Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 62 of 310
Found at i:19524275 original size:21 final size:22
Alignment explanation
Indices: 19524249--19524289 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
19524239 TGTATTTTTG
19524249 TGTTTAATGG-TAGA-AAATGCA
1 TGTTT-ATGGTTAGAGAAATGCA
19524270 TGTTTATGGTTAGAGAAATG
1 TGTTTATGGTTAGAGAAATG
19524290 AATTTTACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (22 bp):
TGTTTATGGTTAGAGAAATGCA
Found at i:19524296 original size:21 final size:20
Alignment explanation
Indices: 19524249--19524296 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
19524239 TGTATTTTTG
*
19524249 TGTTTAATGGTAGAAAATGCA
1 TGTTT-ATGGTAGAAAATGAA
19524270 TGTTTATGGTTAGAGAAATGAA
1 TGTTTATGG-TAGA-AAATGAA
19524292 T-TTTA
1 TGTTTA
19524297 CTAAGTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 13 0.54
22 7 0.29
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (20 bp):
TGTTTATGGTAGAAAATGAA
Found at i:19525243 original size:32 final size:32
Alignment explanation
Indices: 19525202--19525266 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
19525192 TTCGTACAAG
19525202 TATGTATGTAAAGTTTATAAGCTTTGGCTTCA
1 TATGTATGTAAAGTTTATAAGCTTTGGCTTCA
19525234 TATGTATGTAAAGTTTATAAGCTTTGGCTTCA
1 TATGTATGTAAAGTTTATAAGCTTTGGCTTCA
19525266 T
1 T
19525267 GATATTATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (32 bp):
TATGTATGTAAAGTTTATAAGCTTTGGCTTCA
Found at i:19532328 original size:37 final size:37
Alignment explanation
Indices: 19532287--19532359 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
19532277 GTCATAAAAC
19532287 GCCAATATATCAACAAGAAATGCTACGAGTTATGTCA
1 GCCAATATATCAACAAGAAATGCTACGAGTTATGTCA
19532324 GCCAATATATCAACAAGAAATGCTACGAGTTATGTC
1 GCCAATATATCAACAAGAAATGCTACGAGTTATGTC
19532360 TAATGTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (37 bp):
GCCAATATATCAACAAGAAATGCTACGAGTTATGTCA
Found at i:19536283 original size:47 final size:48
Alignment explanation
Indices: 19536221--19536344 Score: 141
Period size: 47 Copynumber: 2.6 Consensus size: 48
19536211 CTCGTAGTCG
* *
19536221 ATGCATGTCCCAGACATGTCTTACACTAGCACTCTTC-TCA-AT-GCCA
1 ATGCATATCCCAGACATGTCTTACACTAGCACTC-TCATAATATGGCCA
* *
19536267 ATGCCATATCCCAGACATGGTCTTACACT-G-GCTCTCATAATATGGCCG
1 ATG-CATATCCCAGACAT-GTCTTACACTAGCACTCTCATAATATGGCCA
*
19536315 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATATCCCAGACATGTCTTACACTAGC
19536345 TCACACAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
45 2 0.03
46 18 0.27
47 30 0.45
48 16 0.24
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (48 bp):
ATGCATATCCCAGACATGTCTTACACTAGCACTCTCATAATATGGCCA
Found at i:19537908 original size:48 final size:48
Alignment explanation
Indices: 19537832--19537927 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
19537822 GCGTAGCATG
* *
19537832 GATATATGAAACACGTCGTGAATCTTTTCCAGCTCTGGTGGCAAAGCT
1 GATACATGAAACACGTCGTGAATCTTTTCCACCTCTGGTGGCAAAGCT
*
19537880 GATACATGAAACATGTCGTGAATCTTTTCCACCTCTGGTGGCAAAGCT
1 GATACATGAAACACGTCGTGAATCTTTTCCACCTCTGGTGGCAAAGCT
19537928 AATCGATAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
GATACATGAAACACGTCGTGAATCTTTTCCACCTCTGGTGGCAAAGCT
Found at i:19548304 original size:30 final size:31
Alignment explanation
Indices: 19548264--19548321 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
19548254 ATCCAAAGTC
19548264 AAAATATTTATTTTATTATTTTATGAAGTTA
1 AAAATATTTATTTTATTATTTTATGAAGTTA
19548295 AAAAT-TTTATTTTATTATTTTATGAAG
1 AAAATATTTATTTTATTATTTTATGAAG
19548322 GTTTAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (31 bp):
AAAATATTTATTTTATTATTTTATGAAGTTA
Found at i:19551129 original size:41 final size:41
Alignment explanation
Indices: 19551084--19551219 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
19551074 ACCGGCACAG
* * *
19551084 AGCCTGCTAGACAATAGGCTTGAAATAATAAACCGACATAA
1 AGCCTGCTAGGCAATAAGCCTGAAATAATAAACCGACATAA
* ***
19551125 AGCCTACTAGGCAATAAGCCTGAAATAATATGTC-AGCATAA
1 AGCCTGCTAGGCAATAAGCCTGAAATAATAAACCGA-CATAA
* * ** *
19551166 AGCTTGCTAGGCAATAAGCCTGATATAATTCACCGGCATAA
1 AGCCTGCTAGGCAATAAGCCTGAAATAATAAACCGACATAA
19551207 AGCCTGCTAGGCA
1 AGCCTGCTAGGCA
19551220 TAGAGCTTGA
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
40 1 0.01
41 76 0.99
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (41 bp):
AGCCTGCTAGGCAATAAGCCTGAAATAATAAACCGACATAA
Found at i:19573871 original size:39 final size:39
Alignment explanation
Indices: 19573776--19574115 Score: 485
Period size: 39 Copynumber: 8.6 Consensus size: 39
19573766 TTGAATGATG
*
19573776 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
19573814 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
19573855 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
19573894 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
19573933 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
19573972 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19574011 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
*
19574050 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
19574089 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
19574116 AACGAGGAGC
Statistics
Matches: 280, Mismatches: 14, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
39 210 0.75
40 58 0.21
41 11 0.04
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19578111 original size:41 final size:41
Alignment explanation
Indices: 19578087--19578229 Score: 171
Period size: 41 Copynumber: 3.5 Consensus size: 41
19578077 GTACAGAGCC
* *
19578087 TGCTAGGCAATAGGCCTGAAATAATACACTGGCATAAAGCT
1 TGCTAGGCAATAAGCCTGAAATAATACACCGGCATAAAGCT
*
19578128 TGCTAGGCAGTAAGCCTGAAATAATACACCGGCATAAAGCT
1 TGCTAGGCAATAAGCCTGAAATAATACACCGGCATAAAGCT
* * * *** * *
19578169 TGCTAGGCAATAAGCTTGATATAATTCACTATCACAAAGCC
1 TGCTAGGCAATAAGCCTGAAATAATACACCGGCATAAAGCT
19578210 TGCTAGGC-ATAAAGCCTGAA
1 TGCTAGGCAAT-AAGCCTGAA
19578230 TATCACTGAT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 2 0.02
41 85 0.98
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGAAATAATACACCGGCATAAAGCT
Found at i:19583515 original size:49 final size:48
Alignment explanation
Indices: 19583442--19583619 Score: 173
Period size: 50 Copynumber: 3.6 Consensus size: 48
19583432 TAGGGTATAA
* * *
19583442 TGCCAATGCCATGTCCTAGACATGGTCTTACACTGACTATCAAAATCG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACACTGACTATCAATATCG
* * *
19583490 AGGCCAACGCCATGTCCCAGACATGGTCTTACACT-AGCTCTTACATATCCG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACACTGA-CTATCA-ATAT-CG
* * * *
19583541 TGCCGACGCCATGTCCCAGACCTAGTCTTACACTGAC-ACCTCTATA-CG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACACTGACTA--TCAATATCG
* *
19583589 TGCCGATGCCATGTCCCAGACATGGTCTTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC
19583620 TGTTGGAATG
Statistics
Matches: 107, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
48 31 0.29
49 35 0.33
50 37 0.35
51 4 0.04
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (48 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACACTGACTATCAATATCG
Found at i:19583569 original size:50 final size:48
Alignment explanation
Indices: 19583449--19583619 Score: 168
Period size: 48 Copynumber: 3.5 Consensus size: 48
19583439 TAATGCCAAT
* * * * *
19583449 GCCATGTCCTAGACATGGTCTTACACTGACTA--TCAAAATCGAGGCCAAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC-ACCTCTATA-CG-TGCCGAC
* * *
19583498 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTTACATATCCGTGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGA-CACCT-C-TATACGTGCCGAC
* * *
19583548 GCCATGTCCCAGACCTAGTCTTACACTGACACCTCTATACGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCGAC
19583596 GCCATGTCCCAGACATGGTCTTAC
1 GCCATGTCCCAGACATGGTCTTAC
19583620 TGTTGGAATG
Statistics
Matches: 101, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
48 34 0.34
49 28 0.28
50 34 0.34
51 4 0.04
52 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGCCGAC
Found at i:19596853 original size:46 final size:46
Alignment explanation
Indices: 19596802--19596896 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
19596792 TGTCCTAGCT
* *
19596802 TATTTATGTTATAATTGTTGCTTATTGTGTTGATTCTGCTAAAATC
1 TATTTATGTTATAATTGTTGCTTATGGTGTTAATTCTGCTAAAATC
*
19596848 TATTTATGTTATAATTGTTGCTTATGGTGTTAATTTTGCTAAAATC
1 TATTTATGTTATAATTGTTGCTTATGGTGTTAATTCTGCTAAAATC
19596894 TAT
1 TAT
19596897 CTCATTCATA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (46 bp):
TATTTATGTTATAATTGTTGCTTATGGTGTTAATTCTGCTAAAATC
Found at i:19602348 original size:32 final size:32
Alignment explanation
Indices: 19602303--19602368 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
19602293 CTATGAGAAT
* *
19602303 GCCAAACTGTGTAAAGAAAGATAAAAAAGATG
1 GCCAAACTATGTAAAGAAAAATAAAAAAGATG
19602335 GCCAAACTATGTAAAGAAAAATAAAAAAGATG
1 GCCAAACTATGTAAAGAAAAATAAAAAAGATG
19602367 GC
1 GC
19602369 ATGATAGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.55, C:0.11, G:0.20, T:0.15
Consensus pattern (32 bp):
GCCAAACTATGTAAAGAAAAATAAAAAAGATG
Found at i:19602502 original size:21 final size:21
Alignment explanation
Indices: 19602476--19602517 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19602466 ATGGGAAGGA
19602476 CCTTATACCATCTATCGAGTT
1 CCTTATACCATCTATCGAGTT
19602497 CCTTATACCATCTATCGAGTT
1 CCTTATACCATCTATCGAGTT
19602518 TATCCTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (21 bp):
CCTTATACCATCTATCGAGTT
Found at i:19606311 original size:40 final size:40
Alignment explanation
Indices: 19606164--19606299 Score: 218
Period size: 40 Copynumber: 3.4 Consensus size: 40
19606154 ATTTGATGTG
* *
