Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 142 of 284
Found at i:47659548 original size:72 final size:72
Alignment explanation
Indices: 47659431--47659573 Score: 259
Period size: 72 Copynumber: 2.0 Consensus size: 72
47659421 AGATCCGAGA
*
47659431 TTCACCTCACGATTTTGGAAGAAATTGCAAGAAGCTCTGGGTACCAAGCTGCATTTTAGCACTGC
1 TTCACCTCACGATTTTGGAAGAAATTGCAAGAAGCTCTGGGTACCAAGCTGCATTTTAGCACCGC
47659496 TTTTCAC
66 TTTTCAC
* *
47659503 TTCACCTCGCGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGC
1 TTCACCTCACGATTTTGGAAGAAATTGCAAGAAGCTCTGGGTACCAAGCTGCATTTTAGCACCGC
47659568 TTTTCA
66 TTTTCA
47659574 TCCACAAACC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (72 bp):
TTCACCTCACGATTTTGGAAGAAATTGCAAGAAGCTCTGGGTACCAAGCTGCATTTTAGCACCGC
TTTTCAC
Found at i:47663089 original size:40 final size:40
Alignment explanation
Indices: 47663033--47663118 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
47663023 ATAATTCAAT
*
47663033 ACCAATCATGAGTCACAATTATTATCTACTTAAGACATTA
1 ACCAATCATGAATCACAATTATTATCTACTTAAGACATTA
47663073 ACCAATCATGAATCACAATTATTATCTACTTAAGACATTA
1 ACCAATCATGAATCACAATTATTATCTACTTAAGACATTA
47663113 ACCAAT
1 ACCAAT
47663119 TTAATTCAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (40 bp):
ACCAATCATGAATCACAATTATTATCTACTTAAGACATTA
Found at i:47667432 original size:48 final size:48
Alignment explanation
Indices: 47667371--47667754 Score: 380
Period size: 48 Copynumber: 8.0 Consensus size: 48
47667361 GAGGGTAAAT
* * * * * *
47667371 TGCCAATGCCATGTCCTAGACATAGTCTTACACTGGCTCACATGTCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * *
47667419 TGCCGATGCCATGTCCCAGACATGGTCTCACACTAGCTCTCATCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
** * *
47667467 TGTTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
47667515 GGCTGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAACTA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
47667563 TACTGATGCCATGTTCCCA-ACATGGTCTTACACTGGATCTCATA--ATG
1 TGCCGATGCCATG-TCCCAGACATGGTCTTACACTAGCTCACATATCA-A
* * *
47667610 TGGCTGATGTCATGTCCCAGACATGGTCTTACACTAGCACACATATCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * *
47667659 CGTCAATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * *
47667707 TGTCAATGCCATGTCCCAGACATGGTCTTACACTCA-CACACATATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCACATATCAA
47667755 CCAAATGTGC
Statistics
Matches: 286, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
47 6 0.02
48 274 0.96
49 5 0.02
50 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
Found at i:47667540 original size:96 final size:96
Alignment explanation
Indices: 47667376--47667740 Score: 421
Period size: 96 Copynumber: 3.8 Consensus size: 96
47667366 TAAATTGCCA
* * * * * *
47667376 ATGCCATGTCCTAGACATAGTCTTACACTGGCTCACATGTCGATGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTCCCAGACA
* *
47667441 TGGTCTCACACTAGCTCTCATCTCAATGTTG
66 TGGTCTTACACTAGCTCTCATATCAATGTTG
* *
47667472 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATGTCGAGGCTGATGCCATGTTCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTCCCAGACA
* * **
47667537 TGGTCTTACACTAGCTCTCATAACTATACTG
66 TGGTCTTACACTAGCTCTCATATCAATGTTG
* * * * *
47667568 ATGCCATGTTCCCA-ACATGGTCTTACACTGGATCTCATAAT-GTGGCTGATGTCATGTCCCAGA
1 ATGCCATG-TCCCAGACATGGTCTTACACTAGCTCACAT-ATCGAGGCTGATGCCATGTCCCAGA
* * * **
47667631 CATGGTCTTACACTAGCACACATATCAACGTCA
64 CATGGTCTTACACTAGCTCTCATATCAATGTTG
* * * * *
47667664 ATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAATG-TCAATGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCT-GATGCCATGTCCCAGAC
47667728 ATGGTCTTACACT
65 ATGGTCTTACACT
47667741 CACACACATA
Statistics
Matches: 226, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
95 7 0.03
96 213 0.94
97 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCATATCAATGTTG
Found at i:47667636 original size:144 final size:142
Alignment explanation
Indices: 47667374--47667740 Score: 429
Period size: 144 Copynumber: 2.5 Consensus size: 142
47667364 GGTAAATTGC
* * * * *
47667374 CAATGCCATGTCCTAGACATAGTCTTACACTGGCTCACATGTCGATGCCGATGCCATGTCCCAGA
1 CAATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCAAT-CTGATGCCATGTCCCAGA
* *
47667439 CATGGTCTCACACTAGCTCTCATCTCAATGTTGATGCCATGTCCCAGACATGGTCTTACACTAGC
65 CATGGTCTTACACTAGATCTCA-CTCAATGTTGATGCCATGTCCCAGACATGGTCTTACACTAGC
* * * *
47667504 TCACATGTCGA-GG
129 ACACATATCAACGT
* * * *
47667517 CTGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCTCATAACTATACTGATGCCATGTTCCC
1 C-AATGCCATG-TCCTAGACATGGTCTTACACTAGCTCACATATCAAT-CTGATGCCATG-TCCC
* *
47667581 A-ACATGGTCTTACACTGGATCTCA-T-AATGTGGCTGATGTCATGTCCCAGACATGGTCTTACA
62 AGACATGGTCTTACACTAGATCTCACTCAATGT---TGATGCCATGTCCCAGACATGGTCTTACA
47667643 CTAGCACACATATCAACGT
124 CTAGCACACATATCAACGT
* * *
47667662 CAATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCAATGTCAATGCCATGTCCCAGA
1 CAATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCAATCT-GATGCCATGTCCCAGA
47667727 CATGGTCTTACACT
65 CATGGTCTTACACT
47667741 CACACACATA
Statistics
Matches: 190, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
141 5 0.03
142 1 0.01
143 10 0.05
144 164 0.86
145 10 0.05
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (142 bp):
CAATGCCATGTCCTAGACATGGTCTTACACTAGCTCACATATCAATCTGATGCCATGTCCCAGAC
ATGGTCTTACACTAGATCTCACTCAATGTTGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
ACATATCAACGT
Found at i:47673093 original size:23 final size:23
Alignment explanation
Indices: 47673067--47673112 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
47673057 CACACAGAGT
47673067 AAGCTAACTTAGCTTAGTAAGCC
1 AAGCTAACTTAGCTTAGTAAGCC
47673090 AAGCTAACTTAGCTTAGTAAGCC
1 AAGCTAACTTAGCTTAGTAAGCC
47673113 TTAAGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (23 bp):
AAGCTAACTTAGCTTAGTAAGCC
Found at i:47674330 original size:15 final size:15
Alignment explanation
Indices: 47674307--47674336 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47674297 ATAAATATTC
47674307 TAATACAAAACATAT
1 TAATACAAAACATAT
*
47674322 TAATCCAAAACATAT
1 TAATACAAAACATAT
47674337 CTTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:47678291 original size:23 final size:23
Alignment explanation
Indices: 47678260--47678654 Score: 200
Period size: 23 Copynumber: 17.2 Consensus size: 23
47678250 CACTGTAATA
* *
47678260 TAGCTGAAGCCACCACGGAGATG
1 TAGCCGAAGCTACCACGGAGATG
* *
47678283 TAGCCGAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCAC-GGAGATG
**
47678306 TAGCCGAAGCTACCACTAAGATG
1 TAGCCGAAGCTACCACGGAGATG
* * *
47678329 TAGCCAAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCAC-GGAGATG
* *
47678352 TAGCCGAAGCTACCACTGAGAGG
1 TAGCCGAAGCTACCACGGAGATG
* * * *
47678375 TAGTCGAAGCTACCAC-TATATTT
1 TAGCCGAAGCTACCACGGAGA-TG
** * *
47678398 TAGCTAAAGCTACCAC-TATATTG
1 TAGCCGAAGCTACCACGGAGA-TG
* *
47678421 TAGCCGAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCAC-GGAGATG
* *
47678444 TAGCCGAAGCTACCACTGAGAGG
1 TAGCCGAAGCTACCACGGAGATG
* * * *
47678467 TAGTCGAAGCTACCAC-TATATTT
1 TAGCCGAAGCTACCACGGAGA-TG
** * *
47678490 TAGCTAAAGCTACCAC-TATATTG
1 TAGCCGAAGCTACCACGGAGA-TG
* *
47678513 TAGCCGAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCAC-GGAGATG
* *
47678536 TAGCCGAAGCTACCACTGAGAGG
1 TAGCCGAAGCTACCACGGAGATG
* * * *
47678559 TAGTCGAAGCTACCAC-TATATTT
1 TAGCCGAAGCTACCACGGAGA-TG
** * *
47678582 TAGCTAAAGCTACCAC-TATATTG
1 TAGCCGAAGCTACCACGGAGA-TG
* *
47678605 TAGCCGAAGCTACCACTGTA-TTG
1 TAGCCGAAGCTACCAC-GGAGATG
*
47678628 TAGCCGAAGCTACCACTGAGATG
1 TAGCCGAAGCTACCACGGAGATG
47678651 TAGC
1 TAGC
47678655 TGATAGATTC
Statistics
Matches: 293, Mismatches: 63, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
22 11 0.04
23 273 0.93
24 3 0.01
25 6 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
TAGCCGAAGCTACCACGGAGATG
Found at i:47678321 original size:46 final size:46
Alignment explanation
Indices: 47678250--47678654 Score: 510
Period size: 46 Copynumber: 8.8 Consensus size: 46
47678240 CAAAGTGCCA
* * * * *
47678250 CACTGTAATATAGCTGAAGCCACCACGGAGATGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
* *
47678296 CACTGTATTGTAGCCGAAGCTACCACTAAGATGTAGCCAAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
* *
47678342 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
* * ** *
47678388 CACTATATTTTAGCTAAAGCTACCACT-ATATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGA-TGTAGCCGAAGCTAC
* *
47678434 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
* * ** *
47678480 CACTATATTTTAGCTAAAGCTACCACT-ATATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGA-TGTAGCCGAAGCTAC
* *
47678526 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
* * ** *
47678572 CACTATATTTTAGCTAAAGCTACCACT-ATATTGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGA-TGTAGCCGAAGCTAC
47678618 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGC
47678655 TGATAGATTC
Statistics
Matches: 302, Mismatches: 51, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
45 6 0.02
46 290 0.96
47 6 0.02
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (46 bp):
CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
Found at i:47678408 original size:92 final size:92
Alignment explanation
Indices: 47678250--47678653 Score: 666
Period size: 92 Copynumber: 4.4 Consensus size: 92
47678240 CAAAGTGCCA
* * * * * * * * * **
47678250 CACTGTAATATAGCTGAAGCCACCACGGAGATGTAGCCGAAGCTACCACTGTATTGTAGCCGAAG
1 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTATATTTTAGCTAAAG
* *
47678315 CTACCACTA-AGATGTAGCCAAAGCTAC
66 CTACCACTATA-TTGTAGCCGAAGCTAC
47678342 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTATATTTTAGCTAAAG
1 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTATATTTTAGCTAAAG
47678407 CTACCACTATATTGTAGCCGAAGCTAC
66 CTACCACTATATTGTAGCCGAAGCTAC
47678434 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTATATTTTAGCTAAAG
1 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTATATTTTAGCTAAAG
47678499 CTACCACTATATTGTAGCCGAAGCTAC
66 CTACCACTATATTGTAGCCGAAGCTAC
47678526 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTATATTTTAGCTAAAG
1 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTATATTTTAGCTAAAG
47678591 CTACCACTATATTGTAGCCGAAGCTAC
66 CTACCACTATATTGTAGCCGAAGCTAC
*
47678618 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAG
1 CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAG
47678654 CTGATAGATT
Statistics
Matches: 297, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 296 1.00
93 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (92 bp):
CACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTATATTTTAGCTAAAG
CTACCACTATATTGTAGCCGAAGCTAC
Found at i:47682720 original size:28 final size:28
Alignment explanation
Indices: 47682684--47682790 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
47682674 GTAATCAAAT
*
47682684 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
47682712 ATGGCACTTAGTGTATGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
47682740 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
47682768 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
47682791 CGAATGATTC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:47684972 original size:92 final size:92
Alignment explanation
Indices: 47684800--47685861 Score: 1957
Period size: 92 Copynumber: 11.5 Consensus size: 92
47684790 CGAGCATGAG
* * * ** * * *
47684800 GTAGTCGAAGCTACCACTATATTTTAGCTAAAGCTACCACT-ATATTGTAGCCGAAGCTACCACT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGA-GGTAGTCGAAGCTACCACT
* * ** *
47684864 GTATTGTAGCCGAAGCTACCACTA-AGAT
65 ATATTTTAGCTAAAGCTACCACTATA-TT
*
47684892 GTAGCCAAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47684957 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
47684984 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47685049 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
47685076 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47685141 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
