Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 87 of 320
Found at i:27681974 original size:28 final size:28
Alignment explanation
Indices: 27681942--27682006 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
27681932 ATTTACTAGA
*
27681942 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
27681970 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
27681998 ATACCCCTA
1 ATACCCCTA
27682007 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:27682204 original size:28 final size:26
Alignment explanation
Indices: 27682112--27682223 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
27682102 AGGAAGCGTC
*
27682112 CTGGTGGCTATGCCACAATTATCTGATT
1 CTGGTGGCTCTGCCAC-ATTATCTG-TT
* *
27682140 -TGGTGGCTCCGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
27682166 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
27682194 CTGGTGACTCTGCCACATTATATGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
27682220 CTGG
1 CTGG
27682224 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.12
27 46 0.63
28 18 0.25
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:27682220 original size:54 final size:54
Alignment explanation
Indices: 27682112--27682223 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
27682102 AGGAAGCGTC
* * * *
27682112 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCCGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCCGCCACATATATATGTT
* * *
27682166 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGCCACAT-TATATGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCCGCCACATATATATGTT
27682220 CTGG
1 CTGG
27682224 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCCGCCACATATATATGTT
Found at i:27683544 original size:16 final size:16
Alignment explanation
Indices: 27683525--27683555 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27683515 CTAACCCAAG
27683525 TGTTAATTTCCAAAAT
1 TGTTAATTTCCAAAAT
*
27683541 TGTTAATTTTCAAAA
1 TGTTAATTTCCAAAA
27683556 GTTTCCATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (16 bp):
TGTTAATTTCCAAAAT
Found at i:27686845 original size:42 final size:43
Alignment explanation
Indices: 27686783--27686878 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
27686773 TGAGATTTAT
* *
27686783 GTGTAAGACCATGTCCGGGAC-ATCGGCATCG-TATTTGATTTC
1 GTGTAAGACCATATCCGGGACAAT-GGCATCGATATTTGATTAC
* * *
27686825 GTGTAAGACCCTATCTGGGACAATGGCATTGATATTTGATTAC
1 GTGTAAGACCATATCCGGGACAATGGCATCGATATTTGATTAC
*
27686868 ATGTAAGACCA
1 GTGTAAGACCA
27686879 CGTCTAGGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 24 0.53
43 21 0.47
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATATCCGGGACAATGGCATCGATATTTGATTAC
Found at i:27688248 original size:21 final size:22
Alignment explanation
Indices: 27688224--27688264 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27688214 TGTTGATATT
27688224 TGAC-TTTGA-TATGATAATGTA
1 TGACTTTTGACTATGA-AATGTA
27688245 TGACTTTTGACTATGAAATG
1 TGACTTTTGACTATGAAATG
27688265 ATTGCGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (22 bp):
TGACTTTTGACTATGAAATGTA
Found at i:27690271 original size:48 final size:48
Alignment explanation
Indices: 27690088--27690345 Score: 199
Period size: 48 Copynumber: 5.4 Consensus size: 48
27690078 GGTGCCAACA
* * * *
27690088 CCATATCCCAGATATGGTCTTACATGGGACCACATAACGATGCTAATG
1 CCATGTCCCAGACATGGTCTTACATGGGATCACATAAAGATGCTAATG
* * * * * *
27690136 CCATGTCCTAGACATAGTCTTACATGGGATCGC--ACATAT-CGAA-G
1 CCATGTCCCAGACATGGTCTTACATGGGATCACATAAAGATGCTAATG
* * ** * *
27690180 CCGATAG-CCCAG-CTATGGTCTTACACGATG-TCTTATTATGATGCTAATG
1 CC-AT-GTCCCAGAC-ATGGTCTTACATG-GGATCACATAAAGATGCTAATG
* * *
27690229 CCATGTCCCGGACATGGTCTTACATGGGATCACATAAAGATGCCAAAG
1 CCATGTCCCAGACATGGTCTTACATGGGATCACATAAAGATGCTAATG
** *
27690277 CCATGTCCCAGACATGGTCTTACATGGGATCACATGTCA-ATGCTAAAG
1 CCATGTCCCAGACATGGTCTTACATGGGATCACAT-AAAGATGCTAATG
* *
27690325 CCATATCCCAGATATGGTCTT
1 CCATGTCCCAGACATGGTCTT
27690346 CTACGGGAGC
Statistics
Matches: 162, Mismatches: 36, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
44 4 0.02
45 22 0.14
46 5 0.03
47 4 0.02
48 122 0.75
49 5 0.03
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACATGGGATCACATAAAGATGCTAATG
Found at i:27697630 original size:27 final size:26
Alignment explanation
Indices: 27697582--27697633 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27697572 GCGAGGCTGC
*
27697582 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
27697608 CAGATATATGTGGCGACGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
27697634 TTGCAACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:27706445 original size:48 final size:48
Alignment explanation
Indices: 27706366--27706597 Score: 201
Period size: 48 Copynumber: 4.9 Consensus size: 48
27706356 CAAGGTAGGG
* * * * *
27706366 TGCCAATGCCATATCCCAGATATGATCTTACATGGGACCACATAACGA
1 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGA
* *
27706414 TGCCAATTCCATGTCCCAGACATGGTATTACATGGGATCACACATATCGA
1 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGAT--CACATAACGA
* * * * * * *
27706464 AGCCGA-T--A-G-CCCAG-CTATGGTCTTACACGATG-TCTCATTATGA
1 TGCCAATTCCATGTCCCAGAC-ATGGTCTTACATG-GGATCACATAACGA
* *
27706507 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATAACGA
1 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGA
* *
27706555 TGCCAAAGT-CATGTCCCAAACATGGTCTTACATGGGATCACAT
1 TGCC-AATTCCATGTCCCAGACATGGTCTTACATGGGATCACAT
27706598 GTCACTACCA
Statistics
Matches: 143, Mismatches: 29, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
43 10 0.07
44 1 0.01
45 17 0.12
46 3 0.02
47 3 0.02
48 92 0.64
49 4 0.03
50 13 0.09
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (48 bp):
TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGA
Found at i:27706609 original size:48 final size:48
Alignment explanation
Indices: 27706368--27706632 Score: 195
Period size: 48 Copynumber: 5.6 Consensus size: 48
27706358 AGGTAGGGTG
* * * * * *
27706368 CCAATGCCATATCCCAGATATGATCTTACATGGGACCACATAACGATG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATA
** *
27706416 CCAATTCCATGTCCCAGACATGGTATTACATGGGATCAC---AC-ATA
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATA
* * * * * * * *
27706460 TCGAAGCCGATAG-CCCAG-CTATGGTCTTACACGATG-TCTCATTATGATG
1 CCAAAGCC-AT-GTCCCAGAC-ATGGTCTTACATG-GGATCACATAACGATA
* * *
27706509 CCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATAACGATG
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATA
* * **
27706557 CCAAAGTCATGTCCCAAACATGGTCTTACATGGGATCACATGTC-ACTA
1 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGA-TA
* *
27706605 CCAAAGCCATATCCCAGATATGGTCTTA
1 CCAAAGCCATGTCCCAGACATGGTCTTA
27706633 TACAGGAGCT
Statistics
Matches: 168, Mismatches: 37, Indels: 24
0.73 0.16 0.10
Matches are distributed among these distances:
44 7 0.04
45 23 0.14
46 2 0.01
47 3 0.02
48 125 0.74
49 8 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (48 bp):
CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACATAACGATA
Found at i:27715246 original size:40 final size:40
Alignment explanation
Indices: 27715152--27715456 Score: 205
Period size: 40 Copynumber: 7.6 Consensus size: 40
27715142 TATTCGAATG
* * *
27715152 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCGAGTTGACT
* *
27715193 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGG-CTAAGATCCGAAGGCATTTGTGCGAGTTGACT
* * * * *
27715233 ATATCCAGGCTAAGACCCGAAGGCATTTTTGCTAG-CGATT
1 ATATCC-GGCTAAGATCCGAAGGCATTTGTGCGAGTTGACT
* *
27715273 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGG-CTAAGATCCGAAGGCATTTGTGCGAGTTGACT
* * * * *
27715313 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGATT
1 ATA-TCCGGCTAAGATCCGAAGGCATTTGTGCGAGTTGACT
* * * * *
27715353 ATATCCAAGCTAA-AACTCGAAGGCATTTGTGCTAG-CGATT
1 ATATCC-GGCTAAGATC-CGAAGGCATTTGTGCGAGTTGACT
* * *
27715393 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAG-TGACC
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCGAGTTGACT
* *
27715433 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCC-GGCTAAGATCCGAAGGC
27715457 CTTGTGCAAG
Statistics
Matches: 213, Mismatches: 38, Indels: 27
0.77 0.14 0.10
Matches are distributed among these distances:
39 8 0.04
40 169 0.79
41 35 0.16
42 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGCTAAGATCCGAAGGCATTTGTGCGAGTTGACT
Found at i:27715299 original size:80 final size:80
Alignment explanation
Indices: 27715152--27715456 Score: 339
Period size: 80 Copynumber: 3.8 Consensus size: 80
27715142 TATTCGAATG
* *
27715152 ATATCCGGGCTAAGTCCCGAAGGC-TTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTT-TGCTA-GCGACTATAACCGGACTAAGATCCGAAGG
27715216 CATTCGTGCGAGTTGCT
64 CATTCGTGCGAGTTGCT
* *
27715233 ATATCCAGGCTAAGACCCGAAGGCATTTTTGCTAGCGATTATAACCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTTTGCTAGCGACTATAACCGGACTAAGATCCGAAGGCA
27715298 TTCGTGCGAGTTGCT
66 TTCGTGCGAGTTGCT
* * * * * *
27715313 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCC-AAGCTAA-AACTCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTTTGCTAGCGACTATAACCGGA-CTAAGATC-CGAAGG
* * * *
27715376 CATTTGTGCTAG-CGATT
64 CATTCGTGCGAGTTG-CT
* * * * * * * *
27715393 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTTTGCTAGCGACTATAACCGGACTAAGATCCGAAGGC
27715457 CTTGTGCAAG
Statistics
Matches: 194, Mismatches: 24, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
79 4 0.02
80 157 0.81
81 29 0.15
82 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTTTGCTAGCGACTATAACCGGACTAAGATCCGAAGGCA
TTCGTGCGAGTTGCT
Found at i:27715406 original size:120 final size:120
Alignment explanation
Indices: 27715152--27715492 Score: 386
Period size: 120 Copynumber: 2.9 Consensus size: 120
27715142 TATTCGAATG
* * * *
27715152 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
* * * *
27715217 ATTCGTGCGAGTTGCTATATCCAGGCTAAGACCCGAAGGCATTTTTGCTAGCGATT
65 ATTCGTGCGAGTCGCTATATCCAAGCTAAAACCCGAAGGCATTTGTGCTAGCGATT
* * * * *
27715273 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CTATATTCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGACCCGAAGG
* * * *
27715336 CATTTGTGCTAG-CGATTATATCCAAGCTAAAACTCGAAGGCATTTGTGCTAGCGATT
64 CATTCGTGCGAGTCG-CTATATCCAAGCTAAAACCCGAAGGCATTTGTGCTAGCGATT