19606164 TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAAT
*
19606204 TGTATCCGGGTTTAAAAACCCACAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAAT
* **
19606244 TGTATCCGGGTTTAAAGACCTACAGGCTATATGCCAGAAT
1 TGTATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAAT
19606284 TGTATCCGGGTTTAAA
1 TGTATCCGGGTTTAAA
19606300 TACTCGCAGG
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAAT
Found at i:19606319 original size:80 final size:79
Alignment explanation
Indices: 19606164--19606343 Score: 218
Period size: 80 Copynumber: 2.3 Consensus size: 79
19606154 ATTTGATGTG
* **
19606164 TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTGTATCCGGGTTTAAAAACCCACAG
1 TGTATCCGGG-TTAAAGACCCACAGGCTATATGCCAGAATTGTATCCGGGTTTAAAAACCCACAG
*
19606229 GCTATATGCTGGAAT
65 GCTATATGCTGAAAT
* * * *
19606244 TGTATCCGGGTTTAAAGACCTACAGGCTATATGCCAGAATTGTATCCGGGTTTAAATACTCGCAG
1 TGTATCCGGG-TTAAAGACCCACAGGCTATATGCCAGAATTGTATCCGGGTTTAAAAACCCACAG
*
19606309 GCT-TCGTGCTGAAAT
65 GCTAT-ATGCTGAAAT
* * *
19606324 GGAATCTGGGTTAAAGACCC
1 TGTATCCGGGTTAAAGACCC
19606344 GTTGGCTCGT
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 10 0.12
80 75 0.88
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (79 bp):
TGTATCCGGGTTAAAGACCCACAGGCTATATGCCAGAATTGTATCCGGGTTTAAAAACCCACAGG
CTATATGCTGAAAT
Found at i:19613893 original size:40 final size:40
Alignment explanation
Indices: 19613849--19614035 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
19613839 ATTTGATGTG
* *
19613849 TGTATCCAGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
* *
19613889 TGTATCCGGGTTTAAAAACCCACAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
*
19613929 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTAGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
* * * * *
19613969 TCTATCCGGGTTTAAATACTCGCAGGCT-TCGTGCTGAAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
* * * *
19614009 AGAATCTGGG-TTAAAGACCCGTAGGCT
1 TGTATCCGGGTTTAAAGACCCGCAGGCT
19614036 CGTGTTAGAA
Statistics
Matches: 126, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 15 0.12
40 111 0.88
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
Found at i:19616418 original size:19 final size:19
Alignment explanation
Indices: 19616377--19616418 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
19616367 CTCATTTTTT
**
19616377 TCATTCATCCCTCATCCCC
1 TCATTCATCCCTCATCCAA
19616396 TCATTCATCCCTCA-CTCAA
1 TCATTCATCCCTCATC-CAA
19616415 TCAT
1 TCAT
19616419 CATTCTCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.33
Consensus pattern (19 bp):
TCATTCATCCCTCATCCAA
Found at i:19618852 original size:39 final size:39
Alignment explanation
Indices: 19618741--19618870 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
19618731 GGACTAAGAT
* * *
19618741 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
**
19618781 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
19618821 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
19618860 CCGAAGGCATT
1 CCGAAGGCATT
19618871 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.47
40 42 0.53
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:19618890 original size:79 final size:79
Alignment explanation
Indices: 19618741--19618905 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
19618731 GGACTAAGAT
* * * ** ** *
19618741 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
19618806 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * * *
19618821 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
19618885 TATCCGGTTAAATC
66 AATCCGGTTAAATC
19618899 CCGAAGG
1 CCGAAGG
19618906 TACGTGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:19626643 original size:40 final size:40
Alignment explanation
Indices: 19626560--19626822 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
19626550 TTGAATGCTG
* * * * * *
19626560 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
19626600 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
19626640 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
19626680 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
19626720 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
19626760 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
19626799 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19626823 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:19626842 original size:79 final size:80
Alignment explanation
Indices: 19626599--19626857 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
19626589 AAGTGAATAT
* * * * * *
19626599 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
19626663 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
19626679 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
19626744 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
19626759 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
19626823 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
19626838 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
19626858 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:19628954 original size:50 final size:47
Alignment explanation
Indices: 19628833--19629056 Score: 208
Period size: 48 Copynumber: 4.7 Consensus size: 47
19628823 ATAGGGTATA
* *
19628833 ATACCGATGTCATATCCCAGACATGGTCTTACACTGGCTCATCTATC
1 ATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATC
*
19628880 A-ACTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATATCC
1 ATAC-CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT--C-TAT-C
* * *
19628930 ATACCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATAC
1 ATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTAT-C
* *** * * *
19628978 GTGTTGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTAGT-
1 ATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTA-TC
* *
19629025 A-GCCGATG-CATGTCTCAGACAT-GTCTTACACT
1 ATACCGATGCCATGTCCCAGACATGGTCTTACACT
19629057 AACTTACATC
Statistics
Matches: 151, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
44 9 0.06
45 13 0.09
46 8 0.05
47 34 0.23
48 44 0.29
49 5 0.03
50 35 0.23
51 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
ATACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTATC
Found at i:19629076 original size:46 final size:44
Alignment explanation
Indices: 19628836--19629108 Score: 160
Period size: 46 Copynumber: 5.8 Consensus size: 44
19628826 GGGTATAATA
* ** * *
19628836 CCGATGTCATATCCCAGACATGGTCTTACACTGGCTCATCTA-TCAA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTAGT-AG
* *
19628882 CTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCA-TA-
1 C-CGATG-CATGTCCCAGACAT-GTCTTACACTA------ACACATCTAGTAG
* *
19628933 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTA-TACGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTAGTA---G
** * *
19628981 TTGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTAGTAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTAGTAG
* *
19629027 CCGATGCATGTCTCAGACATGTCTTACACTAACTTACATCTCG-AGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAAC--ACATCTAGTA-G
* *
19629073 CCGATGCATGTCCCAAACATGTCTTACACTAGCACA
1 CCGATGCATGTCCCAGACATGTCTTACACTAACACA
19629109 CAAATAACCC
Statistics
Matches: 188, Mismatches: 24, Indels: 32
0.77 0.10 0.13
Matches are distributed among these distances:
44 22 0.12
45 14 0.07
46 44 0.23
47 29 0.15
48 38 0.20
49 2 0.01
50 31 0.16
51 1 0.01
52 1 0.01
53 6 0.03
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (44 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAACACATCTAGTAG
Found at i:19632338 original size:40 final size:40
Alignment explanation
Indices: 19632290--19632518 Score: 413
Period size: 40 Copynumber: 5.7 Consensus size: 40
19632280 GCAAACACAT
* * * *
19632290 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
*
19632330 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19632370 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19632410 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19632450 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
19632490 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGATATATT
19632519 CCAATGCTCA
Statistics
Matches: 185, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 185 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
Found at i:19635630 original size:35 final size:34
Alignment explanation
Indices: 19635581--19635664 Score: 118
Period size: 35 Copynumber: 2.5 Consensus size: 34
19635571 TGAGGCTATT
* *
19635581 ATGGGCTA-AGGCCCAAGTGCCACCGTTATTGTA
1 ATGGGCTATAGGCCCAAGTGCAACCATTATTGTA
*
19635614 ATGGGCTTATAGGCCCAAGTGCAACTATTATTGTA
1 ATGGGC-TATAGGCCCAAGTGCAACCATTATTGTA
19635649 ATGGGCT-TAGGCCCAA
1 ATGGGCTATAGGCCCAA
19635665 ATTGATGTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
33 15 0.33
34 3 0.07
35 28 0.61
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (34 bp):
ATGGGCTATAGGCCCAAGTGCAACCATTATTGTA
Found at i:19639410 original size:175 final size:175
Alignment explanation
Indices: 19639116--19639473 Score: 655
Period size: 175 Copynumber: 2.0 Consensus size: 175
19639106 TCATAATTGG
* *
19639116 GCAAAATGACCATTTTGCCCTTAGACTTTCACAAAATGATCATTTTACCCCTAGACCCGAAAATT
1 GCAAAATGACCATTTTGCCCTTAAACTTTCACAAAATGATCATTTTACCCCTAGACCCAAAAATT
* *
19639181 GATTTTTATCACATTTTCTCATTAATCAAGCCTAGCTGAACACTTTTCATACTAGGATCAGCCCA
66 GATTTTCATCACATTTTCTCATTAATCAAGCCTAGCTGAACACTTTTCATACTAGGAGCAGCCCA
19639246 AAATTCTCATTATTTCACACATTTATCAACTATTTTACAACTTAT
131 AAATTCTCATTATTTCACACATTTATCAACTATTTTACAACTTAT
19639291 GCAAAATGACCATTTTGCCCTTAAACTTTCACAAAATGATCATTTTACCCCTAGACCCAAAAATT
1 GCAAAATGACCATTTTGCCCTTAAACTTTCACAAAATGATCATTTTACCCCTAGACCCAAAAATT
*