47685168 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47685233 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
47685260 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47685325 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
47685352 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47685417 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
47685444 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47685509 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
47685536 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47685601 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
47685628 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47685693 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
47685720 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
47685785 TATTTTAGCTAAAGCTACCACTATATT
66 TATTTTAGCTAAAGCTACCACTATATT
*
47685812 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGATGTAG
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAG
47685862 CTGATAGATT
Statistics
Matches: 952, Mismatches: 16, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
92 949 1.00
93 3 0.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (92 bp):
GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAGGTAGTCGAAGCTACCACTA
TATTTTAGCTAAAGCTACCACTATATT
Found at i:47695330 original size:48 final size:46
Alignment explanation
Indices: 47695253--47695473 Score: 212
Period size: 48 Copynumber: 4.6 Consensus size: 46
47695243 GGGTAAATTA
* *
47695253 CCGATGCCATGTTCTAGACATGGTCTTACACTGGCTCACAAGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAA-T-GAGG
* * * * *
47695301 TCGATGCCATGTCCCAGACATGGTTTTACACTAGATCTCATAACT-ATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCACAA-TGAGG
* *
47695349 CCTATGCCATGTTCCCA-ACATGGTCTTACACTGGATCTCATAATGAGG
1 CCGATGCCATG-TCCCAGACATGGTCTTACACTGG--CTCACAATGAGG
* * * *
47695397 CCGATGTCATGTCCCAGACATGGTCTTACATTGGCTCTCACACTGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCACAATGAGG
*
47695445 CCAATGCCATGTCCCAGACATGGTCTTAC
1 CCGATGCCATGTCCCAGACATGGTCTTAC
47695474 CCTAGCACAT
Statistics
Matches: 144, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
47 7 0.05
48 124 0.86
49 6 0.04
50 7 0.05
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAATGAGG
Found at i:47695420 original size:96 final size:97
Alignment explanation
Indices: 47695256--47695473 Score: 268
Period size: 96 Copynumber: 2.3 Consensus size: 97
47695246 TAAATTACCG
* *
47695256 ATGCCATGTT-CTAGACATGGTCTTACACTGGCTCACAAGTCGAGGTCGATGCCATGTCCCAGAC
1 ATGCCATGTTCCCAGACATGGTCTTACACTGGCTCACAAGTCGAGGCCGATGCCATGTCCCAGAC
* *
47695320 ATGGTTTTACACTAGATCTCATAACTAT-GCCT
66 ATGGTCTTACACTAGATCTCA-AACTATGGCCA
* *
47695352 ATGCCATGTTCCCA-ACATGGTCTTACACTGGATCTCATAA-T-GAGGCCGATGTCATGTCCCAG
1 ATGCCATGTTCCCAGACATGGTCTTACACTGG--CTCACAAGTCGAGGCCGATGCCATGTCCCAG
* * * * *
47695414 ACATGGTCTTACATTGGCTCTCACACTGTGGCCA
64 ACATGGTCTTACACTAGATCTCAAACTATGGCCA
47695448 ATGCCATG-TCCCAGACATGGTCTTAC
1 ATGCCATGTTCCCAGACATGGTCTTAC
47695474 CCTAGCACAT
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
95 9 0.08
96 88 0.83
97 3 0.03
98 6 0.06
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (97 bp):
ATGCCATGTTCCCAGACATGGTCTTACACTGGCTCACAAGTCGAGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGATCTCAAACTATGGCCA
Found at i:47706944 original size:44 final size:43
Alignment explanation
Indices: 47706830--47706951 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
47706820 ATCGAGATGT
* *
47706830 GATTACATGTAAGACCATGTCTGGGACATTGACATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* *
47706873 GATTACGTGTAAGACCATGGCTAGGACATTGGCATTGTATT-A
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * *
47706915 TGATTTTCGTGTAAGACCTTGTCTGGGACAGTGGCAT
1 -GA-TTACGTGTAAGACCATGTCTGGGACATTGGCAT
47706952 CGATATGTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 1 0.01
43 39 0.57
44 28 0.41
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:47713922 original size:12 final size:12
Alignment explanation
Indices: 47713905--47713936 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
47713895 CGTGCACTTG
*
47713905 GACATAAAAATA
1 GACATAAAAACA
47713917 GACATAAAAACA
1 GACATAAAAACA
47713929 GACATAAA
1 GACATAAA
47713937 TCAAAGGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.66, C:0.12, G:0.09, T:0.12
Consensus pattern (12 bp):
GACATAAAAACA
Found at i:47714067 original size:12 final size:12
Alignment explanation
Indices: 47714050--47714080 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47714040 CATCAAACGG
*
47714050 AAGAAACGAAAT
1 AAGAAACGAAAC
47714062 AAGAAACGAAAC
1 AAGAAACGAAAC
47714074 AAGAAAC
1 AAGAAAC
47714081 ACTTCTCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.13, G:0.16, T:0.03
Consensus pattern (12 bp):
AAGAAACGAAAC
Found at i:47714804 original size:26 final size:27
Alignment explanation
Indices: 47714755--47714808 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
47714745 AAAATAATTT
*
47714755 CCATGTTGTTCATTTCAACTTTTTTTC
1 CCATATTGTTCATTTCAACTTTTTTTC
47714782 CCATATTGTTCATTTCAACTTTTTTTC
1 CCATATTGTTCATTTCAACTTTTTTTC
47714809 TTATGCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.22, G:0.06, T:0.56
Consensus pattern (27 bp):
CCATATTGTTCATTTCAACTTTTTTTC
Found at i:47717109 original size:43 final size:43
Alignment explanation
Indices: 47716959--47717110 Score: 114
Period size: 43 Copynumber: 3.5 Consensus size: 43
47716949 TTTCGTTGAT
* * * *
47716959 GACCACATCTGGGACGTTGGCATCGAT-TTGAGATTTACGTGTAA
1 GACCACGTCTGGGACATTGGCATCGATATT-TGA-TTACATGTAA
* * * ** * * *
47717003 GACCATGTCTCGGACATCGATATTG-TATCTGATTTCATGTAA
1 GACCACGTCTGGGACATTGGCATCGATATTTGATTACATGTAA
*
47717045 GATCCTA--TCTGGGACAATGGCATCGATATTTGATTACATGTAA
1 GA-CC-ACGTCTGGGACATTGGCATCGATATTTGATTACATGTAA
*
47717088 GACCACGTCTGGGACGTTGGCAT
1 GACCACGTCTGGGACATTGGCAT
47717111 TGTACAAGCT
Statistics
Matches: 80, Mismatches: 22, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
41 1 0.01
42 24 0.30
43 36 0.45
44 19 0.24
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
GACCACGTCTGGGACATTGGCATCGATATTTGATTACATGTAA
Found at i:47717548 original size:29 final size:29
Alignment explanation
Indices: 47717506--47717565 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
47717496 AAGCTCGGGG
47717506 ATCGTTGAGGATCATTACCACACTATCAA
1 ATCGTTGAGGATCATTACCACACTATCAA
*
47717535 ATCGTTGATGATCATTACCACACTATCAA
1 ATCGTTGAGGATCATTACCACACTATCAA
47717564 AT
1 AT
47717566 ATTATTTTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (29 bp):
ATCGTTGAGGATCATTACCACACTATCAA
Found at i:47718039 original size:17 final size:18
Alignment explanation
Indices: 47718001--47718039 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
47717991 TGGGCACAGG
*
47718001 GACACGCCCGTTTGACCCA
1 GACACGCCCGTGTGA-CCA
47718020 GACACGCCCGTGTG-CCA
1 GACACGCCCGTGTGACCA
47718037 GAC
1 GAC
47718040 CATGTAGCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.21, C:0.41, G:0.26, T:0.13
Consensus pattern (18 bp):
GACACGCCCGTGTGACCA
Found at i:47719406 original size:90 final size:90
Alignment explanation
Indices: 47719244--47719411 Score: 203
Period size: 90 Copynumber: 1.9 Consensus size: 90
47719234 AAATGCCAAA
* * * * * *
47719244 GCCATGTTCCTGACATGGTCTTACATAGGTCTACATATCGATGCCATATCCCAGATATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTACACAGGCCTACACATCGATGCCATATCCCAGACATGGTCTTA
***
47719309 TGTGAAGTCTCATTTCGGTGCCGAT
66 CACGAAGTCTCATTTCGGTGCCGAT
* * * *
47719334 GCCATGTCCCAGACATGGTCTTACACGGGACCT-CACATCTATGCCATGTCCTAGACATGGTCTT
1 GCCATGTCCCAGACATGGTCTTACACAGG-CCTACACATCGATGCCATATCCCAGACATGGTCTT
47719398 ACACGAAGTCTCAT
65 ACACGAAGTCTCAT
47719412 ATCAACGCCA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
90 62 0.97
91 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (90 bp):
GCCATGTCCCAGACATGGTCTTACACAGGCCTACACATCGATGCCATATCCCAGACATGGTCTTA
CACGAAGTCTCATTTCGGTGCCGAT
Found at i:47719422 original size:42 final size:42
Alignment explanation
Indices: 47719334--47719441 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 42
47719324 CGGTGCCGAT
* * *
47719334 GCCATGTCCCAGACATGGTCTTACACGGGACCTCACATCTAT
1 GCCATGTCCCAGACATGGTCTTACACGAGACCTCACATCAAC
* * *
47719376 GCCATGTCCTAGACATGGTCTTACACGA-AGTCTCATATCAAC
1 GCCATGTCCCAGACATGGTCTTACACGAGA-CCTCACATCAAC
* **
47719418 GCCATATCCCAGATGTGGTCTTAC
1 GCCATGTCCCAGACATGGTCTTAC
47719442 GTGAAATCAC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 54 0.98
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTACACGAGACCTCACATCAAC
Found at i:47719463 original size:132 final size:137
Alignment explanation
Indices: 47719244--47719539 Score: 347
Period size: 132 Copynumber: 2.2 Consensus size: 137
47719234 AAATGCCAAA
* * * *
47719244 GCCATGTTCCT-GACATGGTCTTACA-TAGGTCTACATATCGATGCCATATCCCAGATATGGTCT
1 GCCATG-TCCTAGACATGGTCTTACACGAAGTCTACATATCAACGCCATATCCCAGATATGGTCT
* * * * * *
47719307 TATGTGAAGTCTCATTTCGGTGCCGATGCCATGTCCCAGACATGGTCTTACACGGGACCTC-A-C
65 TACGTGAAATCACATCTCGATGCCGATGCCATATCCCAGACATGGTCTTACACGGGACCTCAACC
*
47719370 -AT-CTAT
130 AATCCGAT
*
47719376 GCCATGTCCTAGACATGGTCTTACACGAAGTCT-CATATCAACGCCATATCCCAGATGTGGTCTT
1 GCCATGTCCTAGACATGGTCTTACACGAAGTCTACATATCAACGCCATATCCCAGATATGGTCTT
** * *
47719440 ACGTGAAATCACATACT-GATGCCGATGCCATATCCCAGTTATGGTCTTACACTGGCCCTCATAC
66 ACGTGAAATCACAT-CTCGATGCCGATGCCATATCCCAGACATGGTCTTACACGGGACCTCA-AC
47719504 CAATGCCGAT
129 CAAT-CCGAT
*
47719514 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATGTCCTAGACATGGTCTTACAC
47719540 TGGCTCTCAT
Statistics
Matches: 138, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
131 4 0.03
132 96 0.70
133 6 0.04
134 1 0.01
135 1 0.01
136 2 0.01
138 28 0.20
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (137 bp):
GCCATGTCCTAGACATGGTCTTACACGAAGTCTACATATCAACGCCATATCCCAGATATGGTCTT
ACGTGAAATCACATCTCGATGCCGATGCCATATCCCAGACATGGTCTTACACGGGACCTCAACCA
ATCCGAT
Found at i:47719503 original size:48 final size:48
Alignment explanation
Indices: 47719457--47719637 Score: 220
Period size: 49 Copynumber: 3.7 Consensus size: 48
47719447 ATCACATACT
* ** * *
47719457 GATGCCGATGCCATATCCCAGTTATGGTCTTACACTGGCCCTCATAC-C
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-CTG
*
47719505 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCG
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT-G
* * * *
47719554 GATGCTGATGCCATGTACCAAACATGGTCCTACACTGGCTCTCATCTAG
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCT-G
* *
47719603 GATACCGATGCCATGTCCTAGACATGGTCTTACAC
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACAC
47719638 GAGATCTCAT
Statistics
Matches: 113, Mismatches: 18, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
47 1 0.01
48 40 0.35
49 72 0.64
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTG
Found at i:47728485 original size:19 final size:18
Alignment explanation
Indices: 47728444--47728478 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47728434 TTCTTGTCGA
* *
47728444 AAAATAATTAATTTTTAT
1 AAAATAATTAAATTGTAT
47728462 AAAATAATTAAATTGTA
1 AAAATAATTAAATTGTA
47728479 CTTAAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAAATAATTAAATTGTAT
Found at i:47731072 original size:6 final size:6
Alignment explanation
Indices: 47731061--47731241 Score: 158
Period size: 6 Copynumber: 29.8 Consensus size: 6
47731051 AACCAAAATG
* * *
47731061 AGAATC AGAATC AGAATC AGTAA-C AGAATT AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* * *
47731109 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AAAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
47731158 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
47731206 AGAATC AGAATT AGGTGAT- AGAATC AGAATC AGAAT
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
47731242 GTGAATGCAA
Statistics
Matches: 142, Mismatches: 19, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
5 11 0.08
6 119 0.84
7 9 0.06
8 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:47731076 original size:30 final size:30
Alignment explanation
Indices: 47731040--47731216 Score: 170
