynumber: 5.3 Consensus size: 86
230373659 TGATCCTGAG
* * * *
230373669 CTCAACTCTCGCAATATGAGTTG-GTCTTTTTTGAAACT-TAATTTGAAAAGTAGATTTTGAAAA
1 CTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAA-TATAAATTG-AAAG-A-A--TTGAAAA
* *
230373732 TACCTCATCATGTGACCCGAGGCTCAA
60 TACCTCAGCACGTGACCCGAGGCTCAA
*
230373759 CTCACCTATCGCAATATGAGTTGATTTTTTTTTTGAAAAATATAAATTGAAAGAATTGAAAATAC
1 CTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTG--AAATATAAATTGAAAGAATTGAAAATAC
* *
230373824 CTCAGCACGTGAACCAAGGCTCAA
63 CTCAGCACGTGACCCGAGGCTCAA
* * * * * *
230373848 CTCACCTCTCACAATATGAGTTGGTCTTTTTTGGAACT-TAATTTGAAAAGTAGATTTTGAAAAT
1 CTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAATATAAATTG-AAAG-A-A--TTGAAAAT
* *
230373912 ACCTCATCATGTGACCCGAGGCTCAA
61 ACCTCAGCACGTGACCCGAGGCTCAA
* * *
230373938 CTCACCTTTCGTAATATGAGTTGA--TTTTTTT-AAA-A-AAA-T-ATA-AATTGAAAATACCTC
1 CTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAATATAAATTGAAAGAATTGAAAATACCTC
*
230373995 AG--CGTGCCCCGAGGCTCAA
66 AGCACGTGACCCGAGGCTCAA
*
230374014 CTCACCTCTCGCAATATGAGTTGA----TTTTTGAAA-A-AAA-T-AGA-AATTGAAAATACCTC
1 CTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAATATAAATTGAAAGAATTGAAAATACCTC
* * *
230374070 AG--TGTGTCCTGAGGCTCAA
66 AGCACGTGACCCGAGGCTCAA
*
230374089 CTCACCTCTCGCAATATGAGTTAATTTTTT
1 CTCACCTCTCGCAATATGAGTTGATTTTTT
230374119 GAAAAGCAGA
Statistics
Matches: 306, Mismatches: 38, Indels: 43
0.79 0.10 0.11
Matches are distributed among these distances:
74 5 0.02
75 64 0.21
76 37 0.12
78 14 0.05
79 2 0.01
80 1 0.00
81 1 0.00
83 2 0.01
85 7 0.02
86 9 0.03
87 3 0.01
88 15 0.05
89 51 0.17
90 71 0.23
91 1 0.00
92 9 0.03
93 5 0.02
94 9 0.03
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (86 bp):
CTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAATATAAATTGAAAGAATTGAAAATACCTC
AGCACGTGACCCGAGGCTCAA
Found at i:230373942 original size:90 final size:90
Alignment explanation
Indices: 230373669--230373968 Score: 387
Period size: 90 Copynumber: 3.4 Consensus size: 90
230373659 TGATCCTGAG
*
230373669 CTCAACTCTCGCAATATGAGTTGGTCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
1 CTCACCTCTCGCAATATGAGTTGGTCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
230373734 CCTCATCATGTGACCCGAGGCTCAA
66 CCTCATCATGTGACCCGAGGCTCAA
* * * * *
230373759 CTCACCTATCGCAATATGAGTTGATTTTTTTTTTGAAAAATATAAATTG-AAAG-A-A--TTGAA
1 CTCACCTCTCGCAATATGAGTTG--GTCTTTTTTG-AAACT-TAATTTGAAAAGTAGATTTTGAA
* * * *
230373819 AATACCTCAGCACGTGAACCAAGGCTCAA
62 AATACCTCATCATGTGACCCGAGGCTCAA
* *
230373848 CTCACCTCTCACAATATGAGTTGGTCTTTTTTGGAACTTAATTTGAAAAGTAGATTTTGAAAATA
1 CTCACCTCTCGCAATATGAGTTGGTCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
230373913 CCTCATCATGTGACCCGAGGCTCAA
66 CCTCATCATGTGACCCGAGGCTCAA
* * *
230373938 CTCACCTTTCGTAATATGAGTTGAT-TTTTTT
1 CTCACCTCTCGCAATATGAGTTGGTCTTTTTT
230373969 AAAAAAATAT
Statistics
Matches: 176, Mismatches: 25, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
85 6 0.03
86 7 0.04
87 9 0.05
88 1 0.01
89 57 0.32
90 72 0.41
91 1 0.01
92 9 0.05
93 8 0.05
94 6 0.03
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (90 bp):
CTCACCTCTCGCAATATGAGTTGGTCTTTTTTGAAACTTAATTTGAAAAGTAGATTTTGAAAATA
CCTCATCATGTGACCCGAGGCTCAA
Found at i:230374086 original size:75 final size:75
Alignment explanation
Indices: 230373904--230374269 Score: 409
Period size: 75 Copynumber: 4.9 Consensus size: 75
230373894 AAAGTAGATT
* * * * * *
230373904 TTGAAAATACCTCATCATGTGACCCGAGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
*
230373969 AAAAAAATATAAA
63 AAAAAAATAGAAA
* *
230373982 TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
230374047 AAAATAGAAA
66 AAAATAGAAA
* *
230374057 TTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTG--
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
**
230374120 AAAAGCAGAAA
65 AAAAATAGAAA
* * * * * *
230374131 TTGAAAATTCCTTAGCATG-CCTCGAGGCTCAAATCACCTCTCACAATATGAGTTGATTTTTGAC
1 TTGAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
* *
230374195 CAACA-A-AAA
65 AAAAATAGAAA
* * * ** *
230374204 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
230374269 A
66 A
230374270 TAGAAATAAA
Statistics
Matches: 248, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
73 62 0.25
74 57 0.23
75 71 0.29
76 43 0.17
78 15 0.06
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (75 bp):
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
AAAATAGAAA
Found at i:230374178 original size:74 final size:74
Alignment explanation
Indices: 230373889--230374276 Score: 376
Period size: 73 Copynumber: 5.2 Consensus size: 74
230373879 TGGAACTTAA
* ** * * *
230373889 TTTGAAAAGTAGATTTTGAAAATACCTCATCATGTGACC-CGAGGCTCAACTCACCTTTCGTAAT
1 TTTGAAAAATAGAAATTGAAAATACCTCAGC--GTG-CCTCGAGGCTCAACTCACCTCTCGCAAT
*
230373953 ATGAGTTGATTTT
63 ATGAGTT-AATTT
* * *
230373966 TTTAAAAAAATATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTT-GAAAAATAGAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATAT
*
230374031 GAGTTGA-TT
65 GAGTTAATTT
*
230374040 TTTGAAAAAAATAGAAATTGAAAATACCTCAGTGTGTCCT-GAGGCTCAACTCACCTCTCGCAAT
1 TTTG--AAAAATAGAAATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAAT
230374104 ATGAGTTAATTT
63 ATGAGTTAATTT
** * * * * *
230374116 TTTGAAAAGCAGAAATTGAAAATTCCTTAGCATGCCTCGAGGCTCAAATCACCTCTCACAATATG
1 TTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATG
*
230374181 AGTTGA-TT
66 AGTTAATTT
** * * * * * * **
230374189 TTTGACCAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATG
230374254 AGTTGAA--T
66 AGTT-AATTT
230374262 TTTG-AAAATAGAAAT
1 TTTGAAAAATAGAAAT
230374277 AAAAACGTCA
Statistics
Matches: 259, Mismatches: 44, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
72 7 0.03
73 64 0.25
74 60 0.23
75 62 0.24
76 41 0.16
77 3 0.01
78 22 0.08
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (74 bp):
TTTGAAAAATAGAAATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTT
Found at i:230374179 original size:149 final size:149
Alignment explanation
Indices: 230373904--230374264 Score: 456
Period size: 149 Copynumber: 2.4 Consensus size: 149
230373894 AAAGTAGATT
* * * * *
230373904 TTGAAAATACCTCATCATGTGACCCGAGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCA--ATGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTT
* * * * *
230373969 AAAAAAATATAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
64 AAAAAAACAGAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAAATCACCTCTCACAATATGAG
230374034 TTGATTTTTGAAAAAAATAGAAA
129 TTGATTTTTGAAAAAAA-A-AAA
* *
230374057 TTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTT-G
1 TTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTAA
* * * *
230374120 AAAAGCAGAAATTGAAAATTCCTTAGCATGCCTCGAGGCTCAAATCACCTCTCACAATATGAGTT
66 AAAAACAGAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAAATCACCTCTCACAATATGAGTT
** *
230374185 GATTTTTGACCAACAAAAA
131 GATTTTTGAAAAAAAAAAA
* * * **
230374204 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
1 TTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
230374265 GAAAATAGAA
Statistics
Matches: 182, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
147 51 0.28
148 7 0.04
149 68 0.37
150 7 0.04
151 35 0.19
153 14 0.08
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (149 bp):
TTGAAAATACCTCAATGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTAA
AAAAACAGAAATTGAAAATACCTCAGCATGCCCCGAGGCTCAAATCACCTCTCACAATATGAGTT
GATTTTTGAAAAAAAAAAA
Found at i:230375118 original size:44 final size:44
Alignment explanation
Indices: 230375070--230375161 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
230375060 TTTCATCCTA
230375070 ATCTTTTGTGTTAATCAAGACGCCCTTTTCGGGATTTCACCTTG
1 ATCTTTTGTGTTAATCAAGACGCCCTTTTCGGGATTTCACCTTG
* * *
230375114 ATCTTTTTTGTTAATCAAGATGCCCTTTTCGGGTTTTCACCTTG
1 ATCTTTTGTGTTAATCAAGACGCCCTTTTCGGGATTTCACCTTG
230375158 ATCT
1 ATCT
230375162 CCCTTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (44 bp):
ATCTTTTGTGTTAATCAAGACGCCCTTTTCGGGATTTCACCTTG
Found at i:230391900 original size:40 final size:39
Alignment explanation
Indices: 230391848--230391994 Score: 152
Period size: 40 Copynumber: 3.7 Consensus size: 39
230391838 ATTTGCACAA
* *
230391848 AATGCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCAC
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC
* * *
230391887 GAATGCCTTCGGGTCTTAGCCCGAATATAGCTACTAGCAC
1 -AATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC
* ** *
230391927 AATTGCCTTCGGGTCTTAACCCGGATATAA-ATTTCAGCAT
1 AA-TGCCTTCGGGTCTTAGCCCGGATATAACAACT-AGCAC
* *
230391967 AATTGTCTTCGGGGCTTAGCCCGGATAT
1 AA-TGCCTTCGGGTCTTAGCCCGGATAT
230391995 CATTCAATTT
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
39 3 0.03
40 87 0.97
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (39 bp):
AATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCAC
Found at i:230399105 original size:40 final size:40
Alignment explanation
Indices: 230399046--230399214 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
230399036 CGGGACTTTA
* * *
230399046 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
230399086 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
230399126 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
230399166 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
230399206 CCCGGATAT
1 CCCGGATAT
230399215 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:230406617 original size:40 final size:40
Alignment explanation
Indices: 230406551--230406717 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
230406541 AAATTGAATG
* * *
230406551 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
230406590 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
230406630 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
230406670 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
230406710 ATATCCGG
1 ATATCCGG
230406718 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:230411432 original size:40 final size:40
Alignment explanation
Indices: 230411377--230411593 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
230411367 TGAATGATAC
* *
230411377 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
230411417 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
230411457 CCGAAGGCTAAGACCGGGCTAAGAAAGGCATTCGTGCGAGTTG-TTATAT
1 CCG--GGCTAAGACC---C---G-AAGGCATTTGTGCTAG-TGATTATAT
* * ** *
230411506 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