19639356 GATTTTCATCACATTTTCTCATTAATCAAGCCTAGCTGAATACATTTT-ATACTAGGAGCAGCCC
66 GATTTTCATCACATTTTCTCATTAATCAAGCCTAGCTGAACAC-TTTTCATACTAGGAGCAGCCC
19639420 AAAATTCTCATTATTTCACACATTTATCAACTATTTTACAACTTAT
130 AAAATTCTCATTATTTCACACATTTATCAACTATTTTACAACTTAT
19639466 GCAAAATG
1 GCAAAATG
19639474 GTCCTTAGTT
Statistics
Matches: 177, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
175 173 0.98
176 4 0.02
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.35
Consensus pattern (175 bp):
GCAAAATGACCATTTTGCCCTTAAACTTTCACAAAATGATCATTTTACCCCTAGACCCAAAAATT
GATTTTCATCACATTTTCTCATTAATCAAGCCTAGCTGAACACTTTTCATACTAGGAGCAGCCCA
AAATTCTCATTATTTCACACATTTATCAACTATTTTACAACTTAT
Found at i:19645877 original size:23 final size:23
Alignment explanation
Indices: 19645849--19645930 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
19645839 CACGTTTACC
*
19645849 ACTATTAGCAGCTTTGCTGTATT
1 ACTATTAGCAGCTTTGCTGTGTT
* * *
19645872 ACTATTAGCAACTTTTCTATGTT
1 ACTATTAGCAGCTTTGCTGTGTT
*
19645895 ACTATTAGCAGCTTTGCTGCGTT
1 ACTATTAGCAGCTTTGCTGTGTT
*
19645918 ATTATTAGCAGCT
1 ACTATTAGCAGCT
19645931 ACGCTGCGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (23 bp):
ACTATTAGCAGCTTTGCTGTGTT
Found at i:19645936 original size:23 final size:23
Alignment explanation
Indices: 19645892--19645943 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
19645882 ACTTTTCTAT
* **
19645892 GTTACTATTAGCAGCTTTGCTGC
1 GTTATTATTAGCAGCTACGCTGC
19645915 GTTATTATTAGCAGCTACGCTGC
1 GTTATTATTAGCAGCTACGCTGC
*
19645938 GATATT
1 GTTATT
19645944 GTTGAGTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (23 bp):
GTTATTATTAGCAGCTACGCTGC
Found at i:19664413 original size:79 final size:78
Alignment explanation
Indices: 19664311--19664533 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
19664301 GCTCCTCGTT
* *
19664311 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
19664376 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
19664391 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
19664454 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
19664469 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
19664532 GA
63 GA
19664534 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:19664428 original size:39 final size:40
Alignment explanation
Indices: 19664311--19664533 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
19664301 GCTCCTCGTT
* *
19664311 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
19664351 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19664391 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19664430 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
19664469 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
19664510 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19664534 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:19671529 original size:27 final size:27
Alignment explanation
Indices: 19671499--19671676 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19671489 ATATTGAGTC
* * * *
19671499 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19671526 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19671553 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19671581 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19671608 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19671635 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19671662 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19671677 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19671638 original size:82 final size:81
Alignment explanation
Indices: 19671520--19671675 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19671510 TGCTATATAA
* *
19671520 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19671585 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19671602 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19671666 CACTTAGTGC
65 CACTTAGTGC
19671676 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19672177 original size:12 final size:12
Alignment explanation
Indices: 19672160--19672185 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19672150 ATGGCATACT
19672160 TATGTATATATA
1 TATGTATATATA
19672172 TATGTATATATA
1 TATGTATATATA
19672184 TA
1 TA
19672186 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:19690824 original size:47 final size:48
Alignment explanation
Indices: 19690768--19690879 Score: 135
Period size: 47 Copynumber: 2.4 Consensus size: 48
19690758 GTGTCTGATA
* *
19690768 TATG-CATGACCATACCTG-AGT-ATGAAACCTTGCATACAAAAAATAT
1 TATGACATGA-CATACCTGCAGTGAGGAAACCTTACATACAAAAAATAT
* * *
19690814 TATGACATGACATA-CTGCATTGGGGAAACCTTACATACATAAAATAT
1 TATGACATGACATACCTGCAGTGAGGAAACCTTACATACAAAAAATAT
19690861 TATGACATGACATA-CTGCA
1 TATGACATGACATACCTGCA
19690880 TTGGGTTTGG
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
45 3 0.05
46 10 0.17
47 45 0.78
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (48 bp):
TATGACATGACATACCTGCAGTGAGGAAACCTTACATACAAAAAATAT
Found at i:19690880 original size:47 final size:47
Alignment explanation
Indices: 19690791--19690884 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
19690781 ACCTGAGTAT
*
19690791 GAAACCTTGCATACAAAAAATATTATGACATGACATACTGCATTGGG
1 GAAACCTTACATACAAAAAATATTATGACATGACATACTGCATTGGG
*
19690838 GAAACCTTACATACATAAAATATTATGACATGACATACTGCATTGGG
1 GAAACCTTACATACAAAAAATATTATGACATGACATACTGCATTGGG
19690885 TTTGGGATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (47 bp):
GAAACCTTACATACAAAAAATATTATGACATGACATACTGCATTGGG
Found at i:19690994 original size:23 final size:23
Alignment explanation
Indices: 19690967--19691026 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
19690957 ACGTTTACCT
19690967 CTATTAGTAGCTTTGCTGCATTA
1 CTATTAGTAGCTTTGCTGCATTA
* **
19690990 CTATT-TTCAGCTTTGCTGTGTTA
1 CTATTAGT-AGCTTTGCTGCATTA
19691013 CTATTAGTAGCTTT
1 CTATTAGTAGCTTT
19691027 ATTGGTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 1 0.03
23 29 0.94
24 1 0.03
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (23 bp):
CTATTAGTAGCTTTGCTGCATTA
Found at i:19693850 original size:37 final size:37
Alignment explanation
Indices: 19693773--19693904 Score: 140
Period size: 37 Copynumber: 3.6 Consensus size: 37
19693763 AGTACACAAG
* ** *
19693773 TAATCCAACC-AAAACACGCCAAATTCTCATAAAAGT
1 TAATCCAACCGATAACACGCCAAACACTCATAAGAGT
*** * *
19693809 TAATCCAAAAAATAACACGCCAAACACTCACAAGAGC
1 TAATCCAACCGATAACACGCCAAACACTCATAAGAGT
* * *
19693846 TAATCTAACCGATAACATGCCAAACGCTCATAAGAGT
1 TAATCCAACCGATAACACGCCAAACACTCATAAGAGT
*
19693883 TAAACCAACCGATAACACGCCA
1 TAATCCAACCGATAACACGCCA
19693905 CGGCACCAAG
Statistics
Matches: 76, Mismatches: 19, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
36 8 0.11
37 68 0.89
ACGTcount: A:0.46, C:0.29, G:0.09, T:0.16
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAACACTCATAAGAGT
Found at i:19695962 original size:40 final size:40
Alignment explanation
Indices: 19695895--19696019 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
19695885 GGACTAAGAT
** * *
19695895 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
* *
19695935 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGAC
1 CCGAAGGCATTTATGCGAGTTG-TTATATCCGGGCTAAGTC
* *
19695975 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
19696014 CCGAAG
1 CCGAAG
19696020 ATACTTGGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.21
40 56 0.77
41 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTATGCGAGTTGTTATATCCGGGCTAAGTC
Found at i:19696287 original size:22 final size:22
Alignment explanation
Indices: 19696247--19696288 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19696237 GAATGTGCAT
*
19696247 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
19696269 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
19696289 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:19703934 original size:80 final size:80
Alignment explanation
Indices: 19703772--19703919 Score: 242
Period size: 80 Copynumber: 1.9 Consensus size: 80
19703762 TATTCGGATG
* * * *
19703772 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCTGGGCTATGTCCCGAAGGCA
1 ATAACCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
19703837 TTTATGCTAGTGATT
66 TTTATGCTAGTGATT
* *
19703852 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
19703917 TTT
66 TTT
19703920 GTGTGAGTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATAACCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCTAGTGATT
Found at i:19703935 original size:40 final size:40
Alignment explanation
Indices: 19703776--19703952 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 40
19703766 CGGATGATAA
* * *
19703776 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * * *
19703816 CTGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
19703856 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
19703896 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
19703936 -CTGGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
19703953 ATACTTGGGT
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.14
40 95 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:19704220 original size:22 final size:22
Alignment explanation
Indices: 19704180--19704221 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19704170 GAATGTGCAT
*
19704180 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
19704202 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
19704222 TCAAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:19706524 original size:16 final size:17
Alignment explanation
Indices: 19706493--19706525 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19706483 CATAATCCTA