Period size: 30 Copynumber: 6.1 Consensus size: 30
47731030 AAGAAACATT
*
47731040 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAAAATCAGAATCAGA
* * * *
47731070 ATCAGAATCAGTAACAGAATTAGAATCAGA
1 ATCAGAATTAGGAACAAAATCAGAATCAGA
* * *
47731100 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAAAATCAGAATCAGA
*
47731130 ATCAGAATTAGGTGACAAAATCAGAATCAGA
1 ATCAGAATTAGG-AACAAAATCAGAATCAGA
*
47731161 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAAAATCAGAATCAGA
* * *
47731185 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAAAATCAGAATCAGA
47731215 AT
1 AT
47731217 TAGGTGATAG
Statistics
Matches: 126, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
24 21 0.17
27 1 0.01
28 1 0.01
30 79 0.63
31 24 0.19
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAAAATCAGAATCAGA
Found at i:47731171 original size:55 final size:54
Alignment explanation
Indices: 47731061--47731241 Score: 222
Period size: 55 Copynumber: 3.3 Consensus size: 54
47731051 AACCAAAATG
* * * *
47731061 AGAATCAGAATCAGAATCAGTAA-CAG-AATTAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAG-AATTAGTAA-CAAAATCAGAATCAGAATTAGTAAC
* *
47731115 AGAATCAGAATCAGAATCAGAATTAGGTGACAAAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGAATTA-GTAACAAAATCAGAATCAGAATTAGTAAC
* * * *
47731170 AGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATTAGGTGAT
1 AGAATCAGAATCAGAATCAGAATTAGTAACAAAATCAGAATCAGAATTA-GTAAC
47731225 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
47731242 GTGAATGCAA
Statistics
Matches: 111, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
53 2 0.02
54 42 0.38
55 66 0.59
56 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (54 bp):
AGAATCAGAATCAGAATCAGAATTAGTAACAAAATCAGAATCAGAATTAGTAAC
Found at i:47731241 original size:85 final size:84
Alignment explanation
Indices: 47731061--47731216 Score: 276
Period size: 85 Copynumber: 1.8 Consensus size: 84
47731051 AACCAAAATG
*
47731061 AGAATCAGAATCAGAATCAGTAACAGAATTAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
*
47731126 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGAT-AC
*
47731146 AAAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
47731211 CAGAAT
66 CAGAAT
47731217 TAGGTGATAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (84 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGATAC
Found at i:47731407 original size:27 final size:28
Alignment explanation
Indices: 47731364--47731440 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
47731354 GGCTGCCAGA
* * *
47731364 ACAGATATCGTGACAGAGTCACCA-AAT
1 ACAGATATTGTGGCAGAGCCACCAGAAT
47731391 ACAGATATTGTGGCAGAGCCACCAGAAT
1 ACAGATATTGTGGCAGAGCCACCAGAAT
* *
47731419 -CAGATAATGTGGCAAAGCCACC
1 ACAGATATTGTGGCAGAGCCACC
47731441 TAACAGAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 41 0.93
28 3 0.07
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (28 bp):
ACAGATATTGTGGCAGAGCCACCAGAAT
Found at i:47731782 original size:27 final size:26
Alignment explanation
Indices: 47731743--47731825 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
47731733 TCGATCGGTC
* * *
47731743 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
47731769 ATACAGATATTGTGGCAAAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
47731796 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
47731823 AAC
1 AAC
47731826 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:47732054 original size:27 final size:27
Alignment explanation
Indices: 47732024--47732211 Score: 214
Period size: 27 Copynumber: 7.0 Consensus size: 27
47732014 GGGGCAAAAT
* * * *
47732024 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47732051 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47732078 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
47732105 GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47732132 GATAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
47732159 AGTAATTCAACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47732186 AGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAAGGGTATTT
47732212 TAGTAATTTC
Statistics
Matches: 139, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47733244 original size:54 final size:54
Alignment explanation
Indices: 47732224--47733241 Score: 1853
Period size: 54 Copynumber: 18.9 Consensus size: 54
47732214 GTAATTTCAC
* * * * **
47732224 AATTGAGGGTAAAA-TAGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTA
1 AATTGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
** * * *
47732278 AACCGAGGGT-AAACCAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACA
1 AATTGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
* * *
47732332 AATCGAGGGTAAAA-TAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTAAA
1 AATTGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732386 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732440 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732494 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732548 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732602 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732656 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732710 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732764 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732818 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732872 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732926 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47732980 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47733034 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47733088 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
*
47733142 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTTTAAA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
47733196 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTA
1 AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTA
47733242 ATTGTGTAAA
Statistics
Matches: 947, Mismatches: 14, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
53 3 0.00
54 940 0.99
55 4 0.00
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (54 bp):
AATTGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTACTTTTAAA
Found at i:47735187 original size:63 final size:64
Alignment explanation
Indices: 47735079--47735214 Score: 177
Period size: 63 Copynumber: 2.1 Consensus size: 64
47735069 GATACCAAGT
* * *
47735079 AAGACCATGACAAGGCATGGAATTGGTAAGTTTTACAAGGCAAGGAAATCATGTAAGACCATGTC
1 AAGA-CATGACAAGGCATGGAATTGGTAAGTTTCACAAGGCAAGGAAACCACGTAAGACCATGTC
* * * *
47735144 AAGACATGCCAAGGCATGGCAA-TGGTGAG-TTCATAAGGCAAGGATACCACGTAAGACCATGTC
1 AAGACATGACAAGGCATGG-AATTGGTAAGTTTCACAAGGCAAGGAAACCACGTAAGACCATGTC
47735207 AAGACATG
1 AAGACATG
47735215 GCAATGGTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
63 37 0.59
64 20 0.32
65 6 0.10
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.19
Consensus pattern (64 bp):
AAGACATGACAAGGCATGGAATTGGTAAGTTTCACAAGGCAAGGAAACCACGTAAGACCATGTC
Found at i:47743671 original size:45 final size:45
Alignment explanation
Indices: 47743609--47743834 Score: 292
Period size: 45 Copynumber: 5.0 Consensus size: 45
47743599 TAGGATTCCG
** *
47743609 ATATGTGATTTTTTGTAAGACCACGTATGGGATGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
* * *
47743654 ATATGTGATTTCGTGTAAGACCACATCTGAGAGGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
* * *
47743699 ATATGTGATTTCGTGTAAGACCACGTCTAGGACGTTGGCATTGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
* * *
47743744 ATATATGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATTGAA
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
* * * * *
47743789 AAATGTGGTTACATGTAAGACCATGTCTGGGATGTTGGCATC-AT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
47743833 AT
1 AT
47743835 TCAATTCGTG
Statistics
Matches: 157, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 2 0.01
45 155 0.99
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
Found at i:47753019 original size:40 final size:40
Alignment explanation
Indices: 47752965--47753148 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
47752955 CTCACACAAG
* * *
47752965 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
47753005 GCCTTCAGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* ** *
47753045 GCCTTCGGGTCTTAGCCCGGATATAACCACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
47753085 GCCTTC-GGATCTTAGTCCGAATATAGTCACTAGCATAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCACAAAT
47753125 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
47753149 CATTCGAATA
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 116 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:47753834 original size:76 final size:76
Alignment explanation
Indices: 47753708--47753858 Score: 268
Period size: 76 Copynumber: 2.0 Consensus size: 76
47753698 CATTTCCTCA
47753708 TGTGCACCTTCATGACCAGATACACACATCATTAACCTAATATCAATTAACTAAGCACTTTAACA
1 TGTGCACCTTCATGACCAGATACACACATCATTAACCTAATATCAATTAACTAAGCACTTTAACA
47753773 AATTCTCCTTT
66 AATTCTCCTTT
* *
47753784 TGTGCACCTTTATGA-CTGAATACACACATCATTAACCTAATATCAATTAACTAAGCACTTTAAC
1 TGTGCACCTTCATGACCAG-ATACACACATCATTAACCTAATATCAATTAACTAAGCACTTTAAC
47753848 AAATTCTCCTT
65 AAATTCTCCTT
47753859 GAGCCGATTA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 2 0.03
76 70 0.97
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (76 bp):
TGTGCACCTTCATGACCAGATACACACATCATTAACCTAATATCAATTAACTAAGCACTTTAACA
AATTCTCCTTT
Found at i:47754739 original size:99 final size:93
Alignment explanation
Indices: 47754565--47754755 Score: 328
Period size: 99 Copynumber: 2.0 Consensus size: 93
47754555 CCCTCCTTCA
47754565 TTTGATTTTTCGGTCAAGAAGAAACAAATGAGAACCTTTTTTTTTCATCATCCTACTAACCATTA
1 TTTGATTTTTCGGTCAAGAAGAAACAAATGAGAACCTTTTTTTTTCATCATCCTACTAACCATTA
47754630 TTATTTTATTGCCCATGCTCCTTATTTC
66 TTATTTTATTGCCCATGCTCCTTATTTC
47754658 TTTGATTTTTCGGTCAAGAAGAAACAAATGAGAACCTTTTATTTTTTTTTTCATCATCCTACTAA
1 TTTGATTTTTCGGTCAAGAAGAAACAAATGAGAACC------TTTTTTTTTCATCATCCTACTAA
47754723 CCATTATTATTTTATTGCCCATGCTCCTTATTT
60 CCATTATTATTTTATTGCCCATGCTCCTTATTT
47754756 TATTTTTCCT
Statistics
Matches: 92, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
93 36 0.39
99 56 0.61
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (93 bp):
TTTGATTTTTCGGTCAAGAAGAAACAAATGAGAACCTTTTTTTTTCATCATCCTACTAACCATTA
TTATTTTATTGCCCATGCTCCTTATTTC
Found at i:47761341 original size:40 final size:40
Alignment explanation
Indices: 47761267--47761477 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 40
47761257 TCTTCGGAAT
** * *
47761267 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
47761305 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
47761345 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCTGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
** * *
47761385 TTAGCCCGGATATAACCACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * * *
47761425 TTAGTCCGAATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
47761465 TTAGCCCGGATAT
1 TTAGCCCGGATAT
47761478 CATTCGAATA
Statistics
Matches: 142, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
38 4 0.03
39 15 0.11
40 123 0.87
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:47766016 original size:45 final size:45
Alignment explanation
Indices: 47765951--47766208 Score: 363
Period size: 45 Copynumber: 5.7 Consensus size: 45
47765941 TAGGATTCCG
*
47765951 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * ** *
47765996 ATATGTGATTTCATGCAAGACCACGTCTGGGATATTGGCATTGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
*
47766041 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * ** *
47766086 ATATGTGATTTCATGCAAGACCACGTCTGGGATATTGGCATTGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
*
47766131 ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * * *
47766176 ATATGTGGTTACGTGTAAGACCATGTATGGGAC
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGAC
47766209 ATCAGAATCA
Statistics
