Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 300 of 310
Found at i:98930677 original size:79 final size:80
Alignment explanation
Indices: 98930579--98930761 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 80
98930569 TACTCATTCA
* * *
98930579 AATGCTTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
* *
98930642 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
* * **
98930659 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
* *
98930723 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
98930738 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
98930762 CATCATTCGA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.66
80 27 0.31
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:98930694 original size:39 final size:40
Alignment explanation
Indices: 98930577--98930761 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
98930567 GCTACTCATT
* * *
98930577 CAAATGCTTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
98930617 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
98930657 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
98930696 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
98930737 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
98930762 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:98938110 original size:41 final size:42
Alignment explanation
Indices: 98938032--98938110 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
98938022 GGAATTAATC
* *
98938032 ACACGGGTAGAGACACGGGCGTGTGTCTCAGCTGTGTGCGCT
1 ACACGGCTAGAGACACGGGCGTGTGTCTCAGCCGTGTGCGCT
**
98938074 ACACGGCTAGA-ACACGGGCGTGTGTCTTGGCCGTGTG
1 ACACGGCTAGAGACACGGGCGTGTGTCTCAGCCGTGTG
98938111 AAACCTCCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 23 0.70
42 10 0.30
ACGTcount: A:0.16, C:0.24, G:0.38, T:0.22
Consensus pattern (42 bp):
ACACGGCTAGAGACACGGGCGTGTGTCTCAGCCGTGTGCGCT
Found at i:98941539 original size:46 final size:48
Alignment explanation
Indices: 98941435--98941554 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
98941425 TGTCTTCGAC
** * *
98941435 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * * *
98941483 ATGGGCTTACATGGCTCATTCCTGTTTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
98941529 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
98941555 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 26 0.43
47 1 0.02
48 34 0.56
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:98944595 original size:46 final size:46
Alignment explanation
Indices: 98944536--98944711 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
98944526 TGGTTGAGCA
*
98944536 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
98944582 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
98944627 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
98944675 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
98944712 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.58
47 27 0.26
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:98944692 original size:93 final size:93
Alignment explanation
Indices: 98944533--98944704 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
98944523 AGATGGTTGA
* * * * * *
98944533 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
98944598 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
98944626 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
98944691 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
98944705 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:98951155 original size:41 final size:38
Alignment explanation
Indices: 98951108--98951208 Score: 121
Period size: 41 Copynumber: 2.6 Consensus size: 38
98951098 TGAATATAAT
* *
98951108 AATTATAATTACCATAATTATAATAATGTTTGACCAACAA
1 AATTATAATTACAATAATTATAATAATATTTGACC--CAA
* * * *
98951148 AACTTATAATTATAGTAATTATAATAATATTTGATCCTA
1 AA-TTATAATTACAATAATTATAATAATATTTGACCCAA
98951187 AATTATAATTACAATAATTATA
1 AATTATAATTACAATAATTATA
98951209 CAAGGATTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
38 18 0.35
39 4 0.08
40 2 0.04
41 28 0.54
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.40
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTTGACCCAA
Found at i:98952853 original size:26 final size:24
Alignment explanation
Indices: 98952823--98952870 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
98952813 AATAAAAAAA
*
98952823 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
98952849 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
98952871 TAAGACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:98952890 original size:21 final size:22
Alignment explanation
Indices: 98952857--98952899 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
98952847 ATTTAAAAAC
* *
98952857 ATAAAAACAAATATTAAGACAA
1 ATAAAAACAAATACTAAAACAA
*
98952879 ATAAAAA-TAATACTAAAACAA
1 ATAAAAACAAATACTAAAACAA
98952900 TTCTTAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAATACTAAAACAA
Found at i:98956183 original size:7 final size:7
Alignment explanation
Indices: 98956166--98956253 Score: 86
Period size: 7 Copynumber: 12.0 Consensus size: 7
98956156 TTTTCCACCA
*
98956166 TAAACCT
1 TAAACCC
*
98956173 TAAACTC
1 TAAACCC
98956180 TAAACCC
1 TAAACCC
*
98956187 TAAAACCA
1 T-AAACCC
*
98956195 TAAAACCA
1 T-AAACCC
*
98956203 TAAAACCA
1 T-AAACCC
98956211 TAAAACCC
1 T-AAACCC
98956219 TAAACCC
1 TAAACCC
98956226 TAAACCC
1 TAAACCC
98956233 TAAACCC
1 TAAACCC
*
98956240 TAAACTC
1 TAAACCC
98956247 TAAACCC
1 TAAACCC
98956254 AGAGATTTTA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
7 44 0.60
8 29 0.40
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:98956198 original size:8 final size:8
Alignment explanation
Indices: 98956181--98956222 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
98956171 CTTAAACTCT
*
98956181 AAACCCTA
1 AAACCATA
98956189 AAACCATA
1 AAACCATA
98956197 AAACCATA
1 AAACCATA
98956205 AAACCATA
1 AAACCATA
*
98956213 AAACCCTA
1 AAACCATA
98956221 AA
1 AA
98956223 CCCTAAACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.60, C:0.29, G:0.00, T:0.12
Consensus pattern (8 bp):
AAACCATA
Found at i:98956206 original size:16 final size:16
Alignment explanation
Indices: 98956181--98956236 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
98956171 CTTAAACTCT
98956181 AAACCCTAAAACCATA
1 AAACCCTAAAACCATA
*
98956197 AAACCATAAAACCATA
1 AAACCCTAAAACCATA
*
98956213 AAACCCT-AAACCCT-
1 AAACCCTAAAACCATA
98956227 AAACCCTAAA
1 AAACCCTAAA
98956237 CCCTAAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.19
15 8 0.22
16 21 0.58
ACGTcount: A:0.55, C:0.32, G:0.00, T:0.12
Consensus pattern (16 bp):
AAACCCTAAAACCATA
Found at i:98958688 original size:20 final size:20
Alignment explanation
Indices: 98958622--98958688 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
98958612 ATTTTGATAA
*
98958622 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
98958642 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
98958662 ACATGATATGTATGATAGGC
1 ACATGATATGTATGATATGC
98958682 ACATGAT
1 ACATGAT
98958689 GTATACATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:98958764 original size:24 final size:24
Alignment explanation
Indices: 98958737--98958893 Score: 208
Period size: 24 Copynumber: 6.4 Consensus size: 24
98958727 GGAGGAAGTG
98958737 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
98958761 CAAAAGGGCTTATGCCCCAGTTATT
1 CAAAAGGGCTTATGCCCCAGTTA-T
* *
98958786 AAAAAAGGGCTTATGCCTCAGTTAT
1 -CAAAAGGGCTTATGCCCCAGTTAT
*
98958811 CAAAAAGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
98958835 TAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
98958859 TAAAAGGGATT-TCGCCCCAGTTAT
1 CAAAAGGGCTTAT-GCCCCAGTTAT
*
98958883 TAAAAGAGGCT
1 CAAAAG-GGCT
98958894 AGGGCTCCAC
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
23 1 0.01
24 93 0.77
25 5 0.04
26 21 0.17
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:98958813 original size:50 final size:50
Alignment explanation
Indices: 98958738--98958887 Score: 234
Period size: 50 Copynumber: 3.0 Consensus size: 50
98958728 GAGGAAGTGC
98958738 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAA
* *
98958788 AAAAGGGCTTATGCCTCAGTTATCAAAAAGGCTTATGCCCCAGTTATT--
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAA
* *
98958836 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGATT-TCGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAT-GCCCCAGTTATTAA
98958886 AA
1 AA
98958888 GAGGCTAGGG
Statistics
Matches: 91, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 42 0.46
50 48 0.53
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAA
Found at i:98961989 original size:39 final size:39
Alignment explanation
Indices: 98961935--98962013 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
98961925 GAAGATGAGG
98961935 AGATAATGGTCATAGGGGAACAAAGGGATTATTTGTCCA
1 AGATAATGGTCATAGGGGAACAAAGGGATTATTTGTCCA
*
98961974 AGATAATGGTCATAGGGGAACGAAGGGATTATTTGTCCA
1 AGATAATGGTCATAGGGGAACAAAGGGATTATTTGTCCA
98962013 A
1 A
98962014 CGTTGTTTCG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.25
Consensus pattern (39 bp):
AGATAATGGTCATAGGGGAACAAAGGGATTATTTGTCCA
Found at i:98967101 original size:20 final size:20
Alignment explanation