19706493 CATATATCAAAACATAT
1 CATATATCAAAACATAT
*
19706510 CATATA-CAGAACATAT
1 CATATATCAAAACATAT
19706526 AGCAAAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (17 bp):
CATATATCAAAACATAT
Found at i:19707181 original size:19 final size:19
Alignment explanation
Indices: 19707157--19707193 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19707147 ATCCAAAACA
*
19707157 AATCCATCATCCTTATATC
1 AATCCATCATCCATATATC
19707176 AATCCATCATCCATATAT
1 AATCCATCATCCATATAT
19707194 ACCATGCCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (19 bp):
AATCCATCATCCATATATC
Found at i:19709306 original size:42 final size:43
Alignment explanation
Indices: 19709260--19709359 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 43
19709250 TCCCAGACAA
* * * *
19709260 GGTCTTACACGAAATCA-AA-TAGGATGCCGATGTCTCAAACAT
1 GGTCTTACACGAAATCAGAAGT-CGATGCCAACGTCGCAAACAT
* **
19709302 GGTCTTACATGTAAATCAGAAGTCGATGCCAACGTCGCAAATGT
1 GGTCTTACACG-AAATCAGAAGTCGATGCCAACGTCGCAAACAT
19709346 GGTCTTACACGAAA
1 GGTCTTACACGAAA
19709360 ACACATATCG
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
42 10 0.21
43 9 0.19
44 27 0.57
45 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGAAATCAGAAGTCGATGCCAACGTCGCAAACAT
Found at i:19709318 original size:43 final size:43
Alignment explanation
Indices: 19709198--19709332 Score: 125
Period size: 43 Copynumber: 3.1 Consensus size: 43
19709188 AGTCCGTATA
* *
19709198 ATGCCAATGTCCCAGACATGGTATTACATAT-AATCAAATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* * * *
19709241 ATGCCACTATCCCAGACAAGGTCTTACACG-AAATCAAATA-GG
1 ATGCCA-TGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* * *
19709283 ATGCCGATGTCTCAAACATGGTCTTACATGTAAATCAGAA-GTCG
1 ATGCC-ATGTCCCAGACATGGTCTTACATGTAAATCA-AATATCG
19709327 ATGCCA
1 ATGCCA
19709333 ACGTCGCAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
42 25 0.34
43 40 0.55
44 8 0.11
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCATGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
Found at i:19710257 original size:43 final size:42
Alignment explanation
Indices: 19710175--19710291 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 42
19710165 CAAAAAGCTC
* * ***
19710175 ATACAATGCCAA-CTCCCAGATGA-GGTCTTACATTTAATCAA
1 ATACGATGCCAATGTCCCAGAT-ATGGTCTTACACAAAATCAA
* * *
19710216 ATATTGATGCCACTGTCCCAGATATGGTCTTACACAAAATCAT
1 ATA-CGATGCCAATGTCCCAGATATGGTCTTACACAAAATCAA
* * *
19710259 ATACGATGCCAATGTTCTAGACATGGTCTTACA
1 ATACGATGCCAATGTCCCAGATATGGTCTTACA
19710292 TGTAAATCTC
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
41 3 0.05
42 32 0.53
43 25 0.42
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGATATGGTCTTACACAAAATCAA
Found at i:19715848 original size:46 final size:46
Alignment explanation
Indices: 19715781--19715879 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
19715771 GTAACTCCTG
* *
19715781 AATTCATTAAAGAAACAAGGGTTTAGTTCTCAACTCTGCCAGTACA
1 AATTCATTAAAGAAACAAGGGTTTAGTCCTCAAATCTGCCAGTACA
*
19715827 AATTCATTAAAGAAACAAGGGTTTAGTCCTCAAATCTGCTAGTACA
1 AATTCATTAAAGAAACAAGGGTTTAGTCCTCAAATCTGCCAGTACA
*
19715873 AAATCAT
1 AATTCAT
19715880 CGTCATTCAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (46 bp):
AATTCATTAAAGAAACAAGGGTTTAGTCCTCAAATCTGCCAGTACA
Found at i:19725931 original size:43 final size:43
Alignment explanation
Indices: 19725884--19725970 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
19725874 CTTTTCCACT
*
19725884 GTTTGACTGTTAAGGTCGCATGGGTCCCCTACAACGATTGTGG
1 GTTTGACTGTTAAGGTCGCATGGGTCCCCTACAACGACTGTGG
* *
19725927 GTTTGACTGTTCAGGTCGCATGGGTCCCTTACAACGACTGTGG
1 GTTTGACTGTTAAGGTCGCATGGGTCCCCTACAACGACTGTGG
19725970 G
1 G
19725971 CCTATTGATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.17, C:0.22, G:0.31, T:0.30
Consensus pattern (43 bp):
GTTTGACTGTTAAGGTCGCATGGGTCCCCTACAACGACTGTGG
Found at i:19731930 original size:4 final size:4
Alignment explanation
Indices: 19731921--19731946 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
19731911 TTAAATCCAA
19731921 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
19731947 TTACTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:19732337 original size:19 final size:19
Alignment explanation
Indices: 19732280--19732337 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
19732270 TTTAAACTCA
*
19732280 TATTATATACACATTTCA-T
1 TATTATATAC-TATTTCATT
* *
19732299 TATTATTTATTTATTT-ATT
1 TATTATATA-CTATTTCATT
19732318 TATTATATACTATTTCATT
1 TATTATATACTATTTCATT
19732337 T
1 T
19732338 TAAATTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATATACTATTTCATT
Found at i:19733823 original size:32 final size:33
Alignment explanation
Indices: 19733764--19733825 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
19733754 ATTATTGTGT
*
19733764 TGTATTGTTACTGTAATGGGCTAAGGCCCACAC
1 TGTAATGTTACTGTAATGGGCTAAGGCCCACAC
*
19733797 TGTAATGTT-CTG-AATAGGGCTCAGGCCCA
1 TGTAATGTTACTGTAAT-GGGCTAAGGCCCA
19733826 GACTATTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 3 0.12
32 15 0.58
33 8 0.31
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (33 bp):
TGTAATGTTACTGTAATGGGCTAAGGCCCACAC
Found at i:19740900 original size:19 final size:17
Alignment explanation
Indices: 19740876--19740916 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
19740866 TAGGCCACGA
19740876 TGGGCCGAAATGGGCTATG
1 TGGGCC-AAATGGGCT-TG
*
19740895 TGGGCCCAATGGGCTTG
1 TGGGCCAAATGGGCTTG
19740912 TGGGC
1 TGGGC
19740917 TCCACACGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.15, C:0.20, G:0.44, T:0.22
Consensus pattern (17 bp):
TGGGCCAAATGGGCTTG
Found at i:19741380 original size:26 final size:26
Alignment explanation
Indices: 19741343--19741423 Score: 119
Period size: 26 Copynumber: 3.1 Consensus size: 26
19741333 TTTGCCACAT
*
19741343 ATACTGATACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
19741369 TTACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
19741395 ATA-TGATTACTGGCAGCTTTGTTGCG
1 ATACTG-TTACTGGCAGCTTTGCTGCG
19741421 ATA
1 ATA
19741424 TTGGTGTGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 2 0.04
26 48 0.96
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:19745824 original size:45 final size:45
Alignment explanation
Indices: 19745769--19746112 Score: 411
Period size: 45 Copynumber: 7.6 Consensus size: 45
19745759 TTTATGATAT
* * * * *
19745769 CATATCGTCTTTTAG-CTATGGTCTTACTCAATAGGATCCTGATGC
1 CATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCGTGATGC
*
19745814 CATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
1 CATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
19745859 CATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
1 CATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
* * * *
19745904 CATAACGTCTTTTAGTCATGGTATTACTCGATAGAGTAGTGATGC
1 CATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
* *
19745949 CATAACTTCTTTCAGTCATGGTCTTACTCGATAGAATAGTGATGC
1 CATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
* * * **
19745994 CATAACATCTTTCAGTCATGGTCTTATTCAATAGAATAATGATGC
1 CATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
** * * * * * * **
19746039 CCCAACATCTTTTATTCATGGTCTTTCTCGATAAAATAGTGATTT
1 CATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
* *
19746084 CATAACGTCTTTAAGTCATGATCTTACTC
1 CATAACGTCTTTCAGTCATGGTCTTACTC
19746113 ATTTCTAGTA
Statistics
Matches: 261, Mismatches: 37, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 260 1.00
46 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (45 bp):
CATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCGTGATGC
Found at i:19765930 original size:48 final size:48
Alignment explanation
Indices: 19765878--19766144 Score: 228
Period size: 48 Copynumber: 5.6 Consensus size: 48
19765868 CAAGAAATAA
* * * *
19765878 TGTAAGATCATGTTTGGGACATGGCATCGGCCTCGACAAGTGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAG
* * ** ** * * * * *
19765926 TGTAAGGCCATGTCTAGGACATGAAATCGGTGTTGATATGTGTGCTAC
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAG
* * * ** *
19765974 TGTAAGACCATGTCTGGGACATGGCATCGACCACAATTTGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAG
* * * * * * *** *
19766022 TGTAAGACCATGTTTTGAACATGGCATCGGCATTGAGACAAGAGCAAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAG
* * *
19766070 TGTAAGACCATGTCCGGGACATGGCATCAGCCTTGACATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAG
19766118 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
19766145 AGACAATTTA
Statistics
Matches: 166, Mismatches: 53, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
48 166 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAG
Found at i:19765948 original size:96 final size:96
Alignment explanation
Indices: 19765782--19766144 Score: 291
Period size: 96 Copynumber: 3.8 Consensus size: 96
19765772 TGTGTGCTAG
* * ** * * * *
19765782 TGTAAGACCATGTCTAGGACATGGCATCGGCCAC-ATTTTGAGAGCCACTGTAAGACAATGT-TT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCCAGTGTAAGACCATGTCTA
* *
19765845 GAAACATGGCAGCGGCATTGAAACAAGAAATAA
65 G-GACATGGCATCGGCATTGAAACAAGAAATAA
* * * * *
19765878 TGTAAGATCATGTTTGGGACATGGCATCGGCCTCGACAAGTGAGCTAGTGTAAGGCCATGTCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTAG
** ** * *** *** *
19765943 GACATGAAATCGGTGTTGATATGTGTGCTAC
66 GACATGGCATCGGCATTGAAACAAGAAATAA
* * * ** * * *
19765974 TGTAAGACCATGTCTGGGACATGGCATCGACCACAATTTGAGAGCCAGTGTAAGACCATGTTTTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTAG
* * * *
19766039 AACATGGCATCGGCATTGAGACAAGAGCA-AG
66 GACATGGCATCGGCATTGAAACAAGA-AATAA
* * * *