* * * *
27715393 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * *
27715458 TT-GTGCAAGTAGTTATATCC-AGCTAAATCCCGAAG
66 TTCGTGCGAGTCGCTATATCCAAGCTAAAACCCGAAG
27715493 ATTACTTGAG
Statistics
Matches: 184, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
118 13 0.07
119 18 0.10
120 123 0.67
121 29 0.16
122 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCTATATCCAAGCTAAAACCCGAAGGCATTTGTGCTAGCGATT
Found at i:27718737 original size:50 final size:48
Alignment explanation
Indices: 27718645--27718775 Score: 136
Period size: 48 Copynumber: 2.7 Consensus size: 48
27718635 GTTCACCATC
* * *
27718645 TAGGCTTTTCAGATAACTTTGCCACTAAGGCTTCCCAAATAATATGCCACA
1 TAGGCTTTTTAGATAA-TTAGCCACAAAGGCTTCCCAAAT-A-ATGCCACA
** * * *
27718696 TAGTTTTTTTAGATAATTAGCCACAAAGGCTTCCTAGATAATGTCACA
1 TAGGCTTTTTAGATAATTAGCCACAAAGGCTTCCCAAATAATGCCACA
* * *
27718744 TAGGCTTTTTGGATAACTAACCACAAAGGCTT
1 TAGGCTTTTTAGATAATTAGCCACAAAGGCTT
27718776 GTTTGGTTTC
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
48 34 0.51
49 1 0.01
50 19 0.28
51 13 0.19
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (48 bp):
TAGGCTTTTTAGATAATTAGCCACAAAGGCTTCCCAAATAATGCCACA
Found at i:27723281 original size:20 final size:18
Alignment explanation
Indices: 27723247--27723283 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
27723237 GCAACTCATA
27723247 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
27723265 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
27723284 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:27727296 original size:30 final size:30
Alignment explanation
Indices: 27727251--27727309 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
27727241 CTTAACAAGT
*
27727251 AAATTCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
27727281 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
27727310 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:27728927 original size:51 final size:51
Alignment explanation
Indices: 27728864--27728976 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
27728854 CTACCTTATA
* * * * *
27728864 ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
1 ACATGTATCACATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGCT
*
27728915 ACATGTATCACATCCATTATGAACTCGAACCACTCAACGAGCTCAGATGCT
1 ACATGTATCACATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGCT
*
27728966 ACATATATCAC
1 ACATGTATCAC
27728977 GAACTTGGAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (51 bp):
ACATGTATCACATCCATAATGAACTCGAACCACTCAACGAGCTCAGATGCT
Found at i:27728994 original size:42 final size:43
Alignment explanation
Indices: 27728935--27729043 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 43
27728925 CATCCATTAT
*
27728935 GAACTCGAACCACTCAACGAGCTCAGATGCT-ACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCAGATGCTCACATATATCAC
* * * *
27728977 GAACTTGGACCACTCAACAAGTTCAGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCAGATGCTCACATATATCAC
* *
27729020 GAGCTCGGACCACTCAATGAGCTC
1 GAACTCGGACCACTCAACGAGCTC
27729044 GGATTTTTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 26 0.46
43 30 0.54
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (43 bp):
GAACTCGGACCACTCAACGAGCTCAGATGCTCACATATATCAC
Found at i:27729030 original size:43 final size:42
Alignment explanation
Indices: 27728935--27729036 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
27728925 CATCCATTAT
* *
27728935 GAACTCGAACCACTCAACGAGCTCAGATGCTACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCAGATGCTACATATATCAC
* * *
27728977 GAACTTGGACCACTCAACAAGTTCAGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACAAGCTCAGATGCT-ACATATATCAC
*
27729020 GAGCTCGGACCACTCAA
1 GAACTCGGACCACTCAA
27729037 TGAGCTCGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (42 bp):
GAACTCGGACCACTCAACAAGCTCAGATGCTACATATATCAC
Found at i:27732056 original size:25 final size:24
Alignment explanation
Indices: 27732013--27732064 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
27732003 AAGTTCAAGC
27732013 GAGCCATATCAAGAAGCTCAAAAA
1 GAGCCATATCAAGAAGCTCAAAAA
* * *
27732037 GAGCCTATATCAGGACGCTCATAAA
1 GAGCC-ATATCAAGAAGCTCAAAAA
27732062 GAG
1 GAG
27732065 TTGTGTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.15
Consensus pattern (24 bp):
GAGCCATATCAAGAAGCTCAAAAA
Found at i:27733647 original size:48 final size:48
Alignment explanation
Indices: 27733566--27733796 Score: 295
Period size: 48 Copynumber: 4.8 Consensus size: 48
27733556 AGGTTATGTA
* *
27733566 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTATATGAG
* * ** *
27733614 AGCTAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTCGACATG-G
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTATATGAG
* * *
27733661 -GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATAAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTATATGAG
* * **
27733708 AGCTAGTGTAAGACCATGTATGGGACATGGCATCGACACCGATATATGAG
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--TTTATATGAG
*
27733758 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
27733797 CTTACCCTTT
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
46 37 0.24
47 2 0.01
48 73 0.47
50 42 0.27
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTATATGAG
Found at i:27733732 original size:94 final size:97
Alignment explanation
Indices: 27733566--27733796 Score: 344
Period size: 94 Copynumber: 2.4 Consensus size: 97
27733556 AGGTTATGTA
*
27733566 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCAT
1 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATAAGAGCTAGTGTAAGACCAT
* *
27733631 GTCTGGGACATAGCATCGGC-CTCG-ACATG-G
66 GTATGGGACATAGCATCGACAC-CGAACATGAG
27733661 -GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATAAGAGCTAGTGTAAGACCAT
1 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATAAGAGCTAGTGTAAGACCAT
* *
27733725 GTATGGGACATGGCATCGACACCGATATATGAG
66 GTATGGGACATAGCATCGACACCGA-ACATGAG
* * *
27733758 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT
27733797 CTTACCCTTT
Statistics
Matches: 123, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
94 82 0.67
95 1 0.01
96 4 0.03
97 1 0.01
98 35 0.28
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (97 bp):
AGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATAAGAGCTAGTGTAAGACCAT
GTATGGGACATAGCATCGACACCGAACATGAG
Found at i:27736746 original size:14 final size:14
Alignment explanation
Indices: 27736727--27736756 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27736717 TACGAGCTCA
27736727 ATGCATAAATACAT
1 ATGCATAAATACAT
*
27736741 ATGCATATATACAT
1 ATGCATAAATACAT
27736755 AT
1 AT
27736757 ATGATTATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (14 bp):
ATGCATAAATACAT
Found at i:27736871 original size:30 final size:30
Alignment explanation
Indices: 27736820--27736882 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
27736810 GTTCAAATGT
* *
27736820 GATGATGTAGTATGTTGAAAATTAAATTGA
1 GATGATATAGTATGTTAAAAATTAAATTGA
*
27736850 GATGATATAGTCTGTTAAAAATTAAATTGA
1 GATGATATAGTATGTTAAAAATTAAATTGA
27736880 GAT
1 GAT
27736883 AAACATGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.37
Consensus pattern (30 bp):
GATGATATAGTATGTTAAAAATTAAATTGA
Found at i:27753524 original size:45 final size:48
Alignment explanation
Indices: 27753332--27753586 Score: 187
Period size: 50 Copynumber: 5.2 Consensus size: 48
27753322 CCGGATATGA
* * * *
27753332 TCTTACACTGGCTCACA-CATCAAAGTCGATGCCATGTCCCAGACATGG
1 TCTTACACTAGCACACATC-TCGAAGCCGATGCCATGTCCCAGACATGG
* * * * * * *
27753380 TCTTACACT-GACTCTCGTATATCGAGGTCAATGCCATGTCCCAAACATGG
1 TCTTACACTAG-CACAC--ATCTCGAAGCCGATGCCATGTCCCAGACATGG
* * * ** * *
27753430 TCTTACACTAGCTCTCATCTATTGGTGCTGATGCCATGTCCCAGGCATGG
1 TCTTACACTAGCACACATC--TCGAAGCCGATGCCATGTCCCAGACATGG
* *
27753480 TCTTACACT-G-ACACATGTC-AAGCCGATGCCATGTCCCACACATGG
1 TCTTACACTAGCACACATCTCGAAGCCGATGCCATGTCCCAGACATGG
* * * *
27753525 TCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCCTAGACATGG
1 TCTTACACTAG--CACACATCTCGAAGCCGATGCCATGTCCCAGACATGG
27753575 TCTTACACTAGC
1 TCTTACACTAGC
27753587 TTTCATATCT
Statistics
Matches: 165, Mismatches: 30, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
45 30 0.18
46 2 0.01
47 1 0.01
48 20 0.12
49 7 0.04
50 104 0.63
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
TCTTACACTAGCACACATCTCGAAGCCGATGCCATGTCCCAGACATGG
Found at i:27753537 original size:95 final size:98
Alignment explanation
Indices: 27753358--27753583 Score: 289
Period size: 95 Copynumber: 2.3 Consensus size: 98
27753348 ACATCAAAGT
* * *
27753358 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCGTATATCGAGGTCAATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-CACG-ATATCGAAGCCAATGCCATGTCCCA
* *
27753423 AACATGGTCTTACACTAGCTCTCATCTATTG-GTGC
64 AACATGGTCTTACACTAGCTCTCATATATCGAG-GC
* * * * *
27753458 TGATGCCATGTCCCAGGCATGGTCTTACACTGA-CAC-ATGTC-AAGCCGATGCCATGTCCCACA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACCACGATATCGAAGCCAATGCCATGTCCCAAA
*
27753520 CATGGTCTTACACTAGCTCTCATATCTCGAGGC
66 CATGGTCTTACACTAGCTCTCATATATCGAGGC
*
27753553 CGATGCCATGTCCTAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
27753584 AGCTTTCATA
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
95 73 0.66
96 5 0.05
98 2 0.02
100 31 0.28
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (98 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACCACGATATCGAAGCCAATGCCATGTCCCAAA
CATGGTCTTACACTAGCTCTCATATATCGAGGC
Found at i:27753597 original size:50 final size:50
Alignment explanation
Indices: 27753358--27753594 Score: 263
Period size: 50 Copynumber: 4.8 Consensus size: 50
27753348 ACATCAAAGT
* *
27753358 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCGTATATCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATATCGAGGC
* * * *
27753408 CAATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATCTATTG-GTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAG-GC
* * * * * *
27753458 TGATGCCATGTCCCAGGCATGGTCTTACACT-G---ACACATGTC-AAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGC
* *
27753503 CGATGCCATGTCCCACACATGGTCTTACACTAGCTCTCATATCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGC
* *
27753553 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTTTCATAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAT
27753595 CTCCCTAGCA
Statistics
Matches: 153, Mismatches: 26, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
45 30 0.20
46 5 0.03
49 8 0.05
50 109 0.71
51 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAGGC
Found at i:27754710 original size:15 final size:15
Alignment explanation
Indices: 27754690--27754721 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27754680 TATTTTTTGT
27754690 CTCATTGACCAGCCA
1 CTCATTGACCAGCCA
*
27754705 CTCATTGACCTGCCA
1 CTCATTGACCAGCCA
27754720 CT
1 CT
27754722 AACATATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.41, G:0.12, T:0.25
Consensus pattern (15 bp):
CTCATTGACCAGCCA
Found at i:27772485 original size:50 final size:50
Alignment explanation
Indices: 27772424--27772603 Score: 247
Period size: 50 Copynumber: 3.6 Consensus size: 50
27772414 ACATCAAAGT
* *
27772424 CGATGCCATGTCCCAGACATAGTCTTACACTGACTCTCGTATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGC
* * * *
27772474 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCG-GTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG-GC
* * *
27772524 CGATGCCATGTTCCAGACATGGTCTTACACT-AGCTCTCATATCTGGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCGAGGC
27772574 CGATGCCATGTCCCAGACATGGTCTTACAC
1 CGATGCCATGTCCCAGACATGGTCTTACAC
27772604 AAGCTCACAT
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 111 0.98
51 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGC
Found at i:27772554 original size:100 final size:100
Alignment explanation
Indices: 27772422--27772603 Score: 294
Period size: 100 Copynumber: 1.8 Consensus size: 100
27772412 ACACATCAAA
*
27772422 GTCGATGCCATGTCCCAGACATAGTCTTACACT-GACTCTCGTATATCGAGGCCAATGCCATGTC
1 GTCGATGCCATGTCCCAGACATAGTCTTACACTAG-CTCTCATATATCGAGGCCAATGCCATGTC
27772486 CCAGACATGGTCTTACACTGGCTCTCATCTATCGGT
65 CCAGACATGGTCTTACACTGGCTCTCATCTATCGGT
* * * * *
27772522 GTCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATCTGGAGGCCGATGCCATGTCC
1 GTCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATATCGAGGCCAATGCCATGTCC
27772587 CAGACATGGTCTTACAC
66 CAGACATGGTCTTACAC
27772604 AAGCTCACAT
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
100 74 0.99
101 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (100 bp):
GTCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATATATCGAGGCCAATGCCATGTCC
CAGACATGGTCTTACACTGGCTCTCATCTATCGGT
Found at i:27776980 original size:20 final size:20
Alignment explanation
Indices: 27776957--27776994 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27776947 ATTTACTCGC
*
27776957 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
27776977 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
27776995 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:27795520 original size:41 final size:42
Alignment explanation
Indices: 27795454--27795558 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 42
27795444 CTTTTTGTTA
* * * * *
27795454 AGCTCTTACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTT
1 AGCTCTTATGAGCTTCTATTCAACTCATATGAGTTTCCATTC
* *
27795496 AGCTCTT-TGAGCTTCTATTCAACTCTTATGAGTTTCTATTC
1 AGCTCTTATGAGCTTCTATTCAACTCATATGAGTTTCCATTC
* *
27795537 ATCTCTTATGAGCTTCCATTCA
1 AGCTCTTATGAGCTTCTATTCA
27795559 GCTCTTACGA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 33 0.62
42 20 0.38
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCTATTCAACTCATATGAGTTTCCATTC
Found at i:27795532 original size:21 final size:21
Alignment explanation
Indices: 27795456--27795638 Score: 131
Period size: 21 Copynumber: 8.9 Consensus size: 21
27795446 TTTTGTTAAG
* *
27795456 CTCTTACGAGCTTCTGTTTAA
1 CTCTTATGAGCTTCTGTTCAA
* * * * *
27795477 CTCATATGAGTTTCCGTTTAG
1 CTCTTATGAGCTTCTGTTCAA
*
27795498 CTCTT-TGAGCTTCTATTCAA
1 CTCTTATGAGCTTCTGTTCAA
* * *
27795518 CTCTTATGAGTTTCTATTCAT
1 CTCTTATGAGCTTCTGTTCAA
** *
27795539 CTCTTATGAGCTTCCATTCAG
1 CTCTTATGAGCTTCTGTTCAA
* *
27795560 CTCTTACGAGCTTTTGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
* * * *
27795581 CCCTTATGGGTTTCTG-TCTAG
1 CTCTTATGAGCTTCTGTTC-AA
*
27795602 CTCTTATGAGCTTCTGTTCAG
1 CTCTTATGAGCTTCTGTTCAA
*
27795623 CT-TT-CGAGCTTCTGTT
1 CTCTTATGAGCTTCTGTT
27795639 AATGATGTAC
Statistics
Matches: 128, Mismatches: 31, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
19 11 0.09
20 19 0.15
21 96 0.75
22 2 0.02
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.44
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAA
Found at i:27795587 original size:63 final size:62
Alignment explanation
Indices: 27795458--27795638 Score: 186
Period size: 63 Copynumber: 2.9 Consensus size: 62
27795448 TTGTTAAGCT
* * * * * * * * * *
27795458 CTTACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTTAGCTCTTTGAGCTTCTATTCAACT
1 CTTATGAGTTTCTGTCTAGCTCTTATGAGCTTCCGTTCAGCTCTTCGAGCTTCTGTTCAACC
* * * *
27795520 CTTATGAGTTTCTAT-TCATCTCTTATGAGCTTCCATTCAGCTCTTACGAGCTTTTGTTCAACC
1 CTTATGAGTTTCTGTCT-AGCTCTTATGAGCTTCCGTTCAGCTCTT-CGAGCTTCTGTTCAACC
* *
27795583 CTTATGGGTTTCTGTCTAGCTCTTATGAGCTTCTGTTCAGCT-TTCGAGCTTCTGTT
1 CTTATGAGTTTCTGTCTAGCTCTTATGAGCTTCCGTTCAGCTCTTCGAGCTTCTGTT
27795639 AATGATGTAC
Statistics
Matches: 98, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
61 12 0.12
62 37 0.38
63 48 0.49
64 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (62 bp):
CTTATGAGTTTCTGTCTAGCTCTTATGAGCTTCCGTTCAGCTCTTCGAGCTTCTGTTCAACC
Found at i:27797003 original size:20 final size:18
Alignment explanation
Indices: 27796966--27797016 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
27796956 CTATAGCAAC
27796966 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
27796983 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
27797003 TTACAACTTTACAA
1 TCACAA-TTTACAA
27797017 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:27800452 original size:31 final size:31
Alignment explanation
Indices: 27800394--27800452 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
27800384 TGTCCCCTAT
*
27800394 TTTTAGAATTTTTTTAAAAATAGCCCTAAAC
1 TTTTAGAATTTGTTTAAAAATAGCCCTAAAC
* *
27800425 TTTTAGAA-TTGTTTCAAATTAGTCCCTA
1 TTTTAGAATTTGTTTAAAAATAG-CCCTA
27800453 CCTATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (31 bp):
TTTTAGAATTTGTTTAAAAATAGCCCTAAAC
Found at i:27803687 original size:11 final size:11
Alignment explanation
Indices: 27803673--27803700 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
27803663 TACATACATA
27803673 ATATATAATAT
1 ATATATAATAT
27803684 ATATATAATAT
1 ATATATAATAT
27803695 ATATAT
1 ATATAT
27803701 TAGAAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATATAATAT
Found at i:27803855 original size:14 final size:15
Alignment explanation
Indices: 27803828--27803875 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
27803818 TAATGTTAAA
* *
27803828 ATATATACATAATA-
1 ATATATATAAAATAC
27803842 ATATATATAAAATAC
1 ATATATATAAAATAC
27803857 A-ATAT-TAAAA-AC
1 ATATATATAAAATAC
27803869 ATATATA
1 ATATATA
27803876 CATAATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
14 16 0.55
15 1 0.03
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
ATATATATAAAATAC
Found at i:27803896 original size:24 final size:24
Alignment explanation
Indices: 27803864--27803909 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
27803854 TACAATATTA
27803864 AAAACATATATACATAATATATACG
1 AAAACATATATACAT-ATATATACG
*
27803889 AAAA-ATATATAGATATATATA
1 AAAACATATATACATATATATA
27803910 ATATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 9 0.45
25 4 0.20
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAACATATATACATATATATACG
Found at i:27804029 original size:20 final size:19
Alignment explanation
Indices: 27803992--27804031 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
27803982 ATATACATAA
* *
27803992 ATATATTAAAAACATATAC
1 ATATATAAAAAAAATATAC
27804011 ATATATAAAAAAAATTATAC
1 ATATATAAAAAAAA-TATAC
27804031 A
1 A
27804032 CTAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
ATATATAAAAAAAATATAC
Found at i:27804183 original size:3 final size:3
Alignment explanation
Indices: 27804177--27804211 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
27804167 TTATTACATC
* *
27804177 ATA ATA ATA ATA ATA ATA TTA ATA ATA ATA TTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
27804212 GACGACAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:27804194 original size:12 final size:12
Alignment explanation
Indices: 27804177--27804211 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
27804167 TTATTACATC
*
27804177 ATAATAATAATA
1 ATAATATTAATA
27804189 ATAATATTAATA
1 ATAATATTAATA
27804201 ATAATATTAAT
1 ATAATATTAAT
27804212 GACGACAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATATTAATA
Found at i:27804243 original size:20 final size:21
Alignment explanation
Indices: 27804218--27804256 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27804208 TAATGACGAC
*
27804218 AATAAAAA-TAAAAATAAAAA
1 AATAAAAACAAAAAATAAAAA
27804238 AATAAAAACAAAAAATAAA
1 AATAAAAACAAAAAATAAA
27804257 GATAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (21 bp):
AATAAAAACAAAAAATAAAAA
Found at i:27805026 original size:16 final size:16
Alignment explanation
Indices: 27804994--27805039 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
27804984 AATTTTTTTC
27804994 TTTTTTT-TATTTATTA
1 TTTTTTTCT-TTTATTA
*
27805010 TTTTTTTCTTTTCTTA
1 TTTTTTTCTTTTATTA
*
27805026 TCTTTTTCTTTTAT
1 TTTTTTTCTTTTAT
27805040 ACTTTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 25 0.96
17 1 0.04
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTTCTTTTATTA
Found at i:27806837 original size:26 final size:25
Alignment explanation
Indices: 27806797--27806858 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
27806787 ATATTTTAAT
*
27806797 ATATTTTAATTATAAATT-ATCTTATA
1 ATATTTTTATTATAAATTAATC--ATA
*
27806823 A-ATTTTTATTAATAATTTAATCATA
1 ATATTTTTATT-ATAAATTAATCATA
27806848 ATATTTTTATT
1 ATATTTTTATT
27806859 TTATTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 12 0.39
26 16 0.52
27 3 0.10
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATTTTTATTATAAATTAATCATA
Found at i:27810570 original size:15 final size:16
Alignment explanation
Indices: 27810550--27810586 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
27810540 TTAAAATTTG
27810550 AAAAAT-ATAAGAGTA-
1 AAAAATAATAA-AGTAT
27810565 AAAAATAATAAAGTAT
1 AAAAATAATAAAGTAT
27810581 AAAAAT
1 AAAAAT
27810587 CAAGTAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAATAATAAAGTAT
Found at i:27815465 original size:12 final size:12
Alignment explanation
Indices: 27815444--27815510 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
27815434 TAATAATATT
27815444 ATTA-TATTAAA
1 ATTATTATTAAA
27815455 ATTATTATT-AA
1 ATTATTATTAAA
27815466 A-TATTATTAATA
1 ATTATTATTAA-A
27815478 ATTA-TATTAATA
1 ATTATTATTAA-A
*
27815490 A-TGTTATT-AA
1 ATTATTATTAAA
27815500 ATTATATATTA
1 ATTAT-TATTA
27815511 TTTTTATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
10 9 0.20
11 12 0.26
12 23 0.50
13 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:27815468 original size:27 final size:28
Alignment explanation
Indices: 27815421--27815512 Score: 81
Period size: 27 Copynumber: 3.5 Consensus size: 28
27815411 TATATTAGGC
*
27815421 ATTAAAATATTCTTAATAATATTATTAT
1 ATTAAAATATTATTAATAATATTATTAT
27815449 ATTAAAATTATTATT-A-AATATTATTA-
1 ATTAAAA-TATTATTAATAATATTATTAT
* * *
27815475 A-T-AATTA-TATTAATAATGTTATTAA
1 ATTAAAATATTATTAATAATATTATTAT
*
27815500 ATT-ATATATTATT
1 ATTAAAATATTATT
27815513 TTTATTAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
22 4 0.08
23 3 0.06
24 11 0.21
25 2 0.04
26 5 0.09
27 14 0.26
28 8 0.15
29 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
ATTAAAATATTATTAATAATATTATTAT
Found at i:27815475 original size:22 final size:23
Alignment explanation
Indices: 27815448--27815511 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
27815438 AATATTATTA
27815448 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTATAATAT
*
27815470 TATTAATAATTA-TATTAATAATGT
1 TATTAA-AATTATTATT-ATAATAT
27815494 TATT-AAATTATATATTAT
1 TATTAAAATTAT-TATTAT
27815512 TTTTATTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.42
23 9 0.25
24 12 0.33
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTAAAATTATTATTATAATAT
Found at i:27815484 original size:34 final size:36
Alignment explanation
Indices: 27815444--27815510 Score: 95
Period size: 34 Copynumber: 1.9 Consensus size: 36
27815434 TAATAATATT
27815444 ATTATATTAA-AATTATTATTAAA-TAT-TATTAATA
1 ATTATATTAATAA-TATTATTAAATTATATATTAATA
*
27815478 ATTATATTAATAATGTTATTAAATTATATATTA
1 ATTATATTAATAATATTATTAAATTATATATTA
27815511 TTTTTATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 19 0.66
35 5 0.17
36 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (36 bp):
ATTATATTAATAATATTATTAAATTATATATTAATA
Found at i:27815605 original size:58 final size:58
Alignment explanation
Indices: 27815473--27815607 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 58
27815463 TAAATATTAT
* * * *
27815473 TAATAATTATATTAATAATGTTATTAAATTATATATTATTTTTATTAAATTGTATTTAA
1 TAATAATTATATTAA-AATATGACTAAATTATATATTATTTTTATTAAATTATATTTAA
* *
27815532 TAATAATTATGTTAAAATATGACTAAATTATTTATTATTTTTTATTAAA-TATATTTAA
1 TAATAATTATATTAAAATATGACTAAATTATATATTA-TTTTTATTAAATTATATTTAA
27815590 TAATAATCT-TATTAAAAT
1 TAATAAT-TATATTAAAAT
27815608 TTAATAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
58 41 0.61
59 26 0.39
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (58 bp):
TAATAATTATATTAAAATATGACTAAATTATATATTATTTTTATTAAATTATATTTAA
Found at i:27816994 original size:19 final size:18
Alignment explanation
Indices: 27816972--27817019 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
27816962 TAAAAAATTC
*
27816972 AAATATTAAAAATTAGAAA
1 AAATAGTAAAAA-TAGAAA
* *
27816991 AAATCGTAAAAATATAAA
1 AAATAGTAAAAATAGAAA
*
27817009 AAATTGTAAAA
1 AAATAGTAAAA
27817020 TTTTATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (18 bp):
AAATAGTAAAAATAGAAA
Found at i:27817009 original size:18 final size:19
Alignment explanation
Indices: 27816978--27817019 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
27816968 ATTCAAATAT
27816978 TAAAAATTAGAAAAAATCG
1 TAAAAATTAGAAAAAATCG
* *
27816997 TAAAAA-TATAAAAAATTG
1 TAAAAATTAGAAAAAATCG
27817015 TAAAA
1 TAAAA
27817020 TTTTATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (19 bp):
TAAAAATTAGAAAAAATCG
Found at i:27817019 original size:28 final size:28
Alignment explanation
Indices: 27816972--27817067 Score: 79
Period size: 28 Copynumber: 3.5 Consensus size: 28
27816962 TAAAAAATTC
* *
27816972 AAATATTAAAAATTAG-AAAAAATCGTAA
1 AAATATAAAAAATT-GTAAAAAATCATAA
** *
27817000 AAATATAAAAAATTGTAAAATTTTATAA
1 AAATATAAAAAATTGTAAAAAATCATAA
* * * * *
27817028 AAACATAAAAAATTATAAAATAT-ACAG
1 AAATATAAAAAATTGTAAAAAATCATAA
27817055 AAATATAAAAAAT
1 AAATATAAAAAAT
27817068 ATATTAATTT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 15 0.27
28 41 0.73
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (28 bp):
AAATATAAAAAATTGTAAAAAATCATAA
Found at i:27817058 original size:10 final size:9
Alignment explanation
Indices: 27816998--27817070 Score: 51
Period size: 9 Copynumber: 8.0 Consensus size: 9
27816988 AAAAAATCGT
27816998 AAAAATATA
1 AAAAATATA
*
27817007 AAAAAT-TGT
1 AAAAATAT-A
* *
27817016 AAAATTTTA
1 AAAAATATA
*
27817025 TAAAAACATA
1 -AAAAATATA
27817035 AAAAAT-TA
1 AAAAATATA
*
27817043 TAAAATATA
1 AAAAATATA
*
27817052 CAGAAATATA
1 -AAAAATATA
27817062 AAAAATATA
1 AAAAATATA
27817071 TTAATTTTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
8 8 0.17
9 26 0.54
10 14 0.29
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAAATATA
Found at i:27819280 original size:9 final size:10
Alignment explanation
Indices: 27819256--27819295 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
27819246 GTAACTAGTA
27819256 GAAATGAATT
1 GAAATGAATT
*
27819266 GGAATG-ATT
1 GAAATGAATT
27819275 GAAATGAATT
1 GAAATGAATT
27819285 GAAATG-ATT
1 GAAATGAATT
27819294 GA
1 GA
27819296 TTATTGCTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 13 0.48
10 14 0.52
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (10 bp):
GAAATGAATT
Found at i:27819280 original size:19 final size:19
Alignment explanation
Indices: 27819256--27819295 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
27819246 GTAACTAGTA
*
27819256 GAAATGAATTGGAATGATT
1 GAAATGAATTGAAATGATT
27819275 GAAATGAATTGAAATGATT
1 GAAATGAATTGAAATGATT
27819294 GA
1 GA
27819296 TTATTGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (19 bp):
GAAATGAATTGAAATGATT
Found at i:27820129 original size:14 final size:14
Alignment explanation
Indices: 27820112--27820158 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
27820102 AATTAAAAGA
27820112 CAAATTTTAAACCC
1 CAAATTTTAAACCC
* ***
27820126 CAAATATTAAAAGA
1 CAAATTTTAAACCC
27820140 CAAATTTTAAACCC
1 CAAATTTTAAACCC
27820154 CAAAT
1 CAAAT
27820159 GTGTCCCTTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.51, C:0.21, G:0.02, T:0.26
Consensus pattern (14 bp):
CAAATTTTAAACCC
Found at i:27820135 original size:28 final size:28
Alignment explanation
Indices: 27820103--27820158 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
27820093 GGTAAAATAA
27820103 ATTAAAAGACAAATTTTAAACCCCAAAT
1 ATTAAAAGACAAATTTTAAACCCCAAAT
27820131 ATTAAAAGACAAATTTTAAACCCCAAAT
1 ATTAAAAGACAAATTTTAAACCCCAAAT
27820159 GTGTCCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.25
Consensus pattern (28 bp):
ATTAAAAGACAAATTTTAAACCCCAAAT
Found at i:27820868 original size:95 final size:94
Alignment explanation
Indices: 27820705--27820998 Score: 453
Period size: 95 Copynumber: 3.2 Consensus size: 94
27820695 ATGGAAAAAT
27820705 GTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
1 GTGGTGCTAAGTGGATATACCAC-ATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
27820770 TGCCACGGTTACATATATTGATTCATTAAC
65 TGCCACGGTTACATATATTGATTCATTAAC
*
27820800 GTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGCGGTGCTAAGTGGATA
1 GTGGTGCTAAGTGGATATACCAC-ATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATA
27820865 TGCCACGGTTACATATATTGATTCATTAAC
65 TGCCACGGTTACATATATTGATTCATTAAC
** *
27820895 GTGGTGCTAAGTGGATATACCACGGT-----TA---A-ACATGTAACGTAGTGCTAAGTGGATAT
1 GTGGTGCTAAGTGGATATACCACATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATAT
* *
27820951 GCCACGGTTACATATATTGATTAATTAAT
66 GCCACGGTTACATATATTGATTCATTAAC
27820980 GTGGTGCTAAGTGGATATA
1 GTGGTGCTAAGTGGATATA
27820999 ACACGGTTAA
Statistics
Matches: 191, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
85 71 0.37
86 1 0.01
89 2 0.01
94 1 0.01
95 116 0.61
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (94 bp):
GTGGTGCTAAGTGGATATACCACATTACACATATTGATACATGTAACGTGGTGCTAAGTGGATAT
GCCACGGTTACATATATTGATTCATTAAC
Found at i:27820942 original size:38 final size:38
Alignment explanation
Indices: 27820891--27821052 Score: 171
Period size: 38 Copynumber: 4.0 Consensus size: 38
27820881 ATTGATTCAT
27820891 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
27820929 TAACGTAGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* *
27820970 ATTAATTAATGTGGTGCTAAGTGGATATAACACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
27821014 TAACGTGGTGCTAAGTGGATATGCCATGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
27821052 T
1 T
27821053 TAATTTGTAA
Statistics
Matches: 102, Mismatches: 13, Indels: 18
0.77 0.10 0.14
Matches are distributed among these distances:
38 64 0.63
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 28 0.27
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:27820984 original size:85 final size:85
Alignment explanation
Indices: 27820839--27821076 Score: 363
Period size: 85 Copynumber: 2.8 Consensus size: 85
27820829 ACATATTGAT
* *
27820839 ACATGTAACGCGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAATTAACGTGGTGCTA
*
27820904 AGTGGATATACCACGGTTAA
66 AGTGGATATAACACGGTTAA
* *
27820924 ACATGTAACGTAGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAATTAACGTGGTGCTA
27820989 AGTGGATATAACACGGTTAA
66 AGTGGATATAACACGGTTAA
* * * * *
27821009 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTATACATGTTAATT--TGTAACGTGGTGCT
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAAT-TAACGTGGTGCT