Indices: 98967035--98967101 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
98967025 ATTTTGATAA
*
98967035 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
98967055 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
98967075 ACATGATATATATGATAGGC
1 ACATGATATGTATGATATGC
98967095 ACATGAT
1 ACATGAT
98967102 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:98967174 original size:24 final size:24
Alignment explanation
Indices: 98967147--98967317 Score: 202
Period size: 24 Copynumber: 7.0 Consensus size: 24
98967137 GGAGGAAGTG
98967147 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
98967171 CAAAAGGGCTTATACCCCAATTATT
1 CAAAAGGGCTTATGCCCCAGTTA-T
* *
98967196 AAAAAGGGGCTTATGCCCTAGTTAT
1 CAAAA-GGGCTTATGCCCCAGTTAT
*
98967221 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
98967245 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
98967269 TAAAAGGGCTT-TCGCCCTAGTTAT
1 CAAAAGGGCTTAT-GCCCCAGTTAT
* *
98967293 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
98967318 ATGATAAAGC
Statistics
Matches: 129, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
23 1 0.01
24 93 0.72
25 20 0.16
26 15 0.12
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:98967208 original size:50 final size:48
Alignment explanation
Indices: 98967148--98967279 Score: 192
Period size: 50 Copynumber: 2.7 Consensus size: 48
98967138 GAGGAAGTGC
98967148 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAATTATTA
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAATTA-TA
* * * * *
98967197 AAAAGGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCTAGTTATC
1 AAAA-GGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAATTATA
*
98967246 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT
98967280 TCGCCCTAGT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 28 0.37
49 9 0.12
50 38 0.51
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAATTATA
Found at i:98967269 original size:74 final size:72
Alignment explanation
Indices: 98967147--98967317 Score: 238
Period size: 74 Copynumber: 2.3 Consensus size: 72
98967137 GGAGGAAGTG
98967147 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAATTATTAAAAAGGGGCTTAT-G
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAATTATT-AAAA-GGGCTT-TCG
98967211 CCCTAGTTAT
63 CCCTAGTTAT
* * *
98967221 CAAAAGGGCTTATGCCCTAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTCGCCC
1 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAATTATTAAAAGGGCTTTCGCCC
98967286 TAGTTAT
66 TAGTTAT
* *
98967293 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
98967318 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
71 1 0.01
72 27 0.31
73 14 0.16
74 46 0.52
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (72 bp):
CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAATTATTAAAAGGGCTTTCGCCC
TAGTTAT
Found at i:98971044 original size:15 final size:16
Alignment explanation
Indices: 98971015--98971047 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
98971005 ATACATATAC
98971015 CAAATTAGATAAATTA
1 CAAATTAGATAAATTA
*
98971031 CAAA-TAGATGAATTA
1 CAAATTAGATAAATTA
98971046 CA
1 CA
98971048 TTCAACATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (16 bp):
CAAATTAGATAAATTA
Found at i:98971210 original size:16 final size:16
Alignment explanation
Indices: 98971189--98971228 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
98971179 AATCCTCATT
98971189 AAAAGACAAACAAAA-A
1 AAAAGA-AAACAAAAGA
*
98971205 AAAAGAAAAGAAAAGA
1 AAAAGAAAACAAAAGA
98971221 AAAAGAAA
1 AAAAGAAA
98971229 TTATTCATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAGAAAACAAAAGA
Found at i:98971518 original size:21 final size:21
Alignment explanation
Indices: 98971494--98971545 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
98971484 CACACACCCA
*
98971494 TGTGGTCTAGGGACATGCCTG
1 TGTGGTCTAGGGACATGCCCG
98971515 TGTGGTCTAGGGACATGCCCG
1 TGTGGTCTAGGGACATGCCCG
98971536 TGTGGT-TAGG
1 TGTGGTCTAGG
98971546 CCATGTACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.13, C:0.17, G:0.40, T:0.29
Consensus pattern (21 bp):
TGTGGTCTAGGGACATGCCCG
Found at i:98979511 original size:46 final size:46
Alignment explanation
Indices: 98979461--98979633 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
98979451 TGGTTGAGCA
*
98979461 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
** * * ** *
98979507 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGT-TGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-A-CTTATGGATGC-AAACG
* * *
98979554 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
98979600 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
98979634 CGGGCGGGTT
Statistics
Matches: 101, Mismatches: 21, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 66 0.65
47 33 0.33
48 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:98979617 original size:93 final size:93
Alignment explanation
Indices: 98979458--98979628 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
98979448 GGATGGTTGA
* *
98979458 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
98979523 TGAGTCCGAGTTCGAGAGTTGTAACTAG
66 TGAGTCCGAGTTCGAGAGTTGTAACTAG
* * * * *
98979551 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
98979616 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
98979629 ACTTACGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGTTGTAACTAG
Found at i:98983022 original size:85 final size:85
Alignment explanation
Indices: 98982879--98983227 Score: 680
Period size: 85 Copynumber: 4.1 Consensus size: 85
98982869 GGCCGGCCAT
98982879 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
98982944 GTAAGGATTAAAAAAATAAA
66 GTAAGGATTAAAAAAATAAA
98982964 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
98983029 GTAAGGATTAAAAAAATAAA
66 GTAAGGATTAAAAAAATAAA
98983049 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
98983114 GTAAGGATTAAAAAAATAAA
66 GTAAGGATTAAAAAAATAAA
98983134 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
98983199 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAAAAAAATAAA
*
98983219 GGGCATGGG
1 GAGCATGGG
98983228 CAATAAAATA
Statistics
Matches: 262, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 262 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAAAAAAATAAA
Found at i:98985575 original size:46 final size:46
Alignment explanation
Indices: 98985421--98985965 Score: 829
Period size: 46 Copynumber: 11.7 Consensus size: 46
98985411 GTATATTTGA
* *
98985421 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCC-ATGTG
* *
98985468 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAGAGTGTATAT-T-TGTGATAAGGCCGAATGGCC-ATGTG
98985517 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
1 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
98985563 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
1 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
98985609 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
1 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
98985655 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
1 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
98985701 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
1 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
98985747 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
1 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
* *
98985793 ATGAATGTGACAGTGTATATCTATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAGAGTGTATAT-T-TGTGATAAGGCCGAATGGCC-ATGTG
* * * *
98985842 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCC-ATGTG
* * * * * *
98985889 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCC-ATGTG
* * **
98985936 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAGAGTGTATATTTGTGATAAG
98985966 TCCCGAAGGG
Statistics
Matches: 472, Mismatches: 21, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
46 254 0.54
47 131 0.28
48 20 0.04
49 67 0.14
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (46 bp):
ATGAATGTGAGAGTGTATATTTGTGATAAGGCCGAATGGCCATGTG
Found at i:99002618 original size:17 final size:17
Alignment explanation
Indices: 99002596--99002631 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
99002586 TTGGGTTAAC
99002596 CAATCCATTCCCAAAAT
1 CAATCCATTCCCAAAAT
99002613 CAATCCATTCCCAAAAT
1 CAATCCATTCCCAAAAT
99002630 CA
1 CA
99002632 CATCAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (17 bp):
CAATCCATTCCCAAAAT
Found at i:99005196 original size:16 final size:16
Alignment explanation
Indices: 99005175--99005206 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
99005165 AAGCATTACA
99005175 TGCTTAGTAAGTTTGT
1 TGCTTAGTAAGTTTGT
99005191 TGCTTAGTAAGTTTGT
1 TGCTTAGTAAGTTTGT
99005207 ATAATAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTTAGTAAGTTTGT
Found at i:99010926 original size:40 final size:40
Alignment explanation
Indices: 99010871--99011189 Score: 431
Period size: 40 Copynumber: 7.7 Consensus size: 40
99010861 TGAGCATTGG
* *
99010871 AATATAACCGGGCTAAGACCCGAAGGCAATGATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
99010911 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
99010951 GATATATCCGGGCTATATATCCGGGCTAAGACAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTA-AGA-CC---C---G--AAGGCAATTATGCGAGTT