19766070 TGTAAGACCATGTCCGGGACATGGCATCAGCCTTGACATGTGAGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTAG
19766135 GACATGGCAT
66 GACATGGCAT
19766145 AGACAATTTA
Statistics
Matches: 199, Mismatches: 65, Indels: 6
0.74 0.24 0.02
Matches are distributed among these distances:
96 196 0.98
97 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATGTCTAG
GACATGGCATCGGCATTGAAACAAGAAATAA
Found at i:19766044 original size:144 final size:144
Alignment explanation
Indices: 19765878--19766144 Score: 340
Period size: 144 Copynumber: 1.9 Consensus size: 144
19765868 CAAGAAATAA
* * * * * *
19765878 TGTAAGATCATGTTTGGGACATGGCATCGGC-CT-CGACAAGTGAGCTAGTGTAAGGCCATGTCT
1 TGTAAGACCATGTTTGGAACATGGCATCGGCACTGAGACAA--GAGCAAGTGTAAGACCATGTCC
* ** * * *
19765941 AGGACATGAAATCGGTGTTGATATGTGTGCTACTGTAAGACCATGTCTGGGACATGGCATCGACC
64 AGGACATGAAATCAGCCTTGACATGTGAGCCACTGTAAGACCATGTCTGGGACATGGCATCGACC
19766006 ACAATTTGAGAGCCAG
129 ACAATTTGAGAGCCAG
* * *
19766022 TGTAAGACCATGTTTTGAACATGGCATCGGCATTGAGACAAGAGCAAGTGTAAGACCATGTCCGG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCACTGAGACAAGAGCAAGTGTAAGACCATGTCCAG
** *
19766087 GACATGGCATCAGCCTTGACATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
66 GACATGAAATCAGCCTTGACATGTGAGCCACTGTAAGACCATGTCTGGGACATGGCAT
19766145 AGACAATTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
144 97 0.94
145 1 0.01
146 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (144 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCACTGAGACAAGAGCAAGTGTAAGACCATGTCCAG
GACATGAAATCAGCCTTGACATGTGAGCCACTGTAAGACCATGTCTGGGACATGGCATCGACCAC
AATTTGAGAGCCAG
Found at i:19766094 original size:192 final size:192
Alignment explanation
Indices: 19765767--19766140 Score: 545
Period size: 192 Copynumber: 1.9 Consensus size: 192
19765757 GACAATTGGG
* * *
19765767 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTTTGAGAGCCACTG
1 TGATATGTGTGCTACTGTAAGACCATGTCTAGGACATGGCATCGACCACAATTTGAGAGCCACTG
* **
19765832 TAAGACAATGTTTGAAACATGGCAGCGGCATTGAAACAAGAAATAATGTAAGATCATGTTTGGGA
66 TAAGACAATGTTTGAAACATGGCAGCGGCATTGAAACAAGAAATAATGTAAGACCATGTCCGGGA
* * *
19765897 CATGGCATCGGCCTCGACAAGTGAGCTAGTGTAAGGCCATGTCTAGGACATGAAATCGGTGT
131 CATGGCATCAGCCTCGACAAGTGAGCCAGTGTAAGACCATGTCTAGGACATGAAATCGGTGT
* *
19765959 TGATATGTGTGCTACTGTAAGACCATGTCTGGGACATGGCATCGACCACAATTTGAGAGCCAGTG
1 TGATATGTGTGCTACTGTAAGACCATGTCTAGGACATGGCATCGACCACAATTTGAGAGCCACTG
* * * * *
19766024 TAAGACCATGTTTTG-AACATGGCATCGGCATTGAGACAAGAGCA-AGTGTAAGACCATGTCCGG
66 TAAGACAATG-TTTGAAACATGGCAGCGGCATTGAAACAAGA-AATAATGTAAGACCATGTCCGG
* * *
19766087 GACATGGCATCAGCCTTGACATGTGAGCCAGTGTAAGACCATGTCTGGGACATG
129 GACATGGCATCAGCCTCGACAAGTGAGCCAGTGTAAGACCATGTCTAGGACATG
19766141 GCATAGACAA
Statistics
Matches: 161, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
192 156 0.97
193 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (192 bp):
TGATATGTGTGCTACTGTAAGACCATGTCTAGGACATGGCATCGACCACAATTTGAGAGCCACTG
TAAGACAATGTTTGAAACATGGCAGCGGCATTGAAACAAGAAATAATGTAAGACCATGTCCGGGA
CATGGCATCAGCCTCGACAAGTGAGCCAGTGTAAGACCATGTCTAGGACATGAAATCGGTGT
Found at i:19776705 original size:5 final size:5
Alignment explanation
Indices: 19776695--19776719 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19776685 ATAAATAAAA
19776695 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
19776720 GCAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:19786363 original size:382 final size:383
Alignment explanation
Indices: 19785638--19786405 Score: 1342
Period size: 382 Copynumber: 2.0 Consensus size: 383
19785628 ATCCGACTCA
19785638 GCCCGATACAGTTAATAGGGTTTAAAATCACTTTTCAATTTCAACCAATATTAATTTTAATTCAA
1 GCCCGATACAGTTAATAGGGTTTAAAATCACTTTTCAATTTCAACCAATATTAATTTTAATTCAA
*
19785703 TAATCACAAATCCTCAAGAATTCAACTTAGTATCATAATATCAAATTCTCATCTCATTCTACTTA
66 TAATCACAAATCCTCAAGAATTCAACTCAGTATCATAATATCAAATTCTCATCTCATTCTACTTA
19785768 TCATACACGTTAAATAATAATTACAACAATTAAATATTTCATATACCATCATTTTTATGAATTTC
131 TCATACACGTTAAATAATAATTACAACAATTAAATATTTCATATACCATCATTTTTATGAATTTC
19785833 ATATATATTTATTTCGGTAACAATTCATAATCATAAATATACATAATTTTTCCATATCTCTAACC
196 ATATATATTTATTTCGGTAACAATTCATAATCATAAATATACATAATTTTTCCATATCTCTAACC
19785898 AAGTCTTTCAAAATCGGAAAACAACTTACAGATATAAGTACATCATTTTCTTTATGCCATAACCT
261 AAGTCTTTCAAAATCGGAAAACAACTTACAGATATAAGTACATCATTTTCTTTATGCCATAACCT
* * *
19785963 AGTTATGGTCTTTTCATTAAAATGTCATAGCCCAGCTATGGTCTTATATTTAAACATT
326 AGTTATGGTCTTTTCATTAAAATGCCATAGCCCAGCTATGGGCTTACATTTAAACATT
*
19786021 GCCCGATACAGTTAATAGGGTTTAAAATCACTTTTCAATTTCAACCAATATTAATTTTAATTTAA
1 GCCCGATACAGTTAATAGGGTTTAAAATCACTTTTCAATTTCAACCAATATTAATTTTAATTCAA
19786086 TAATCACAAATCCTCAAGAATTCAACTCAGTATCATAATATCAAATTCTCATCTCATTCTACTTA
66 TAATCACAAATCCTCAAGAATTCAACTCAGTATCATAATATCAAATTCTCATCTCATTCTACTTA
* *
19786151 TCATACATGTTAAATAATAATTACAATAATT-AATATTTCATATACCATCATTTTTATGAATTTC
131 TCATACACGTTAAATAATAATTACAACAATTAAATATTTCATATACCATCATTTTTATGAATTTC
* * *
19786215 GTATATATTTATTTTGGTAACAATTCATAATCATAAATATACATAATTTTTCCATATCTCTACCC
196 ATATATATTTATTTCGGTAACAATTCATAATCATAAATATACATAATTTTTCCATATCTCTAACC
* * * * ** * *
19786280 TAGTCTTTCCAAATC-GAAGAGCAACTTACGGATATAAGTACATTGTTTTCTTTGTGCCATCACC
261 AAGTCTTTCAAAATCGGAA-AACAACTTACAGATATAAGTACATCATTTTCTTTATGCCATAACC
*
19786344 TAGTTATGGTCTTTTCATTAAAATGCCATAGCCTAGCTATGGGCTTACATTTAAACATT
325 TAGTTATGGTCTTTTCATTAAAATGCCATAGCCCAGCTATGGGCTTACATTTAAACATT
19786403 GCC
1 GCC
19786406 ATGGTCCAAC
Statistics
Matches: 365, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
381 3 0.01
382 205 0.56
383 157 0.43
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (383 bp):
GCCCGATACAGTTAATAGGGTTTAAAATCACTTTTCAATTTCAACCAATATTAATTTTAATTCAA
TAATCACAAATCCTCAAGAATTCAACTCAGTATCATAATATCAAATTCTCATCTCATTCTACTTA
TCATACACGTTAAATAATAATTACAACAATTAAATATTTCATATACCATCATTTTTATGAATTTC
ATATATATTTATTTCGGTAACAATTCATAATCATAAATATACATAATTTTTCCATATCTCTAACC
AAGTCTTTCAAAATCGGAAAACAACTTACAGATATAAGTACATCATTTTCTTTATGCCATAACCT
AGTTATGGTCTTTTCATTAAAATGCCATAGCCCAGCTATGGGCTTACATTTAAACATT
Found at i:19786522 original size:20 final size:20
Alignment explanation
Indices: 19786499--19786540 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
19786489 ATTTCAATTC
19786499 AATTTTATAGTTTCAACAAT
1 AATTTTATAGTTTCAACAAT
** *
19786519 AATTTTATTTTTTTAACAAT
1 AATTTTATAGTTTCAACAAT
19786539 AA
1 AA
19786541 ATATAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTTTATAGTTTCAACAAT
Found at i:19787300 original size:10 final size:10
Alignment explanation
Indices: 19787287--19787330 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
19787277 TATTTGTTTT
*
19787287 TATATTATTA
1 TATATTATAA
*
19787297 TATAATATAA
1 TATATTATAA
*
19787307 TATAATATAA
1 TATATTATAA
19787317 TATA-TATAA
1 TATATTATAA
19787326 TATAT
1 TATAT
19787331 ATACTTAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATATTATAA
Found at i:19787304 original size:5 final size:5
Alignment explanation
Indices: 19787296--19787333 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
19787286 TTATATTATT
19787296 ATATA ATATA ATATA ATATA ATAT- ATATA ATAT- ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
19787334 CTTAAACATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.26
5 23 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:19790556 original size:68 final size:67
Alignment explanation
Indices: 19790484--19790669 Score: 177
Period size: 67 Copynumber: 2.8 Consensus size: 67
19790474 CATCATGTGT
* * *
19790484 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACC
19790546 ATGTAG
62 ATGTAG
** * * *
19790552 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
19790617 AG
66 AG
* * *
19790619 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTACGACATATA-TGTAGCTAGGTCGCATGGGTGGATAC-AAGTG
19790670 TTCACCATGT
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 25 0.25
67 31 0.31
68 15 0.15
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:19790589 original size:64 final size:64
Alignment explanation
Indices: 19790508--19790691 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
19790498 AGACATTATG
* *
19790508 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
19790572 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
19790637 AA
63 AA
* * * *
19790639 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
19790692 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:19791790 original size:28 final size:28
Alignment explanation
Indices: 19791759--19791864 Score: 99
Period size: 29 Copynumber: 3.7 Consensus size: 28
19791749 ACATGCGTGC
*
19791759 ATATGGCCCACTTGGCCCAATCTCATTT
1 ATATGGCCCACTAGGCCCAATCTCATTT
* * *
19791787 ATATGGCCCA-TCAAGCCCAATTCACATTC
1 ATATGGCCCACT-AGGCCCAA-TCTCATTT
*
19791816 ATATAGCCCACTAGGCCCAAT-TCATATT
1 ATATGGCCCACTAGGCCCAATCTCAT-TT
* *
19791844 CATATGGCCCATTAAGCCCAA
1 -ATATGGCCCACTAGGCCCAA
19791865 ATAACATACA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.06
28 18 0.29
29 39 0.63
30 1 0.02
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCTCATTT
Found at i:19791824 original size:29 final size:29
Alignment explanation
Indices: 19791773--19791864 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
19791763 GGCCCACTTG
* *
19791773 GCCCAA-TCTCATTTATATGGCCCATCAA
1 GCCCAATTCACATTCATATGGCCCATCAA
* *
19791801 GCCCAATTCACATTCATATAGCCCA-CTAG
1 GCCCAATTCACATTCATATGGCCCATC-AA
* *
19791830 GCCCAATTCATATTCATATGGCCCATTAA
1 GCCCAATTCACATTCATATGGCCCATCAA
19791859 GCCCAA
1 GCCCAA
19791865 ATAACATACA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 7 0.13
29 46 0.87
ACGTcount: A:0.30, C:0.33, G:0.11, T:0.26
Consensus pattern (29 bp):
GCCCAATTCACATTCATATGGCCCATCAA
Found at i:19793353 original size:17 final size:16
Alignment explanation