Matches: 186, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 186 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:47766207 original size:90 final size:90
Alignment explanation
Indices: 47765951--47766182 Score: 446
Period size: 90 Copynumber: 2.6 Consensus size: 90
47765941 TAGGATTCCG
47765951 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATATGTGATTTCATGCAAGA
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATATGTGATTTCATGCAAGA
47766016 CCACGTCTGGGATATTGGCATTGAT
66 CCACGTCTGGGATATTGGCATTGAT
47766041 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATATGTGATTTCATGCAAGA
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATATGTGATTTCATGCAAGA
47766106 CCACGTCTGGGATATTGGCATTGAT
66 CCACGTCTGGGATATTGGCATTGAT
* *
47766131 ATATGTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGATATATGTG
1 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATATGTG
47766183 GTTACGTGTA
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 140 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (90 bp):
ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATATATGTGATTTCATGCAAGA
CCACGTCTGGGATATTGGCATTGAT
Found at i:47775883 original size:19 final size:18
Alignment explanation
Indices: 47775842--47775876 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47775832 TTCTTGTTGA
*
47775842 AAAATAATTAATTTTTAT
1 AAAATAATTAAATTTTAT
47775860 AAAATAATTAAATTTTA
1 AAAATAATTAAATTTTA
47775877 CTTAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAAATAATTAAATTTTAT
Found at i:47789308 original size:30 final size:30
Alignment explanation
Indices: 47789246--47789308 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
47789236 TCATTTTACG
* * *
47789246 AGTTTAGGGGCTAAATTGAAAATATGTGAA
1 AGTTTAGGGGCTAAAATGAAAAAATGTAAA
*
47789276 AGTTTAGGGG-TAAAAATGAAAAAATTTAAA
1 AGTTTAGGGGCT-AAAATGAAAAAATGTAAA
47789306 AGT
1 AGT
47789309 ATGCTTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.29
Consensus pattern (30 bp):
AGTTTAGGGGCTAAAATGAAAAAATGTAAA
Found at i:47791288 original size:29 final size:27
Alignment explanation
Indices: 47791270--47791339 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
47791260 ATATTAAGTC
47791270 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
47791297 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
47791325 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
47791340 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:47791333 original size:28 final size:28
Alignment explanation
Indices: 47791270--47791367 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
47791260 ATATTAAGTC
*
47791270 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
47791297 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47791325 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
47791354 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47791368 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47793918 original size:40 final size:40
Alignment explanation
Indices: 47793863--47794210 Score: 597
Period size: 40 Copynumber: 8.7 Consensus size: 40
47793853 GAGCATTGGA
47793863 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
47793903 ATATATCTGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
47793943 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
47793983 ATATATCTGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
47794023 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
47794063 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
47794103 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
47794143 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
47794183 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
47794211 ATGTGTTTGC
Statistics
Matches: 289, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 289 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:47795809 original size:64 final size:64
Alignment explanation
Indices: 47795628--47795811 Score: 185
Period size: 64 Copynumber: 2.8 Consensus size: 64
47795618 ATATAGTTCG
* * * * *
47795628 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATCCCGT
47795690 A
64 A
* * * * * *
47795691 ACTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCCCG
47795756 TA
63 TA
* *
47795758 GCTCTCTTGTCTACATGCTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT
47795812 CATAATGTCT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 28 0.29
66 22 0.23
67 27 0.28
68 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:47801449 original size:38 final size:38
Alignment explanation
Indices: 47801393--47801472 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
47801383 GATGTGTATT
* * *
47801393 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
47801431 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
47801469 CGGG
1 CGGG
47801473 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:47801519 original size:43 final size:43
Alignment explanation
Indices: 47801444--47801675 Score: 315
Period size: 43 Copynumber: 5.4 Consensus size: 43
47801434 GATAAATCCC
* * *
47801444 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
47801485 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
47801528 GTAGGCTTAGTGTCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * * * *
47801571 GCAGGCTTCGTGCTGATGATGTGCATTCAGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
47801614 GCGGGCTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
47801657 GCAGGCGTAATGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
47801676 AATGATATGT
Statistics
Matches: 167, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 15 0.09
42 2 0.01
43 150 0.90
ACGTcount: A:0.13, C:0.23, G:0.34, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:47813081 original size:42 final size:43
Alignment explanation
Indices: 47813022--47813191 Score: 290
Period size: 42 Copynumber: 4.0 Consensus size: 43
47813012 NNNNNNNNCA
*
47813022 TTTGTGGGAAAAGCGCCGCTATAGGTCAAGGC-TTTAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
*
47813064 TTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCA
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
*
47813107 TTTGTGGGAAAAGCGCCGCTATAGGTCAAGGC-TTTAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
*
47813149 TTTGTGGGAAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
47813192 CTTTTTTTAC
Statistics
Matches: 120, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
42 70 0.58
43 50 0.42
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (43 bp):
TTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
Found at i:47813212 original size:85 final size:85
Alignment explanation
Indices: 47813020--47813190 Score: 333
Period size: 85 Copynumber: 2.0 Consensus size: 85
47813010 NNNNNNNNNN
47813020 CATTTGTGGGAAAAGCGCCGCTATAGGTCAAGGCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
1 CATTTGTGGGAAAAGCGCCGCTATAGGTCAAGGCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
*
47813085 AAGGTCAAGGCTTTTAGCGG
66 AACGTCAAGGCTTTTAGCGG
47813105 CATTTGTGGGAAAAGCGCCGCTATAGGTCAAGGCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
1 CATTTGTGGGAAAAGCGCCGCTATAGGTCAAGGCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
47813170 AACGTCAAGGCTTTTAGCGG
66 AACGTCAAGGCTTTTAGCGG
47813190 C
1 C
47813191 GCTTTTTTTA
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.23
Consensus pattern (85 bp):
CATTTGTGGGAAAAGCGCCGCTATAGGTCAAGGCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTA
AACGTCAAGGCTTTTAGCGG
Found at i:47813302 original size:31 final size:31
Alignment explanation
Indices: 47813267--47813347 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
47813257 CTTCCTGCAT
* *
47813267 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
47813298 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
47813329 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
47813348 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:47813638 original size:21 final size:20
Alignment explanation
Indices: 47813581--47813638 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
47813571 TCTGCTACCA
*
47813581 TCGCTCGTGCCTCTGCCTCTC
1 TCGCT-GTGCCTCTGCCTCCC
* *
47813602 TCGCTGTATCCGCTGCCTCCC
1 TCGCTGT-GCCTCTGCCTCCC
*
47813623 TCTCTGCTGCCTCTGC
1 TCGCTG-TGCCTCTGC
47813639 TCTAAGTTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.02, C:0.47, G:0.19, T:0.33
Consensus pattern (20 bp):
TCGCTGTGCCTCTGCCTCCC
Found at i:47819300 original size:9 final size:9
Alignment explanation
Indices: 47819286--47819511 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
47819276 TATTTAAGTA
47819286 TTATGTAAG
1 TTATGTAAG
*
47819295 TTATGTAAT
1 TTATGTAAG
*
47819304 TTATGATATG
1 TTATG-TAAG
* * *
47819314 ATATAT-AT
1 TTATGTAAG
*
47819322 TTATGTAAA
1 TTATGTAAG
* *
47819331 TTATAT-AT
1 TTATGTAAG
*
47819339 TTATCTAAG
1 TTATGTAAG
*
47819348 TTATATAAG
1 TTATGTAAG
47819357 TTATGTAAG
1 TTATGTAAG
*
47819366 TTATGTAAA
1 TTATGTAAG
*
47819375 TTATGATATAAAA
1 TTATG---T-AAG
*
47819388 TATATTTAAG
1 T-TATGTAAG
47819398 TATTATGTAAG
1 --TTATGTAAG
47819409 TTATGTAAG
1 TTATGTAAG
* *
47819418 TTATAT-AT
1 TTATGTAAG
*
47819426 TTATCTAAG
1 TTATGTAAG
*
47819435 TTATATAAG
1 TTATGTAAG
*
47819444 TTATATAAG
1 TTATGTAAG
*
47819453 TTATGTAGG
1 TTATGTAAG
*
47819462 TTATATAAG
1 TTATGTAAG
47819471 TTATGTAAG
1 TTATGTAAG
* *
47819480 TTATATATG
1 TTATGTAAG
*
47819489 TTATATAAG
1 TTATGTAAG
*
47819498 TTATGTAAA
1 TTATGTAAG
47819507 TTATG
1 TTATG
47819512 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:47819365 original size:18 final size:18
Alignment explanation
Indices: 47819286--47819511 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
47819276 TATTTAAGTA
* *
47819286 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
47819304 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
47819322 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
47819339 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
47819357 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
47819375 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
47819398 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
47819418 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
47819435 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
47819453 TTATGTAGGTTATATAAG
1 TTATGTAAGTTATATAAG
*
47819471 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
47819489 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
47819507 TTATG
1 TTATG
47819512 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.47
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:47819378 original size:27 final size:27
Alignment explanation
Indices: 47819339--47819511 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
47819329 AATTATATAT
*
47819339 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
47819366 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
47819398 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
47819426 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
47819453 TTATGTAGGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
47819480 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
47819507 TTATG
1 TTATG
47819512 ATATCAAATA
Statistics
Matches: 119, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 58 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:47819396 original size:114 final size:114
Alignment explanation
Indices: 47819262--47819483 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
47819252 ACTAGTTATG
* * * *
47819262 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
47819326 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
47819376 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
47819441 AAGTTATATAAGTTATGTAGGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
47819484 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:47819636 original size:15 final size:15
Alignment explanation
Indices: 47819616--47819671 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
47819606 AAGTAGCGGG