27821072 AAGTG
65 AAGTG
27821077 CGTATGCCAT
Statistics
Matches: 140, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
83 1 0.01
84 16 0.11
85 123 0.88
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTAATTAACGTGGTGCTA
AGTGGATATAACACGGTTAA
Found at i:27826827 original size:21 final size:21
Alignment explanation
Indices: 27826798--27826857 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
27826788 ATTGATTAAT
27826798 TAACGTGGTGCTAAGTGGATA
1 TAACGTGGTGCTAAGTGGATA
* **
27826819 TAACATGGT--TAA--ACATA
1 TAACGTGGTGCTAAGTGGATA
27826836 TAACGTGGTGCTAAGTGGATA
1 TAACGTGGTGCTAAGTGGATA
27826857 T
1 T
27826858 GCCATGGTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
17 11 0.38
19 6 0.21
21 12 0.41
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (21 bp):
TAACGTGGTGCTAAGTGGATA
Found at i:27826829 original size:47 final size:48
Alignment explanation
Indices: 27826601--27826836 Score: 325
Period size: 48 Copynumber: 5.0 Consensus size: 48
27826591 TACCACGGTT
* *
27826601 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
27826649 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
** **
27826697 ATTTAT-TAACGTGGTGCTAAGTGGATATACCACAATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* *
27826744 ATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
* * *
27826792 ATTA-AT-TAACGTGGTGCTAAGTGGATATAACATGGTTAAACATAT
1 A-TACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATAT
27826837 AACGTGGTGC
Statistics
Matches: 165, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
47 75 0.45
48 88 0.53
49 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTG
Found at i:27826836 original size:95 final size:95
Alignment explanation
Indices: 27826608--27826820 Score: 408
Period size: 95 Copynumber: 2.2 Consensus size: 95
27826598 GTTATACGTG
27826608 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGTG
1 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGTG
*
27826673 GATATGCCACGGTTACATATATTGATTTAT
66 GATATGCCACGGTTACATATATTGATTAAT
*
27826703 TAACGTGGTGCTAAGTGGATATACCACAATTACACATATTGATACATGTAACGTGGTGCTAAGTG
1 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGTG
27826768 GATATGCCACGGTTACATATATTGATTAAT
66 GATATGCCACGGTTACATATATTGATTAAT
27826798 TAACGTGGTGCTAAGTGGATATA
1 TAACGTGGTGCTAAGTGGATATA
27826821 ACATGGTTAA
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 116 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (95 bp):
TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGTG
GATATGCCACGGTTACATATATTGATTAAT
Found at i:27826849 original size:38 final size:38
Alignment explanation
Indices: 27826798--27826872 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
27826788 ATTGATTAAT
27826798 TAACGTGGTGCTAAGTGGATATAACATGGTTAAACATA
1 TAACGTGGTGCTAAGTGGATATAACATGGTTAAACATA
** *
27826836 TAACGTGGTGCTAAGTGGATATGCCATGGTTATACAT
1 TAACGTGGTGCTAAGTGGATATAACATGGTTAAACAT
27826873 GTTAATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATAACATGGTTAAACATA
Found at i:27839271 original size:19 final size:19
Alignment explanation
Indices: 27839247--27839286 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
27839237 AAGTACATAC
27839247 TTGTACCATCTCGTAATAA
1 TTGTACCATCTCGTAATAA
27839266 TTGTACCATCTCGTAATAA
1 TTGTACCATCTCGTAATAA
27839285 TT
1 TT
27839287 TCATACTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (19 bp):
TTGTACCATCTCGTAATAA
Found at i:27845717 original size:27 final size:26
Alignment explanation
Indices: 27845686--27845863 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
27845676 TAAATTGTAC
27845686 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
27845713 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
27845739 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
27845767 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
27845795 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
27845822 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
27845849 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27845864 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:27845802 original size:82 final size:81
Alignment explanation
Indices: 27845687--27845842 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
27845677 AAATTGTACA
* * *
27845687 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
27845751 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27845768 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
27845833 TGCGAGTTGA
65 TGCGAATTGA
27845843 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27845854 original size:82 final size:81
Alignment explanation
Indices: 27845683--27845863 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
27845673 GATTAAATTG
* * *
27845683 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27845748 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27845764 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27845828 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27845846 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27845864 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27848819 original size:27 final size:27
Alignment explanation
Indices: 27848777--27848833 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
27848767 GGCGTATAAT
* *
27848777 GCCCAAACCTTTGGCCAACACCATTTG
1 GCCCAAAACTTAGGCCAACACCATTTG
** *
27848804 GCCCAAAACTTAGGCCTGCATCATTTG
1 GCCCAAAACTTAGGCCAACACCATTTG
27848831 GCC
1 GCC
27848834 TAGTAAGGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.23
Consensus pattern (27 bp):
GCCCAAAACTTAGGCCAACACCATTTG
Found at i:27865347 original size:94 final size:94
Alignment explanation
Indices: 27865158--27865333 Score: 316
Period size: 94 Copynumber: 1.9 Consensus size: 94
27865148 TCAACATTGG
* * *
27865158 CACTATGTGTGCGGATTTTATATGCTATTTGAAGTAAGTTAATTGCCTTATTATAATGAGTTAAC
1 CACTATGTGTGCAGATTTTATATGCTATTCGAAGTAAGTAAATTGCCTTATTATAATGAGTTAAC
27865223 ATTGGCACTATGTGTGCGAAATTAAATGT
66 ATTGGCACTATGTGTGCGAAATTAAATGT
*
27865252 CACTTTGTGTGCAGATTTTATATGCTATTCGAAGTAAGTAAATTGCCTTATTATAATGAGTTAAC
1 CACTATGTGTGCAGATTTTATATGCTATTCGAAGTAAGTAAATTGCCTTATTATAATGAGTTAAC
27865317 ATTGGCACTATGTGTGC
66 ATTGGCACTATGTGTGC
27865334 AGATTTGAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 78 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (94 bp):
CACTATGTGTGCAGATTTTATATGCTATTCGAAGTAAGTAAATTGCCTTATTATAATGAGTTAAC
ATTGGCACTATGTGTGCGAAATTAAATGT
Found at i:27865400 original size:24 final size:24
Alignment explanation
Indices: 27865368--27865431 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
27865358 GAAAATTTCA
* *
27865368 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
*
27865392 GGCACTATGTGGGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
27865416 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
27865432 ATTCGGGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:27867356 original size:48 final size:48
Alignment explanation
Indices: 27867161--27867468 Score: 266
Period size: 48 Copynumber: 6.6 Consensus size: 48
27867151 CATGTGAACT
* * *
27867161 AGTGTAAGACCATGT-T-GGACATGGCATCAGCCAC-ATTTTGTA-TGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATG-AGAGCC
* * * * *
27867207 AGTGTAAGACCATGT-T-AGACATGGCATCAG-CATTGA-CTGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
*** *
27867252 AGTGTAAGACCATGT-T-GGACATGGCATCGGCGTTGAT-TGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * *
27867297 AGTGTAAGACCATGTCTGGGACATGGCGTCGACCACCATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * *
27867345 AGTGTAAGACCATGT-T-GGACATGGCCTCGG-CATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * *
27867391 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* *
27867439 AGAGTAAGACTATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
27867469 AGCAACTCAC
Statistics
Matches: 222, Mismatches: 28, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
45 63 0.28
46 66 0.30
47 18 0.08
48 74 0.33
49 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:27867437 original size:94 final size:93
Alignment explanation
Indices: 27867161--27867468 Score: 322
Period size: 94 Copynumber: 3.3 Consensus size: 93
27867151 CATGTGAACT
* * *
27867161 AGTGTAAGACCATGTTGGACATGGCATCAGCCACATT--TTGTA-TGCCAGTGTAAGACCATGT-
1 AGTGTAAGACCATGTTGGACATGGCATC-G--GCATTGAATG-AGAGCCAGTGTAAGACCATGTC
* * * * *
27867222 T-AGACATGGCATCAGCATTGAC-TGTGAGCC
62 TGGGACATGGCATCGGCCTCGACATGAGAGCC
* * *
27867252 AGTGTAAGACCATGTTGGACATGGCATCGGCGTTGATTGTGAGCCAGTGTAAGACCATGTCTGGG
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGAATGAGAGCCAGTGTAAGACCATGTCTGGG
* * * * *
27867317 ACATGGCGTCGACCACCATATGAGAGCC
66 ACATGGCATCGGCCTCGACATGAGAGCC
* *
27867345 AGTGTAAGACCATGTTGGACATGGCCTCGGCATTGAGATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGA-ATGAGAGCCAGTGTAAGACCATGTCTGG
*
27867410 GACATGGCATCGGCCTCGACATGAGAGCT
65 GACATGGCATCGGCCTCGACATGAGAGCC
* *
27867439 AGAGTAAGACTATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGT-T-GGACATGGCATC
27867469 AGCAACTCAC
Statistics
Matches: 180, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
88 3 0.02
90 22 0.12
91 29 0.16
92 12 0.07
93 41 0.23
94 61 0.34
95 1 0.01
96 11 0.06
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACCATGTTGGACATGGCATCGGCATTGAATGAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCCTCGACATGAGAGCC
Found at i:27869322 original size:22 final size:21
Alignment explanation
Indices: 27869290--27869333 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 21
27869280 GTTGAAGGCA
27869290 CACAGGGGTGT-CCTTGTGTC
1 CACAGGGGTGTACCTTGTGTC
27869310 CACATGGGCGTGTCACCTTGTGTC
1 CACA-GGG-GTGT-ACCTTGTGTC
27869334 ATGGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.20
21 3 0.15
22 4 0.20
24 9 0.45
ACGTcount: A:0.11, C:0.27, G:0.32, T:0.30
Consensus pattern (21 bp):
CACAGGGGTGTACCTTGTGTC
Found at i:27869781 original size:17 final size:18
Alignment explanation
Indices: 27869759--27869795 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
27869749 AATAGAAAAT
27869759 AATTAT-TGGGTTGGATA
1 AATTATATGGGTTGGATA
*
27869776 AATTATATGTGTTGGATA
1 AATTATATGGGTTGGATA
27869794 AA
1 AA