230411546 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
230411586 CC-GGCTAA
1 CCGGGCTAA
230411594 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
39 6 0.04
40 93 0.64
41 1 0.01
42 9 0.06
44 1 0.01
45 1 0.01
47 10 0.07
48 1 0.01
49 22 0.15
50 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:230419679 original size:40 final size:40
Alignment explanation
Indices: 230419612--230419865 Score: 293
Period size: 40 Copynumber: 6.5 Consensus size: 40
230419602 TGAATGATAC
230419612 CCGGGCTAAGTCCC-AAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
230419651 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
*
230419691 CCGGGCT-AGT-CCGAAGGAATTTATGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* ** *
230419729 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
* * * * ** *
230419769 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
230419809 CCGGGTTAAGTCCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
* *
230419849 CC-GGCTAAATTCCGAAG
1 CCGGGCTAAGTCCCGAAG
230419866 AGACTCGGTT
Statistics
Matches: 185, Mismatches: 25, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 34 0.18
39 32 0.17
40 117 0.63
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:230419749 original size:78 final size:78
Alignment explanation
Indices: 230419612--230419865 Score: 296
Period size: 78 Copynumber: 3.2 Consensus size: 78
230419602 TGAATGATAC
* *
230419612 CCGGGCTAAGTCCCAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTAT
1 CCGGGCTAAGTCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGT
230419677 GCTAGTGATTATAT
66 GCTAGTG-TTATAT
* * *
230419691 CCGGGCT-AGTCCGAAGGAATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 CCGGGCTAAGTCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
230419755 GCGAGTTGTTATAT
66 GCTAG-TGTTATAT
* * * * ** * * *
230419769 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGTCCCGAAGGCAATTG
1 CCGGGCTAAG-TCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
230419834 TGCTTGTGGTTATAT
65 TGCTAGT-GTTATAT
*
230419849 CC-GGCTAAATTCCGAAG
1 CCGGGCT-AAGTCCGAAG
230419866 AGACTCGGTT
Statistics
Matches: 148, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
78 69 0.47
79 22 0.15
80 57 0.39
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (78 bp):
CCGGGCTAAGTCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCTAGTGTTATAT
Found at i:230432993 original size:29 final size:29
Alignment explanation
Indices: 230432961--230433032 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
230432951 TTTCCAACTT
230432961 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAC
230432990 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAC
230433019 GCACACTTAGTGCC
1 GCACACTTAGTGCC
230433033 GATCTCGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAC
Found at i:230440975 original size:29 final size:29
Alignment explanation
Indices: 230440947--230441048 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
230440937 CCTCCGAGCT
** * * *
230440947 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
230440976 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
230441005 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
230441034 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
230441049 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:230443133 original size:24 final size:24
Alignment explanation
Indices: 230443096--230443270 Score: 284
Period size: 24 Copynumber: 7.4 Consensus size: 24
230443086 CTGGAGGACT
*
230443096 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
230443121 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
230443145 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
230443168 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
230443191 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
230443215 AGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
230443239 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
230443262 AGCCCTTTT
1 AGCCCTTTT
230443271 GCACTTCCTC
Statistics
Matches: 143, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 67 0.47
24 72 0.50
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:230443157 original size:23 final size:23
Alignment explanation
Indices: 230443103--230443269 Score: 271
Period size: 23 Copynumber: 7.1 Consensus size: 23
230443093 ACTAGCCTCT
*
230443103 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
230443126 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
230443150 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
230443173 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
230443196 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
230443220 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
230443244 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
230443267 TTT
1 TTT
230443270 TGCACTTCCT
Statistics
Matches: 137, Mismatches: 5, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
23 70 0.51
24 67 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:230443271 original size:47 final size:47
Alignment explanation
Indices: 230443103--230443270 Score: 284
Period size: 47 Copynumber: 3.6 Consensus size: 47
230443093 ACTAGCCTCT
*
230443103 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
230443150 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* * *
230443196 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
230443244 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
230443271 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
46 23 0.20
47 70 0.61
48 21 0.18
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:230443342 original size:9 final size:9
Alignment explanation
Indices: 230443328--230443384 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
230443318 ATCTCATGTG
230443328 CATATCATA
1 CATATCATA
*
230443337 CATATCATGTG
1 CATATCA--TA
230443348 CATATCATA
1 CATATCATA
* *
230443357 CATGTCATGTG
1 CATATCA--TA
230443368 CATATCATA
1 CATATCATA
230443377 CATATCAT
1 CATATCAT
230443385 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:230443344 original size:20 final size:20
Alignment explanation
Indices: 230443316--230443386 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
230443306 GCATTTATGA
*
230443316 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
230443336 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
230443356 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
230443376 ACATATCATGT
1 ACATATCATGT
230443387 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:230443351 original size:11 final size:11
Alignment explanation
Indices: 230443321--230443375 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
230443311 TATGAACATC
230443321 TCATGTGCATA
1 TCATGTGCATA
*
230443332 TCA--TACATA
1 TCATGTGCATA
230443341 TCATGTGCATA
1 TCATGTGCATA
* *
230443352 TCA--TACATG
1 TCATGTGCATA
230443361 TCATGTGCATA
1 TCATGTGCATA
230443372 TCAT
1 TCAT
230443376 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:230450565 original size:23 final size:23
Alignment explanation
Indices: 230450521--230450678 Score: 234
Period size: 23 Copynumber: 7.0 Consensus size: 23
230450511 GCTTTATCAT
* *
230450521 ATAACTGAGGCCT-AGCCTCTTTA
1 ATAACTGGGGCATAAGCC-CTTTA
*
230450544 ATAACTGGGGCAAAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
230450567 ATAACT-GGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
230450589 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
*
230450612 ATAACT--GGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCC-TTTA
230450634 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
230450657 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
230450679 TGCACTTCTC
Statistics
Matches: 124, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.09
22 30 0.24
23 68 0.55
24 15 0.12
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:230450590 original size:45 final size:45
Alignment explanation
Indices: 230450521--230450678 Score: 239
Period size: 45 Copynumber: 3.5 Consensus size: 45
230450511 GCTTTATCAT
* *
230450521 ATAACTGAGGCCT-AGCCTCTTTAATAACTGGGGCAAAAGCCCTTTA
1 ATAACTG-GGCATAAGCC-CTTTAATAACTGGGGCATAAGCCCTTTA
230450567 ATAACTGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTA
*
230450612 ATAACT-GGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTA
230450657 ATAACTGGGGCATAAGCCCTTT
1 ATAACT-GGGCATAAGCCCTTT
230450679 TGCACTTCTC
Statistics
Matches: 105, Mismatches: 3, Indels: 8
0.91 0.03 0.07
Matches are distributed among these distances:
44 11 0.10
45 69 0.66
46 14 0.13
47 11 0.10
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (45 bp):
ATAACTGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:230450616 original size:68 final size:68
Alignment explanation
Indices: 230450521--230450678 Score: 232
Period size: 68 Copynumber: 2.3 Consensus size: 68
230450511 GCTTTATCAT
* *
230450521 ATAACTGAGGCCT-AGCCTCTTTAATAACTGGGGCAAAAGCCC-TTTAATAACT-GGGCATAAGC
1 ATAACTGGGGCATAAGCC-CTTTAATAACT--GGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
230450583 CCTTTA
63 CCTTTA
* *
230450589 ATAACTGGGGCATAAGCCCTTTAATAACTGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCT
1 ATAACTGGGGCATAAGCCCTTTAATAACTGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCT
230450654 TTA
66 TTA
230450657 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
230450679 TGCACTTCTC
Statistics
Matches: 83, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
66 10 0.12
67 9 0.11
68 60 0.72
69 4 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (68 bp):
ATAACTGGGGCATAAGCCCTTTAATAACTGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCCT
TTA
Found at i:230450749 original size:9 final size:9
Alignment explanation
Indices: 230450735--230450791 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
230450725 CTCTCATGTG
230450735 CATATCATA
1 CATATCATA
*
230450744 CATATCATGTG
1 CATATCA--TA
230450755 CATATCATA
1 CATATCATA
* *
230450764 CATGTCATGTG
1 CATATCA--TA
230450775 CATATCATA
1 CATATCATA
230450784 CATATCAT
1 CATATCAT
230450792 GTTATATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:230450751 original size:20 final size:20
Alignment explanation
Indices: 230450728--230450793 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
230450718 TTATGAACTC
230450728 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
230450748 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