47819616 ATTAAATAATATTTA
1 ATTAAATAATATTTA
47819631 ATTAAATAATATTT-
1 ATTAAATAATATTTA
47819645 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
47819660 ATTAAATAATAT
1 ATTAAATAATAT
47819672 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:47819876 original size:24 final size:24
Alignment explanation
Indices: 47819848--47819915 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
47819838 ACTTAAATGG
47819848 TAAAACGGACGATAATATTTGTAA
1 TAAAACGGACGATAATATTTGTAA
*
47819872 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTAA
*
47819896 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
47819916 CAATAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.03
24 38 0.95
25 1 0.03
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTAA
Found at i:47822417 original size:134 final size:134
Alignment explanation
Indices: 47822150--47822424 Score: 462
Period size: 134 Copynumber: 2.1 Consensus size: 134
47822140 GAATTCAACA
47822150 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* * **
47822215 TAAGTTGGATAGCAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTT
66 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATAGAACAACAT
47822280 TATT
131 TATT
47822284 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* * *
47822349 TAAGTTGGATAGAAACATG-AAAACAGACCAAAATAACATCTAAATAACCAAAATGGAATCACCA
66 TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATAGAA-CAACA
47822413 TTATT
130 TTATT
*
47822418 ATGTAAA
1 ATATAAA
47822425 CATGAAAATG
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 36 0.27
134 96 0.73
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.21
Consensus pattern (134 bp):
ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAAACAGACCAAAAGAACATCTAAATAACCAAAATAGAACAACAT
TATT
Found at i:47825133 original size:10 final size:11
Alignment explanation
Indices: 47825117--47825162 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
47825107 ACCACTTTCC
47825117 ATATATATATTT
1 ATATATAT-TTT
47825129 ATATATATTTT
1 ATATATATTTT
*
47825140 AAAATAATATTTT
1 -ATAT-ATATTTT
47825153 ATATATATTT
1 ATATATATTT
47825163 ATCTTATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 9 0.30
12 14 0.47
13 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATATATTTT
Found at i:47825171 original size:15 final size:15
Alignment explanation
Indices: 47825151--47825182 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
47825141 AAATAATATT
*
47825151 TTATATATATTTATC
1 TTATATACATTTATC
47825166 TTATATACATTTATC
1 TTATATACATTTATC
47825181 TT
1 TT
47825183 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:47826065 original size:14 final size:14
Alignment explanation
Indices: 47826046--47826079 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
47826036 ATTGAACCTG
47826046 CTTAAACCATATAT-
1 CTTAAACCATA-ATC
47826060 CTTAAACCATAATC
1 CTTAAACCATAATC
47826074 CTTAAA
1 CTTAAA
47826080 ATATAATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 17 0.89
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
CTTAAACCATAATC
Found at i:47826298 original size:41 final size:41
Alignment explanation
Indices: 47826241--47826340 Score: 175
Period size: 41 Copynumber: 2.5 Consensus size: 41
47826231 GGGGTTATGG
*
47826241 GGTTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGCTCT
1 GGTTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCT
47826282 GGTTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCT
1 GGTTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCT
*
47826323 -ATTTTTAGCGGCGTTTTA
1 GGTTTTTAGCGGCGTTTTA
47826341 GTAAAAAAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 17 0.30
41 40 0.70
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (41 bp):
GGTTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCT
Found at i:47829424 original size:245 final size:245
Alignment explanation
Indices: 47828988--47829471 Score: 833
Period size: 245 Copynumber: 2.0 Consensus size: 245
47828978 AGTAAGACTT
*
47828988 TACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCTTGGGTCGTTACGTGCTTGTC
1 TACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCTTGGGTCGTTACGTGCGTGTC
* * * * * *
47829053 GACAAAGTGTGTAAGAAATGTCCCCTGGAAATTCGAGGTTCCTGTTTTCTGGTGGTCTTGATGCT
66 GACAAAGTGTGTAAGAAATGCCCCCTAGAAATTCGAGATTCCTGTTTTCCGGCGGACTTGATGCT
47829118 TTTGCCGTTTGATGAATTTGATGTTATCCTTAGTTTGGATTGGTTGACCGGGCATGATGCGGTTG
131 TTTGCCGTTTGATGAATTTGATGTTATCCTTAGTTTGGATTGGTTGACCGGGCATGATGCGGTTG
47829183 TGAATTGCAAAAGCAAGACTATTGATTTGAGGTACGCAAATAACGAACTC
196 TGAATTGCAAAAGCAAGACTATTGATTTGAGGTACGCAAATAACGAACTC
*
47829233 TACCTGTTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCTTGGGTCGTTACGTGCGTGTC
1 TACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCTTGGGTCGTTACGTGCGTGTC
*
47829298 GACAAAGTGTGTAAGAAATGCCCCCTAGTAATTCGAGATTCCTGTTTTCCGGCGGACTTGATGCT
66 GACAAAGTGTGTAAGAAATGCCCCCTAGAAATTCGAGATTCCTGTTTTCCGGCGGACTTGATGCT
* * * *
47829363 TTTTCCGTTTGATGAATTTGATGTTATTCTTGGTTTGGATTGGTTGACCGTGCATGATGCGGTTG
131 TTTGCCGTTTGATGAATTTGATGTTATCCTTAGTTTGGATTGGTTGACCGGGCATGATGCGGTTG
* *
47829428 TGAATTGTAAAAGCAAGACTATTGATTTGAGGTGCGCAAATAAC
196 TGAATTGCAAAAGCAAGACTATTGATTTGAGGTACGCAAATAAC
47829472 AAGATAATCC
Statistics
Matches: 224, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
245 224 1.00
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (245 bp):
TACCTATTGAGTCTACTGAGTTCGTAATTCGGGTGTCAAATCCCTTGGGTCGTTACGTGCGTGTC
GACAAAGTGTGTAAGAAATGCCCCCTAGAAATTCGAGATTCCTGTTTTCCGGCGGACTTGATGCT
TTTGCCGTTTGATGAATTTGATGTTATCCTTAGTTTGGATTGGTTGACCGGGCATGATGCGGTTG
TGAATTGCAAAAGCAAGACTATTGATTTGAGGTACGCAAATAACGAACTC
Found at i:47830321 original size:217 final size:217
Alignment explanation
Indices: 47829930--47830364 Score: 717
Period size: 217 Copynumber: 2.0 Consensus size: 217
47829920 AGAACAAATA
* *
47829930 TCCGTTGCCGCGCATCGATGATTTGTTCGACCAACTGAAGGGAGCCTCAGTGTTCTCAAAAATAG
1 TCCGTTACCGCGCATCGATGATTTGTTCGACCAACTAAAGGGAGCCTCAGTGTTCTCAAAAATAG
* * *
47829995 ATTTGAGATCGGGCTATTATCAGTTGCGAATTCGAGATTCAGATATTCCTAAAACTGCCTTCAGA
66 ATTTAAGATCGGGCTATTATCAGTTGCGAATTCGAGATTCAGATATACCCAAAACTGCCTTCAGA
* *
47830060 ACGAGATATGGTCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATT
131 ACGAGATACGGCCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATT
47830125 TATGGATTTGATGAATCGGATC
196 TATGGATTTGATGAATCGGATC
* * * * * *
47830147 TCCGTTACCGCGTATTGATGATTTGTTTGATCAACTAAAGGGAGCCTCAGTGTTTTCAAAGATAG
1 TCCGTTACCGCGCATCGATGATTTGTTCGACCAACTAAAGGGAGCCTCAGTGTTCTCAAAAATAG
* * *
47830212 ATTTAAGATCGGGTTATTATCAGTTGCGAATTCGAGATTCGGATATACCCAAAACTGCTTTCAGA
66 ATTTAAGATCGGGCTATTATCAGTTGCGAATTCGAGATTCAGATATACCCAAAACTGCCTTCAGA
*
47830277 ACGAGATACGGCCACTACGAGTTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATT
131 ACGAGATACGGCCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATT
47830342 TATGGATTTGATGAATCGGATC
196 TATGGATTTGATGAATCGGATC
47830364 T
1 T
47830365 TCAGACAGTA
Statistics
Matches: 201, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
217 201 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (217 bp):
TCCGTTACCGCGCATCGATGATTTGTTCGACCAACTAAAGGGAGCCTCAGTGTTCTCAAAAATAG
ATTTAAGATCGGGCTATTATCAGTTGCGAATTCGAGATTCAGATATACCCAAAACTGCCTTCAGA
ACGAGATACGGCCACTACGAATTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCCTGCGGTATT
TATGGATTTGATGAATCGGATC
Found at i:47834657 original size:79 final size:80
Alignment explanation
Indices: 47834483--47834713 Score: 263
Period size: 79 Copynumber: 2.9 Consensus size: 80
47834473 TCGAATGATG
* * * * *
47834483 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
** * *
47834547 TGTGTGAGTTATTAAT
65 TGTACGAGTTACTAAA
*
47834563 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
*
47834625 GGTACGAGTTACTAAA
65 TGTACGAGTTACTAAA
* * * * *
47834641 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
*
47834706 GAACGAGT
66 GTACGAGT
47834714 AGCTATATCC
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
78 33 0.26
79 58 0.45
80 37 0.29
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTACGAGTTACTAAA
Found at i:47834676 original size:40 final size:40
Alignment explanation
Indices: 47834483--47834706 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
47834473 TCGAATGATG
* * * *
47834483 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAA
* * *
47834523 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTATTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGTGAGTTACTAAA
* * *
47834563 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
* **
47834602 TCCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
*
47834641 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTA-AA
*
47834682 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47834707 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 71 0.44
40 80 0.50
41 9 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
Found at i:47851272 original size:20 final size:20
Alignment explanation
Indices: 47851243--47851289 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
47851233 ATTTTGATAA
* *
47851243 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATAGGC
47851263 ACATGATATGTATGATAGGC
1 ACATGATATGTATGATAGGC
47851283 ACATGAT
1 ACATGAT
47851290 GTATTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATAGGC
Found at i:47853099 original size:40 final size:40
Alignment explanation
Indices: 47853000--47853222 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
47852990 TTCGAATGAT
* * *
47853000 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACTAC
* * * * * *
47853041 AACCAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACTAC
* * *
47853081 ATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAC
* * *
47853121 ATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAC
* * *
47853161 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAC
*
47853201 ATCCGGTCTAAGACCCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGC
47853223 CTTGCGCAAG
Statistics
Matches: 150, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 2 0.01
40 122 0.81
41 26 0.17
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTAC
Found at i:47853178 original size:80 final size:80
Alignment explanation
Indices: 47852998--47853258 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 80
47852988 TATTCGAATG
* * * *
47852998 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGACTAAGACCCGAAGGC
*
47853063 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * * * *
47853079 ACATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGACCCGAAGGCA
* *
47853144 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
47853159 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGTCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGACCCGAAGGCA
* * * *
47853224 TT-GCGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
47853238 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
47853259 ATTACTTGAG
Statistics
Matches: 150, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
78 14 0.09
79 13 0.09
80 93 0.62
81 30 0.20
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGACTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:47853216 original size:120 final size:120
Alignment explanation
Indices: 47852998--47853258 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 120
47852988 TATTCGAATG
* * *
47852998 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
* * * * * *
47853063 ATTCGTGCGAGTTGCTACATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GATT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGCGCAAGTAG-TT
* * * *
47853119 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGAT-CCGAAGG
* * *
47853182 CATTTATGCTAG-TGACCACATCCGGTCTAAGACCCGAAGGCCTTGCGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGCGCAAGTAGTT
47853238 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
47853259 ATTACTTGAG
Statistics
Matches: 120, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
118 14 0.12
119 19 0.16
120 56 0.47
121 31 0.26
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGCGCAAGTAGTT
Found at i:47854715 original size:25 final size:24
Alignment explanation
Indices: 47854613--47854719 Score: 135
Period size: 24 Copynumber: 4.3 Consensus size: 24
47854603 GGGTGTTACA
*
47854613 CCAGTTATTAAAAACAGGCTTATGCC
1 CCAGTTATT-AAAA-GGGCTTATGCC
*
47854639 CCAGTTATCAAAAGGGCTTATGCC
1 CCAGTTATTAAAAGGGCTTATGCC
*
47854663 CCAGTTATTAAAAGGGCTTTTGCC
1 CCAGTTATTAAAAGGGCTTATGCC
*
47854687 CCAGTTATTAAAAGAGGC-TAGGCC
1 CCAGTTATTAAAAG-GGCTTATGCC
47854711 TCCAGTTAT
1 -CCAGTTAT
47854720 ATGATAAAGC
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
24 50 0.68
25 15 0.21
26 8 0.11
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
CCAGTTATTAAAAGGGCTTATGCC
Found at i:47856939 original size:55 final size:54
Alignment explanation
Indices: 47856703--47856956 Score: 199
Period size: 55 Copynumber: 4.8 Consensus size: 54
47856693 ACACGGGTAC
* * *
47856703 CTTACC-ATTTCCATAACTTGTCATGGTCTTACATGGTATCC-T--TTT-GAAA
1 CTTACCAATTGCCATACCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
* ** * *
47856752 TTTACC-ATTGCCATGTCTCGACATGGTCTTACATGGTAT-CTTGCCTTATG-AA
1 CTTACCAATTGCCATACCTTGACATGGTCTTACATGGTATCCTTGCTTTA-GAAA
* * * *
47856804 CTCACCAA-TGCCATTCCTTGGCATGGTCTTACATTGG-A-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATACCTTGACATGGTCTTACA-TGGTATCC-TTG-CTT-TAGAAA
* *** *
47856859 CTTATCAA-TGCCATGTGTTGACATGGTCTTACATAGTATCCTTGCTTTAGAAA
1 CTTACCAATTGCCATACCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
* *
47856912 CCTTACCAATTTCCATACCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATACCTTGACATGGTCTTACATGGTATCCTT
47856957 AAACCCTAAT
Statistics
Matches: 160, Mismatches: 29, Indels: 26
0.74 0.13 0.12
Matches are distributed among these distances:
48 1 0.01
49 34 0.21
51 2 0.01
52 29 0.18
53 13 0.08
54 15 0.09
55 64 0.40
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (54 bp):
CTTACCAATTGCCATACCTTGACATGGTCTTACATGGTATCCTTGCTTTAGAAA
Found at i:47874046 original size:40 final size:39
Alignment explanation
Indices: 47873948--47874170 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 39
47873938 TCCTCGTTCA
* * * ** *
47873948 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
47873987 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
47874026 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
** *
47874066 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
* * * * *
47874106 AAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCAC
* *
47874147 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47874171 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
39 37 0.23
40 114 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
Found at i:47874170 original size:120 final size:119
Alignment explanation
Indices: 47873948--47874170 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
47873938 TCCTCGTTCA
* * * *
47873948 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
47874013 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
47874067 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
47874131 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
47874171 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:47888253 original size:40 final size:40
Alignment explanation
Indices: 47888205--47888296 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
47888195 TCAATATTGT
* * *
47888205 ACACTTAGTGCCACATATAGCTGAAGCTATTCCAATTCAC
1 ACACTTAGTGCCACATATAGCCGAAACTATTCCAAATCAC
* ** *
47888245 ACACTTAGTGCTATTTATAGCCGAAACTATTTCAAATCAC
1 ACACTTAGTGCCACATATAGCCGAAACTATTCCAAATCAC
47888285 ACACTTAGTGCC
1 ACACTTAGTGCC
47888297 GAACATAGTC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (40 bp):
ACACTTAGTGCCACATATAGCCGAAACTATTCCAAATCAC
Found at i:47891643 original size:29 final size:28
Alignment explanation
Indices: 47891607--47891684 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
47891597 TCATGAGATT
47891607 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
47891637 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
47891664 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
47891685 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:47891902 original size:174 final size:173
Alignment explanation
Indices: 47891637--47892126 Score: 781
Period size: 174 Copynumber: 2.9 Consensus size: 173
47891627 AAATTGTACA
*
47891637 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGT-CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
47891702 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
65 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
47891767 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
47891811 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGT-CATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
47891876 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
65 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
*** *
47891941 TTACCG--AGTCAGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 TTTTGGACAG-C-GGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
47891985 GCACTAAGTGTGTGAG--T----T--T---ACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
1 GCACTAAGTGTGTGAGTTTAAAGTCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
* *
47892039 GTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAAT
66 GTGCGAACTCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
47892104 TTTGGACAGCGGAAAAGGTAAGT
131 TTTGGACAGCGGAAAAGGTAAGT
47892127 ACCTTGAGTT
Statistics
Matches: 298, Mismatches: 14, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
162 111 0.37
163 1 0.00
164 2 0.01
165 1 0.00
168 1 0.00
172 3 0.01
173 1 0.00
174 178 0.60
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (173 bp):
GCACTAAGTGTGTGAGTTTAAAGTCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGT
GTGCGAACTCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:47897751 original size:280 final size:280
Alignment explanation
Indices: 47897234--47897792 Score: 976
Period size: 280 Copynumber: 2.0 Consensus size: 280
47897224 CTTTGTGTCT
*
47897234 GGACTACCATTGTCAACAAGTAAGAAGGATGCGATTTGGCTTGTTGTTGATAGACTGACTAAGTC
1 GGACTACCATTGTCAACAAGTAAGAAGGATGCGATATGGCTTGTTGTTGATAGACTGACTAAGTC
*
47897299 GGCTCACTTTATCCCCGTGCGTACGGATTTTCCATTGGATAAACTAGCCGAATTGTATGTTTCTC
66 GGCTCACTTTATCCCCGTACGTACGGATTTTCCATTGGATAAACTAGCCGAATTGTATGTTTCTC
* * * *
47897364 AGATTGTGAGATTACATGGAGTACCTATTTCTATCGTGTCGGATAGAGATCTGAGATTCACCTCG
131 AAATTGTGAGATTACACGGAGTACCTATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCA
47897429 CGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGCTTTTCATCC
196 CGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGCTTTTCATCC
47897494 CCAAACCGATGGTCAATCCC
261 CCAAACCGATGGTCAATCCC
* * * *
47897514 GGACTGCCCTTGTCAGCAAGTAAGAAGGATGCGATATGGGTTGTTGTTGATAGACTGACTAAGTC
1 GGACTACCATTGTCAACAAGTAAGAAGGATGCGATATGGCTTGTTGTTGATAGACTGACTAAGTC
*
47897579 GGCTCA-TTTCATCCCCGTACGTACGGATTTTTCATTGGATAAACTAGCCGAATTGTATGTTTCT
66 GGCTCACTTT-ATCCCCGTACGTACGGATTTTCCATTGGATAAACTAGCCGAATTGTATGTTTCT
* *
47897643 CAAATTGTGAGATTACACGGGGTACCTGTTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTC
130 CAAATTGTGAGATTACACGGAGTACCTATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTC
*
47897708 ACGATTTTGGAGGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGCTTTTCATC
195 ACGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGCTTTTCATC
47897773 CCCAAACCGATGGTCAATCC
260 CCCAAACCGATGGTCAATCC
47897793 GAGCGGATAA
Statistics
Matches: 264, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
279 3 0.01
280 261 0.99
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (280 bp):
GGACTACCATTGTCAACAAGTAAGAAGGATGCGATATGGCTTGTTGTTGATAGACTGACTAAGTC
GGCTCACTTTATCCCCGTACGTACGGATTTTCCATTGGATAAACTAGCCGAATTGTATGTTTCTC
AAATTGTGAGATTACACGGAGTACCTATTTCTATCGTGTCGGATAGAGATCCGAGATTCACCTCA
CGATTTTGGAAGAAATTGCAAGAAGCTTTGGGTACCAAGCTGCATTTTAGCACCGCTTTTCATCC
CCAAACCGATGGTCAATCCC
Found at i:47900224 original size:44 final size:44
Alignment explanation
Indices: 47900175--47900261 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
47900165 ACCAAAACCG
*
47900175 ACGTTTCAAGTCGTTGTACATTTTCGTACTCCCCGGGTGACTTA
1 ACGTTTCAAATCGTTGTACATTTTCGTACTCCCCGGGTGACTTA
47900219 ACGTTTCAAATCGTTGTACATTTTCGTACTCCCCGGGTGACTT
1 ACGTTTCAAATCGTTGTACATTTTCGTACTCCCCGGGTGACTT
47900262 GACATTCGGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (44 bp):
ACGTTTCAAATCGTTGTACATTTTCGTACTCCCCGGGTGACTTA
Found at i:47901435 original size:43 final size:43
Alignment explanation
Indices: 47901387--47901469 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
47901377 CATAAACACC
47901387 GCAGGGGCATTAGTGAGCCCAAACGGCATCACCAAGAACTACT
1 GCAGGGGCATTAGTGAGCCCAAACGGCATCACCAAGAACTACT
* *
47901430 GCAGGGGCATTTGTGAGCCCAAACGGCATCACTAAGAACT
1 GCAGGGGCATTAGTGAGCCCAAACGGCATCACCAAGAACT
47901470 CGTAGTGACC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.16
Consensus pattern (43 bp):
GCAGGGGCATTAGTGAGCCCAAACGGCATCACCAAGAACTACT
Found at i:47904843 original size:40 final size:40
Alignment explanation
Indices: 47904799--47905060 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
47904789 GCTCCTCGTT
* *
47904799 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
47904839 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
47904879 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
47904918 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
47904957 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
47904996 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
47905037 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47905061 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:47908652 original size:45 final size:45
Alignment explanation
Indices: 47908587--47908764 Score: 250
Period size: 45 Copynumber: 4.0 Consensus size: 45
47908577 CGTCTAGTAA
**
47908587 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCTGGTGAAATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATAC
* ** *
47908632 TATTCGGGCCTTTGATCCTAGCAGGCTATGATGCCAGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATAC
*
47908677 TATTTGGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATAC
* * *
47908722 TATTCGAGCCTTCGAGCCTAGCAGGCTATAATGCC-GATGAAAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCAG-TGAAAT
47908765 GATATCGGGC
Statistics
Matches: 117, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
44 1 0.01
45 116 0.99
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATAC
Found at i:47908745 original size:90 final size:90
Alignment explanation
Indices: 47908587--47908756 Score: 277
Period size: 90 Copynumber: 1.9 Consensus size: 90
47908577 CGTCTAGTAA
** * * *
47908587 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCTGGTGAAATACTATTCGGGCCTTTGATCCTA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATACTATTCGAGCCTTCGAGCCTA
*
47908652 GCAGGCTATGATGCCAGTGAGATAC
66 GCAGGCTATAATGCCAGTGAGATAC
*
47908677 TATTTGGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATACTATTCGAGCCTTCGAGCCTA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATACTATTCGAGCCTTCGAGCCTA
47908742 GCAGGCTATAATGCC
66 GCAGGCTATAATGCC
47908757 GATGAAATGA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 73 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (90 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTACAATGCCAGTGAAATACTATTCGAGCCTTCGAGCCTA
GCAGGCTATAATGCCAGTGAGATAC
Found at i:47909362 original size:16 final size:18
Alignment explanation
Indices: 47909331--47909363 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
47909321 AACTCGTCAC
47909331 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
47909349 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
47909364 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:47923781 original size:5 final size:6
Alignment explanation
Indices: 47923767--47923791 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
47923757 GCCGTTTAAG
47923767 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