27869796 AGTCCAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (18 bp):
AATTATATGGGTTGGATA
Found at i:27882045 original size:20 final size:20
Alignment explanation
Indices: 27882016--27882060 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27882006 AGCACATGTA
* *
27882016 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
27882036 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
27882056 TTCAT
1 TTCAT
27882061 TTTAGTCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:27886007 original size:12 final size:12
Alignment explanation
Indices: 27885990--27886014 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27885980 ATGTAAGTGA
27885990 TCTTGATGATTT
1 TCTTGATGATTT
27886002 TCTTGATGATTT
1 TCTTGATGATTT
27886014 T
1 T
27886015 TACATTTCTA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:27886889 original size:92 final size:92
Alignment explanation
Indices: 27886732--27886900 Score: 259
Period size: 92 Copynumber: 1.8 Consensus size: 92
27886722 TTTGTGCGCC
* * * *
27886732 AGTGTAAGGCATGTCTGGGACATGCTTCGGCCACATTATGAGAGACATTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGACAGTGTAAGACCATGTCTGG
27886797 GACATGGCATCGACATCCAGTTGGATT
66 GACATGGCATCGACATCCAGTTGGATT
* * *
27886824 AGTGTAAGACATGTCTGGGCCATGCATCAGCTATATTATGAGA-ACAAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGAC-AGTGTAAGACCATGTCTG
27886888 GGACATGGCATCG
65 GGACATGGCATCG
27886901 GCACAGAGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
91 2 0.03
92 67 0.97
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGACAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCCAGTTGGATT
Found at i:27886935 original size:47 final size:48
Alignment explanation
Indices: 27886870--27887043 Score: 177
Period size: 47 Copynumber: 3.7 Consensus size: 48
27886860 TATGAGAACA
27886870 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGATGAGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACAGAGAT-AGTGCC
* *
27886918 AGAGTAAGA-CATATCTGGGACAT-GCATCGGCCTCAACAGAGATAG-G-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG---CAACAGAGATAGTGCC
* * * * *
27886965 AGTGTAAGA-CGTGTCTGGGACA-CGTATCGGCTA-AGAG-TTGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACAGAGATAGTGCC
*
27887009 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAA
27887044 TATATCCCAC
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 12 0.12
45 12 0.12
46 14 0.13
47 39 0.38
48 9 0.09
49 3 0.03
50 8 0.08
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.21
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCAACAGAGATAGTGCC
Found at i:27888052 original size:23 final size:23
Alignment explanation
Indices: 27888026--27888074 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
27888016 GGACACAGTT
*
27888026 GTGCATTTTATGTCCACACGGGC
1 GTGCATTCTATGTCCACACGGGC
27888049 GTGCATTCTATGTCCACACGGGC
1 GTGCATTCTATGTCCACACGGGC
27888072 GTG
1 GTG
27888075 TGGAGTCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.29
Consensus pattern (23 bp):
GTGCATTCTATGTCCACACGGGC
Found at i:27890976 original size:24 final size:25
Alignment explanation
Indices: 27890944--27890995 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
27890934 GCCTAGCTTC
27890944 TTTTAAT-AACTGGAGCAAAGCCCT
1 TTTTAATAAACTGGAGCAAAGCCCT
* *
27890968 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGAGCAAAGCCCT
27890993 TTT
1 TTT
27890996 CGGTAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGAGCAAAGCCCT
Found at i:27890986 original size:25 final size:25
Alignment explanation
Indices: 27890951--27891020 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
27890941 TTCTTTTAAT
* *
27890951 AACTGGAGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
27890976 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
27891001 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
27891021 AGCAGTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:27891253 original size:27 final size:27
Alignment explanation
Indices: 27891224--27891389 Score: 210
Period size: 27 Copynumber: 6.2 Consensus size: 27
27891214 GGGCAAAATG
* * *
27891224 GTAATTTTACCCGACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
27891251 GTAATTCTACCCTAC-AGGGTGTTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
27891277 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
27891304 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * **
27891331 ATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
27891358 GTAATTCTACCCTATAGGGGTA-TTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
27891384 ATAATT
1 GTAATT
27891390 TTGTAAATCG
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 31 0.25
27 93 0.75
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:27891288 original size:53 final size:53
Alignment explanation
Indices: 27891225--27891389 Score: 233
Period size: 53 Copynumber: 3.1 Consensus size: 53
27891215 GGCAAAATGG
* * *
27891225 TAATTTTACCCGACAAGGGTATTTCGGTAATTCTACCCTACAGGGTGTTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTGTTTCAA
* *
27891278 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTGTTTCAA
* * *
27891332 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTATAGGG-GTATTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTGT-TTCAA
27891385 TAATT
1 TAATT
27891390 TTGTAAATCG
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
52 1 0.01
53 52 0.52
54 47 0.47
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (53 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTGTTTCAA
Found at i:27891354 original size:54 final size:54
Alignment explanation
Indices: 27891225--27891389 Score: 244
Period size: 54 Copynumber: 3.1 Consensus size: 54
27891215 GGCAAAATGG
* * * *
27891225 TAATTTTACCCGACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTGTTTCAG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
*
27891278 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
* * *
27891332 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTATAGGGGTA-TTCAA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
27891385 TAATT
1 TAATT
27891390 TTGTAAATCG
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 49 0.48
54 53 0.52
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
Found at i:27891415 original size:27 final size:26
Alignment explanation
Indices: 27891385--27891460 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
27891375 GGGTATTCAA
27891385 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTTT-TAAATCGAGGGTAAAATGG
* ***
27891412 TAATTCTATAAATCGAGGGTACTTTGG
1 TAATT-TTTAAATCGAGGGTAAAATGG
27891439 TAATTTTTACAAGTCGAGGGTA
1 TAATTTTTA-AA-TCGAGGGTA
27891461 TTTCAATAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.07
27 28 0.68
28 10 0.24
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TAATTTTTAAATCGAGGGTAAAATGG
Found at i:27891482 original size:27 final size:27
Alignment explanation
Indices: 27891411--27891769 Score: 237
Period size: 27 Copynumber: 13.3 Consensus size: 27
27891401 GGGTAAAATG
* * *
27891411 GTAATTCTATAAATCGAGGGTACTTT-G
1 GTAATTTTACAAATCGAGGGTA-TTTCA
*
27891438 GTAATTTTTACAAGTCGAGGGTATTTCA
1 GTAA-TTTTACAAATCGAGGGTATTTCA
* * *
27891466 ATAGTTTTACAAATCGAGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
* *
27891493 GTAATTTTGCAAA-CTGAGGGTATTTCG
1 GTAATTTTACAAATC-GAGGGTATTTCA
* **
27891520 GTAATTTCACAAATC-AGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTCA
* * * **
27891547 GTAATTTTATAAACCAAGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTCA
** * * *
27891574 GTAATTTTGTAAACCAAGGGTATTT-T
1 GTAATTTTACAAATCGAGGGTATTTCA
* * *
27891600 GATAATTTTATAAGTCAAGGGTATTTCA
1 G-TAATTTTACAAATCGAGGGTATTTCA
* * **
27891628 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTCA
*
27891655 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* * **
27891682 GTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTACAAATCGA-GGGTATTTCA
* *
27891709 GTAATTTTACAAA-CTAGGGGTATTTTA
1 GTAATTTTACAAATCGA-GGGTATTTCA
* * * *
27891736 GTAATTTTACCAATTGAGGGCATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
27891763 GTAATTT
1 GTAATTT
27891770 GGTAAACTAA
Statistics
Matches: 272, Mismatches: 47, Indels: 26
0.79 0.14 0.08
Matches are distributed among these distances:
26 5 0.02
27 245 0.90
28 22 0.08
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTCA
Found at i:27891541 original size:54 final size:54
Alignment explanation
Indices: 27891428--27891742 Score: 307
Period size: 54 Copynumber: 5.8 Consensus size: 54
27891418 TATAAATCGA
* * * * *
27891428 GGGTACTTTGGTAATTTTTAC-AAGTCGAGGGTATTTCAATAGTTTTACAAATC-G
1 GGGTATTTTGGTAA-TTTTACAAACT-GAGGGTATTTCAGTAATTTCACAAATCAG
* * *
27891482 AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAATCAG
* ** ** *** * *
27891537 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAATCAG
* * * * *
27891591 GGGTATTTTGATAATTTTA-TAAGTCAAGGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACT-GAGGGTATTTCAGTAATTTCACAAATCAG
* *
27891645 GGGTATTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACT-GAGGGTATTTCAGTAATTTCACAAATCAG
*
27891699 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTTTACAAACTGA-GGGTATTTCAGTAATTT
27891743 TACCAATTGA
Statistics
Matches: 219, Mismatches: 35, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
53 3 0.01
54 197 0.90
55 19 0.09
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTCACAAATCAG
Found at i:27891570 original size:81 final size:81
Alignment explanation
Indices: 27891482--27891743 Score: 301
Period size: 81 Copynumber: 3.2 Consensus size: 81
27891472 TTACAAATCG
27891482 AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTG
* *
27891547 GTAATTTTATAAACCA
66 GTAATTTTACAAACTA
* * ** * * * * * * **
27891563 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGATAATTTTATAAGTCAAGGGTATTTCA
1 AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTG
* *
27891628 GTAATTTCACAAATTA
66 GTAATTTTACAAACTA
* * * * * *
27891644 GGGGTATTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTT
1 AGGGTATTTTAGTAATTTTGCAAACT-GAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTT
27891708 GGTAATTTTACAAACTA
65 GGTAATTTTACAAACTA
*
27891725 GGGGTATTTTAGTAATTTT