*
99011001 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
99011041 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
99011081 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
99011121 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
99011161 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
99011190 ATGTGTTTGC
Statistics
Matches: 251, Mismatches: 18, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
40 208 0.83
41 2 0.01
42 3 0.01
45 2 0.01
48 3 0.01
49 1 0.00
50 32 0.13
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:99010970 original size:13 final size:13
Alignment explanation
Indices: 99010952--99010978 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
99010942 ATGCGAGTTG
99010952 ATATATCCGGGCT
1 ATATATCCGGGCT
99010965 ATATATCCGGGCT
1 ATATATCCGGGCT
99010978 A
1 A
99010979 AGACAAGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (13 bp):
ATATATCCGGGCT
Found at i:99011000 original size:50 final size:52
Alignment explanation
Indices: 99010912--99011016 Score: 178
Period size: 50 Copynumber: 2.0 Consensus size: 52
99010902 ATGCGAGTTA
*
99010912 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCT
1 ATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGTTAATATATCCGGGCT
99010965 ATATATCCGGGCTAAGA-C-AAGGCAATTATGCGAGTTAATATATCCGGGCT
1 ATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGTTAATATATCCGGGCT
99011015 AT
1 AT
99011017 GACCCGAAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
50 33 0.65
51 1 0.02
53 17 0.33
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (52 bp):
ATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGTTAATATATCCGGGCT
Found at i:99016043 original size:21 final size:21
Alignment explanation
Indices: 99016017--99016060 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
99016007 AGGCTTAAAA
99016017 AAACCAAGTGCATAGAAGGTT
1 AAACCAAGTGCATAGAAGGTT
*
99016038 AAACCAAGTGCATAGGAGGTT
1 AAACCAAGTGCATAGAAGGTT
99016059 AA
1 AA
99016061 GTATTTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (21 bp):
AAACCAAGTGCATAGAAGGTT
Found at i:99016252 original size:68 final size:67
Alignment explanation
Indices: 99016110--99016310 Score: 174
Period size: 68 Copynumber: 3.0 Consensus size: 67
99016100 TTAAGAAGCC
* * * * **
99016110 AAGTTCTTGAGAAAG-TTAAATAATTTAAGAAGTACGCA-ACCTTGGAAGGTTGAGAGCTTTGAA
1 AAGTTCTTGA-AAAGATTAAATACTTTAAAAAGTATG-AGA-CTTAGAAGGTCAAGAGCTTTGAA
* **
99016173 ATTTT
63 AATAA
** * *
99016178 GGGTTCTTGAAAAGGTTAAGTACTTTAAAAAGTACATGAG-CTTAGAAGGTCAAGAGCTTTGAAA
1 AAGTTCTTGAAAAGATTAAATACTTTAAAAAGT--ATGAGACTTAGAAGGTCAAGAGCTTTGAAA
99016242 ATAA
64 ATAA
* * * *
99016246 AAGTTCTTGAGATGATTAAATACTTTAAAGAGTATGAGACCTTAGAAGGTCAAGATCTTTGAAAA
1 AAGTTCTTGAAAAGATTAAATACTTTAAAAAGTATGAGA-CTTAGAAGGTCAAGAGCTTTGAAAA
99016311 GGAGGGTGCT
Statistics
Matches: 107, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
66 5 0.05
67 4 0.04
68 95 0.89
69 1 0.01
70 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (67 bp):
AAGTTCTTGAAAAGATTAAATACTTTAAAAAGTATGAGACTTAGAAGGTCAAGAGCTTTGAAAAT
AA
Found at i:99016356 original size:68 final size:66
Alignment explanation
Indices: 99016284--99016455 Score: 154
Period size: 68 Copynumber: 2.5 Consensus size: 66
99016274 AGAGTATGAG
* *
99016284 ACCTTAGAAGGTCAAGATCTTTGAAAAG-GAGGGTGCTTGAG-GAGGCTGAA-TACTTTAAGAAG
1 ACCTT-GAAGGTCAAGA-CTTTGAAAAGCGA-AGTGCTTAAGAG-GGCT-AAGTACTTTAAGAAG
99016346 TACGCA
61 TACGCA
* * * *
99016352 ACCTTGAAAGGCCGAAAGA-TTTGAAAAGCTAAGTTCTTAAGAGGGCTAAGTACTTTAATAAGTA
1 ACCTTG-AAGGTC--AAGACTTTGAAAAGCGAAGTGCTTAAGAGGGCTAAGTACTTTAAGAAGTA
99016416 CGCA
63 CGCA
* *
99016420 ACCTTTGAAGGTCAAAAGCTTTGAAAAGCTAAGTGC
1 ACC-TTGAAGGTCAAGA-CTTTGAAAAGCGAAGTGC
99016456 CTGGAAGGTA
Statistics
Matches: 86, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
66 3 0.03
67 3 0.03
68 71 0.83
69 5 0.06
70 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (66 bp):
ACCTTGAAGGTCAAGACTTTGAAAAGCGAAGTGCTTAAGAGGGCTAAGTACTTTAAGAAGTACGC
A
Found at i:99022335 original size:40 final size:40
Alignment explanation
Indices: 99022291--99022375 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
99022281 TATCTTGTAA
*
99022291 ACTAAGTGCCGTACATAGCCGAAGCTATCTC-AAACAGCAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACA-CAC
* * *
99022331 ACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCACAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACACAC
99022371 ACTAA
1 ACTAA
99022376 AATCTGTAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.20
Consensus pattern (40 bp):
ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACACAC
Found at i:99024931 original size:29 final size:29
Alignment explanation
Indices: 99024770--99024996 Score: 163
Period size: 29 Copynumber: 7.8 Consensus size: 29
99024760 TGTGCTAAAC
* * *
99024770 GATGGTTGTAACCGTCCCTTTTCATA-TT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* ** * * *
99024798 CTATGGTCGAAACCGTCCC-TTTCATTAATC
1 -GATGGTCGTCACCATCCCTTTTCA-TAGTT
* *
99024828 GATGGTCGTCATCATCCCTTTTCATAGCT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * *
99024857 GATGGTCGTCACCACCCCTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAGTT
** ** *
99024886 GATGGTTATCATTATCCCATTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
*
99024915 GATGGTCGTCACCATCCCTTTTCATATTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * * *
99024944 GATAGCCG-AAGCTATCCCTTTTCATAGTT
1 GATGGTCGTCA-CCATCCCTTTTCATAGTT
* * *
99024973 TATGGTGGTCACCATCCATTTTCA
1 GATGGTCGTCACCATCCCTTTTCA
99024997 AAATCGATAG
Statistics
Matches: 150, Mismatches: 43, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
28 6 0.04
29 137 0.91
30 7 0.05
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAGTT
Found at i:99024960 original size:58 final size:57
Alignment explanation
Indices: 99024841--99025027 Score: 212
Period size: 58 Copynumber: 3.2 Consensus size: 57
99024831 GGTCGTCATC
* * * ** * *
99024841 ATCCCTTTTCATAGCTGATGGTCGTCACCACCCCTTTTCATAATCGATGGTTATCATT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCGA-AACT
* * * *
99024899 ATCCCATTTCATAGTTGATGGTCGTCACCATCCCTTTTCATATTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAG-CGAAACT
* * * *
99024957 ATCCCTTTTCATAGTTTATGGTGGTCACCATCCATTTTCAAAATCGATAGTCGAAACT
1 ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAG-CGAAACT
99025015 ATCCCTTTTCATA
1 ATCCCTTTTCATA
99025028 ATCTAAGGCT
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
58 107 0.99
59 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (57 bp):
ATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCGAAACT
Found at i:99025104 original size:15 final size:15
Alignment explanation
Indices: 99025084--99025122 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
99025074 TATGATAATA
**
99025084 TAAAATAATAGCATT
1 TAAAATAATAAAATT
99025099 TAAAATAA-AAAATT
1 TAAAATAATAAAATT
99025113 TAAAATAATA
1 TAAAATAATA
99025123 TTTAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
TAAAATAATAAAATT
Found at i:99030251 original size:83 final size:84
Alignment explanation
Indices: 99030144--99030303 Score: 277
Period size: 83 Copynumber: 1.9 Consensus size: 84
99030134 GTTGTTCTTA
*
99030144 TAGTTAGTTAACACTATAGATTAGGTTTATTTTCACTTTTAACCCATCTCTTTTACTTGTAATGA
1 TAGTTAGTTAACACTATAGATTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGA
*
99030209 CATTCTACTCTTAGTGAGC
66 CATTATACTCTTAGTGAGC
* *
99030228 TAGTTAGTT-ACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGA
1 TAGTTAGTTAACACTATAGATTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGA
99030292 CATTATACTCTT
66 CATTATACTCTT
99030304 TGTTTAATGC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 63 0.88
84 9 0.12
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (84 bp):
TAGTTAGTTAACACTATAGATTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTGTAATGA
CATTATACTCTTAGTGAGC
Found at i:99034810 original size:6 final size:6
Alignment explanation
Indices: 99034799--99034835 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
99034789 AGTTTTACCA
99034799 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
99034836 GTCTCAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:99037837 original size:26 final size:26
Alignment explanation
Indices: 99037765--99037821 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
99037755 TCGCATCCCT
99037765 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
99037791 ATTTTACCCCTGGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
99037817 ATTTT
1 ATTTT
99037822 GTCCTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:99039806 original size:46 final size:46
Alignment explanation
Indices: 99039725--99039837 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 46
99039715 TTATTTCGCT
* **
99039725 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATATTGCCAAAG
* * *
99039771 TATCTTTCATCCATGGTCTTATTCATTT-ATCGTCATATTGTCAAAG
1 TATCTTTCAACCATGGTCTTATTCATTTCCT-GTCATATTGCCAAAG
* *
99039817 TATCTTTCAACTATAGTCTTA
1 TATCTTTCAACCATGGTCTTA
99039838 CACATTTGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 1 0.02
46 56 0.98
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATATTGCCAAAG
Found at i:99039881 original size:45 final size:45