47923792 CTTAATTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:47924367 original size:32 final size:32
Alignment explanation
Indices: 47924331--47924395 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
47924321 CACACGGGTT
47924331 TGGTAAGTCTTCCTTGTCTTTTCTATCATGGA
1 TGGTAAGTCTTCCTTGTCTTTTCTATCATGGA
47924363 TGGTAAGTCTTCCTTGTCTTTTCTATCATGGA
1 TGGTAAGTCTTCCTTGTCTTTTCTATCATGGA
47924395 T
1 T
47924396 TGATAATGAC
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:0.15, C:0.18, G:0.18, T:0.48
Consensus pattern (32 bp):
TGGTAAGTCTTCCTTGTCTTTTCTATCATGGA
Found at i:47931358 original size:52 final size:52
Alignment explanation
Indices: 47931272--47931372 Score: 166
Period size: 52 Copynumber: 1.9 Consensus size: 52
47931262 AAATAAGAAC
** * *
47931272 TGTGCTAATCAATTGTAGGACATCGGAAGGGATCTCAGTAGCAGTCGTCACG
1 TGTGCTAAGAAATTGTAGGACATCCGAAGAGATCTCAGTAGCAGTCGTCACG
47931324 TGTGCTAAGAAATTGTAGGACATCCGAAGAGATCTCAGTAGCAGTCGTC
1 TGTGCTAAGAAATTGTAGGACATCCGAAGAGATCTCAGTAGCAGTCGTC
47931373 GCGAATCAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (52 bp):
TGTGCTAAGAAATTGTAGGACATCCGAAGAGATCTCAGTAGCAGTCGTCACG
Found at i:47941152 original size:47 final size:45
Alignment explanation
Indices: 47941018--47941187 Score: 189
Period size: 45 Copynumber: 3.7 Consensus size: 45
47941008 CAGGATTTTG
*
47941018 ATATGTGTTTTCGTGTAAGACCACGTTTAGGACGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTTTAGGACGTTGGCATCGAT
* *
47941063 ATATGTGTTTTTGTGTAAGACCACGTCTAGGATGTTGGCATCGAT
1 ATATGTGTTTTTGTGTAAGACCACGTTTAGGACGTTGGCATCGAT
* * * * *
47941108 ATATTTGTGTTTTTGTATAATACCACATTTGGGACGTTGTCATCGAT
1 ATA--TGTGTTTTTGTGTAAGACCACGTTTAGGACGTTGGCATCGAT
* ** * *
47941155 CTATGTAG-TTACGTGTAAGACCATGTCTAGGAC
1 ATATGT-GTTTTTGTGTAAGACCACGTTTAGGAC
47941188 ATCAGCATCG
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
45 65 0.63
46 1 0.01
47 37 0.36
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (45 bp):
ATATGTGTTTTTGTGTAAGACCACGTTTAGGACGTTGGCATCGAT
Found at i:47941196 original size:92 final size:92
Alignment explanation
Indices: 47941021--47941197 Score: 212
Period size: 92 Copynumber: 1.9 Consensus size: 92
47941011 GATTTTGATA
* * **
47941021 TGTGTTTTCGTGTAAGACCACGTTTAGGACGTTGGCATCGATATATGTGTTTTTGTGTAAGACCA
1 TGTGTTTTCGTATAAGACCACATTTAGGACGTTGGCATCGATATATGTGTTTACGTGTAAGACCA
** **
47941086 CGTCTAGGATGTTGGCATCGATATATT
66 CGTCTAGGACATCAGCATCGATATATT
* * * * *
47941113 TGTGTTTTTGTATAATACCACATTTGGGACGTTGTCATCGATCTATGTAG-TTACGTGTAAGACC
1 TGTGTTTTCGTATAAGACCACATTTAGGACGTTGGCATCGATATATGT-GTTTACGTGTAAGACC
*
47941177 ATGTCTAGGACATCAGCATCG
65 ACGTCTAGGACATCAGCATCG
47941198 TATTTGATTC
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
92 69 0.99
93 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (92 bp):
TGTGTTTTCGTATAAGACCACATTTAGGACGTTGGCATCGATATATGTGTTTACGTGTAAGACCA
CGTCTAGGACATCAGCATCGATATATT
Found at i:47943949 original size:42 final size:41
Alignment explanation
Indices: 47943890--47944005 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 41
47943880 TAGGGTTAGT
* *
47943890 TGAGATTTCGTGTAAGACCATATCTGGGATATGGTGTCAAT-A
1 TGAGATTTCATGTAAGACCATATCTGGGATAT-GTGGC-ATCA
* * *
47943932 TGAGATTTCATGTAAGACCATAGCTAGGCTAT-TGGCATCGA
1 TGAGATTTCATGTAAGACCATATCTGGGATATGTGGCATC-A
** *
47943973 TGAGATCCCATGTAAGATCATATCTGGGATATG
1 TGAGATTTCATGTAAGACCATATCTGGGATATG
47944006 ACATTGGTAT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.03
40 3 0.05
41 27 0.45
42 28 0.47
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (41 bp):
TGAGATTTCATGTAAGACCATATCTGGGATATGTGGCATCA
Found at i:47944123 original size:20 final size:20
Alignment explanation
Indices: 47944092--47944138 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
47944082 CGGCAAAGTT
*
47944092 TAAGTCGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
47944112 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
47944132 TAAGTTG
1 TAAGTTG
47944139 CAAGTTGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:47948641 original size:46 final size:46
Alignment explanation
Indices: 47948583--47948757 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
47948573 TGTAACCCGC
* * * *
47948583 CCATAAGGGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* *
47948629 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * * * *
47948679 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
47948722 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47948758 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 61 0.58
47 28 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:47948698 original size:93 final size:93
Alignment explanation
Indices: 47948591--47948761 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47948581 GCCCATAAGG
* * * *
47948591 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47948656 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
47948684 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47948749 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47948762 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:47954662 original size:18 final size:18
Alignment explanation
Indices: 47954641--47954690 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
47954631 GAGGTGGATT
* *
47954641 TTCAGTCGGCGCTGCTCC
1 TTCAGCCGGAGCTGCTCC
47954659 TTCAGCCGGAGCTGCTCC
1 TTCAGCCGGAGCTGCTCC
47954677 TTCAGCCGGAGCTG
1 TTCAGCCGGAGCTG
47954691 GCGCATTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.10, C:0.36, G:0.30, T:0.24
Consensus pattern (18 bp):
TTCAGCCGGAGCTGCTCC
Found at i:47956300 original size:46 final size:47
Alignment explanation
Indices: 47956177--47956302 Score: 220
Period size: 46 Copynumber: 2.7 Consensus size: 47
47956167 TGTAACCCGC
* *
47956177 CCATAAGTGAACTCGGACTCAACTCAACGAGCT-TGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGAGCATTCGCAT
47956223 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTG-GCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGAGCATTCGCAT
47956269 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
47956303 GGATGCTCAG
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
46 75 0.97
47 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGAGCATTCGCAT
Found at i:47957848 original size:28 final size:28
Alignment explanation
Indices: 47957803--47957889 Score: 120
Period size: 28 Copynumber: 3.1 Consensus size: 28
47957793 GGAAGTAGTT
*
47957803 GGCCTGATGAGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
* *
47957831 GGCCTGATGGGCCTTATGAATATGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
* * *
47957859 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
47957887 GGC
1 GGC
47957890 TTAAAGGGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAATGTGATTG
Found at i:47958247 original size:27 final size:26
Alignment explanation
Indices: 47958208--47958573 Score: 229
Period size: 27 Copynumber: 13.7 Consensus size: 26
47958198 TAATAAAAAG
*
47958208 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCGAAATA-CCCTAGTTTGTA
* *
47958235 AAATTACCGAAATACCCCCAATTTGTA
1 AAATTACCGAAATA-CCCTAGTTTGTA
* *
47958262 AAATTA-CTAAAGTACACC-CGATTTGTA
1 AAATTACCGAAA-TAC-CCTAG-TTTGTA
* * *
47958289 AAATTACTGAAATACCTTCAGTTTGCA
1 AAATTACCGAAATACCCT-AGTTTGTA
** *
47958316 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCT-AGTTTGTA
* *
47958343 AAATTATCG-AATACCCTCA-ATTGTA
1 AAATTACCGAAATACCCT-AGTTTGTA
* *
47958368 AAATTA-CTAAAGTACCCTCGATTTGTA
1 AAATTACCGAAA-TACCCTAG-TTTGTA
* * * * *
47958395 AAATTACTGAAACACGCTCGATTTTTA
1 AAATTACCGAAATACCCTAG-TTTGTA
* *
47958422 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTAG-TTTGTA
*
47958449 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTAG-TTTGTA
** * **
47958476 AAATTACTAAAACACCCCCGATTTGTA
1 AAATTACCGAAATACCCTAG-TTTGTA
* * *
47958503 AAATTATCGAAATACCCTTGTAGTGTA
1 AAATTACCGAAATACCCTAGT-TTGTA
* * *
47958530 AAATTACTGAAATACCCTTGTAGTGTA
1 AAATTACCGAAATACCCTAGT-TTGTA
* *
47958557 AAATGACCGACATACCC
1 AAATTACCGAAATACCC
47958574 CTGTATGATA
Statistics
Matches: 278, Mismatches: 49, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.00
25 13 0.05
26 23 0.08
27 234 0.84
28 7 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
AAATTACCGAAATACCCTAGTTTGTA
Found at i:47958288 original size:54 final size:54
Alignment explanation
Indices: 47958208--47958573 Score: 377
Period size: 54 Copynumber: 6.8 Consensus size: 54
47958198 TAATAAAAAG
* * *
47958208 AAATTACCAAAATACCC-CTAGTTTGTAAAATTACCGAAATACCCCCAATTTGTA
1 AAATTACTAAAATACCCTCGA-TTTGTAAAATTACCGAAATACCCTCAATTTGTA
* * * * *
47958262 AAATTACTAAAGTACACC-CGATTTGTAAAATTACTGAAATACCTTCAGTTTGCA
1 AAATTACTAAAATAC-CCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
* *
47958316 AAATTACTAAAATACCCTCAATTTGTAAAATTATCG-AATACCCTCAA-TTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
* * * * * *
47958368 AAATTACTAAAGTACCCTCGATTTGTAAAATTACTGAAACACGCTCGATTTTTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
* *
47958422 AAATTA-TCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
1 AAATTACT-AAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
* * * ** *
47958476 AAATTACTAAAACACCCCCGATTTGTAAAATTATCGAAATACCCT-TGTAGTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAAT-TTGTA
* * * * *
47958530 AAATTACTGAAATACCCTTG-TAGTGTAAAATGACCGACATACCC
1 AAATTACTAAAATACCCTCGAT-TTGTAAAATTACCGAAATACCC
47958574 CTGTATGATA
Statistics
Matches: 260, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
52 36 0.14
53 22 0.08
54 197 0.76
55 5 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTA
Found at i:47958473 original size:133 final size:132
Alignment explanation
Indices: 47958230--47958519 Score: 336
Period size: 133 Copynumber: 2.2 Consensus size: 132
47958220 TACCCCTAGT
47958230 TTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACTAAAGTACACCCGATTTGTAAAATTA
1 TTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACTAAAG-ACACCCGATTTGTAAAATTA
* *
47958295 CTGAAATACCTTCAGTTTGCAAAATTACTAAAATACCCTCAATTTGTAAAATTATCGAATACCCT
65 CTGAAATACCCTCAGTTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTATCGAATACCCT
47958360 CAA
130 CAA
* * * * *
47958363 TTGTAAAATTA-CTAAAGTACCCTCGATTTGTAAAATTACTGAA-ACACGCTCGATTTTTAAAAT
1 TTGTAAAATTACCGAAA-TACCCCCAATTTGTAAAATTACTAAAGACAC-C-CGATTTGTAAAAT
* * * ** *
47958426 TA-TCGAAATACCCTC-GATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTAAAAC
63 TACT-GAAATACCCTCAG-TTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTA-TCGAAT
* *
47958489 ACCCCCGAT
125 ACCCTC-AA
*
47958498 TTGTAAAATTATCGAAATACCC
1 TTGTAAAATTACCGAAATACCC
47958520 TTGTAGTGTA
Statistics
Matches: 133, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
131 4 0.03
132 7 0.05
133 93 0.70
134 8 0.06
135 17 0.13
136 4 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (132 bp):
TTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACTAAAGACACCCGATTTGTAAAATTAC
TGAAATACCCTCAGTTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTATCGAATACCCTC
AA
Found at i:47958574 original size:81 final size:80
Alignment explanation
Indices: 47958229--47958547 Score: 362
Period size: 81 Copynumber: 4.0 Consensus size: 80
47958219 ATACCCCTAG
* *
47958229 TTTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTA-CTAAAGTACACCCGATTTGTAAAAT
1 TTTGTAAAATTACTGAAATACCCCCAATTTGTAAAATTATCGAAA-TAC-CCCGATTTGTAAAAT
*
47958293 TACTGAAATACCTTC-A
64 TACTGAAATACCCTCGA
* * * *
47958309 GTTTGCAAAATTACTAAAATACCCTCAATTTGTAAAATTATCG-AATACCCTC-AATTGTAAAAT
1 -TTTGTAAAATTACTGAAATACCCCCAATTTGTAAAATTATCGAAATACCC-CGATTTGTAAAAT
47958372 TACT-AAAGTACCCTCGA
64 TACTGAAA-TACCCTCGA
* * * * *
47958389 TTTGTAAAATTACTGAAACACGCTCGATTTTTAAAATTATCGAAATACCCTCGATTTGTAAAATT
1 TTTGTAAAATTACTGAAATACCCCCAATTTGTAAAATTATCGAAATACCC-CGATTTGTAAAATT
*
47958454 ACCGAAATACCCTCGA
65 ACTGAAATACCCTCGA
* * * * *
47958470 TTTGTAAAATTACTAAAACACCCCCGATTTGTAAAATTATCGAAATACCCTTG-TAGTGTAAAAT
1 TTTGTAAAATTACTGAAATACCCCCAATTTGTAAAATTATCGAAATACCC-CGAT-TTGTAAAAT
47958534 TACTGAAATACCCT
64 TACTGAAATACCCT
47958548 TGTAGTGTAA
Statistics
Matches: 208, Mismatches: 22, Indels: 16
0.85 0.09 0.07