Indices: 19793320--19793351 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19793310 AAATTCGGGA
*
19793320 TTTCAAGATTTTTGGG
1 TTTCAAAATTTTTGGG
19793336 TTTCAAAATTTTTGGG
1 TTTCAAAATTTTTGGG
19793352 GTGTTACAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.50
Consensus pattern (16 bp):
TTTCAAAATTTTTGGG
Found at i:19796085 original size:21 final size:19
Alignment explanation
Indices: 19796060--19796109 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
19796050 CCTGCCCACG
19796060 ACCCCTTGGCGGCAGCTGAGC
1 ACCCCTTGGCGG--GCTGAGC
*
19796081 ACCCCTTGG-TGGCTGAGC
1 ACCCCTTGGCGGGCTGAGC
19796099 ACCACCTTGGC
1 ACC-CCTTGGC
19796110 CCATTACTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.38
19 6 0.23
20 1 0.04
21 9 0.35
ACGTcount: A:0.14, C:0.38, G:0.30, T:0.18
Consensus pattern (19 bp):
ACCCCTTGGCGGGCTGAGC
Found at i:19801044 original size:85 final size:85
Alignment explanation
Indices: 19800915--19801348 Score: 832
Period size: 85 Copynumber: 5.1 Consensus size: 85
19800905 TATTTTATTG
*
19800915 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
19800980 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
19801000 CCCATGCTCTTCATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
19801065 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
19801085 CCCATGCTCTTCATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
19801150 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
19801170 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
19801235 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
19801255 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
19801320 TAGCCAAAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
19801340 CCCATGCTC
1 CCCATGCTC
19801349 ATGGCCGGCC
Statistics
Matches: 345, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 345 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:19803342 original size:12 final size:12
Alignment explanation
Indices: 19803325--19803349 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19803315 GGTTGTAACG
19803325 GGGCTTTGGTTA
1 GGGCTTTGGTTA
19803337 GGGCTTTGGTTA
1 GGGCTTTGGTTA
19803349 G
1 G
19803350 AGGGTGCGGT
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:0.08, C:0.08, G:0.44, T:0.40
Consensus pattern (12 bp):
GGGCTTTGGTTA
Found at i:19808523 original size:13 final size:14
Alignment explanation
Indices: 19808502--19808533 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19808492 TGCACAGAAA
19808502 GAAAA-ACTTG-GG
1 GAAAATACTTGTGG
19808514 GAAAATACTTGTGG
1 GAAAATACTTGTGG
19808528 GAAAAT
1 GAAAAT
19808534 TCGATTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 5 0.28
14 8 0.44
ACGTcount: A:0.44, C:0.06, G:0.28, T:0.22
Consensus pattern (14 bp):
GAAAATACTTGTGG
Found at i:19810481 original size:29 final size:29
Alignment explanation
Indices: 19810391--19810495 Score: 79
Period size: 29 Copynumber: 3.7 Consensus size: 29
19810381 GGTCCACTTG
* ** **
19810391 GCCCAA-TCTCATTCATATAGCCCGTCGG
1 GCCCAATTCACATTCATATAGCCCACCAC
*
19810419 GCCCAATTCACATTCGTATAGCCCACCAC
1 GCCCAATTCACATTCATATAGCCCACCAC
* * * **
19810448 ACCCAATTCATATTCATATGGCCCATTAC
1 GCCCAATTCACATTCATATAGCCCACCAC
*
19810477 GCCC-ATATCACATACATAT
1 GCCCAAT-TCACATTCATAT
19810496 TCATGCTCGC
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
28 8 0.13
29 52 0.87
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (29 bp):
GCCCAATTCACATTCATATAGCCCACCAC
Found at i:19810742 original size:24 final size:23
Alignment explanation
Indices: 19810705--19810756 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
19810695 CGCAGCCAAA
*
19810705 CTTTTAGCTTTTCGAC-TTTCCAG
1 CTTTTAGCATTTCGACATTT-CAG
*
19810728 CTTTTCAGCATTTCGGCATTTCAG
1 CTTTT-AGCATTTCGACATTTCAG
19810752 CTTTT
1 CTTTT
19810757 GCCGATCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 17 0.68
25 3 0.12
ACGTcount: A:0.13, C:0.25, G:0.13, T:0.48
Consensus pattern (23 bp):
CTTTTAGCATTTCGACATTTCAG
Found at i:19815120 original size:29 final size:30
Alignment explanation
Indices: 19815087--19815157 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
19815077 AAATCAAAAT
** *
19815087 TTCATGTATAAATT-TGTATAAAATTAAAG
1 TTCATGTATAAATTACATATAAAACTAAAG
* *
19815116 TTCATGTATACAATTACATATCAAACTATAG
1 TTCATGTATA-AATTACATATAAAACTAAAG
19815147 TTCATGTATAA
1 TTCATGTATAA
19815158 TTTTAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 10 0.29
30 5 0.14
31 20 0.57
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (30 bp):
TTCATGTATAAATTACATATAAAACTAAAG
Found at i:19818359 original size:6 final size:6
Alignment explanation
Indices: 19818348--19818401 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
19818338 TAAATGAAGG
* * * *
19818348 AAAATA AAAAT- AAAATA AAAATA GAAATA GAAATA GAAATA GAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
19818394 AAAATA AA
1 AAAATA AA
19818402 TGGACTCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 9 0.20
6 35 0.80
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:19818375 original size:12 final size:11
Alignment explanation
Indices: 19818348--19818401 Score: 72
Period size: 12 Copynumber: 4.7 Consensus size: 11
19818338 TAAATGAAGG
19818348 AAAATAAAAAT
1 AAAATAAAAAT
19818359 AAAATAAAAAT
1 AAAATAAAAAT
*
19818370 AGAAATAGAAAT
1 A-AAATAAAAAT
*
19818382 AGAAATAGAAAT
1 A-AAATAAAAAT
19818394 AAAATAAA
1 AAAATAAA
19818402 TGGACTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
11 18 0.45
12 22 0.55
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:19818387 original size:18 final size:17
Alignment explanation
Indices: 19818348--19818401 Score: 81
Period size: 17 Copynumber: 3.1 Consensus size: 17
19818338 TAAATGAAGG
*
19818348 AAAATAAAAATAAAATA
1 AAAATAGAAATAAAATA
19818365 AAAATAGAAATAGAAATA
1 AAAATAGAAATA-AAATA
*
19818383 GAAATAGAAATAAAATA
1 AAAATAGAAATAAAATA
19818400 AA
1 AA
19818402 TGGACTCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 17 0.52
18 16 0.48
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
AAAATAGAAATAAAATA
Found at i:19820280 original size:15 final size:16
Alignment explanation
Indices: 19820262--19820311 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
19820252 AAAGATGAGG
19820262 GAAGAAGAG-AAGAAA
1 GAAGAAGAGAAAGAAA
19820277 GAAGAAG-GAAAGAAA
1 GAAGAAGAGAAAGAAA
* * *
19820292 GAATAAGAAAAATAAA
1 GAAGAAGAGAAAGAAA
19820308 GAAG
1 GAAG
19820312 GTAAAGGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 1 0.03
15 19 0.66
16 9 0.31
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (16 bp):
GAAGAAGAGAAAGAAA
Found at i:19826898 original size:11 final size:11
Alignment explanation
Indices: 19826878--19826910 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
19826868 GGTCGTTTTA
19826878 GGCC-AAATTG
1 GGCCAAAATTG
19826888 GGCCAAAATTG
1 GGCCAAAATTG
19826899 GGCCAAAATTG
1 GGCCAAAATTG
19826910 G
1 G
19826911 ATGTGTGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.18
Consensus pattern (11 bp):
GGCCAAAATTG
Found at i:19827555 original size:33 final size:33
Alignment explanation
Indices: 19827484--19827579 Score: 106
Period size: 33 Copynumber: 2.9 Consensus size: 33
19827474 GTATGCATTT
*
19827484 CTGATACTG-TACTGAATTGGGCTAAGGCTCACA
1 CTGATACTGCTACTG-ATTGGGCTAAGGCCCACA
* **
19827517 TTGATACTGCTACTGATTGGGCTAAGGCCCTTA
1 CTGATACTGCTACTGATTGGGCTAAGGCCCACA
*
19827550 CTGATA-TCGCTACTGATATGGGCTTAGGCC
1 CTGATACT-GCTACTGAT-TGGGCTAAGGCC
19827580 TAGACTGTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
32 1 0.02
33 37 0.69
34 16 0.30
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (33 bp):
CTGATACTGCTACTGATTGGGCTAAGGCCCACA
Found at i:19830793 original size:34 final size:34
Alignment explanation
Indices: 19830740--19830822 Score: 125
Period size: 34 Copynumber: 2.5 Consensus size: 34
19830730 GTATGCATTT
*
19830740 CTGATACTG-TACTGAATTGGGCTAAGGCCCACA
1 CTGATACTGCTACTGTATTGGGCTAAGGCCCACA
*
19830773 CTGATACTGCTACTGTATTGGGCTAAGGCCCTCA
1 CTGATACTGCTACTGTATTGGGCTAAGGCCCACA
19830807 CTGATA-TCGCTACTGT
1 CTGATACT-GCTACTGT
19830823 TAGCCCTCAC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
33 10 0.22
34 36 0.78
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (34 bp):
CTGATACTGCTACTGTATTGGGCTAAGGCCCACA
Found at i:19830848 original size:12 final size:12
Alignment explanation
Indices: 19830806--19830850 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
19830796 TAAGGCCCTC
19830806 ACTGATATCGCT
1 ACTGATATCGCT
* * *
19830818 ACTGTTAGCCCT
1 ACTGATATCGCT
19830830 CACTGATATCGCT
1 -ACTGATATCGCT
19830843 ACTGATAT
1 ACTGATAT
19830851 AGGCTTAGGC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (12 bp):
ACTGATATCGCT
Found at i:19842714 original size:94 final size:94
Alignment explanation
Indices: 19842591--19842776 Score: 354
Period size: 94 Copynumber: 2.0 Consensus size: 94
19842581 AATAGGGAAG
*
19842591 TTAAATTATTTTATGGAATTGAACTTACTCTACTCATAAAATTAACTATTCAAATCATGATTTGT
1 TTAAATTATTTTATGGAATTGAACTTACTCTACTCATAAAATTAACTATTCAAATAATGATTTGT
19842656 TAGCATCTAAATACAGGAAGAAATATTTT
66 TAGCATCTAAATACAGGAAGAAATATTTT
19842685 TTAAATTATTTTATGGAATTGAACTTACTCTACTCATAAAATTAACTATTCAAATAATGATTTGT
1 TTAAATTATTTTATGGAATTGAACTTACTCTACTCATAAAATTAACTATTCAAATAATGATTTGT
*
19842750 TAGCATCTAGATACAGGAAGAAATATT
66 TAGCATCTAAATACAGGAAGAAATATT
19842777 GGGTGATATA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (94 bp):
TTAAATTATTTTATGGAATTGAACTTACTCTACTCATAAAATTAACTATTCAAATAATGATTTGT
TAGCATCTAAATACAGGAAGAAATATTTT
Found at i:19846658 original size:47 final size:47
Alignment explanation
Indices: 19846550--19846679 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 47