1 AGGGTATTTTAGTAATTTT
27891744 ACCAATTGAG
Statistics
Matches: 145, Mismatches: 35, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
80 2 0.01
81 143 0.99
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTG
GTAATTTTACAAACTA
Found at i:27891744 original size:81 final size:80
Alignment explanation
Indices: 27891470--27891769 Score: 300
Period size: 81 Copynumber: 3.7 Consensus size: 80
27891460 ATTTCAATAG
* * * *
27891470 TTTTACAAA-TCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAAT
1 TTTTACAAACTAG-GGGTATTTTAGTAATTTTACAATC-GAGGGTATTTCAGTAATTTCACAAAT
27891534 CAGGGGTATTTTGGTAA
64 CAGGGGTATTTTGGTAA
* * * * * * * * * *
27891551 TTTTATAAACCAAGGGTATTTTGGTAATTTTGTA-AACCAAGGGTATTT-TGATAATTTTATAAG
1 TTTTACAAACTAGGGGTATTTTAGTAA-TTT-TACAATCGAGGGTATTTCAG-TAATTTCACAAA
* **
27891614 TCAAGGGTATTTCAGTAA
63 TCAGGGGTATTTTGGTAA
* * * *
27891632 TTTCACAAATTAGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATT
1 TTTTACAAACTAGGGGTATTTTAGTAATTTTACAA-TCGAGGGTATTTCAGTAATTTCACAAATC
27891697 AGGGGTATTTTGGTAA
65 AGGGGTATTTTGGTAA
* * *
27891713 TTTTACAAACTAGGGGTATTTTAGTAATTTTACCAATTGAGGGCATTTTAGTAATTT
1 TTTTACAAACTAGGGGTATTTTAGTAATTTTA-CAATCGAGGGTATTTCAGTAATTT
27891770 GGTAAACTAA
Statistics
Matches: 175, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
79 2 0.01
80 6 0.03
81 156 0.89
82 10 0.06
83 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
TTTTACAAACTAGGGGTATTTTAGTAATTTTACAATCGAGGGTATTTCAGTAATTTCACAAATCA
GGGGTATTTTGGTAA
Found at i:27901331 original size:20 final size:20
Alignment explanation
Indices: 27901302--27901346 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27901292 AGCACATGTA
* *
27901302 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
27901322 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
27901342 TTCAT
1 TTCAT
27901347 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:27906238 original size:25 final size:24
Alignment explanation
Indices: 27906201--27906252 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
27906191 ATGTCCAAGC
*
27906201 GAGCCATTTCAGGA-AGCTCACAAA
1 GAGCCATATCAGGACA-CTCACAAA
*
27906225 GAGCCTATATCAGGACACTCATAAA
1 GAGCC-ATATCAGGACACTCACAAA
27906250 GAG
1 GAG
27906253 TTGTGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 18 0.75
26 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGACACTCACAAA
Found at i:27909397 original size:41 final size:41
Alignment explanation
Indices: 27909352--27909434 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
27909342 GATCAGTGTA
*
27909352 TATGTAACATTTTTCACCAAACAAATAGTGTCGCCAAATTT
1 TATGTAACATTTTTCACCAAACAAATAGTGTCACCAAATTT
27909393 TATGTAACATTTTTCACCAAACAAATAGTGTCACCAAATTT
1 TATGTAACATTTTTCACCAAACAAATAGTGTCACCAAATTT
27909434 T
1 T
27909435 TAATGCAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.35
Consensus pattern (41 bp):
TATGTAACATTTTTCACCAAACAAATAGTGTCACCAAATTT
Found at i:27914571 original size:40 final size:40
Alignment explanation
Indices: 27914520--27914709 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
27914510 TGGATGAAAA
* *
27914520 CCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
27914560 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
27914600 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
27914639 CC-GGCTAAGTCCCGAAGGCAATTATGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
27914678 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27914710 AGTTATATCC
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 30 0.23
39 7 0.05
40 96 0.72
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:27914692 original size:78 final size:79
Alignment explanation
Indices: 27914517--27914709 Score: 264
Period size: 78 Copynumber: 2.4 Consensus size: 79
27914507 ATTTGGATGA
* *
27914517 AAACCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAACCCGGGCTAAGTCCCGAAGGCAT
1 AAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGCTAAGTCCCGAAGGCAA
*
27914582 TTGTCCGAATTACT
66 TTATCCGAATTACT
* *
27914596 AAATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATCC-GGCTAAGTCCCGAAGGCA
1 AAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGCTAAGTCCCGAAGGCA
* *
27914659 ATTATGCGAGTTACT
65 ATTATCCGAATTACT
* * *
27914674 CTAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 -AAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27914710 AGTTATATCC
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
78 58 0.57
79 9 0.09
80 34 0.34
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (79 bp):
AAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGCTAAGTCCCGAAGGCAA
TTATCCGAATTACT
Found at i:27922777 original size:40 final size:40
Alignment explanation
Indices: 27922683--27922913 Score: 313
Period size: 40 Copynumber: 5.8 Consensus size: 40
27922673 TGGATGAAAA
* ** * *
27922683 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
27922722 CCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
27922762 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
27922802 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
27922842 CCGGGCTAAGTCCAGAAGGCAATTGTGCGAGTTACTCTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
27922883 -CGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27922914 AGTTATATCC
Statistics
Matches: 172, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 32 0.19
40 137 0.80
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:27932583 original size:20 final size:20
Alignment explanation
Indices: 27932558--27932612 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
27932548 TGTGGTTCAA
*
27932558 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
27932578 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
27932598 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
27932613 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:27936385 original size:27 final size:27
Alignment explanation
Indices: 27936355--27936532 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
27936345 ATATTGAGCC
* *
27936355 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
27936382 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
27936409 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
27936437 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
27936464 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
27936491 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
27936518 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27936533 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27936467 original size:55 final size:54
Alignment explanation
Indices: 27936355--27936532 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
27936345 ATATTGAGCC
* * * * *
27936355 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
27936409 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
27936464 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
27936518 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27936533 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:27944387 original size:27 final size:27
Alignment explanation
Indices: 27944357--27944534 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
27944347 ATATTGAGCC
* *
27944357 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
27944384 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
27944411 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
27944439 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
27944466 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
27944493 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
27944520 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27944535 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27944469 original size:55 final size:54
Alignment explanation
Indices: 27944357--27944534 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
27944347 ATATTGAGCC
* * * * *
27944357 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
27944411 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
27944466 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
27944520 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27944535 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:27949218 original size:30 final size:30
Alignment explanation
Indices: 27949184--27949244 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27949174 TCCTTAACTC
27949184 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27949214 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27949244 A
1 A
27949245 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27952514 original size:68 final size:66
Alignment explanation
Indices: 27952442--27952613 Score: 220
Period size: 68 Copynumber: 2.5 Consensus size: 66
27952432 CATCATGTGT
* * * * *
27952442 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTCACATGTGTGTTACGGGATGTATCCCAT
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTCACAAGTGTGATACGGAATGTATCCCAT
27952506 GTAG
63 GTAG
27952510 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACAAGTGTGATACGGAATGTATCCCATG
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACAAGTGTGATACGGAATGTATCCCATG
27952575 TAG
64 TAG
*
27952578 ACAAGAGAGCTACGTGAGAGATGAATGTAGCTAGGT
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGT
27952614 AGCATGAGTG
Statistics
Matches: 95, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
68 85 0.89
69 5 0.05
70 5 0.05
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACAAGTGTGATACGGAATGTATCCCATGTA
G
Found at i:27952625 original size:68 final size:68
Alignment explanation
Indices: 27952468--27952613 Score: 256
Period size: 68 Copynumber: 2.1 Consensus size: 68
27952458 ATACTATATA
* *
27952468 GTAGCTAGGTCACATGTGTGTTACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGAATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
27952533 AAT
66 AAT
* *
27952536 GTAGCTAGGTCACAAGTGTGATACGGAATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATG
1 GTAGCTAGGTCACATGTGTGATACGGAATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
27952601 AAT
66 AAT
27952604 GTAGCTAGGT
1 GTAGCTAGGT