230450768 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
230450788 TCATGT
1 TCATGT
230450794 TATATAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:230450758 original size:11 final size:11
Alignment explanation
Indices: 230450728--230450782 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
230450718 TTATGAACTC
230450728 TCATGTGCATA
1 TCATGTGCATA
*
230450739 TCA--TACATA
1 TCATGTGCATA
230450748 TCATGTGCATA
1 TCATGTGCATA
* *
230450759 TCA--TACATG
1 TCATGTGCATA
230450768 TCATGTGCATA
1 TCATGTGCATA
230450779 TCAT
1 TCAT
230450783 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:230454829 original size:40 final size:40
Alignment explanation
Indices: 230454656--230454834 Score: 246
Period size: 39 Copynumber: 4.6 Consensus size: 40
230454646 TACTCGTTCG
*
230454656 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACA
*
230454696 AATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCAC-
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
230454734 AATGCCTTCGGG-CTTAGCCCGGA-TTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
* *
230454772 AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACA
230454813 AA-GCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
230454835 TCATCATTCG
Statistics
Matches: 125, Mismatches: 6, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
37 16 0.13
38 28 0.22
39 36 0.29
40 34 0.27
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACA
Found at i:230463691 original size:40 final size:39
Alignment explanation
Indices: 230463646--230463775 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
230463636 CGGAATATAA
230463646 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
230463686 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
230463726 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
230463766 CCGGATATAA
1 CCGGATATAA
230463776 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:230463790 original size:40 final size:40
Alignment explanation
Indices: 230463662--230463813 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
230463652 ATAACCATGT
* * *
230463662 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
230463702 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
230463742 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
230463782 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
230463814 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:230463796 original size:80 final size:80
Alignment explanation
Indices: 230463662--230463811 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
230463652 ATAACCATGT
*
230463662 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
230463726 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
230463742 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
230463805 CCCGGAT
64 CCCGGAT
230463812 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:230471661 original size:40 final size:39
Alignment explanation
Indices: 230471616--230471745 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
230471606 CGGAATATAA
230471616 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
230471656 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
230471696 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
230471736 CCGGATATAA
1 CCGGATATAA
230471746 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:230471760 original size:40 final size:40
Alignment explanation
Indices: 230471632--230471783 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
230471622 ATAACCATGT
* * *
230471632 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
230471672 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
230471712 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
230471752 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
230471784 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:230471766 original size:80 final size:80
Alignment explanation
Indices: 230471632--230471781 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
230471622 ATAACCATGT
*
230471632 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
230471696 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
230471712 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
230471775 CCCGGAT
64 CCCGGAT
230471782 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:230482178 original size:40 final size:40
Alignment explanation
Indices: 230482119--230482287 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
230482109 CGGGACTTTA
* * *
230482119 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
230482159 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
230482199 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
230482239 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
230482279 CCCGGATAT
1 CCCGGATAT
230482288 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:230499460 original size:40 final size:39
Alignment explanation
Indices: 230499295--230499478 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
230499285 AAATTGAATG
* * *
230499295 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
230499335 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
230499375 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
230499415 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
230499454 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
230499479 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:230499503 original size:80 final size:81
Alignment explanation
Indices: 230499335--230499523 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
230499325 GCTGGAAATT
* * * *
230499335 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
230499400 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
230499416 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
230499479 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
230499495 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
230499524 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:230507525 original size:40 final size:39
Alignment explanation
Indices: 230507360--230507543 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
230507350 AAATTGAATG
* * *
230507360 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
230507400 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
230507440 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
230507480 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
230507519 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
230507544 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:230507568 original size:80 final size:81
Alignment explanation
Indices: 230507400--230507588 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
230507390 GCTGGAAATT
* * * *
230507400 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
230507465 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
230507481 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
230507544 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
230507560 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
230507589 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:230509084 original size:28 final size:29
Alignment explanation
Indices: 230509017--230509117 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
230509007 ATAGTGAATC
*
230509017 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
*
230509046 CGGACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
230509074 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
230509104 CGCACACTTAGTGC
1 CGCACACTTAGTGC
230509118 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:230516845 original size:28 final size:29
Alignment explanation
Indices: 230516778--230516878 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
230516768 ATAGTGAATC
*
230516778 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
230516807 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
230516835 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
230516865 CGCACACTTAGTGC
1 CGCACACTTAGTGC
230516879 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:230531114 original size:40 final size:40
Alignment explanation
Indices: 230531055--230531261 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
230531045 CAATTGAATG
* * * *
230531055 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
230531095 ATATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
230531134 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
230531174 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
230531214 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
230531254 ATATCCGG
1 ATATCCGG
230531262 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 34 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:230531234 original size:80 final size:77
Alignment explanation
Indices: 230531056--230531261 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 77
230531046 AATTGAATGA
* * ** * * *
230531056 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
*
230531121 TGTGCTAGTGAC
66 TGTGCAAGTGAC
* * *
230531133 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
*
230531198 ATTTGTGCAAGTCGTTC
64 A-TTGTGCAAGT-G-AC
* *
230531215 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
230531262 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
79 53 0.49
80 52 0.48
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (77 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TGTGCAAGTGAC
Found at i:230539128 original size:40 final size:40
Alignment explanation
Indices: 230539056--230539262 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
230539046 CAATTGAATG
* * ** *
230539056 ATATCCGGGCTAAG-TCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * *
230539095 ATATCCGGGTTAAGACCCGAAGGCCATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
230539135 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
230539175 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
230539215 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
230539255 ATATCCGG
1 ATATCCGG
230539263 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
39 17 0.12
40 121 0.85
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:230545877 original size:71 final size:68
Alignment explanation
Indices: 230545698--230545960 Score: 321
Period size: 71 Copynumber: 3.8 Consensus size: 68
230545688 GAGTTAAGCC
* *