Matches are distributed among these distances:
78 3 0.01
79 58 0.28
80 15 0.07
81 128 0.62
82 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (80 bp):
TTTGTAAAATTACTGAAATACCCCCAATTTGTAAAATTATCGAAATACCCCGATTTGTAAAATTA
CTGAAATACCCTCGA
Found at i:47958578 original size:27 final size:27
Alignment explanation
Indices: 47958499--47958589 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
47958489 ACCCCCGATT
* *
47958499 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
47958526 TGTAAAATTACTGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
47958553 TGTAAAATGACCGACATACCCCTGTA-
1 TGTAAAATGACCGAAATACCCTTGTAG
47958579 TGATAAAATGA
1 TG-TAAAATGA
47958590 TTGTTTTGCC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.04
27 55 0.96
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:47961090 original size:93 final size:93
Alignment explanation
Indices: 47960977--47961146 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
47960967 CCCATAAGCA
* *
47960977 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
47961042 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
*
47961070 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
47961135 GAGCTCGGATGC
66 GAGCTCGGATGC
47961147 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:47961143 original size:46 final size:46
Alignment explanation
Indices: 47960968--47961143 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
47960958 TGTAACCCGC
* * *
47960968 CCATAAGCAAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
47961014 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
47961064 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
47961107 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
47961144 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:47966615 original size:43 final size:43
Alignment explanation
Indices: 47966552--47966639 Score: 99
Period size: 43 Copynumber: 2.0 Consensus size: 43
47966542 ATAGGATTTC
* *
47966552 CGATATGTGTTCTCATGTAAGCCCACGTCTAGGACATTGGCAT
1 CGATATGTGTTCTCATGTAAGACCACGTCTAGGACATCGGCAT
* * *
47966595 CGATATGTGATT-TCGA-GTAAGACCATGTTTGGGACATCGGCAT
1 CGATATGTG-TTCTC-ATGTAAGACCACGTCTAGGACATCGGCAT
47966638 CG
1 CG
47966640 TAACTGTGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
43 35 0.92
44 3 0.08
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATGTGTTCTCATGTAAGACCACGTCTAGGACATCGGCAT
Found at i:47966722 original size:43 final size:41
Alignment explanation
Indices: 47966564--47966723 Score: 117
Period size: 43 Copynumber: 3.8 Consensus size: 41
47966554 ATATGTGTTC
* * *
47966564 TCATGTAAGCCCACGTCTAGGACATTGGCATCGATATGTGATT
1 TCATGTAAGACCACATCTGGGACATTGGCATCGA-ATGTGA-T
** * *
47966607 TCGA-GTAAGACCATGTTTGGGACATCGGCATCGTAACTGTGAT
1 TC-ATGTAAGACCACATCTGGGACATTGGCATCG-AA-TGTGAT
* * * *
47966650 TCGTGTAAGACC-CTATTTGGGATAGTGGCATCGACATGTGAT
1 TCATGTAAGACCAC-ATCTGGGACATTGGCATCGA-ATGTGAT
**
47966692 TACATGTAAGACCACATCTGGGATGTTGGCAT
1 T-CATGTAAGACCACATCTGGGACATTGGCAT
47966724 TGTATGATAT
Statistics
Matches: 94, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
42 8 0.09
43 78 0.83
44 8 0.09
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (41 bp):
TCATGTAAGACCACATCTGGGACATTGGCATCGAATGTGAT
Found at i:47968960 original size:27 final size:27
Alignment explanation
Indices: 47968930--47969113 Score: 224
Period size: 27 Copynumber: 6.8 Consensus size: 27
47968920 ATTATTGAAA
47968930 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
47968957 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* *
47968984 TACCCTCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
**
47969011 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
47969038 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* **
47969065 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
* * *
47969092 TACTCTTGATTTACGAAATTAC
1 TACCCTCGATTTACAAAATTAC
47969114 TGAAATACCA
Statistics
Matches: 131, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 131 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:47968996 original size:54 final size:54
Alignment explanation
Indices: 47968930--47969113 Score: 269
Period size: 54 Copynumber: 3.4 Consensus size: 54
47968920 ATTATTGAAA
* * *
47968930 TACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTT
* *
47968984 TACCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTT
* *
47969038 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTT
* ** *
47969092 TACTCTTGATTTACGAAATTAC
1 TACCCTCAATTTACAAAATTAC
47969114 TGAAATACCA
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTATTGTTT
Found at i:47969205 original size:27 final size:27
Alignment explanation
Indices: 47969133--47969287 Score: 111
Period size: 27 Copynumber: 5.8 Consensus size: 27
47969123 ATTGGTTTAC
* *
47969133 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCTGGAT-TGT
* *
47969160 AAAATTAACAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGATTGT
47969187 AAAATTACCAAAATACCCCT-GATTTGT
1 AAAATTACCAAAATACCCCTGGA-TTGT
* * * *
47969214 GAAATTATCAAAATA-CTCTTGATTTGT
1 AAAATTACCAAAATACCCCTGGA-TTGT
*** * **
47969241 AAAA-TATTGAAATACCCCTGTAGGGT
1 AAAATTACCAAAATACCCCTGGATTGT
* *
47969267 AGAATTACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
47969288 TAGGGTAGAA
Statistics
Matches: 103, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
26 17 0.17
27 80 0.78
28 6 0.06
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGATTGT
Found at i:47969241 original size:54 final size:54
Alignment explanation
Indices: 47969133--47969245 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
47969123 ATTGGTTTAC
*
47969133 AAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATACCCCTGACTTGT
** * * * * *
47969187 AAAATTACCAAAATACCC-CTGATTTGTGAAATTATCAAAATACTCTTGATTTGT
1 AAAATTACCAAAATACCCTC-GATCAGTAAAATTAACAAAATACCCCTGACTTGT
47969241 AAAAT
1 AAAAT
47969246 ATTGAAATAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 49 0.98
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATACCCCTGACTTGT
Found at i:47969288 original size:27 final size:27
Alignment explanation
Indices: 47969249--47969481 Score: 270
Period size: 27 Copynumber: 9.0 Consensus size: 27
47969239 GTAAAATATT
47969249 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
47969276 GAAATACCCCTGTA-GG--G---TA--
1 GAAATACCCCTGTAGGGTAGAATTACC
*
47969295 G-AATACCCCTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
47969321 GAAATACCTCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
47969348 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
47969375 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
47969402 AAAATACCTCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
47969429 GAAATACCCCTATAAGGAAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
47969456 GAGATACCCTTTTGGGGTA-AATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
47969482 ATTTTGCCCC
Statistics
Matches: 174, Mismatches: 23, Indels: 19
0.81 0.11 0.09
Matches are distributed among these distances:
18 12 0.07
19 3 0.02
21 2 0.01
24 3 0.02
26 10 0.06
27 144 0.83
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:47969301 original size:18 final size:18
Alignment explanation
Indices: 47969278--47969312 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
47969268 GAATTACCGA
47969278 AATACCCCTGTAGGGTAG
1 AATACCCCTGTAGGGTAG
47969296 AATACCCCTGTAGGGTA
1 AATACCCCTGTAGGGTA
47969313 AAATTACCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (18 bp):
AATACCCCTGTAGGGTAG
Found at i:47969692 original size:25 final size:25
Alignment explanation
Indices: 47969659--47969728 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
47969649 AGGAAATTCT
*
47969659 AAAAGGGCTATGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
47969684 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
47969709 AAAAGAGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
47969729 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:47971953 original size:27 final size:27
Alignment explanation
Indices: 47971922--47972099 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
47971912 AATACTTTAG
* **
47971922 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACTGATTTACCCTCGA
* *
47971949 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACTGATTTACCCTCGA
* *
47971976 TTTACAGAATTACT-ATTTTACCCTCAA
1 TTTACAAAATTACTGA-TTTACCCTCGA
* *
47972003 TTTACAAAATTA-TCGTTTTACCATCGA
1 TTTACAAAATTACT-GATTTACCCTCGA
* *
47972030 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTGATTTACCCTCGA
* * * **
47972057 TTTATAGAATTATTTTTTTACCCTCGA
1 TTTACAAAATTACTGATTTACCCTCGA
47972084 TTTACAAAATTACTGA
1 TTTACAAAATTACTGA
47972100 AACATCATTG
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 122 0.98
28 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (27 bp):
TTTACAAAATTACTGATTTACCCTCGA
Found at i:47972006 original size:54 final size:54
Alignment explanation
Indices: 47971940--47972097 Score: 235
Period size: 54 Copynumber: 2.9 Consensus size: 54
47971930 ATTACTGAAA
*
47971940 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTATTT
* * *
47971994 TACCCTCAATTTACAAAATTATCGTTTTACCATCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTATTT
* * ** *
47972048 TACCCTCGATTTATAGAATTATTTTTTTACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACT
47972098 GAAACATCAT
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 93 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACTATTT
Found at i:47972057 original size:81 final size:81
Alignment explanation
Indices: 47971940--47972095 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 81
47971930 ATTACTGAAA
*
47971940 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATT
1 TACCATCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATT
47972005 TACAAAATTATCGTTT
66 TACAAAATTATCGTTT
* * * * * *
47972021 TACCATCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTATTTTTTTACCCTCGATT
1 TACCATCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATT
47972086 TACAAAATTA
66 TACAAAATTA
47972096 CTGAAACATC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (81 bp):
TACCATCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAATT
TACAAAATTATCGTTT
Found at i:47972098 original size:54 final size:54
Alignment explanation
Indices: 47971922--47972098 Score: 228
Period size: 54 Copynumber: 3.3 Consensus size: 54
47971912 AATACTTTAG
* *** *
47971922 TTTACCAAATTACTGAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGA
* * * *
47971976 TTTACAGAATTACTATTTTACCCTCAATTTACAAAATTATCGTTTTACCATCGA
1 TTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGA
* * * **
47972030 TTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTATTTTTTTACCCTCGA
1 TTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGA
47972084 TTTACAAAATTACTG
1 TTTACAAAATTACTG
47972099 AAACATCATT
Statistics
Matches: 106, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (54 bp):
TTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTCGA
Found at i:47972115 original size:81 final size:80
Alignment explanation
Indices: 47971922--47972124 Score: 237
Period size: 81 Copynumber: 2.5 Consensus size: 80
47971912 AATACTTTAG
* * *
47971922 TTTACCAAATTACTGAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
1 TTTACAAAATTACTGAAACA-CATCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATT
47971987 ACTATTTTACCCTCAA
65 ACTATTTTACCCTCAA
*** * * *
47972003 TTTACAAAATTATCGTTTTAC-CATCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAAT
1 TTTACAAAATTA-C-TGAAACACATCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAAT
* * *
47972067 TATTTTTTTACCCTCGA
64 TACTATTTTACCCTCAA
* *
47972084 TTTACAAAATTACTGAAACATCATTGGTTTACAAAATTACC
1 TTTACAAAATTACTGAAACA-CATCGATTTACAAAATTACC
47972125 AAAATACCCT
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
79 3 0.03
80 1 0.01
81 92 0.93
82 1 0.01
83 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (80 bp):
TTTACAAAATTACTGAAACACATCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTA
CTATTTTACCCTCAA
Done.