27952614 AGCATGAGTG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 74 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACGGAATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
AAT
Found at i:27952699 original size:66 final size:69
Alignment explanation
Indices: 27952502--27952699 Score: 182
Period size: 68 Copynumber: 2.9 Consensus size: 69
27952492 GGGATGTATC
* *
27952502 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCA-CAAGTGTGATA-C--G-G
1 CCATGTAGACAAGAGAGCTAC-T-AGAGATAAATGTAGCTAGGT-AGCATGAGTGATACCAAGTG
*
27952562 AATGTATC-
63 AA-G-AACA
* *
27952570 CCATGTAGACAAGAGAGCTACGTGAGAGATGAATGTAGCTAGGTAGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC-T-AGAGATAAATGTAGCTAGGTAGCATGAGTGATACCAAGTGA
27952635 AGAACA
64 AGAACA
* * *
27952641 CCATGTAGACAAGAGAGCTA-T-GAGATAAATCG-A-CTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACTAGAGATAAAT-GTAGCTAGGTAGCATGAGTGATACCAAGTG
27952700 TTCACCATGT
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
66 22 0.19
67 10 0.09
68 52 0.46
69 2 0.02
70 2 0.02
71 22 0.19
72 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACTAGAGATAAATGTAGCTAGGTAGCATGAGTGATACCAAGTGAAG
AACA
Found at i:27957167 original size:21 final size:20
Alignment explanation
Indices: 27957143--27957218 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 20
27957133 ATAAAGTAGG
27957143 TTATATATTATTTTTTAAATA
1 TTATATATTATTTTTTAAA-A
27957164 TTATATATTATGATTTTTATTAAA
1 TTATATATTAT--TTTTTA--AAA
* *
27957188 TTATTTATTATTTTTATTAAA
1 TTATATATTATTTTT-TAAAA
27957209 TTATAT-TTAT
1 TTATATATTAT
27957219 AATAATTCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
20 4 0.09
21 19 0.40
22 4 0.09
23 7 0.15
24 11 0.23
25 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (20 bp):
TTATATATTATTTTTTAAAA
Found at i:27969857 original size:28 final size:28
Alignment explanation
Indices: 27969794--27969975 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
27969784 ATATTAAGTC
*
27969794 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27969821 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27969849 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
27969877 CGCACACTTAGTACTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
27969905 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
27969933 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
27969962 CGCACACTTAGTGC
1 CGCACACTTAGTGC
27969976 CAATCTCATG
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 21 0.15
28 102 0.72
29 19 0.13
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:27971720 original size:18 final size:18
Alignment explanation
Indices: 27971699--27971766 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
27971689 TGTTACACGG
*
27971699 ATGAATTACTGTATATGG
1 ATGAATTACTGTATATGA
* * *
27971717 ATGAAGTACTATTTAAATGA
1 ATGAATTAC--TGTATATGA
*
27971737 ATGAGTTACTGT-TATCGA
1 ATGAATTACTGTATAT-GA
27971755 ATGAATTACTGT
1 ATGAATTACTGT
27971767 TTATATGATT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
17 2 0.05
18 23 0.61
20 13 0.34
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.38
Consensus pattern (18 bp):
ATGAATTACTGTATATGA
Found at i:27971747 original size:38 final size:38
Alignment explanation
Indices: 27971699--27971779 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
27971689 TGTTACACGG
* *
27971699 ATGAATTACTGTATAT-GGATGAAGTACTATTTAAATGA
1 ATGAGTTACTGT-TATCGAATGAAGTACTATTTAAATGA
* * *
27971737 ATGAGTTACTGTTATCGAATGAATTACTGTTTATATGA
1 ATGAGTTACTGTTATCGAATGAAGTACTATTTAAATGA
*
27971775 TTGAG
1 ATGAG
27971780 AGTGAAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
37 3 0.08
38 33 0.92
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.40
Consensus pattern (38 bp):
ATGAGTTACTGTTATCGAATGAAGTACTATTTAAATGA
Found at i:27989405 original size:9 final size:9
Alignment explanation
Indices: 27989391--27989416 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27989381 TTTGGTTTGA
27989391 TAATGATGT
1 TAATGATGT
27989400 TAATGATGT
1 TAATGATGT
27989409 TAATGATG
1 TAATGATG
27989417 GTGATTTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (9 bp):
TAATGATGT
Found at i:27991074 original size:48 final size:48
Alignment explanation
Indices: 27991012--27991272 Score: 477
Period size: 48 Copynumber: 5.4 Consensus size: 48
27991002 TATATATGTG
27991012 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
27991060 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
27991108 TGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
27991156 CGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
27991204 TGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
27991252 TGTGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
27991273 GTGATTCGGC
Statistics
Matches: 206, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 206 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:27991500 original size:37 final size:37
Alignment explanation
Indices: 27991449--27991584 Score: 218
Period size: 37 Copynumber: 3.7 Consensus size: 37
27991439 ATATATTCCA
*
27991449 GGTAAAACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
* *
27991486 GGTAAGACCAGATGACTACGTGTGGAGATTATGTCCT
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
* *
27991523 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCTG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
*
27991560 GGTAAGACCCGATAACTACGTGTGG
1 GGTAAGACCCGATGACTACGTGTGG
27991585 GGACTATTCG
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 91 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
Found at i:27996425 original size:46 final size:47
Alignment explanation
Indices: 27996353--27996525 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 47
27996343 GCCATGTAGT
*
27996353 CGATGCATGTTCCAGACATGTCTTACACTGGCT-TAAGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTAAGTCTCGAGGC
* * *
27996399 CGATACATGTCCCAGACATGTCTTACACTGGCTCT-AGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTAAGTCTCGAGGC
* * * * * * *
27996445 TGATGCCACGTCTCAGATATGATCTTACACTGGCTCTCA-TAAT-GTGGC
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTCTAAGT-CTCGAGGC
**
27996493 TAATGCATGTCCCAGACATGTCTTACACTGGCT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCT
27996526 TACAAACAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
46 56 0.53
47 25 0.24
48 22 0.21
49 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTAAGTCTCGAGGC
Found at i:27997401 original size:28 final size:28
Alignment explanation
Indices: 27997361--27997417 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
27997351 AAGAGATGAG
27997361 TAAGGGATGATATCATCCTTCTTTTTTT
1 TAAGGGATGATATCATCCTTCTTTTTTT
27997389 TAAGGGATGATATCATCCTTCTTTTTTT
1 TAAGGGATGATATCATCCTTCTTTTTTT
27997417 T
1 T
27997418 TTAATTCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (28 bp):
TAAGGGATGATATCATCCTTCTTTTTTT
Found at i:27997918 original size:44 final size:44
Alignment explanation
Indices: 27997861--27997945 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
27997851 TATATTTGAG
* * *
27997861 GCATCTGAGCTCGTTGAGTTGGTCCAAGTTCATTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGGTCCAAGTTCATAATGGATGCGA
27997905 GCATCCGAACTCGTTGAGTTGGTCCAAGTTCATAATGGATG
1 GCATCCGAACTCGTTGAGTTGGTCCAAGTTCATAATGGATG
27997946 TGATACCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (44 bp):
GCATCCGAACTCGTTGAGTTGGTCCAAGTTCATAATGGATGCGA
Found at i:28008877 original size:37 final size:37
Alignment explanation
Indices: 28008827--28008905 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
28008817 TTATTACGAA
* *
28008827 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
28008864 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
28008901 GTCTT
1 GTCTT
28008906 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:28009102 original size:47 final size:47
Alignment explanation
Indices: 28009024--28009637 Score: 1023
Period size: 47 Copynumber: 13.1 Consensus size: 47
28009014 CCCTTCGGGA
* * * * * * *
28009024 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
28009071 CCCGTCACAAATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28009118 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28009165 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28009212 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28009259 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28009305 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28009352 CTTATCACATATATACACTGTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28009399 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28009446 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28009493 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28009540 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28009587 CTTATCACATATATACACTTTCACATGCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28009634 CTTA
1 CTTA
28009638 CTATCATTTC
Statistics
Matches: 534, Mismatches: 32, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 0.08
47 490 0.92
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28013080 original size:40 final size:40
Alignment explanation
Indices: 28013035--28013345 Score: 212
Period size: 40 Copynumber: 7.8 Consensus size: 40
28013025 CGAATACACG
* * *
28013035 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* ** *
28013075 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
** * *
28013115 TCATTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
28013155 TCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGTTATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
28013195 GTAACTC-GCACAAATGC-CTTCGGGACTTAACCCGGATTTA
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
28013235 GTAACTC-GCACCAATGC-CTTCGGG-CTTAGCCCGGA-ATTA
1 -TCAC-CAGCACGAATGCTCTTCGGGACTTAGCCCGGATA-TA
* * * *
28013274 GTAACTC-GCACAAATGC-CTTC-GGATCTTAGTCCGGATATGG
1 -TCAC-CAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATAT-A
* *
28013315 TCACTTAGCAC-AAAGC-CTTCGGGACTTAGCC
1 TCAC-CAGCACGAATGCTCTTCGGGACTTAGCC
28013346 TGGACATCAT
Statistics
Matches: 223, Mismatches: 39, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.14
40 170 0.76
41 19 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Done.