230545698 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTG
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACGCTG
230545763 AGGTAT
63 AGGTAT
* * * * *
230545769 TTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGA
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTC-GGGCACGCTGA
230545834 GGTAT
64 GGTAT
230545839 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTC-GGGCACGCT
230545903 GAGGTAT
62 GAGGTAT
* * ** * *
230545910 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAGATGAGTTGAGCCT
230545961 TTTAATTTTT
Statistics
Matches: 167, Mismatches: 19, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
69 66 0.40
70 27 0.16
71 74 0.44
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (68 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGCACGCTGAGG
TAT
Found at i:230545953 original size:140 final size:141
Alignment explanation
Indices: 230545698--230545960 Score: 413
Period size: 140 Copynumber: 1.9 Consensus size: 141
230545688 GAGTTAAGCC
* *
230545698 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTG
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTG
* * *
230545763 AGGTATTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACA
66 AGGTATTTTCAATTTATGTGTTTAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGACA
230545828 CGTTGAGGTAT
131 CGTTGAGGTAT
230545839 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCT
* * ** *
230545903 GAGGTATTTTTAGTTTATGT-TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
65 GAGGTATTTTCAATTTATGTGTTTAAATCAACTCATATTGCGAGAGATGAGTTAAGCCT
230545961 TTTAATTTTT
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
140 73 0.66
141 38 0.34
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (141 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTG
AGGTATTTTCAATTTATGTGTTTAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGACA
CGTTGAGGTAT
Found at i:230545991 original size:193 final size:193
Alignment explanation
Indices: 230545787--230546367 Score: 650
Period size: 193 Copynumber: 2.9 Consensus size: 193
230545777 TTTGTGTTTT
* * * *
230545787 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
*
230545852 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAGT
* **
230545917 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTT-TTGTTTTTCAA
130 TTATGTTTTAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTTCAA
* *
230545980 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* ** *
230546044 GTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
66 -TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTA--TT---
* *
230546109 TTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGA-GT-AGGTTGAA-CCTT
124 TTT-AG-TTT--A--T--GTT-TT--A-AATTAACTCATATTGCGAGAGGTGA-GTT-AAGCCTT
230546171 TTAATTTCTACTTTTTCAA
175 TTAATTTCTACTTTTTCAA
* *
230546190 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* * *
230546255 TGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCA
66 TTTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTT-T
* * * * *
230546320 ATTTTATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCT
127 AGTTTATGTTTTAAATT-AACTCATATTGCGAGAGGTGAGTTAAGCCT
230546368 CAGGTCACAC
Statistics
Matches: 323, Mismatches: 35, Indels: 55
0.78 0.08 0.13
Matches are distributed among these distances:
192 25 0.08
193 84 0.26
195 2 0.01
196 2 0.01
197 17 0.05
198 10 0.03
199 4 0.01
200 6 0.02
202 2 0.01
204 2 0.01
206 6 0.02
207 4 0.01
208 1 0.00
209 17 0.05
210 67 0.21
211 26 0.08
212 14 0.04
213 34 0.11
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (193 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTTAGTT
TATGTTTTAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTCTACTTTTTCAA
Found at i:230546005 original size:122 final size:123
Alignment explanation
Indices: 230545839--230546084 Score: 381
Period size: 122 Copynumber: 2.0 Consensus size: 123
230545829 GTTGAGGTAT
230545839 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTG
* *
230545904 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
65 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
230545960 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTG
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTG
* * * *
230546025 AGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
230546084 T
1 T
230546085 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
121 31 0.27
122 41 0.36
123 13 0.12
124 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (123 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGA
GGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:230546050 original size:262 final size:256
Alignment explanation
Indices: 230545531--230546121 Score: 1038
Period size: 262 Copynumber: 2.3 Consensus size: 256
230545521 TTTCAAGGAA
*
230545531 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
230545596 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
230545661 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
230545726 CATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
230545787 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
230545852 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA---TT--T
230545917 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
230545982 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
230546047 TT
255 TT
* * * * * *
230546049 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
230546114 GTTTTCAA
64 GTTTTCAA
230546122 TTTACGTTGT
Statistics
Matches: 319, Mismatches: 8, Indels: 8
0.95 0.02 0.02
Matches are distributed among these distances:
256 120 0.38
259 2 0.01
261 4 0.01
262 130 0.41
264 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (256 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:230546080 original size:71 final size:71
Alignment explanation
Indices: 230545960--230546396 Score: 331
Period size: 73 Copynumber: 6.1 Consensus size: 71
230545950 GAGTTAAGCC
*
230545960 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
230546023 TGAGGTA
65 TGAGGTA
** *
230546030 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
230546095 TGAGGTA
65 TGAGGTA
* * ** * * * * ** * *** * * *
230546102 TTTTCAATTTCTG-TTTT-CAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGTAG
1 TTTTCAATTTTTGTTTTTAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-C-AGGGCAC
* ***
230546161 GTTGA-ACC
63 GCTGAGGTA
** *
230546169 TTTT-AATTTCTACTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTT-TTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
230546233 CTGAGGTA
64 CTGAGGTA
* * ** *
230546241 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCAC
1 TTTTCAATTTTTGTT-T--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAC
230546305 GCTGAGGTA
63 GCTGAGGTA
** * * *
230546314 TTTTCAATTTTATG-TTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTTTCAATTTT-TGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--GCAC
230546378 GCTGAGGTA
63 GCTGAGGTA
230546387 TTTTCAATTT
1 TTTTCAATTT
230546397 CCGTTTTTCA
Statistics
Matches: 274, Mismatches: 70, Indels: 43
0.71 0.18 0.11
Matches are distributed among these distances:
66 10 0.04
67 9 0.03
68 14 0.05
69 4 0.01
70 46 0.17
71 55 0.20
72 41 0.15
73 57 0.21
74 38 0.14
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:230546320 original size:73 final size:70
Alignment explanation
Indices: 230545978--230546402 Score: 285
Period size: 70 Copynumber: 6.0 Consensus size: 70
230545968 TTTGTTTTTC
* *
230545978 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA--TTT
* *
230546042 GTGTTTT
64 CTGTTTA
** *
230546049 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
230546114 GTTT-
66 GTTTA
** ** * * * * ** * *** * * * ***
230546118 TCAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGC-GAGAGTAGGTTGA-ACCTTTT-AAT
1 AAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CAG-GA-CACGCTGAGGTATTTTCAA-
* *
230546176 TTCTACTTTTTC
61 TT-T-CTGTTTA
*
230546188 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
230546253 GTTGTCAAA
66 GTT-T---A
* * *
230546262 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTCAATTTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-TTTC
*
230546326 TGTTTT
65 TGTTTA
** * *
230546332 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTT
*
230546397 CCGTTT
64 CTGTTT
230546403 TTCAATTTCT
Statistics
Matches: 265, Mismatches: 65, Indels: 47
0.70 0.17 0.12
Matches are distributed among these distances:
66 8 0.03
67 12 0.05
68 9 0.03
69 9 0.03
70 50 0.19
71 46 0.17
72 40 0.15
73 48 0.18
74 43 0.16
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTTA
Found at i:230546406 original size:14 final size:14
Alignment explanation
Indices: 230546387--230546421 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
230546377 CGCTGAGGTA
230546387 TTTTCAATTTCCGT
1 TTTTCAATTTCCGT
*
230546401 TTTTCAATTTCTGT
1 TTTTCAATTTCCGT
*
230546415 CTTTCAA
1 TTTTCAA
230546422 AAAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCCGT
Found at i:230546528 original size:74 final size:76
Alignment explanation
Indices: 230546402--230546563 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 76
230546392 AATTTCCGTT
* *
230546402 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTGTCTGTC-AAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCA
230546466 CACGCTGAGGTAA
65 CACGC-GAGGTAA
* *
230546479 TTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
* *
230546542 TACGCGAGGTAT
65 CACGCGAGGTAA
230546554 TTTCAATTTC
1 TTTCAATTTC
230546564 CGTTTTTCAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
74 40 0.52
75 16 0.21
76 8 0.10
77 13 0.17
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (76 bp):
TTTCAATTTCTGTCTGTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
ACGCGAGGTAA
Found at i:230546606 original size:164 final size:164
Alignment explanation
Indices: 230546242--230546898 Score: 931
Period size: 164 Copynumber: 4.0 Consensus size: 164
230546232 GCTGAGGTAA
* *
230546242 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGC
1 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * * *
230546303 ACGCTGAGGTATTTTCAATTTTATGTT-T-TAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGC
65 ACGCTGAGGTAATTTCAA-TTTCTGTTGTCAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
230546366 CTCAGGTCACACG-CTGAGGTATTTTCAATTTCCGTT
129 CTCAGGTCACACGTC-GAGGTATTTTCAATTTCCGTT
*
230546402 TTTCAATTTCTGTCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTCAATTTCTGCCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
230546467 ACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAG
65 ACGCTGAGGTAATTTCAATTTCTGTTGTC--AAAATTCAACTCGTATTGCGAGAGGCGAGTTGAG
*
230546532 CCTCAGGTCATACG-CGAGGTATTTTCAATTTCCGTT
128 CCTCAGGTCACACGTCGAGGTATTTTCAATTTCCGTT
*
230546568 TTTCAATTTTTGCCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
230546632 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTTGTC--AAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
* *
230546697 CTCAGATCACACGTCGAGGTATTTTCAATTTCCATT
129 CTCAGGTCACACGTCGAGGTATTTTCAATTTCCGTT
*
230546733 TTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
1 TTTCAATTTCTGCCTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * ***
230546798 CACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
64 CACGCTGAGGTAATTTCAATTTCTGTTGTCAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGC
* * *
230546863 CTCAAG--ACACGTTGAGGTATTTTCAATTTCTGTT
129 CTCAGGTCACACGTCGAGGTATTTTCAATTTCCGTT
230546897 TT
1 TT
230546899 CAAAAAATCA
Statistics
Matches: 455, Mismatches: 29, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
160 12 0.03
161 2 0.00
162 2 0.00
163 46 0.10
164 167 0.37
165 38 0.08
166 72 0.16
167 44 0.10
168 72 0.16
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (164 bp):
TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGTTGTCAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCT
CAGGTCACACGTCGAGGTATTTTCAATTTCCGTT
Found at i:230546857 original size:72 final size:73
Alignment explanation
Indices: 230546755--230547261 Score: 415
Period size: 72 Copynumber: 6.5 Consensus size: 73
230546745 CCTTTCAAAA
*
230546755 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
230546820 CTGTTTTC
66 CTGTTTTC
* ** ** *
230546828 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
230546892 CTGTTTTC
66 CTGTTTTC
* * * ** *
230546900 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
230546965 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
230546976 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
230547041 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
230547055 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
230547119 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
230547132 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
230547197 GCTATTTTCAATTTCTGTTTTTTTTTC
52 GGTATTTTCAATTTCTG-----TTTTC
230547224 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
230547262 TTTTTAATTT
Statistics
Matches: 350, Mismatches: 51, Indels: 57
0.76 0.11 0.12
Matches are distributed among these distances:
72 65 0.19
73 34 0.10
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 64 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 54 0.15
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:230547045 original size:79 final size:76
Alignment explanation
Indices: 230546754--230547471 Score: 436
Period size: 88 Copynumber: 9.0 Consensus size: 76
230546744 GCCTTTCAAA
** *
230546754 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
230546817 TTTCTGTTTTC
66 TTTCTGTTTTC
* ** * *
230546828 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
230546889 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
230546900 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
230546964 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
230546976 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
230547041 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
230547055 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
230547119 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
230547132 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
230547197 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
230547224 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
230547288 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
230547311 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
230547372 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
230547386 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
230547451 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
230547472 TAATGTCTGT
Statistics
Matches: 505, Mismatches: 82, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 65 0.13
73 32 0.06
75 36 0.07
76 5 0.01
77 63 0.12
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 120 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:230547132 original size:14 final size:13
Alignment explanation
Indices: 230547113--230547148 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
230547103 TGTCGAGGTA
230547113 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
230547126 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
230547140 TTTTCAAAA
1 TTTTCAAAA
230547149 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:230547279 original size:30 final size:30
Alignment explanation
Indices: 230547243--230547304 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
230547233 CAACTCATAT
230547243 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
230547273 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
230547303 TG
1 TG
230547305 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:230547405 original size:254 final size:248
Alignment explanation
Indices: 230546894--230547472 Score: 762
Period size: 254 Copynumber: 2.3 Consensus size: 248
230546884 TTCAATTTCT
* * *
230546894 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
230546959 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
230547020 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
230547085 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
230547139 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
230547203 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
230547268 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
230547330 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
230547393 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
230547457 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
230547473 AATGTCTGTT
Statistics
Matches: 291, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 146 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:230548134 original size:13 final size:13
Alignment explanation
Indices: 230548117--230548154 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
230548107 AACCTAACCC
230548117 AAAAAAAAACAAAG
1 AAAAAAAAA-AAAG
230548131 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
230548144 AAAAAGAAAAA
1 AAAAA-AAAAA
230548155 CCTACCCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.39
14 14 0.61
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:230548139 original size:19 final size:19
Alignment explanation
Indices: 230548117--230548154 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
230548107 AACCTAACCC
*
230548117 AAAAAAAA-ACAAAGAAAA
1 AAAAAAAAGAAAAAGAAAA
230548135 AAAAAAAAGAAAAAGAAAA
1 AAAAAAAAGAAAAAGAAAA
230548154 A
1 A
230548155 CCTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (19 bp):
AAAAAAAAGAAAAAGAAAA
Found at i:230548169 original size:16 final size:16
Alignment explanation
Indices: 230548150--230548186 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
230548140 AAAGAAAAAG
*
230548150 AAAAACCTACCCCAAA
1 AAAAACCTAACCCAAA
230548166 AAAAACCTAACCCAAA
1 AAAAACCTAACCCAAA
230548182 AAAAA
1 AAAAA
230548187 AGAAGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.65, C:0.30, G:0.00, T:0.05
Consensus pattern (16 bp):
AAAAACCTAACCCAAA
Found at i:230548170 original size:17 final size:17
Alignment explanation
Indices: 230548145--230548187 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
230548135 AAAAAAAAGA
230548145 AAAAGAAAAACCT-ACCC
1 AAAA-AAAAACCTAACCC
*
230548162 CAAAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
230548179 AAAAAAAAA
1 AAAAAAAAA
230548188 GAAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.67, C:0.26, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAAACCTAACCC
Found at i:230549004 original size:37 final size:37
Alignment explanation
Indices: 230548962--230549061 Score: 91
Period size: 37 Copynumber: 2.6 Consensus size: 37
230548952 CTAATATTTT
230548962 CTTTTATTGTAGATATTATTATTATTATTAT-TACATA
1 CTTTTATT-TAGATATTATTATTATTATTATGTACATA
*
230548999 CTTTTATTATATGCATA-TATATATGTATTTTTATGTACATA
1 CTTTTATT-TA-G-ATATTAT-TAT-TATTATTATGTACATA
*
230549040 -TTATTATTT-TATATTATTATTA
1 CTT-TTATTTAGATATTATTATTA
230549062 CCAAATATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
36 2 0.04
37 16 0.30
38 7 0.13
39 6 0.11
40 11 0.21
41 11 0.21
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (37 bp):
CTTTTATTTAGATATTATTATTATTATTATGTACATA
Found at i:230550465 original size:9 final size:9
Alignment explanation
Indices: 230550451--230550692 Score: 128
Period size: 9 Copynumber: 27.6 Consensus size: 9
230550441 TACATGATAT
230550451 CATAACTTA
1 CATAACTTA
230550460 CATAACTTA
1 CATAACTTA
230550469 CATAA--TA
1 CATAACTTA
*
230550476 CATAA-ATA
1 CATAACTTA
* * *
230550484 TATATCATA
1 CATAACTTA
230550493 CAATAACTTA
1 C-ATAACTTA
*
230550503 CTTAACTTA
1 CATAACTTA
230550512 CATAACTTA
1 CATAACTTA
230550521 CATAA--TA
1 CATAACTTA
*
230550528 CATAA-ATA
1 CATAACTTA
** *
230550536 TTTATCATATA
1 CATAAC-T-TA
230550547 -ATAACTTA
1 CATAACTTA
*
230550555 CATAACTAA
1 CATAACTTA
230550564 CATAACTTA
1 CATAACTTA
*
230550573 CTTAACTTA
1 CATAACTTA
*
230550582 CGTAA--TA
1 CATAACTTA
*
230550589 CATAA-ATA
1 CATAACTTA
* ** *
230550597 TATTTCATA
1 CATAACTTA
*
230550606 TCATAATTTA
1 -CATAACTTA
230550616 CATAACTTA
1 CATAACTTA
*
230550625 CATACCTTA
1 CATAACTTA
*
230550634 CATAAATT-
1 CATAACTTA
* * *
230550642 TATATCATA
1 CATAACTTA
*
230550651 TCATAGCTTA
1 -CATAACTTA
230550661 CATAACTTA
1 CATAACTTA
*
230550670 CAAAACTTA
1 CATAACTTA
*
230550679 CTTAACTTA
1 CATAACTTA
230550688 CATAA
1 CATAA
230550693 TACATAAATA
Statistics
Matches: 178, Mismatches: 42, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
7 20 0.11
8 19 0.11
9 117 0.66
10 20 0.11
11 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:230550509 original size:52 final size:51
Alignment explanation
Indices: 230550451--230550704 Score: 247
Period size: 52 Copynumber: 4.7 Consensus size: 51
230550441 TACATGATAT
230550451 CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATAC-ATAACTTA
* * *