19846540 GTGGGATAAG
*
19846550 GTGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC
* * * *
19846597 GTAGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACT-T-GTTTT
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTC
19846643 GATGCCGATGCCATGTCCCAGACATGGTCTTACACTG
1 G-TGCCGATGCCATGTCCCAGACATGGTCTTACACTG
19846680 GCTTACGATA
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
46 19 0.27
47 34 0.48
48 18 0.25
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC
Found at i:19848980 original size:12 final size:12
Alignment explanation
Indices: 19848963--19848989 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
19848953 ATTCCGAAGT
19848963 ATATATATATAC
1 ATATATATATAC
19848975 ATATATATATAC
1 ATATATATATAC
19848987 ATA
1 ATA
19848990 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:19849504 original size:27 final size:27
Alignment explanation
Indices: 19849473--19849650 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19849463 TAAATTGTAC
19849473 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19849500 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19849526 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19849554 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19849582 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19849609 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19849636 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19849651 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19849587 original size:82 final size:81
Alignment explanation
Indices: 19849474--19849629 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19849464 AAATTGTACA
* *
19849474 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19849538 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19849555 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19849620 TGCGAGTTGA
65 TGCGAATTGA
19849630 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19849641 original size:82 final size:81
Alignment explanation
Indices: 19849470--19849650 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19849460 GATTAAATTG
* *
19849470 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19849535 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19849551 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19849615 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19849633 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19849651 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19857694 original size:27 final size:27
Alignment explanation
Indices: 19857663--19857840 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19857653 TAAATTGTAC
19857663 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
19857690 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19857716 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19857744 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19857772 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19857799 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19857826 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19857841 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19857777 original size:82 final size:81
Alignment explanation
Indices: 19857664--19857819 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19857654 AAATTGTACA
* *
19857664 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19857728 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
19857745 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19857810 TGCGAGTTGA
65 TGCGAATTGA
19857820 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19857831 original size:82 final size:81
Alignment explanation
Indices: 19857660--19857840 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
19857650 GATTAAATTG
* *
19857660 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19857725 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
19857741 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19857805 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19857823 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19857841 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19868798 original size:41 final size:41
Alignment explanation
Indices: 19868753--19868833 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
19868743 AACCTCATCC
19868753 AATTTATTAGATTTTAAAATGAGATAAAATTAGATAATCAT
1 AATTTATTAGATTTTAAAATGAGATAAAATTAGATAATCAT
* *
19868794 AATTTATTAGATTTTAGAATGAGATCAAATTAGATAATCA
1 AATTTATTAGATTTTAAAATGAGATAAAATTAGATAATCA
19868834 ACTATCTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (41 bp):
AATTTATTAGATTTTAAAATGAGATAAAATTAGATAATCAT
Found at i:19869396 original size:31 final size:31
Alignment explanation
Indices: 19869361--19869427 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
19869351 AAAAACACTT
*
19869361 AATAGCCTAGTAACTTAAATAAAAAATTTCA
1 AATAGCCTAGTAACATAAATAAAAAATTTCA
** * *
19869392 AATAGTTTAGTGACATAAATAAAAAATTTCT
1 AATAGCCTAGTAACATAAATAAAAAATTTCA
19869423 AATAG
1 AATAG
19869428 ATCAATAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (31 bp):
AATAGCCTAGTAACATAAATAAAAAATTTCA
Found at i:19874803 original size:20 final size:19
Alignment explanation
Indices: 19874766--19874823 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
19874756 TTTCAAAAAA
*
19874766 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
19874784 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
19874803 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTGAATTTT
19874823 T
1 T
19874824 TTTTTTGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.19
19 15 0.42
20 14 0.39
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:19880993 original size:27 final size:27
Alignment explanation
Indices: 19880963--19881025 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
19880953 CTAAGGCAAC
*
19880963 CCATTCAGAGTACGCCACAAAGGTGAT
1 CCATTCAGAGTACACCACAAAGGTGAT
**
19880990 CCATTCCA-AGTACACCATGAAGGTGAT
1 CCATT-CAGAGTACACCACAAAGGTGAT
*
19881017 CTATTCAGA
1 CCATTCAGA
19881026 TTTTCTCGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (27 bp):
CCATTCAGAGTACACCACAAAGGTGAT
Found at i:19882431 original size:38 final size:38
Alignment explanation
Indices: 19882379--19882561 Score: 213
Period size: 38 Copynumber: 4.8 Consensus size: 38
19882369 TGAATTATAT
* * *
19882379 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGTCGG
1 TGTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGG
* * **
19882417 TGTTATTCGGGCTTTGAGCCTAACAGGCTTAGTGCCGG
1 TGTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGG
* * * *
19882455 CGTTATTTAGGCTTTTTGCCTAGTAGGCTTAGTGCCAG
1 TGTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGG
* * *
19882493 TGTTATTCAGGTTTTATGCCTAGTAGGCTTAGTGTCGG
1 TGTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGG
* * *
19882531 TATTATTCAAGCTTAGTGCCTAGTAGGCTTA
1 TGTTATTCAGGCTTTGTGCCTAGTAGGCTTA
19882562 TTGCTAGTAT
Statistics
Matches: 121, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 121 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.38
Consensus pattern (38 bp):
TGTTATTCAGGCTTTGTGCCTAGTAGGCTTAGTGCCGG
Found at i:19896038 original size:87 final size:87
Alignment explanation
Indices: 19895790--19896040 Score: 371
Period size: 87 Copynumber: 2.9 Consensus size: 87
19895780 ATGCATAAGA
* * * *
19895790 TTGAG-TTATTACTTTTAATGAATTCATAGCCCAAAGTTTGGGTGGTCCTATTGAGACGGACTTG
1 TTGAGTTTCTTACTCTTAATGAACTCATATCCCAAAGTTTGGGTGGTCCTATTGAGACGGACTTG
*
19895854 ATGAATTCACCGACATATGAGG
66 ATGAATTCACTGACATATGAGG
* *
19895876 TTGAGTTTCTTACTCTTAATGAACTCATATCCCAAAGTTTGAGTGATCCTATTGAGACGGACTTG
1 TTGAGTTTCTTACTCTTAATGAACTCATATCCCAAAGTTTGGGTGGTCCTATTGAGACGGACTTG
*
19895941 ATGAATTCACTGACATGTGAGG
66 ATGAATTCACTGACATATGAGG
* * **
19895963 TT-AGGTTTCTTACTCTTAATGAGCTCATATCCTAAAGTTTGGGTGGTTTTATTGAGACGGACTT
1 TTGA-GTTTCTTACTCTTAATGAACTCATATCCCAAAGTTTGGGTGGTCCTATTGAGACGGACTT
19896027 GATGAATTCACTGA
65 GATGAATTCACTGA
19896041 ATTTTAATCT
Statistics
Matches: 149, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
86 6 0.04
87 143 0.96
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (87 bp):
TTGAGTTTCTTACTCTTAATGAACTCATATCCCAAAGTTTGGGTGGTCCTATTGAGACGGACTTG
ATGAATTCACTGACATATGAGG
Found at i:19898356 original size:15 final size:16
Alignment explanation
Indices: 19898326--19898357 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19898316 AATTTTCCCC
*
19898326 TTTCTTTTCTCTTTTT
1 TTTCTTTCCTCTTTTT
19898342 TTTCTTTCCTCTTTTT
1 TTTCTTTCCTCTTTTT
19898358 CGTTTTCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTTTCCTCTTTTT
Found at i:19900364 original size:43 final size:43
Alignment explanation
Indices: 19900303--19900388 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
19900293 ATCACATGTA
* *
19900303 TCGCATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
*
19900346 TCGCATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
19900389 CACATATATC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.21
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGGACCACTCAACGAGCTCAGATGC
Found at i:19904033 original size:41 final size:41
Alignment explanation
Indices: 19903986--19904172 Score: 315
Period size: 41 Copynumber: 4.6 Consensus size: 41
19903976 CAGACGTTAC
* * *
19903986 GTCTAGCAGGCTTAATGCCGGTGA-AGTATTTCAGACTTTAA
1 GTCTAGCAGGCTTAATGCCGGTGATA-CATTTCAGACTATAT
19904027 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
19904068 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
19904109 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
1 GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
