Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 33 of 290
Found at i:11212124 original size:22 final size:21
Alignment explanation
Indices: 11212096--11212168 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 21
11212086 TTTTTAAATT
11212096 TTTATAAAATTTTAAATTAAAA
1 TTTATAAAATTTTAAA-TAAAA
* *
11212118 TTTATAAAAATATTAAATAAAG
1 TTTAT-AAAATTTTAAATAAAA
* *
11212140 TTCAAAAAATTTTAAA-AAAA
1 TTTATAAAATTTTAAATAAAA
11212160 -TTA-AAAATT
1 TTTATAAAATT
11212169 AATAAAAATC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 6 0.14
19 2 0.05
20 3 0.07
21 10 0.23
22 12 0.28
23 10 0.23
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
TTTATAAAATTTTAAATAAAA
Found at i:11212223 original size:14 final size:14
Alignment explanation
Indices: 11212204--11212245 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
11212194 TCAAAATGAA
11212204 TCTAGA-CATAGTTG
1 TCTAGATCATA-TTG
11212218 TCTAGATTCATATTG
1 TCTAGA-TCATATTG
11212233 TCTAGATTCATAT
1 TCTAGA-TCATAT
11212246 CAAAACAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.23
15 16 0.62
16 4 0.15
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
TCTAGATCATATTG
Found at i:11212235 original size:15 final size:15
Alignment explanation
Indices: 11212210--11212245 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
11212200 TGAATCTAGA
11212210 CATAGTTGTCTAGATT
1 CATA-TTGTCTAGATT
11212226 CATATTGTCTAGATT
1 CATATTGTCTAGATT
11212241 CATAT
1 CATAT
11212246 CAAAACAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (15 bp):
CATATTGTCTAGATT
Found at i:11212841 original size:15 final size:17
Alignment explanation
Indices: 11212808--11212848 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
11212798 ATTAATAATG
*
11212808 TTTTAAAAATTTATATT
1 TTTTAAAAATATATATT
11212825 TTTTAAAAA-ATAT-TT
1 TTTTAAAAATATATATT
11212840 TTTTAAAAA
1 TTTTAAAAA
11212849 GTTAACCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
16 3 0.13
17 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAAAATATATATT
Found at i:11217268 original size:28 final size:28
Alignment explanation
Indices: 11217227--11217280 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
11217217 ATGCCGTTGA
*
11217227 ATACTCAATGTCTCGCACACTAAGTGTC
1 ATACTCAATATCTCGCACACTAAGTGTC
* *
11217255 ATACTCGATATCTCTCACACTAAGTG
1 ATACTCAATATCTCGCACACTAAGTG
11217281 CCGTACATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGTC
Found at i:11217395 original size:40 final size:42
Alignment explanation
Indices: 11217270--11217405 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 42
11217260 CGATATCTCT
* * * * **
11217270 CACACTAAGTGCC--GTACATAGTCGAAGCTATCTAAAATCG
1 CACACTAAGTGCCATTTATATAGCCGAAGCTATGTCGAATCG
*
11217310 CACACTAAGTGCCATTTATATAGCTGAAGCTATGTCGAATCG
1 CACACTAAGTGCCATTTATATAGCCGAAGCTATGTCGAATCG
* * *
11217352 CACACTAAGTGCCA-TT-TATAGCCGAAGGTATG-CTGTATTG
1 CACACTAAGTGCCATTTATATAGCCGAAGCTATGTC-GAATCG
*
11217392 CACATTAAGTGCCA
1 CACACTAAGTGCCA
11217406 AAAATAGCCG
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 44 0.54
41 2 0.02
42 34 0.42
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
CACACTAAGTGCCATTTATATAGCCGAAGCTATGTCGAATCG
Found at i:11221322 original size:23 final size:23
Alignment explanation
Indices: 11221232--11221355 Score: 83
Period size: 23 Copynumber: 5.2 Consensus size: 23
11221222 GTTTTGGTCG
*
11221232 AGCTCGTATAAGCTTACCGATTTAT