230550503 CTTAACTTACATAACTTACATAATACATAAATATTTATCATATAATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATA-CATAACTTA
* * *
230550555 CATAACTAACATAACTTACTTAACTTACGTAATACATAAATATATTTCATATCATAATTTA
1 CATAACT----T-AC--A--TAACTTACATAATACATAAATATATATCATA-CATAACTTA
* ** * * *
230550616 CATAACTTACATACCTTACATAAATTTATATCATATCATAGCTTACATAACTTA
1 CATAACTTACATAACTTACAT-AATACATA-AATAT-ATATCATACATAACTTA
* *
230550670 CAAAACTTACTTAACTTACATAATACATAAATATA
1 CATAACTTACATAACTTACATAATACATAAATATA
230550705 CACTTGAAAA
Statistics
Matches: 165, Mismatches: 24, Indels: 27
0.76 0.11 0.12
Matches are distributed among these distances:
51 1 0.01
52 66 0.40
53 12 0.07
54 31 0.19
55 5 0.03
56 3 0.02
57 3 0.02
59 1 0.01
61 43 0.26
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.36
Consensus pattern (51 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATACATAACTTA
Found at i:230550519 original size:61 final size:61
Alignment explanation
Indices: 230550451--230550638 Score: 225
Period size: 61 Copynumber: 3.2 Consensus size: 61
230550441 TACATGATAT
230550451 CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAAC-T---T-AC-T-
1 CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAACTTACATAACTTA
* * *
230550505 --TAACTTACATAACTTACATAATACATAAATATTTATCATATAATAACTTACATAACTAA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAACTTACATAACTTA
* * * *
230550564 CATAACTTACTTAACTTACGTAATACATAAATATATTTCATATC-ATAATTTACATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATA-CAATAACTTACATAACTTA
*
230550625 CATACCTTACATAA
1 CATAACTTACATAA
230550639 ATTTATATCA
Statistics
Matches: 112, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
52 45 0.40
53 1 0.01
56 1 0.01
57 2 0.02
61 63 0.56
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.36
Consensus pattern (61 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATACAATAACTTACATAACTTA
Found at i:230550694 original size:106 final size:104
Alignment explanation
Indices: 230550509--230550704 Score: 304
Period size: 106 Copynumber: 1.9 Consensus size: 104
230550499 CTTACTTAAC
*
230550509 TTACATAACTTACATAATACATAAATATTTATCATATAATAACTTACATAACTAACATAACTTAC
1 TTACATAACTTACATAATACATAAATATTTATCATATAATAACTTACATAACTAACAAAACTTAC
*
230550574 TTAACTTACGTAATACATAAATATATTTCATATCATAAT
66 TTAACTTACATAATACATAAATATATTTCATATCATAAT
* * * *
230550613 TTACATAACTTACATACCTTACATAAAT-TTATATCATATCATAGCTTACATAACTTACAAAACT
1 TTACATAACTTACATA--ATACATAAATATT-TATCATATAATAACTTACATAACTAACAAAACT
230550677 TACTTAACTTACATAATACATAAATATA
63 TACTTAACTTACATAATACATAAATATA
230550705 CACTTGAAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
104 16 0.19
105 2 0.02
106 65 0.78
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (104 bp):
TTACATAACTTACATAATACATAAATATTTATCATATAATAACTTACATAACTAACAAAACTTAC
TTAACTTACATAATACATAAATATATTTCATATCATAAT
Found at i:230553152 original size:28 final size:28
Alignment explanation
Indices: 230553112--230553169 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
230553102 CCTTCCTTCT
230553112 TCACTATTATGGTGCACTTGGTAATCTA
1 TCACTATTATGGTGCACTTGGTAATCTA
230553140 TCACTATTATGGTGCACTTGGTAATCTA
1 TCACTATTATGGTGCACTTGGTAATCTA
230553168 TC
1 TC
230553170 TCCCTCGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (28 bp):
TCACTATTATGGTGCACTTGGTAATCTA
Found at i:230556399 original size:40 final size:40
Alignment explanation
Indices: 230556354--230556520 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
230556344 CGGAATATAA
230556354 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
230556394 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
230556434 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
230556474 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
230556513 CCGGATAT
1 CCGGATAT
230556521 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:230556504 original size:80 final size:79
Alignment explanation
Indices: 230556354--230556520 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
230556344 CGGAATATAA
* *
230556354 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
230556419 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
230556434 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
230556496 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
230556513 CCGGATAT
1 CCGGATAT
230556521 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:230557364 original size:17 final size:19
Alignment explanation
Indices: 230557341--230557386 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
230557331 AAGAAGCATG
230557341 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
230557359 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
230557377 AATCATGCTC
1 AATCATGCTC
230557387 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:230567067 original size:40 final size:40
Alignment explanation
Indices: 230567008--230567149 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
230566998 AAATTGAATG
* * *
230567008 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
230567048 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
230567088 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
230567128 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
230567150 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:230567150 original size:40 final size:39
Alignment explanation
Indices: 230567047--230567175 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
230567037 TGCTGGAAAT
* * *
230567047 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
230567087 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
230567127 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
230567167 TATATCCGG
1 TATATCCGG
230567176 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:230570758 original size:29 final size:29
Alignment explanation
Indices: 230570724--230570798 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
230570714 TACTCGATTT
* *
230570724 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATGCCATTCAAGCC
* * * *
230570753 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCCATTCAAGCC
230570782 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
230570799 ATATTTCCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCCATTCAAGCC
Found at i:230578460 original size:29 final size:29
Alignment explanation
Indices: 230578426--230578500 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
230578416 TACTCGATTT
* *
230578426 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATGCCATTCAAGCC
* * * *
230578455 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCCATTCAAGCC
230578484 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
230578501 ATATTTCCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCCATTCAAGCC
Found at i:230582411 original size:14 final size:13
Alignment explanation
Indices: 230582392--230582421 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
230582382 CCTTGGTAAA
230582392 TTTTATTTTATTTT
1 TTTTA-TTTATTTT
230582406 TTTTATTTATTTT
1 TTTTATTTATTTT
230582419 TTT
1 TTT
230582422 CAAAAGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTATTTATTTT
Found at i:230583448 original size:25 final size:25
Alignment explanation
Indices: 230583420--230583478 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
230583410 CTGGAGGCCT
230583420 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*** *
230583445 AGCCCTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTAATAAACTGGGGCAAA
230583470 AGCCCTTTT
1 AGCCCTTTT
230583479 GCACTTCCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:230583550 original size:9 final size:9
Alignment explanation
Indices: 230583536--230583592 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
230583526 ACATCATGTG
230583536 CATATCATA
1 CATATCATA
*
230583545 CATATCATGTG
1 CATATCA--TA
*
230583556 CATATCGTA
1 CATATCATA
*
230583565 CATATCATGTG
1 CATATCA--TA
230583576 CATATCATA
1 CATATCATA
230583585 CATATCAT
1 CATATCAT
230583593 GTGCATGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:230583553 original size:20 final size:20
Alignment explanation
Indices: 230583528--230583604 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
230583518 TTATGAATAC
230583528 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
230583548 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
230583568 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
230583588 ATCATGTGCATGTCATA
1 ATCATGTGCATATCATA
230583605 TCAATATTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:230583559 original size:11 final size:11
Alignment explanation
Indices: 230583528--230583603 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
230583518 TTATGAATAC
230583528 ATCATGTGCAT
1 ATCATGTGCAT
*
230583539 ATCA--TACAT
1 ATCATGTGCAT
230583548 ATCATGTGCAT
1 ATCATGTGCAT
*
230583559 ATC--GTACAT
1 ATCATGTGCAT
230583568 ATCATGTGCAT
1 ATCATGTGCAT
*
230583579 ATCA--TACAT
1 ATCATGTGCAT
230583588 ATCATGTGCAT
1 ATCATGTGCAT
*
230583599 GTCAT
1 ATCAT
230583604 ATCAATATTG
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
9 24 0.46
11 28 0.54
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:230583998 original size:21 final size:20
Alignment explanation
Indices: 230583966--230584004 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
230583956 GGGCCCGAAG
230583966 GCCCATTGGGCCCAACTTCA
1 GCCCATTGGGCCCAACTTCA
*
230583986 GCCCCTTGAGGCCCAACTT
1 GCCCATTG-GGCCCAACTT
230584005 ACTGTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.18, C:0.41, G:0.21, T:0.21
Consensus pattern (20 bp):
GCCCATTGGGCCCAACTTCA
Found at i:230587476 original size:93 final size:93
Alignment explanation
Indices: 230587364--230587536 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
230587354 CGCCCATAAG
* * *
230587364 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
230587429 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
230587457 CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
230587522 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
230587537 CAAATATCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:230587532 original size:46 final size:46
Alignment explanation
Indices: 230587357--230587532 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
230587347 TGTAACCCGC
* * *
230587357 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
230587403 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