Alignment explanation
Indices: 99039819--99039934 Score: 169
Period size: 45 Copynumber: 2.6 Consensus size: 45
99039809 TGTCAAAGTA
* * *
99039819 TCTTTCAACTATAGTCTTACACATTTGAATCGCGATGCAATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCAATAGCG
* * * *
99039864 TCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAGCG
1 TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCAATAGCG
99039909 TCTTTCAGCTATGGTCTTACTCATTT
1 TCTTTCAGCTATGGTCTTACTCATTT
99039935 CTGTTATGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACTCATTTGAATCGCGATGCAATAGCG
Found at i:99043676 original size:17 final size:17
Alignment explanation
Indices: 99043654--99043686 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
99043644 TACTCGATAG
99043654 CTCACCTCTATCACCCA
1 CTCACCTCTATCACCCA
99043671 CTCACCTCTATCACCC
1 CTCACCTCTATCACCC
99043687 GCTAGTGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.55, G:0.00, T:0.24
Consensus pattern (17 bp):
CTCACCTCTATCACCCA
Found at i:99046114 original size:22 final size:24
Alignment explanation
Indices: 99046071--99046114 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
99046061 TGATAATATG
99046071 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
99046095 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
99046115 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:99048486 original size:20 final size:20
Alignment explanation
Indices: 99048445--99048486 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
99048435 ATGTTATGAA
* *
99048445 TCGCTCATACCAGTAGTTAC
1 TCGCTCATACCAGCAGTGAC
*
99048465 TCGCTCATACTAGCAGTGAC
1 TCGCTCATACCAGCAGTGAC
99048485 TC
1 TC
99048487 CGACCACTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (20 bp):
TCGCTCATACCAGCAGTGAC
Found at i:99050873 original size:37 final size:36
Alignment explanation
Indices: 99050792--99050885 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
99050782 AATCCATAGC
* *
99050792 CATGGCATAATTCAAGGAGGTCTGCCAGATTGCCTA
1 CATGGCATAATCCAGGGAGGTCTGCCAGATTGCCTA
* * * *
99050828 TAAGGCATAATCCAGGGCGGTTTGCCAGATTCGCCTA
1 CATGGCATAATCCAGGGAGGTCTGCCAGATT-GCCTA
99050865 CATGGCATAATCCAGTGGAGG
1 CATGGCATAATCCAG-GGAGG
99050886 CTAGCGACAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 25 0.53
37 18 0.38
38 4 0.09
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (36 bp):
CATGGCATAATCCAGGGAGGTCTGCCAGATTGCCTA
Found at i:99051261 original size:16 final size:18
Alignment explanation
Indices: 99051234--99051267 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
99051224 AATAATTATT
99051234 TTAAATTAATTTT-TCAA
1 TTAAATTAATTTTCTCAA
99051251 TTAAA-TAATTTTCTCAA
1 TTAAATTAATTTTCTCAA
99051268 CTATATTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATTAATTTTCTCAA
Found at i:99052350 original size:12 final size:12
Alignment explanation
Indices: 99052333--99052358 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99052323 TAGTCTTTCA
99052333 ATCAATTTGCTC
1 ATCAATTTGCTC
99052345 ATCAATTTGCTC
1 ATCAATTTGCTC
99052357 AT
1 AT
99052359 TTCTGATTAG
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:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (12 bp):
ATCAATTTGCTC
Found at i:99062563 original size:34 final size:34
Alignment explanation
Indices: 99062520--99062588 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
99062510 TAGGTCTACA
99062520 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
1 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
99062554 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
1 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
99062588 T
1 T
99062589 TGGTGCCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (34 bp):
TATGTTAAATTCTTGCATGAAAAATCTAACACAT
Found at i:99066855 original size:24 final size:24
Alignment explanation
Indices: 99066823--99066873 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
99066813 ACCATTATTT
*
99066823 TTAATAAATTAGATGTTGATAAAA
1 TTAATAAATTAGATGATGATAAAA
99066847 TTAATAAATTAGATGATGATAAAA
1 TTAATAAATTAGATGATGATAAAA
99066871 TTA
1 TTA
99066874 TCAAAGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (24 bp):
TTAATAAATTAGATGATGATAAAA
Found at i:99073996 original size:46 final size:44
Alignment explanation
Indices: 99073917--99074027 Score: 109
Period size: 46 Copynumber: 2.5 Consensus size: 44
99073907 AGTGCTAGTA
* * * *
99073917 TAAGACATGTCCGGGACATGTATCGGCCTCGAGATATAAG-CAAGTG
1 TAAGACATGTCTGGGACATGCATCAGCATCGAGATAT--GTC-AGTG
*
99073963 TAAGACATGTCTGGGACATGCATCAG-ATACGAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCAGCAT-CGAGATATGTCAGTG
*
99074007 TAAGACCATATCTGGGACATG
1 TAAGA-CATGTCTGGGACATG
99074028 GCGTCGATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
44 10 0.18
45 16 0.29
46 30 0.54
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCAGCATCGAGATATGTCAGTG
Found at i:99074680 original size:18 final size:18
Alignment explanation
Indices: 99074657--99074692 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
99074647 CATGAGATAG
99074657 ACTTGTATTGGTTTTGGT
1 ACTTGTATTGGTTTTGGT
99074675 ACTTGTATTGGTTTTGGT
1 ACTTGTATTGGTTTTGGT
99074693 TGCTAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.28, T:0.56
Consensus pattern (18 bp):
ACTTGTATTGGTTTTGGT
Found at i:99077220 original size:22 final size:21
Alignment explanation
Indices: 99077178--99077258 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 21
99077168 TGCAATCTTA
99077178 GATATGATACAATCTT---A-
1 GATATGATACAATCTTAGAAT
99077195 GATATGATACAATCTTAG---
1 GATATGATACAATCTTAGAAT
99077213 -ATATGATACAATCTTAGATAT
1 GATATGATACAATCTTAGA-AT
99077234 GATATG--A-AATCTTAGAA-
1 GATATGATACAATCTTAGAAT
99077251 GATATGAT
1 GATATGAT
99077259 TTTGTAATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
17 39 0.71
18 1 0.02
19 9 0.16
20 1 0.02
22 5 0.09
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (21 bp):
GATATGATACAATCTTAGAAT
Found at i:99077246 original size:19 final size:19
Alignment explanation
Indices: 99077143--99077249 Score: 163
Period size: 17 Copynumber: 5.9 Consensus size: 19
99077133 ATAATCTTCA
99077143 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99077162 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99077181 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99077198 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99077215 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
99077232 ATGATATGAAATCTTAGA
1 ATGATATGCAATCTTAGA
99077250 AGATATGATT
Statistics
Matches: 85, Mismatches: 1, Indels: 4
0.94 0.01 0.04
Matches are distributed among these distances:
17 51 0.60
19 34 0.40
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:99077275 original size:22 final size:22
Alignment explanation
Indices: 99077228--99077272 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
99077218 ATACAATCTT
*
99077228 AGATATGATATGAAATCTTAGA
1 AGATATGATATGAAATATTAGA
* *
99077250 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGAAATATTAGA
99077273 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGAAATATTAGA
Found at i:99077563 original size:17 final size:17
Alignment explanation
Indices: 99077539--99077573 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99077529 TGTTTCCCTG
*
99077539 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
99077557 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
99077574 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:99077642 original size:26 final size:25
Alignment explanation
Indices: 99077586--99077635 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
99077576 ATCATATCAA
99077586 ACTATTTCATTTTTAATAATTTTTT
1 ACTATTTCATTTTTAATAATTTTTT
*
99077611 ACTATTTCATTTTTAATATTTTTTT
1 ACTATTTCATTTTTAATAATTTTTT
99077636 TAGTATTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (25 bp):
ACTATTTCATTTTTAATAATTTTTT
Found at i:99086311 original size:78 final size:78
Alignment explanation
Indices: 99086104--99086402 Score: 411
Period size: 78 Copynumber: 3.8 Consensus size: 78
99086094 TGAAGAAACA
** * * * * *
99086104 GATTTGGCATCTCCATATTTGACGGAGAGTAGATTGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
*
99086169 GCAGATCGAAGAT
66 GCAGATCCAAGAT
* * *
99086182 GACAGATTTGGAATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCAT
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
99086247 TGAAGCAGATCCAAGAT
62 TGAAGCAGATCCAAGAT
99086264 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
*
99086328 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
99086342 GATTTCGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCAT
99086403 GTGTTTACAT
Statistics
Matches: 197, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
77 1 0.01
78 128 0.65
79 1 0.01
82 67 0.34
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:99086541 original size:44 final size:45
Alignment explanation
Indices: 99086425--99086601 Score: 257
Period size: 45 Copynumber: 4.0 Consensus size: 45
99086415 AAGTAGATCC
* *
99086425 AAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
* *
99086470 GAGATAATAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
* * * *
99086515 AAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCG
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
* *