19904150 GTCTAGCAGGC-TAAGTGCCGGTG
1 GTCTAGCAGGCTTAA-TGCCGGTG
19904173 TACTGAATCA
Statistics
Matches: 141, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
40 3 0.02
41 137 0.97
42 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (41 bp):
GTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATAT
Found at i:19904197 original size:82 final size:82
Alignment explanation
Indices: 19903986--19904214 Score: 322
Period size: 82 Copynumber: 2.8 Consensus size: 82
19903976 CAGACGTTAC
* *
19903986 GTCTAGCAGGCTTAATGCCGGTGAAGTATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGTACTATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
19904051 TACATTTCAGACTATAT
66 TACATTTCAGACTATAT
* *
19904068 GTCTAGCAGGCTTAATGCCGGTGATAC-ATTTCAGACTATATGTCTAGCAGGCTTAATGCCGGTG
1 GTCTAGCAGGCTTAATGCCGGTG-TACTATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG
19904132 ATACATTTCAGACTATAT
65 ATACATTTCAGACTATAT
* * * *
19904150 GTCTAGCAGGC-TAAGTGCCGGTGTACTGA-ATCAGGCTTTAAGCCTAGCAGGC-AAATTGCCGG
1 GTCTAGCAGGCTTAA-TGCCGGTGTACT-ATTTCAGACTTTAAGTCTAGCAGGCTTAA-TGCCGG
19904212 TGA
63 TGA
19904215 ATCTGTTTAA
Statistics
Matches: 132, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
81 8 0.06
82 122 0.92
83 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (82 bp):
GTCTAGCAGGCTTAATGCCGGTGTACTATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
TACATTTCAGACTATAT
Found at i:19904197 original size:123 final size:123
Alignment explanation
Indices: 19903986--19904214 Score: 297
Period size: 123 Copynumber: 1.9 Consensus size: 123
19903976 CAGACGTTAC
* *
19903986 GTCTAGCAGGCTTAATGCCGGTGAAGTATTTCAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGAAGCATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGA
* * * *
19904051 TACATTTCAGACTATATGTCTAGCAGGCTTAA-TGCCGGTGATACATTTCAGACTATAT
66 TACATATCAGACTATAAGCCTAGCAGGC-AAATTGCCGGTGATACATTTCAGACTATAT
*
19904109 GTCTAGCAGGCTTAATGCCGGTGATA-CATTTCAGACTATATGTCTAGCAGGC-TAAGTGCCGGT
1 GTCTAGCAGGCTTAATGCCGGTGA-AGCATTTCAGACTATAAGTCTAGCAGGCTTAA-TGCCGGT
* *
19904172 G-TAC-TGAATCAGGCTTTAAGCCTAGCAGGCAAATTGCCGGTGA
64 GATACAT--ATCAGACTATAAGCCTAGCAGGCAAATTGCCGGTGA
19904215 ATCTGTTTAA
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
121 1 0.01
122 8 0.09
123 82 0.89
124 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (123 bp):
GTCTAGCAGGCTTAATGCCGGTGAAGCATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGA
TACATATCAGACTATAAGCCTAGCAGGCAAATTGCCGGTGATACATTTCAGACTATAT
Found at i:19914223 original size:43 final size:41
Alignment explanation
Indices: 19914154--19914240 Score: 120
Period size: 43 Copynumber: 2.1 Consensus size: 41
19914144 ACATGTATCC
* * *
19914154 CATCCATTATGAACTCGGACCACTCAATGAGCTCGGATGCTCA
1 CATCCATAATGAACTCGAACCACTCAA-CAGCTCGGATGC-CA
*
19914197 CATCCATAATGAACTCGAACCTCTCAACAGCTCGGATGCCA
1 CATCCATAATGAACTCGAACCACTCAACAGCTCGGATGCCA
19914238 CAT
1 CAT
19914241 ATATCACGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 5 0.12
42 11 0.28
43 24 0.60
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (41 bp):
CATCCATAATGAACTCGAACCACTCAACAGCTCGGATGCCA
Found at i:19914252 original size:41 final size:43
Alignment explanation
Indices: 19914164--19914252 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 43
19914154 CATCCATTAT
* * * *
19914164 GAACTCGGACCACTCAATGAGCTCGGATGCTCACATCCATAAT
1 GAACTCGAACCACTCAATCAGCTCGGATGCTCACATACATAAC
* * *
19914207 GAACTCGAACCTCTCAA-CAGCTCGGATGC-CACATATATCAC
1 GAACTCGAACCACTCAATCAGCTCGGATGCTCACATACATAAC
19914248 GAACT
1 GAACT
19914253 TGGACCATCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 13 0.33
42 11 0.28
43 15 0.38
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (43 bp):
GAACTCGAACCACTCAATCAGCTCGGATGCTCACATACATAAC
Found at i:19917589 original size:13 final size:14
Alignment explanation
Indices: 19917568--19917599 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
19917558 TCCATCATCG
19917568 AAATACATCCAACA
1 AAATACATCCAACA
19917582 AAAT-CATCCAACA
1 AAATACATCCAACA
19917595 AAATA
1 AAATA
19917600 AAACCATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.59, C:0.25, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATACATCCAACA
Found at i:19924753 original size:4 final size:4
Alignment explanation
Indices: 19924739--19924856 Score: 173
Period size: 4 Copynumber: 29.2 Consensus size: 4
19924729 ACAGTACTAA
* * * *
19924739 ACAT AACAT ACAT ACAT ACAT ACAT CCAT CCAT CCAT ACAT ACAT ACGT
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
19924788 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
19924836 GCAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT A
19924857 AACATTAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
4 101 0.96
5 4 0.04
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:19924969 original size:13 final size:14
Alignment explanation
Indices: 19924896--19924991 Score: 62
Period size: 13 Copynumber: 7.1 Consensus size: 14
19924886 GTAATATACC
*
19924896 ACATAATATACAT-
1 ACATAACATACATA
19924909 ACATTAAACATGACAT-
1 ACA-T-AACAT-ACATA
* *
19924925 ACAAAATATACA-A
1 ACATAACATACATA
*
19924938 ACATAACAT-TA-A
1 ACATAACATACATA
19924950 ACATAACATACAT-
1 ACATAACATACATA
*
19924963 GCATAACAATACATA
1 ACATAAC-ATACATA
19924978 ACAT-ACATACATA
1 ACATAACATACATA
19924991 A
1 A
19924992 ACAATGAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
12 11 0.17
13 28 0.42
14 13 0.20
15 7 0.11
16 7 0.11
ACGTcount: A:0.56, C:0.19, G:0.02, T:0.23
Consensus pattern (14 bp):
ACATAACATACATA
Found at i:19924980 original size:23 final size:24
Alignment explanation
Indices: 19924950--19924996 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
19924940 ATAACATTAA
*
19924950 ACATAACATACATGCAT-AACAAT
1 ACATAACATACATACATAAACAAT
19924973 ACATAACATACATACATAAACAAT
1 ACATAACATACATACATAAACAAT
19924997 GAAGAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.55, C:0.21, G:0.02, T:0.21
Consensus pattern (24 bp):
ACATAACATACATACATAAACAAT
Found at i:19925891 original size:29 final size:28
Alignment explanation
Indices: 19925841--19925899 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
19925831 ACTAAACCAG
* * *
19925841 TGGGTAAAAAAAAGTTTGGGTACCAATC
1 TGGGTAAAAAAAACTATAGGTACCAATC
19925869 TGGGATAAAAAAAACTATAGGTACCAATC
1 TGGG-TAAAAAAAACTATAGGTACCAATC
19925898 TG
1 TG
19925900 AGAGAAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (28 bp):
TGGGTAAAAAAAACTATAGGTACCAATC
Found at i:19929129 original size:28 final size:27
Alignment explanation
Indices: 19929070--19929132 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
19929060 GGTAATAGAT
* *
19929070 ATTTTTAATTATAAAAATGCAATACGC
1 ATTTTTAATTATAAAAATGCAAGACAC
* *
19929097 ATTTTTAATTATAAAAATGTAAGACAT
1 ATTTTTAATTATAAAAATGCAAGACAC
19929124 ACTTTTTAA
1 A-TTTTTAA
19929133 ACATTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (27 bp):
ATTTTTAATTATAAAAATGCAAGACAC
Found at i:19929242 original size:23 final size:23
Alignment explanation
Indices: 19929216--19929259 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
19929206 TTAATGTTTG
19929216 ATTTTGAA-TATTA-AAGAAATAAT
1 ATTTT-AATTATTATAA-AAATAAT
19929239 ATTTTAATTATTATAAAAATA
1 ATTTTAATTATTATAAAAATA
19929260 TTGAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.11
23 15 0.79
24 2 0.11
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (23 bp):
ATTTTAATTATTATAAAAATAAT
Found at i:19929426 original size:24 final size:22
Alignment explanation
Indices: 19929378--19929437 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 22
19929368 GGTAAATTTT
*
19929378 TAATTAA-AAATATTTTGTTGAA
1 TAATTAATATATA-TTTGTTGAA
19929400 TAAAATTAATATATATTT-TTGACA
1 T--AATTAATATATATTTGTTGA-A
19929424 TAATTAATATATAT
1 TAATTAATATATAT
19929438 AATTTACACA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 14 0.42
23 4 0.12
24 11 0.33
25 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (22 bp):
TAATTAATATATATTTGTTGAA
Found at i:19929448 original size:24 final size:22
Alignment explanation
Indices: 19929403--19929448 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
19929393 TGTTGAATAA
**
19929403 AATTAATATATATTTTTGACAT
1 AATTAATATATATTTTACACAT
19929425 AATTAATATATATAATTTACACAT
1 AATTAATATATAT--TTTACACAT
19929449 TCTTAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (22 bp):
AATTAATATATATTTTACACAT
Found at i:19942224 original size:13 final size:13
Alignment explanation
Indices: 19942206--19942232 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19942196 TTTAATATTC
19942206 TTTAACCTACAAA
1 TTTAACCTACAAA
19942219 TTTAACCTACAAA
1 TTTAACCTACAAA
19942232 T
1 T
19942233 AGACCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTAACCTACAAA
Found at i:19942886 original size:33 final size:30
Alignment explanation
Indices: 19942829--19942896 Score: 75
Period size: 33 Copynumber: 2.2 Consensus size: 30
19942819 AAGTAAAATT
*
19942829 TAATAATATATTAGTTTAATTTTAAAAAACA
1 TAATAATATATTAGTTGAATTTTAAAAAA-A
*
19942860 TAATAATTAATATTAGATTGAA-TTTAAATAAA
1 TAATAA-T-ATATTAG-TTGAATTTTAAAAAAA
19942892 TAATA
1 TAATA
19942897 TTGTGAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 6 0.19
32 7 0.22
33 15 0.47
34 4 0.12
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (30 bp):
TAATAATATATTAGTTGAATTTTAAAAAAA
Found at i:19948373 original size:13 final size:13
Alignment explanation
Indices: 19948355--19948380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19948345 AATCTACTTT
19948355 GTAAGAAAAAAGA
1 GTAAGAAAAAAGA
19948368 GTAAGAAAAAAGA
1 GTAAGAAAAAAGA
19948381 AGCTAAAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (13 bp):
GTAAGAAAAAAGA
Done.