230587453 -C-TCA-CGAACTCGGACTCAACTCAACAAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
230587496 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
230587533 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:230602558 original size:71 final size:71
Alignment explanation
Indices: 230602437--230602570 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
230602427 GTTTTCCAAG
* * *
230602437 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
230602502 GTTTCA
66 GTTTCA
* * *
230602508 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
230602571 CTGCTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTAT
GTTTCA
Found at i:230602577 original size:160 final size:160
Alignment explanation
Indices: 230602223--230602729 Score: 946
Period size: 160 Copynumber: 3.2 Consensus size: 160
230602213 CAATTTCTGT
230602223 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGC
1 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGC
230602288 TCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGTTGAGGTAATTTCAATTTATGTTTCAAAA
66 TCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAA
*
230602351 ATCAACTCATATTGCGAGAAGTGAGTTAAG
131 ATCAACTCATATTGCGAGAAGTGAGTTGAG
230602381 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGC
1 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGC
230602446 TCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAA
66 TCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAA
230602511 ATCAACTCATATTGCGAGAAGTGAGTTGAG
131 ATCAACTCATATTGCGAGAAGTGAGTTGAG
230602541 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGC
1 CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGC
* *
230602606 TCACATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTAATTTCAATTTATGTTTCAAAA
66 TCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAA
*
230602671 ATCAACTCATATTGCGAGAAGTGAGTTGAA
131 ATCAACTCATATTGCGAGAAGTGAGTTGAG
* *
230602701 CCTCGGGGCACGCTGAGGTAATTTCAATT
1 CCTCAGGGCACGCTGAGGTATTTTCAATT
230602730 CCTATTAAAT
Statistics
Matches: 341, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
158 96 0.28
160 245 0.72
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (160 bp):
CCTCAGGGCACGCTGAGGTATTTTCAATTTCTGCTTTTTAATTCATGTTTTCCAAGAAAATCAGC
TCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTATGTTTCAAAA
ATCAACTCATATTGCGAGAAGTGAGTTGAG
Found at i:230602718 original size:71 final size:71
Alignment explanation
Indices: 230602597--230602846 Score: 286
Period size: 74 Copynumber: 3.5 Consensus size: 71
230602587 GTTTTCCAAG
* * * * *
230602597 AAAATCAGCTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACATGTTGAGGTAATTTCAATT-TA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTCTA
230602661 TGTTTCA
66 T-TTTCA
* * * *
230602668 AAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCGGGGCACGCTGAGGTAATTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATT-CT
* *
230602733 ATTAAATCT
65 ATT--TTCA
* * * * *
230602742 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGCGTCACGCTAAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTC-AATTCT
230602807 ATTTTCA
65 ATTTTCA
* *
230602814 AAATTCAATTCATATTGCGAGAGGTGAGTTGAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG
230602847 TCTTTTTAAT
Statistics
Matches: 152, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
71 53 0.35
72 34 0.22
73 3 0.02
74 58 0.38
75 4 0.03
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTCTA
TTTTCA
Found at i:230602998 original size:13 final size:13
Alignment explanation
Indices: 230602980--230603004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
230602970 TGAGTTGAGC
230602980 CTTTTAATTTCTG
1 CTTTTAATTTCTG
230602993 CTTTTAATTTCT
1 CTTTTAATTTCT
230603005 ATGTTTCAAA
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:0.16, C:0.16, G:0.04, T:0.64
Consensus pattern (13 bp):
CTTTTAATTTCTG
Found at i:230603012 original size:68 final size:68
Alignment explanation
Indices: 230602794--230603048 Score: 217
Period size: 67 Copynumber: 3.8 Consensus size: 68
230602784 ACGCTAAGGT
* * *
230602794 ATTTTCAAATTCTATTTTCAAA--ATTCAATTCATATTGCGAGAGGTGAGTTGAGTCTTTTTAAT
1 ATTTTCAATTTCTATTTTCAAATTATT-AACTCATATTGCGAGAGGTGAGTTGAG-CCTTTTAAT
230602857 TTCT-
64 TTCTG
* * * *
230602861 ATTTTCAATTTCTGTTTT----TAATCAACTCATATTGCGAGAGGTGAGTTGAACC-TTTAATTT
1 ATTTTCAATTTCTATTTTCAAATTATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTT
*
230602921 CAG
66 CTG
* * * *
230602924 TTTTTCGAA-ATCTACTTTTCAAATTATTAACTCATGTTGCGAAAGGTGAGTTGAGCCTTTTAAT
1 ATTTTC-AATTTCTA-TTTTCAAATTATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAT
230602988 TTCTG
64 TTCTG
* * ** * **
230602993 CTTTT-AATTTCTATGTTTCAAA-AACCAACCCATATTGCGAGAAATGAGTTGAGCCT
1 ATTTTCAATTTCTAT-TTTCAAATTATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
230603049 CAGTTCACAT
Statistics
Matches: 150, Mismatches: 26, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
62 9 0.06
63 9 0.06
64 31 0.21
65 2 0.01
67 45 0.30
68 40 0.27
69 14 0.09
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (68 bp):
ATTTTCAATTTCTATTTTCAAATTATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTT
CTG
Found at i:230603650 original size:24 final size:24
Alignment explanation
Indices: 230603618--230603738 Score: 133
Period size: 23 Copynumber: 5.2 Consensus size: 24
230603608 AAATCCAATA
* *
230603618 CCCATTACAAACTAGACCCATACC
1 CCCACTACAAACAAGACCCATACC
*
230603642 CCCACTACAAACTAGACCCATACC
1 CCCACTACAAACAAGACCCATACC
*
230603666 CCCACTAC-AACAAGCCCCATACC
1 CCCACTACAAACAAGACCCATACC
* *
230603689 CCCACTAC-CACAAGCCCCATACC
1 CCCACTACAAACAAGACCCATACC
* *
230603712 CCCACCAC-AACAA-TCCCATACC
1 CCCACTACAAACAAGACCCATACC
*
230603734 GCCAC
1 CCCAC
230603739 AGTCCTCGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
22 12 0.13
23 46 0.52
24 31 0.35
ACGTcount: A:0.35, C:0.50, G:0.04, T:0.11
Consensus pattern (24 bp):
CCCACTACAAACAAGACCCATACC
Found at i:230603684 original size:23 final size:23
Alignment explanation
Indices: 230603634--230603738 Score: 140
Period size: 23 Copynumber: 4.6 Consensus size: 23
230603624 ACAAACTAGA
* *
230603634 CCCATACCCCCACTACAAACTAGA
1 CCCATACCCCCACTAC-AACAAGC
230603658 CCCATACCCCCACTACAACAAGC
1 CCCATACCCCCACTACAACAAGC
*
230603681 CCCATACCCCCACTACCACAAGC
1 CCCATACCCCCACTACAACAAGC
* *
230603704 CCCATACCCCCACCACAACAA-T
1 CCCATACCCCCACTACAACAAGC
*
230603726 CCCATACCGCCAC
1 CCCATACCCCCAC
230603739 AGTCCTCGTA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
22 12 0.16
23 46 0.62
24 16 0.22
ACGTcount: A:0.33, C:0.53, G:0.04, T:0.10
Consensus pattern (23 bp):
CCCATACCCCCACTACAACAAGC
Found at i:230604302 original size:15 final size:15
Alignment explanation
Indices: 230604269--230604298 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
230604259 TCCTCTGCCC
230604269 TCTCCCTCTCTCCTT
1 TCTCCCTCTCTCCTT
230604284 TCTCCC-CTCTCCTT
1 TCTCCCTCTCTCCTT
230604298 T
1 T
230604299 TCTCTCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (15 bp):
TCTCCCTCTCTCCTT
Found at i:230604308 original size:22 final size:22
Alignment explanation
Indices: 230604256--230604308 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
230604246 GGCCGGAGCC
* *
230604256 CTCTCCTCTGCCCTCTCCCTCT
1 CTCTCTTCTCCCCTCTCCCTCT
* *
230604278 CTC-CTTTCTCCCCTCTCCTTTT
1 CTCTC-TTCTCCCCTCTCCCTCT
230604300 CTCTCTTCT
1 CTCTCTTCT
230604309 TTTTTTTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.00, C:0.53, G:0.02, T:0.45
Consensus pattern (22 bp):
CTCTCTTCTCCCCTCTCCCTCT
Found at i:230604798 original size:21 final size:22
Alignment explanation
Indices: 230604773--230604822 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
230604763 ATATTGTTAC
230604773 TATTATTTTTATTAA-TA-TAT
1 TATTATTTTTATTAAGTATTAT
*
230604793 TAATTATTTTTTTTAAGTATTAT
1 T-ATTATTTTTATTAAGTATTAT
230604816 TATTATT
1 TATTATT
230604823 AATGGTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 13 0.50
22 8 0.31
23 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTATTTTTATTAAGTATTAT
Found at i:230604882 original size:13 final size:14
Alignment explanation
Indices: 230604858--230604888 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
230604848 ATTATTATCA
230604858 ATATTAATATATGT
1 ATATTAATATATGT
230604872 ATATT-ATATATGT
1 ATATTAATATATGT
230604885 ATAT
1 ATAT
230604889 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:230605441 original size:15 final size:13
Alignment explanation
Indices: 230605411--230605468 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
230605401 TCATGTATAT
230605411 TATTATATATGTA
1 TATTATATATGTA
*
230605424 TATTGTATATGTTCA
1 TATTATATATG-T-A
* *
230605439 TATTAAATATAT-
1 TATTATATATGTA
230605451 TATGTATATATGTA
1 TAT-TATATATGTA
230605465 TATT
1 TATT
230605469 TCTCACGTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
12 3 0.09
13 18 0.51
14 5 0.14
15 9 0.26
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (13 bp):
TATTATATATGTA
Found at i:230609100 original size:2 final size:2
Alignment explanation
Indices: 230609093--230609120 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
230609083 TTTGGAAGTG
230609093 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
230609121 CATAAGTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:230609655 original size:27 final size:28
Alignment explanation
Indices: 230609599--230609668 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
230609589 AAATTGGTAC
230609599 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
230609627 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
230609654 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
230609669 GAATCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:230617092 original size:12 final size:12
Alignment explanation
Indices: 230617075--230617100 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
230617065 TTTGGAAGTG
230617075 TATATATATACA
1 TATATATATACA
230617087 TATATATATACA
1 TATATATATACA
230617099 TA
1 TA
230617101 AGTATGCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:230618982 original size:29 final size:29
Alignment explanation
Indices: 230618949--230619084 Score: 141
Period size: 29 Copynumber: 4.6 Consensus size: 29
230618939 GTGTCGAGAT
*
230618949 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
230618978 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
230619007 TGGCACTAAGTGTGCAAGCTGGAAAAAAAATA
1 TGGCACTAAGTGTGCGAGCTGG---AAATATA
** *
230619039 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