99086559 AAGATAACAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGAT
1 AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
99086602 CAAATATAGT
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
44 39 0.33
45 79 0.67
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.27
Consensus pattern (45 bp):
AAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTG
Found at i:99086541 original size:89 final size:89
Alignment explanation
Indices: 99086432--99086601 Score: 268
Period size: 89 Copynumber: 1.9 Consensus size: 89
99086422 TCCAAGATGA
* * * *
99086432 CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATTGGAGATAATAGATTTGGCATCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
99086497 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* * *
99086521 CAGATTTGGCGTCTCTGTATTAGACGGGAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
*
99086586 TAGATGGGGAGCAGAT
66 TAGACGGGGAGCAGAT
99086602 CAAATATAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (89 bp):
CAGATTTGGCATCTCTGTATTAGACGGGAAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:99087038 original size:35 final size:37
Alignment explanation
Indices: 99086967--99087064 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
99086957 ATAATCTTCA
99086967 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
99087005 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
99087040 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
99087065 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:99087064 original size:17 final size:19
Alignment explanation
Indices: 99086967--99087057 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
99086957 ATAATCTTCA
99086967 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99086986 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99087005 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99087022 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99087040 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
99087058 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:99087083 original size:22 final size:22
Alignment explanation
Indices: 99086967--99087080 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
99086957 ATAATCTTCA
99086967 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99086986 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99087005 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99087022 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99087040 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
99087062 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
99087081 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:99087370 original size:17 final size:17
Alignment explanation
Indices: 99087346--99087380 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99087336 TGCTTCCCAT
*
99087346 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
99087364 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
99087381 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:99095435 original size:78 final size:78
Alignment explanation
Indices: 99095226--99095524 Score: 420
Period size: 78 Copynumber: 3.8 Consensus size: 78
99095216 TGAAGAAACA
** * * * *
99095226 GATTTGGCATCTCCATATTTGACGGAGAGTAGATTGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
99095291 GCAGATCGAAGAT
66 GCAGATCCAAGAT
* * *
99095304 GACAGATTTGGAATCTCTGTATTAGATGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCAT
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
99095369 TGAAGCAGATCCAAGAT
62 TGAAGCAGATCCAAGAT
*
99095386 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
99095450 AGTAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
99095464 GATTTCGCATCTCTGTATTAGACGGGAAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
99095525 GTGTTTACAT
Statistics
Matches: 197, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
77 1 0.01
78 127 0.64
79 1 0.01
82 68 0.35
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:99095660 original size:44 final size:45
Alignment explanation
Indices: 99095541--99095768 Score: 298
Period size: 44 Copynumber: 5.1 Consensus size: 45
99095531 ACATCGAAGT
* * *
99095541 AGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGAAGGGGAGC
* * * *
99095586 AAATCGGAGATAACAGATTTGGAATCTCTGTATTAGAAAGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGAAGGGGAGC
* *
99095631 AGATTGAAGA-AACAGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGAAGGGGAGC
* * * * *
99095675 AGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGAAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGAAGGGGAGC
* *
99095719 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGATGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGAAGGGGAGC
99095764 AGATC
1 AGATC
99095769 AAATATAGTA
Statistics
Matches: 162, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 81 0.50
45 81 0.50
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (45 bp):
AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGAAGGGGAGC
Found at i:99095765 original size:89 final size:91
Alignment explanation
Indices: 99095536--99095768 Score: 321
Period size: 89 Copynumber: 2.6 Consensus size: 91
99095526 TGTTTACATC
* * * * *
99095536 GAAGTAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
99095601 GATTTGGAATCTCTGTATTAGAAAGG
66 GATTTGGAATCTCTGTATTAGAAAGG
* * *
99095627 G-AGCAGATTGAAGA-AACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
** *
99095689 GATTTGGCGTCTCTGTATTAG-ACGG
66 GATTTGGAATCTCTGTATTAGAAAGG
* *
99095714 GAAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATC
1 GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
99095769 AAATATAGTA
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
87 4 0.03
88 34 0.27
89 76 0.61
90 10 0.08
91 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.25
Consensus pattern (91 bp):
GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
GATTTGGAATCTCTGTATTAGAAAGG
Found at i:99096172 original size:35 final size:37
Alignment explanation
Indices: 99096101--99096198 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
99096091 ATAATCTTCA
99096101 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
99096139 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
99096174 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
99096199 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:99096198 original size:17 final size:19
Alignment explanation
Indices: 99096101--99096191 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
99096091 ATAATCTTCA
99096101 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99096120 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99096139 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99096156 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
99096174 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
99096192 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:99096217 original size:22 final size:22
Alignment explanation
Indices: 99096101--99096214 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
99096091 ATAATCTTCA
99096101 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99096120 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99096139 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99096156 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
99096174 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
99096196 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
99096215 GATTTAATTG
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:99096505 original size:18 final size:18
Alignment explanation
Indices: 99096480--99096516 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
99096470 TATTTCCCTG
*
99096480 ATTTTTTTTATATATTTTA
1 ATTTTTTTAATA-ATTTTA
99096499 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
99096517 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:99101772 original size:47 final size:47
Alignment explanation
Indices: 99101663--99101773 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
99101653 CCGGGATAAG
* *
99101663 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
99101710 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
99101757 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
99101774 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:99102634 original size:22 final size:23
Alignment explanation
Indices: 99102598--99102643 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
99102588 TCTATCTTTC
99102598 TTTCTTTCTCTTTTTTTTTAACT
1 TTTCTTTCTCTTTTTTTTTAACT
99102621 TTTCTTTCTC-TTTTTTTTAACT
1 TTTCTTTCTCTTTTTTTTTAACT
99102643 T
1 T
99102644 ACTCATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTCTTTCTCTTTTTTTTTAACT
Found at i:99109062 original size:47 final size:47
Alignment explanation
Indices: 99108953--99109063 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
99108943 CCGGGATAAG
* *
99108953 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
99109000 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
99109047 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
99109064 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:99109835 original size:4 final size:4