1 AGCTCGTATGAGCTTACCG-TTT-T
* **
11221257 CAGCTCGTAAGAGCTTACTATTTTTT
1 -AGCTCGTATGAGCTTAC--CGTTTT
* *
11221283 AGCTCAT-TGGAGTTTACCGTTTT
1 AGCTCGTAT-GAGCTTACCGTTTT
* *
11221306 AGCTCGTATGAGCTTACTG-TTC
1 AGCTCGTATGAGCTTACCGTTTT
*
11221328 AGCT-TTATAGAGCTTACCGTTTT
1 AGCTCGTAT-GAGCTTACCGTTTT
11221351 AGCTC
1 AGCTC
11221356 AATAGAGCTT
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
21 3 0.04
22 15 0.20
23 24 0.32
24 1 0.01
25 13 0.17
26 16 0.21
27 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.40
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACCGTTTT
Found at i:11221340 original size:22 final size:22
Alignment explanation
Indices: 11221315--11221373 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
11221305 TAGCTCGTAT
**
11221315 GAGCTTACTGTTCAGCTTTATA
1 GAGCTTACTGTTCAGCTCAATA
* *
11221337 GAGCTTACCGTTTTAGCTCAATA
1 GAGCTTACTG-TTCAGCTCAATA
*
11221360 GAGCTTATTGTTCA
1 GAGCTTACTGTTCA
11221374 TCAACTCAGG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (22 bp):
GAGCTTACTGTTCAGCTCAATA
Found at i:11221360 original size:23 final size:23
Alignment explanation
Indices: 11221279--11221366 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
11221269 GCTTACTATT
* * *
11221279 TTTTAGCTCATTGGAGTTTACCG
1 TTTTAGCTCAATAGAGCTTACCG
* *
11221302 TTTTAGCTC-GTATGAGCTTACTG
1 TTTTAGCTCAATA-GAGCTTACCG
* **
11221325 -TTCAGCTTTATAGAGCTTACCG
1 TTTTAGCTCAATAGAGCTTACCG
11221347 TTTTAGCTCAATAGAGCTTA
1 TTTTAGCTCAATAGAGCTTA
11221367 TTGTTCATCA
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
22 16 0.31
23 35 0.69
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (23 bp):
TTTTAGCTCAATAGAGCTTACCG
Found at i:11224028 original size:20 final size:20
Alignment explanation
Indices: 11223999--11224096 Score: 110
Period size: 20 Copynumber: 4.9 Consensus size: 20
11223989 GGAGCATCGT
* * *
11223999 AGTGCTATCAGGGGCACTGA
1 AGTGCAATCAGAGGCACCGA
11224019 AGTGCAATCAGAGGCACCGA
1 AGTGCAATCAGAGGCACCGA
*
11224039 AGTGCAATCAGAGGCATCGA
1 AGTGCAATCAGAGGCACCGA
* *
11224059 AGTACAAACAGAGGCA-C-A
1 AGTGCAATCAGAGGCACCGA
11224077 ATTGTGCAATCAGAGGCACC
1 A--GTGCAATCAGAGGCACC
11224097 AAAATGCAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
18 2 0.03
19 1 0.01
20 63 0.94
21 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.29, T:0.14
Consensus pattern (20 bp):
AGTGCAATCAGAGGCACCGA
Found at i:11225927 original size:14 final size:15
Alignment explanation
Indices: 11225904--11225945 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
11225894 ATTGCCACCC
*
11225904 TTCTCATTTTCCT-T
1 TTCTCTTTTTCCTGT
11225918 TTCTCTTTTTCCTGGT
1 TTCTCTTTTTCCT-GT
11225934 TTCTCTATTTTC
1 TTCTCT-TTTTC
11225946 TTCCTCTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 12 0.50
16 7 0.29
17 5 0.21
ACGTcount: A:0.05, C:0.26, G:0.05, T:0.64
Consensus pattern (15 bp):
TTCTCTTTTTCCTGT
Found at i:11226941 original size:72 final size:74
Alignment explanation
Indices: 11226858--11227017 Score: 243
Period size: 75 Copynumber: 2.2 Consensus size: 74
11226848 GAACATGCTT
*
11226858 ACTATTTTGTATTTATTGATTGCATGTAAAGCATGC-C-ATTACTGAATTACTAATCGCATGTTA
1 ACTATTTTGTATTTATTGATTGCATGTAAAGCATGCGCTATTACTGAATTACTAATCACATGTTA
11226921 ATACATGCC
66 ATACATGCC
* * * * *
11226930 ACTATTCTGTATTTATTGATTGCATGTAAAGCATGCTGCTGTTATTGAATTATTGATCACATGTT
1 ACTATTTTGTATTTATTGATTGCATGTAAAGCATGC-GCTATTACTGAATTACTAATCACATGTT