230619066 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
230619085 AATCGAGTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.02
28 3 0.03
29 63 0.70
32 22 0.24
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:230627044 original size:29 final size:29
Alignment explanation
Indices: 230627011--230627145 Score: 148
Period size: 29 Copynumber: 4.6 Consensus size: 29
230627001 GTGTCGAGAT
*
230627011 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
230627040 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
* *
230627069 TGGCACTAAGTGTGCAAGCTGGAAAAAAATA
1 TGGCACTAAGTGTGCGAGCTGG--AAATATA
** *
230627100 TGGCACTGTGTGTGCGAGCT-TAAAT-TA
1 TGGCACTAAGTGTGCGAGCTGGAAATATA
230627127 CGTGGCACTAAGTGTGCGA
1 --TGGCACTAAGTGTGCGA
230627146 AATCGAGTAG
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.02
28 3 0.03
29 63 0.70
31 22 0.24
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:230627133 original size:60 final size:58
Alignment explanation
Indices: 230627011--230627143 Score: 151
Period size: 60 Copynumber: 2.3 Consensus size: 58
230627001 GTGTCGAGAT
** * * **
230627011 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCAAGCTGGAAAAATATGGCACTAAGTGTGCGAGCTGGAAATACG
** *
230627069 TGGCACTAAGTGTGCAAGCTGGAAAAAAATATGGCACTGTGTGTGCGAGCT-TAAATTACG
1 TGGCACTAAGTGTGCAAGCTGG--AAAAATATGGCACTAAGTGTGCGAGCTGGAAA-TACG
230627129 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
230627144 GAAATCGAGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 20 0.32
59 3 0.05
60 40 0.63
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (58 bp):
TGGCACTAAGTGTGCAAGCTGGAAAAATATGGCACTAAGTGTGCGAGCTGGAAATACG
Found at i:230630766 original size:40 final size:40
Alignment explanation
Indices: 230630721--230630887 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
230630711 CGGAATATAA
230630721 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
230630761 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
230630801 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
230630841 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
230630880 CCGGATAT
1 CCGGATAT
230630888 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:230630871 original size:80 final size:79
Alignment explanation
Indices: 230630721--230630887 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
230630711 CGGAATATAA
* *
230630721 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
230630786 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
230630801 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
230630863 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
230630880 CCGGATAT
1 CCGGATAT
230630888 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:230631734 original size:17 final size:19
Alignment explanation
Indices: 230631711--230631756 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
230631701 AAGAAGCATG
230631711 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
230631729 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
230631747 AATCATGCTC
1 AATCATGCTC
230631757 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:230638768 original size:40 final size:40
Alignment explanation
Indices: 230638723--230638889 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
230638713 CGGAATATAA
230638723 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
230638763 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
230638803 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
230638843 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
230638882 CCGGATAT
1 CCGGATAT
230638890 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:230638873 original size:80 final size:79
Alignment explanation
Indices: 230638723--230638889 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
230638713 CGGAATATAA
* *
230638723 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
230638788 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
230638803 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
230638865 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
230638882 CCGGATAT
1 CCGGATAT
230638890 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:230639738 original size:17 final size:19
Alignment explanation
Indices: 230639715--230639760 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
230639705 AAGAAGCATG
230639715 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
230639733 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
230639751 AATCATGCTC
1 AATCATGCTC
230639761 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:230641634 original size:27 final size:27
Alignment explanation
Indices: 230641312--230641633 Score: 374
Period size: 27 Copynumber: 11.9 Consensus size: 27
230641302 AAACATACAT
* * *
230641312 CACATAGGGGTAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
230641339 CATAAAACGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
230641366 CTCATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*** *
230641393 CTTGTAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
230641420 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
230641447 CACGTAAGGGAAAAACAGTCATTTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
** *
230641474 CATGTAAGGGGAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
230641501 CACGTAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
230641528 CACATAAAGGAAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
230641555 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
230641582 CACATAAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
230641609 TATATATAGGGCAAAACATTCATTT
1 CACATA-AGGGCAAAACAGTCATTT
230641634 AATTAATTAG
Statistics
Matches: 253, Mismatches: 41, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
27 237 0.94
28 16 0.06
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:230645425 original size:40 final size:40
Alignment explanation
Indices: 230645370--230645550 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
230645360 ATTCAGATTG
230645370 ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
230645410 ATAACCAGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
230645450 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
230645490 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
230645529 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCAGGCTAAGTCCCGAAGG
230645551 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 8 0.06
39 31 0.24
40 92 0.70
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (40 bp):
ATAACCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:230651877 original size:26 final size:26
Alignment explanation
Indices: 230651809--230651916 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
230651799 TGATACAAAT
*
230651809 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
230651834 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
230651859 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
230651885 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
230651911 TGATAA
1 TGATAA
230651917 GAATTTCATG
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
24 13 0.16
25 17 0.22
26 49 0.62
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:230654814 original size:15 final size:16
Alignment explanation
Indices: 230654794--230654830 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
230654784 CCCCAATAAG
230654794 CACATTCCT-AGCAAT
1 CACATTCCTAAGCAAT
*
230654809 CACATT-CTAAGGAAT
1 CACATTCCTAAGCAAT
230654824 CACATTC
1 CACATTC
230654831 TATTGGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.35, C:0.30, G:0.08, T:0.27
Consensus pattern (16 bp):
CACATTCCTAAGCAAT
Found at i:230659989 original size:4 final size:4
Alignment explanation
Indices: 230659980--230660176 Score: 114
Period size: 4 Copynumber: 50.2 Consensus size: 4
230659970 AAGTAAACTG
* * * * *
230659980 GAGA GAGA GAGA TAGA GAG- GGGG GAGA GAAA GAGA GAGA GGGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * *
230660027 GGGA G-GA GGGA GAGG GAGA GTGA GAGA AAGA GAGG GAGG GGGA G-GA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * ** *
230660073 -AGG GAGA GAGA GAGG GAGA GGGG GAGA GAGG GAGA GCTA GAGA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * *
230660120 GAGA GGGA GAGG GAGA GGGA GGGA GGGA GAGG GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
*
230660168 GACA GAGA G
1 GAGA GAGA G
230660177 TGTAACGCCC
Statistics
Matches: 143, Mismatches: 46, Indels: 8
0.73 0.23 0.04
Matches are distributed among these distances:
3 8 0.06
4 135 0.94
ACGTcount: A:0.39, C:0.01, G:0.59, T:0.02
Consensus pattern (4 bp):
GAGA
Found at i:230659991 original size:6 final size:6
Alignment explanation
Indices: 230659980--230660176 Score: 114
Period size: 6 Copynumber: 33.5 Consensus size: 6
230659970 AAGTAAACTG
* * * * *
230659980 GAGAGA GAGAGA TAGAGA G-GGGG GAGAGA AAGAGA GAGAGG GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * * * *
230660027 GGGAG- GAGGGA GAGGGA GAGTGA GAGAAA GAGAGG GAGGGG GAG-GA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * ** *
230660073 -AGGGA GAGAGA GAGGGA GAGGGG GAGAGA GGGAGA GCTAGA GAGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * *
230660120 GAGAGG GAGAGG GAGAGG GAGGGA GGGAGA GGGAGA GAGAGA GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
*
230660168 GACAGA GAG
1 GAGAGA GAG
230660177 TGTAACGCCC
Statistics
Matches: 149, Mismatches: 38, Indels: 8
0.76 0.19 0.04
Matches are distributed among these distances:
4 2 0.01
5 9 0.06
6 138 0.93
ACGTcount: A:0.39, C:0.01, G:0.59, T:0.02
Consensus pattern (6 bp):
GAGAGA
Found at i:230660007 original size:21 final size:21
Alignment explanation
Indices: 230659982--230660092 Score: 68
Period size: 21 Copynumber: 5.2 Consensus size: 21
230659972 GTAAACTGGA
* *
230659982 GAGAGAGAGATAGAGAGGGGG
1 GAGAGAAAGAGAGAGAGGGGG
*
230660003 GAGAGAAAGAGAGAGA-GGGA
1 GAGAGAAAGAGAGAGAGGGGG
* * *
230660023 GAGAGGGAGGAGGGAGAGGGAGAG
1 GAGA-GAAAGAGAGAGAGGG-G-G
*
230660047 TGAGAGAAAGAGAGGGA-GGGG
1 -GAGAGAAAGAGAGAGAGGGGG
* *
230660068 GAG-G-AAGGGAGAGAGAGAGG
1 GAGAGAAAGAGAGAGAG-GGGG
230660088 GAGAG
1 GAGAG
230660093 GGGGAGAGAG
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
18 8 0.12
19 1 0.01
20 16 0.24
21 25 0.37
22 3 0.04
23 3 0.04
24 8 0.12
25 4 0.06
ACGTcount: A:0.40, C:0.00, G:0.59, T:0.02
Consensus pattern (21 bp):
GAGAGAAAGAGAGAGAGGGGG
Done.