Alignment explanation
Indices: 99109826--99109854 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
99109816 TCCTTTTCTA
99109826 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
99109855 ACGTTTGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:99121103 original size:22 final size:21
Alignment explanation
Indices: 99121058--99121104 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
99121048 AACATGCAGG
*
99121058 GCAGCAAAAGCAACGACAGTA
1 GCAGCAAAAGCAACGACAGCA
* *
99121079 GCAGCCAAAAGCAGCGGCAGCA
1 GCAG-CAAAAGCAACGACAGCA
99121101 GCAG
1 GCAG
99121105 GAGCAGGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.40, C:0.28, G:0.30, T:0.02
Consensus pattern (21 bp):
GCAGCAAAAGCAACGACAGCA
Found at i:99126453 original size:15 final size:14
Alignment explanation
Indices: 99126425--99126454 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
99126415 AAAGTTTGGG
99126425 ATGATTTTTGAAAA
1 ATGATTTTTGAAAA
99126439 ATGATTTTTGAAAA
1 ATGATTTTTGAAAA
99126453 AT
1 AT
99126455 AAGCTTGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
ATGATTTTTGAAAA
Found at i:99126597 original size:16 final size:18
Alignment explanation
Indices: 99126558--99126591 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99126548 TAAATTTATA
99126558 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
99126575 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
99126592 AATTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:99127288 original size:10 final size:11
Alignment explanation
Indices: 99127256--99127288 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
99127246 ATTTTGTTTC
99127256 TTTAATTTATT
1 TTTAATTTATT
99127267 TTT-ATTTATT
1 TTTAATTTATT
99127277 TTTAATTT-TT
1 TTTAATTTATT
99127287 TT
1 TT
99127289 GATCCAGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTAATTTATT
Found at i:99129930 original size:18 final size:19
Alignment explanation
Indices: 99129907--99129942 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
99129897 TTTATGGAAA
99129907 AGTCAAACCAAA-TTCAAG
1 AGTCAAACCAAAGTTCAAG
*
99129925 AGTCAAATCAAAGTTCAA
1 AGTCAAACCAAAGTTCAA
99129943 ACCAAACTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.19
Consensus pattern (19 bp):
AGTCAAACCAAAGTTCAAG
Found at i:99131931 original size:24 final size:26
Alignment explanation
Indices: 99131887--99131947 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
99131877 TCCTTTATCC
*
99131887 TTTTTTATTTTATTTTTCTTTTTAAG-
1 TTTTTTA-TTTATTTTACTTTTTAAGT
99131913 TTTTTTATTTA-TTTACTTTTTAAGT
1 TTTTTTATTTATTTTACTTTTTAAGT
99131938 TTTTTTATTT
1 TTTTTTATTT
99131948 GTCCTTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 12 0.36
25 14 0.42
26 7 0.21
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (26 bp):
TTTTTTATTTATTTTACTTTTTAAGT
Found at i:99131961 original size:4 final size:4
Alignment explanation
Indices: 99131952--99131995 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
99131942 TTATTTGTCC
* *
99131952 TTTA TTTA TTTA TTTTA TTTC TTTGT TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TT
99131996 ACTGGTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 28 0.80
5 7 0.20
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:99131967 original size:26 final size:26
Alignment explanation
Indices: 99131937--99131992 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 26
99131927 ACTTTTTAAG
99131937 TTTT-TTTATTTGTCCTTTATTTATTTA
1 TTTTATTTATTTGT--TTTATTTATTTA
*
99131964 TTTTATTTCTTTGTTTTATTTATTTA
1 TTTTATTTATTTGTTTTATTTATTTA
99131990 TTT
1 TTT
99131993 ATTACTGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 15 0.56
27 4 0.15
28 8 0.30
ACGTcount: A:0.14, C:0.05, G:0.04, T:0.77
Consensus pattern (26 bp):
TTTTATTTATTTGTTTTATTTATTTA
Found at i:99131970 original size:13 final size:13
Alignment explanation
Indices: 99131952--99131992 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
99131942 TTATTTGTCC
99131952 TTTATTTATTTAT
1 TTTATTTATTTAT
* *
99131965 TTTATTTCTTTGT
1 TTTATTTATTTAT
99131978 TTTATTTATTTAT
1 TTTATTTATTTAT
99131991 TT
1 TT
99131993 ATTACTGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:99132070 original size:21 final size:22
Alignment explanation
Indices: 99132033--99132138 Score: 114
Period size: 21 Copynumber: 4.9 Consensus size: 22
99132023 ATTTGAAATG
99132033 TTTTATAATATTATTTTTAAAAA
1 TTTTA-AATATTATTTTTAAAAA
*
99132056 TTTTAAATATATTTTTTTTAAAAA
1 TTTT-AA-ATATTATTTTTAAAAA
99132080 --TTAAATATTATTTTTTAAAAA
1 TTTTAAATATTA-TTTTTAAAAA
99132101 --TTAAATATTATTTTT-AAAA
1 TTTTAAATATTATTTTTAAAAA
**
99132120 TTTTAAATACAATTTTTAA
1 TTTTAAATATTATTTTTAA
99132139 TATTATAAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 13
0.81 0.04 0.14
Matches are distributed among these distances:
19 4 0.05
20 10 0.14
21 35 0.48
22 3 0.04
23 5 0.07
24 16 0.22
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTAAATATTATTTTTAAAAA
Found at i:99132253 original size:23 final size:24
Alignment explanation
Indices: 99132202--99132262 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
99132192 ATTATTTATT
*
99132202 TTATAATA-TTTT-AAATGTATAT
1 TTATAATATTTTTAAAATGTATAA
* *
99132224 TTTTAATATTTTTAAAAT-TCTAA
1 TTATAATATTTTTAAAATGTATAA
*
99132247 TTATAATTTTTTTAAA
1 TTATAATATTTTTAAA
99132263 TTATTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 7 0.22
23 21 0.66
24 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATAATATTTTTAAAATGTATAA
Found at i:99132270 original size:23 final size:22
Alignment explanation
Indices: 99132202--99132271 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
99132192 ATTATTTATT
* *
99132202 TTATAA-TATTTTAAATGTATAT
1 TTATAATTTTTTTAAAT-TATAA
* * *
99132224 TTTTAATATTTTTAAAATTCTAA
1 TTATAAT-TTTTTTAAATTATAA
99132247 TTATAATTTTTTTAAATTATTAA
1 TTATAATTTTTTTAAATTA-TAA
99132270 TT
1 TT
99132272 TTTTAAATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
22 15 0.41
23 14 0.38
24 8 0.22
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
TTATAATTTTTTTAAATTATAA
Found at i:99132283 original size:16 final size:17
Alignment explanation
Indices: 99132245--99132283 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
99132235 TTAAAATTCT
99132245 AATTA-TAATTTTTTTA
1 AATTATTAATTTTTTTA
99132261 AATTATTAA-TTTTTTA
1 AATTATTAATTTTTTTA
99132277 AATTATT
1 AATTATT
99132284 TTTAAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTATTAATTTTTTTA
Found at i:99135703 original size:30 final size:30
Alignment explanation
Indices: 99135662--99135735 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
99135652 TGGTTGGTCT
* * * *
99135662 GGGTGAAATGAACTTGAACCACCTATGTTC
1 GGGTGATATGAACTCGAACCACCCATGTCC
**
99135692 GGGTGATATGAACTCGAACTGCCCATGTCC
1 GGGTGATATGAACTCGAACCACCCATGTCC
*
99135722 GAGTGATATGAACT
1 GGGTGATATGAACT
99135736 GCTTTACGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (30 bp):
GGGTGATATGAACTCGAACCACCCATGTCC
Found at i:99146869 original size:20 final size:23
Alignment explanation
Indices: 99146831--99146885 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 23
99146821 ACTAGTTATA
*
99146831 ATATTTTTTTAATTATTTAATAT
1 ATATATTTTTAATTATTTAATAT
*
99146854 A-A-ATTTTTACTT-TTTAATAT
1 ATATATTTTTAATTATTTAATAT
99146874 ATATATTTTTAA
1 ATATATTTTTAA
99146886 AAAAGTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 9 0.33
21 9 0.33
22 8 0.30
23 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATTTTTAATTATTTAATAT
Found at i:99147210 original size:34 final size:34
Alignment explanation
Indices: 99147140--99147212 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 34
99147130 TTTTATATTA
**
99147140 TTAAAAATATATTTAAAATTTTAAAAAATTGTAT
1 TTAAAAATATATTTAAAATTTTAAAAAATTAAAT
*
99147174 TTAAAAA-ATATTATAAAATATTT-AAAATTTAAAT
1 TTAAAAATATATT-TAAAAT-TTTAAAAAATTAAAT
99147208 TTAAA
1 TTAAA
99147213 TTTTTATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 5 0.15
34 26 0.76
35 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (34 bp):
TTAAAAATATATTTAAAATTTTAAAAAATTAAAT
Found at i:99147315 original size:24 final size:25
Alignment explanation
Indices: 99147263--99147327 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 25
99147253 AATGACAAAT
* *
99147263 AAAAAAACTTAAAAAGTAAATAAAT
1 AAAAAAACTTAAAAAGGAAATAAAA
*
99147288 AAAAAAACTT-AAAAGGAAA-AACA
1 AAAAAAACTTAAAAAGGAAATAAAA
*
99147311 AAAAAAA-TGAAAAAGGA
1 AAAAAAACTTAAAAAGGA
99147328 CAAAGAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 16 0.46
24 8 0.23
25 10 0.29
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (25 bp):
AAAAAAACTTAAAAAGGAAATAAAA
Found at i:99147316 original size:25 final size:26
Alignment explanation
Indices: 99147257--99147317 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
99147247 TAAATAAATG
* *
99147257 ACAAATAAAAAAACTTAAAAAGTAAAT
1 ACAAA-AAAAAAACTTAAAAAGGAAAA
*
99147284 A-AATAAAAAAACTT-AAAAGGAAAA
1 ACAAAAAAAAAACTTAAAAAGGAAAA
99147308 ACAAAAAAAA
1 ACAAAAAAAA
99147318 TGAAAAAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 9 0.31
25 17 0.59
26 2 0.07
27 1 0.03
ACGTcount: A:0.75, C:0.07, G:0.05, T:0.13
Consensus pattern (26 bp):
ACAAAAAAAAAACTTAAAAAGGAAAA
Found at i:99147396 original size:28 final size:29
Alignment explanation
Indices: 99147337--99147403 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
99147327 ACAAAGAATA
* * **
99147337 AAAAAAATTAACGTGAATG-AAAAAATTT
1 AAAAAATTTAACCTGAATGAAAAAAAAAT
*
99147365 TAAAAATTTAACCTGAATGAAAAAAAAAT
1 AAAAAATTTAACCTGAATGAAAAAAAAAT
99147394 AAAAAATTTA
1 AAAAAATTTA
99147404 CCTATTTCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.25
Consensus pattern (29 bp):
AAAAAATTTAACCTGAATGAAAAAAAAAT
Found at i:99147406 original size:28 final size:27
Alignment explanation
Indices: 99147338--99147406 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 27
99147328 CAAAGAATAA
* * **
99147338 AAAAAATTAACGTGAATGAAAAAATTT
1 AAAAAATTTACCTGAATGAAAAAAAAT
*
99147365 TAAAAATTTAACCTGAATGAAAAAAAAAT
1 AAAAAATTT-ACCTGAATG-AAAAAAAAT
99147394 AAAAAATTTACCT
1 AAAAAATTTACCT
99147407 ATTTCAATAG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 7 0.21
28 12 0.35
29 15 0.44
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (27 bp):
AAAAAATTTACCTGAATGAAAAAAAAT
Found at i:99150938 original size:32 final size:32
Alignment explanation
Indices: 99150888--99150951 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
99150878 TATTTCAATG
99150888 TAACTTAGAGAAAATGAAAGAATAAAAACTTA
1 TAACTTAGAGAAAATGAAAGAATAAAAACTTA
99150920 TAACTTAGA-AAAACTGAAAGAATAAAAACTTA
1 TAACTTAGAGAAAA-TGAAAGAATAAAAACTTA
99150952 CTTTTGGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.59, C:0.08, G:0.11, T:0.22
Consensus pattern (32 bp):
TAACTTAGAGAAAATGAAAGAATAAAAACTTA
Found at i:99171752 original size:19 final size:19
Alignment explanation
Indices: 99171730--99171767 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
99171720 GTTTTTTGGA
99171730 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
99171749 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
99171768 TGTTTGGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:99175389 original size:12 final size:12
Alignment explanation
Indices: 99175368--99175397 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
99175358 TACTATTAGA
*
99175368 AATGTCTAAATC
1 AATGTGTAAATC
99175380 AATGTGTAAATC
1 AATGTGTAAATC
99175392 AATGTG
1 AATGTG
99175398 AAGTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (12 bp):
AATGTGTAAATC
Found at i:99176916 original size:22 final size:22
Alignment explanation
Indices: 99176832--99176910 Score: 56
Period size: 27 Copynumber: 3.4 Consensus size: 22
99176822 CAAAATTCTT
99176832 TTAAAATATGAAAA-CTCAAAAA
1 TTAAAATATGAAAATCT-AAAAA
*
99176854 -TAAAA-ATAAAAATCCTTAAAAA
1 TTAAAATATGAAAAT-C-TAAAAA
99176876 TTTAAATATATATGAAAAATCTAAAAA
1 -TT-AA-A-ATATG-AAAATCTAAAAA
99176903 TTAAAATA
1 TTAAAATA
99176911 ATAAAACTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 19
0.68 0.03 0.29
Matches are distributed among these distances:
20 6 0.13
21 5 0.11
22 6 0.13
23 4 0.09
24 2 0.04
25 4 0.09
26 3 0.07
27 7 0.16
28 3 0.07
29 5 0.11
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.28
Consensus pattern (22 bp):
TTAAAATATGAAAATCTAAAAA
Found at i:99191672 original size:21 final size:21
Alignment explanation
Indices: 99191647--99191695 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
99191637 TGAAGAGAAA
99191647 GTGAAAATATTTCATCACAAT
1 GTGAAAATATTTCATCACAAT
99191668 GTGAAAATATTTCATCACAAT
1 GTGAAAATATTTCATCACAAT
99191689 GTGAAAA
1 GTGAAAA
99191696 ATCATGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (21 bp):
GTGAAAATATTTCATCACAAT
Found at i:99215629 original size:18 final size:18
Alignment explanation
Indices: 99215606--99215641 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
99215596 GCTCTTTACA
99215606 AAAAATTTTGAAAAAATT
1 AAAAATTTTGAAAAAATT
*
99215624 AAAAATTTTGAAGAAATT
1 AAAAATTTTGAAAAAATT
99215642 TTGAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
AAAAATTTTGAAAAAATT
Found at i:99224345 original size:12 final size:12
Alignment explanation
Indices: 99224328--99224352 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99224318 ACTCAATGAG
99224328 AATAATATGTAT
1 AATAATATGTAT
99224340 AATAATATGTAT
1 AATAATATGTAT
99224352 A
1 A
99224353 TAAAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AATAATATGTAT
Found at i:99225838 original size:46 final size:46
Alignment explanation
Indices: 99225779--99225973 Score: 134
Period size: 46 Copynumber: 4.3 Consensus size: 46
99225769 ATCCGCTTTG
*
99225779 CTGCCAAAAACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* * ** * * ** * *
99225825 CTGCCAGATACAGGGAGATAGAGTTAT-C-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGATCTGCAATCTTCAATCTATTCCA
* * * * * * * *
99225870 CT---ATAGT-CAGGGAGGTAAAAATCTGCCATCTTCGATCTGCTT-CT
1 CTGCCA-AATACAGGAAGG-CAAGATCTGCAATCTTCAATCT-ATTCCA
99225914 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
99225960 CTGCCAAATACAGG
1 CTGCCAAATACAGG
99225974 GAGATAGAGT
Statistics
Matches: 105, Mismatches: 33, Indels: 22
0.66 0.21 0.14
Matches are distributed among these distances:
42 11 0.10
43 3 0.03
44 10 0.10
45 18 0.17
46 51 0.49
47 12 0.11
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:99225994 original size:135 final size:134
Alignment explanation
Indices: 99225746--99226088 Score: 589
Period size: 135 Copynumber: 2.6 Consensus size: 134
99225736 TTGAATGCAT
* * *
99225746 GGAGGTAAAATCTGCCATTTTCGATCCGCTT-TGCTGCCAAAAACAGGAAGGCAAGATCTGCAAT
1 GGAGGTAAAATCTGCCATCTTCGATCTGCTTCT-CTGCCAAATACAGGAAGGCAAGATCTGCAAT
*
99225810 CTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTATA
65 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTATA
99225875 GTCAG
130 GTCAG
99225880 GGAGGTAAAAATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAAT
1 GGAGGT-AAAATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAAT
*
99225945 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTA
65 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTATA
99226010 GTCAG
130 GTCAG
* * *
99226015 GGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCGAATACAGGAAGGCAAGATCTGCAATA
1 GGAGGTAAAATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATC
99226080 TTCAATCTA
66 TTCAATCTA
99226089 CTTTTTACCA
Statistics
Matches: 199, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
134 71 0.36
135 127 0.64
136 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (134 bp):
GGAGGTAAAATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATC
TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTATAG
TCAG
Found at i:99226262 original size:87 final size:87
Alignment explanation
Indices: 99226150--99226374 Score: 380
Period size: 87 Copynumber: 2.6 Consensus size: 87
99226140 ACCAGTATGG
99226150 GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGATATCTTT
1 GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGATATCTTT
99226215 GATCTACTTCACGCCAATACAT
66 GATCTACTTCACGCCAATACAT
99226237 GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGATATCTTT
1 GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGATATCTTT
99226302 GATCTACTTCACGCCAATACAT
66 GATCTACTTCACGCCAATACAT
* * * *
99226324 GAAGACAAGATCTGCTTTC-TGCGATCTACTTCGCCACCAATATGGGAAGAC
1 GAAGACAAGATCTGC-ATCGT-CGATCCACTTC-CTACCAATATAGGAAGAC
99226375 AAGATCTGCA
Statistics
Matches: 131, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
87 103 0.79
88 12 0.09
89 16 0.12
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (87 bp):
GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGATATCTTT
GATCTACTTCACGCCAATACAT
Found at i:99226394 original size:132 final size:130
Alignment explanation
Indices: 99226095--99226635 Score: 480
Period size: 132 Copynumber: 4.1 Consensus size: 130
99226085 TCTACTTTTT
* * * * * * *
99226095 ACCAATATAGGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAAGACAAGA
* * * * * * * * ** * * * * *
99226160 TCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAAGACCGGACCTGATATCTTTGATCTACT
64 CCTACTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGATCTG-CATCGTCGATCCACT
*
99226223 TCAC
127 TCCC
* * * **
99226227 GCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACC
1 ACCAATATAGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACC
* *
99226292 TGA-TATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC-TGCGATCTACTT
66 T-ACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-ATCGT-CGATCCACTT
99226355 CGCC
128 C-CC
*
99226359 ACCAATATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACC
1 ACCAATATAGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACC
*
99226424 TACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTTCCT
66 TACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTTCCC
* * * * * * * *
99226489 ACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCAC-GCCAATACATGAAGACAAGA
1 ACCAATATAGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTACCAATATAGGAAGACAAGA
* * * * * * *** * *
99226553 TCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCCACTT
64 CCTACTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTT
*
99226618 CCT
128 CCC
99226621 ACCAATATAGGAAGA
1 ACCAATATAGGAAGA
99226636 TAGGATATGT
Statistics
Matches: 342, Mismatches: 56, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
130 43 0.13
131 117 0.34
132 182 0.53
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (130 bp):
ACCAATATAGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACC
TACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTTCCC
Found at i:99226463 original size:219 final size:219
Alignment explanation
Indices: 99226096--99226635 Score: 940
Period size: 219 Copynumber: 2.5 Consensus size: 219
99226086 CTACTTTTTA
* * * * *
99226096 CCAATATAGGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
**
99226161 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGACCTGATATCTTTGATCTACTTCA
66 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTGATATCTTTGATCTACTTCA
**
99226226 CGCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACCGGAC
131 CGCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGAC
99226291 CTGA-TATCTTTGATCTACTTCACG
196 CT-ACTATCTTTGATCTACTTCACG
99226315 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
99226380 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCT-ACTATCTTTGATCTACTTC
66 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTGA-TATCTTTGATCTACTTC
99226444 ACGCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGA
130 ACGCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGA
99226509 CCTACTATCTTTGATCTACTTCACG
195 CCTACTATCTTTGATCTACTTCACG
*
99226534 CCAATACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
* *
99226599 CTGCATCTTTGATCCACTTCCTACCAATATAGGAAGA
66 CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGA
99226636 TAGGATATGT
Statistics
Matches: 307, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
218 2 0.01
219 305 0.99
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (219 bp):
CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
CTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTGATATCTTTGATCTACTTCA
CGCCAATACATGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGAC
CTACTATCTTTGATCTACTTCACG
Found at i:99226506 original size:87 final size:87
Alignment explanation
Indices: 99226369--99226618 Score: 396
Period size: 87 Copynumber: 2.9 Consensus size: 87
99226359 ACCAATATGG
99226369 GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTT
1 GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTT
99226434 GATCTACTTCACGCCAATACAT
66 GATCTACTTCACGCCAATACAT
99226456 GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTT
1 GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTT
99226521 GATCTACTTCACGCCAATACAT
66 GATCTACTTCACGCCAATACAT
* * * * * *
99226543 GAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATC
1 GAAGACAAGATCTGC-ATC-GTCGATCCACTTC-CTACCAATATAGGAAGACAAGACCTACTATC
*
99226606 TTTGATCCACTTC
63 TTTGATCTACTTC
99226619 CTACCAATAT
Statistics
Matches: 153, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
87 102 0.67
88 26 0.17
89 25 0.16
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (87 bp):
GAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTTT
GATCTACTTCACGCCAATACAT
Found at i:99237961 original size:126 final size:126
Alignment explanation
Indices: 99237736--99237986 Score: 493
Period size: 126 Copynumber: 2.0 Consensus size: 126
99237726 GAAACGATCA
99237736 TTAAAAGAAAATCTGATATCGTGAATTGAAACATAAGATTCTCTTGTTCCGAAGGAATATCACAT
1 TTAAAAGAAAATCTGATATCGTGAATTGAAACATAAGATTCTCTTGTTCCGAAGGAATATCACAT
*
99237801 CTAGCACGTTAGGACACGATACTCTAAACCATCGAAACCAAGATCACCTTATAGTTTAATC
66 CCAGCACGTTAGGACACGATACTCTAAACCATCGAAACCAAGATCACCTTATAGTTTAATC
99237862 TTAAAAGAAAATCTGATATCGTGAATTGAAACATAAGATTCTCTTGTTCCGAAGGAATATCACAT
1 TTAAAAGAAAATCTGATATCGTGAATTGAAACATAAGATTCTCTTGTTCCGAAGGAATATCACAT
99237927 CCAGCACGTTAGGACACGATACTCTAAACCATCGAAACCAAGATCACCTTATAGTTTAAT
66 CCAGCACGTTAGGACACGATACTCTAAACCATCGAAACCAAGATCACCTTATAGTTTAAT
99237987 GAAACCATAC
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 124 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.27
Consensus pattern (126 bp):
TTAAAAGAAAATCTGATATCGTGAATTGAAACATAAGATTCTCTTGTTCCGAAGGAATATCACAT
CCAGCACGTTAGGACACGATACTCTAAACCATCGAAACCAAGATCACCTTATAGTTTAATC
Found at i:99241561 original size:157 final size:157
Alignment explanation
Indices: 99241275--99241584 Score: 437
Period size: 157 Copynumber: 2.0 Consensus size: 157
99241265 CATCCCCATG
99241275 CAGCCGAAACACAAGATCCGGTATAATTATCCATAATAATCCAAGGGCCTTCACGAATGATATAC
1 CAGCCGAAACACAAGATCCGGTATAATTATCCATAATAATCCAAGGGCCTTCACGAATGATATAC
* ** **
99241340 CTCCTGATGCAGCGCTTGCATGAGTTTTCTAAATATTTAGATATAGTGTCAACCCACCTATTGAA
66 CTCCTGATGCAGCACTTGCACAAGTTTTCTAAATATCCAGATATAGTGTCAACCCACCTATTGAA
*
99241405 TGAAGAATC-AGAAGTTGAAGAGTCATT
131 TGAAGAATCGA-AAGATGAAGAGTCATT
* * * * *
99241432 CAGCCTAAACACAGGATCTGGTATAGTTATCCATAATAATCC-AGAGGCCTTCA-TAAGTGATAT
1 CAGCCGAAACACAAGATCCGGTATAATTATCCATAATAATCCAAG-GGCCTTCACGAA-TGATAT
* * * *
99241495 ACCTCCTGATGCAGCACTTGCACAAGTTTTTTGAATATCCAGATATAGTGTCAGCTCACCTATTG
64 ACCTCCTGATGCAGCACTTGCACAAGTTTTCTAAATATCCAGATATAGTGTCAACCCACCTATTG
99241560 AATGAAGAATCGAAAGATGAAGAGT
129 AATGAAGAATCGAAAGATGAAGAGT
99241585 TGTTCGTAGG
Statistics
Matches: 135, Mismatches: 15, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
156 4 0.03
157 130 0.96
158 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (157 bp):
CAGCCGAAACACAAGATCCGGTATAATTATCCATAATAATCCAAGGGCCTTCACGAATGATATAC
CTCCTGATGCAGCACTTGCACAAGTTTTCTAAATATCCAGATATAGTGTCAACCCACCTATTGAA
TGAAGAATCGAAAGATGAAGAGTCATT
Found at i:99243847 original size:89 final size:89
Alignment explanation
Indices: 99243754--99243921 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 89
99243744 AATTAAAAAA
99243754 TAAAAATTAAATACA-TAAAGTTTAACTTAATAATTAAAGTA-TAAACTAAAAATGAATTGAATT
1 TAAAAATTAAATA-ATTAAAGTTTAACTTAATAATTAAA-TATTAAACTAAAAATGAATTGAATT
99243817 TCTTAATTTTAATTAAAAAATCAATT
64 TCTTAATTTTAATTAAAAAATCAATT
* * * * *
99243843 TAAAAATTAAATAATTAAATTTTAACTTAATAATTATATATTAAATTAAAAGTTAATTGAATTTC
1 TAAAAATTAAATAATTAAAGTTTAACTTAATAATTAAATATTAAACTAAAAATGAATTGAATTTC
* *
99243908 TTATTTTTACTTAA
66 TTAATTTTAATTAA
99243922 TTGAAATAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 3 0.04
89 67 0.96
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.42
Consensus pattern (89 bp):
TAAAAATTAAATAATTAAAGTTTAACTTAATAATTAAATATTAAACTAAAAATGAATTGAATTTC
TTAATTTTAATTAAAAAATCAATT
Found at i:99243886 original size:19 final size:19
Alignment explanation
Indices: 99243846--99243891 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
99243836 ATCAATTTAA
*
99243846 AAATTAAATAATTAAATTTT
1 AAATT-AATAATTAAATATT
* *
99243866 AACTTAATAATTATATATT
1 AAATTAATAATTAAATATT
99243885 AAATTAA
1 AAATTAA
99243892 AAGTTAATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTAATAATTAAATATT
Found at i:99243898 original size:26 final size:27
Alignment explanation
Indices: 99243842--99243899 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
99243832 AAAAATCAAT
* **
99243842 TTAAAAATTAAATAATTAAATTTTAAC
1 TTAATAATTAAATAATTAAATTAAAAC
* *
99243869 TTAATAATTATAT-ATTAAATTAAAAG
1 TTAATAATTAAATAATTAAATTAAAAC
99243895 TTAAT
1 TTAAT
99243900 TGAATTTCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (27 bp):
TTAATAATTAAATAATTAAATTAAAAC
Found at i:99246990 original size:5 final size:5
Alignment explanation
Indices: 99246980--99247007 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
99246970 AAGCAAATTA
99246980 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99247008 GTCACGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:99252291 original size:57 final size:57
Alignment explanation
Indices: 99252173--99252310 Score: 158
Period size: 57 Copynumber: 2.4 Consensus size: 57
99252163 GGGGTGCCAA
* * * *
99252173 CCATCAATGTCCCAACACCCCTCAATTTTTGTTTTTCAAATATGGTCCAAGGGTGTTGG
1 CCATCAATGTCCCAACA--CCTCAATTTTTGTTTTTCAAATACGGTACAAGGATGTCGG
99252232 CCATCAATGTCCCAACACCT-AATTTTT-TTTTCCTCAAAT-CGAGTACAAGGATGTCGG
1 CCATCAATGTCCCAACACCTCAATTTTTGTTTT--TCAAATACG-GTACAAGGATGTCGG
*
99252289 CCATCAGTGTCCCAACA-CTCAA
1 CCATCAATGTCCCAACACCTCAA
99252311 AAAAATTTTC
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
55 4 0.06
56 10 0.14
57 39 0.56
59 17 0.24
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (57 bp):
CCATCAATGTCCCAACACCTCAATTTTTGTTTTTCAAATACGGTACAAGGATGTCGG
Found at i:99256699 original size:31 final size:31
Alignment explanation
Indices: 99256664--99256725 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
99256654 CTTTTTACCT
* *
99256664 CTGAACTTGGCAAATAGGTCCATATTGGCCC
1 CTGAACTTGGCAAATAGGTCCACATTAGCCC
*
99256695 CTGAACTTGGCAAGTAGGTCCACATTAGCCC
1 CTGAACTTGGCAAATAGGTCCACATTAGCCC
99256726 TTAAATTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (31 bp):
CTGAACTTGGCAAATAGGTCCACATTAGCCC
Found at i:99258338 original size:7 final size:7
Alignment explanation
Indices: 99258328--99258353 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99258318 TATTTGAAAT
99258328 TTTAAAA
1 TTTAAAA
99258335 TTTAAAA
1 TTTAAAA
99258342 TTTAAAA
1 TTTAAAA
99258349 TTTAA
1 TTTAA
99258354 CCTTTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:99265327 original size:15 final size:15
Alignment explanation
Indices: 99265292--99265343 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
99265282 TTAATAATTT
*
99265292 TATTAAATTAT-ATA
1 TATTTAATTATAATA
99265306 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
99265320 TATTTAATAATAAT-
1 TATTTAATTATAATA
99265334 TATGTTAATT
1 TAT-TTAATT
99265344 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Done.