11226995 AATACATGCC
65 AATACATGCC
11227005 ACTATTTTGTATT
1 ACTATTTTGTATT
11227018 GTACCTAACT
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
72 35 0.45
74 1 0.01
75 42 0.54
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (74 bp):
ACTATTTTGTATTTATTGATTGCATGTAAAGCATGCGCTATTACTGAATTACTAATCACATGTTA
ATACATGCC
Found at i:11231775 original size:49 final size:49
Alignment explanation
Indices: 11231713--11231836 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
11231703 TCAAGTCGAC
* *
11231713 GCCATGTCTCAGACAGGTCTTACACTAACTTTCATATATCGAG-GCCAAT
1 GCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCG-GTGCCAAT
* * ** * * *
11231762 GTCATGTCCCAGACAGGTCTTACATTGGCTCTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGGTGCCAAT
11231811 GCCATGTCCCAGACAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
11231837 GCCACACAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 62 0.98
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTAACTCTCATATATCGGTGCCAAT
Found at i:11231877 original size:142 final size:144
Alignment explanation
Indices: 11231669--11231937 Score: 359
Period size: 142 Copynumber: 1.9 Consensus size: 144
11231659 TGTCGACACT
* * * * *
11231669 ATGTCCTAGACATGGTCTTACACTGGCTAGCACATCAAGTCGACGCCATGTCTCAGACAGGTCTT
1 ATGTCCCAGACATGGTCTTACACTGGCCAGCACAACAAGTCGACGCCATGTCCCAGACAAGTCTT
*
11231734 ACACTAACTT-TCATATATCGAGGCCAATGTCATGTCCCAGACAGGTCTTACATTGGCTCTCATC
66 ACACTAACTTGT-ATATATCGAGGCCAATG-CATGTCCCAGACAGGTCTTACACTGGCTCTCATC
11231798 TATCGGTGTCGATGCC
129 TATCGGTGTCGATGCC
*
11231814 ATGTCCCAGACA-GGTCTTACACT-GCCA-CACAACATG-CTGACGCCATGTCCCAGACAAGTCT
1 ATGTCCCAGACATGGTCTTACACTGGCCAGCACAACAAGTC-GACGCCATGTCCCAGACAAGTCT
* * *** *
11231875 TACACTAGCTTGTATATCTCGAGGTTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
65 TACACTAACTTGTATATATCGAGGCCAATGCATGTCCCAGACAGGTCTTACACTGGCTCTCAT
11231938 AATGTGGCTA
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
141 32 0.29
142 51 0.47
143 4 0.04
144 11 0.10
145 11 0.10
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (144 bp):
ATGTCCCAGACATGGTCTTACACTGGCCAGCACAACAAGTCGACGCCATGTCCCAGACAAGTCTT
ACACTAACTTGTATATATCGAGGCCAATGCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTA
TCGGTGTCGATGCC
Found at i:11239625 original size:44 final size:46
Alignment explanation
Indices: 11239517--11239631 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 46
11239507 GATAAGGTGC
* * *
11239517 TGACGTCATGTCCCAGACATGGT-TTACACTGGCTAGCACATCAAGT
1 TGACGCCATGTCCCAGACA-GGTCTTACACTGGCTAACACAACAAGT
* ** *
11239563 CGATACCATGTCCTAGACAGGTCTTACACT-GC-AACACAACAAGT
1 TGACGCCATGTCCCAGACAGGTCTTACACTGGCTAACACAACAAGT
11239607 TGACGCCATGTCCCAGACAGGTCTT
1 TGACGCCATGTCCCAGACAGGTCTT
11239632 GCATTAGCTT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
44 31 0.54
45 5 0.09
46 21 0.37
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (46 bp):
TGACGCCATGTCCCAGACAGGTCTTACACTGGCTAACACAACAAGT
Found at i:11245935 original size:9 final size:9
Alignment explanation
Indices: 11245921--11245945 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11245911 CCTTCCCAAC
11245921 TTACATTCA
1 TTACATTCA
11245930 TTACATTCA
1 TTACATTCA
11245939 TTACATT
1 TTACATT
11245946 TAATTAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (9 bp):
TTACATTCA
Found at i:11248875 original size:46 final size:45
Alignment explanation
Indices: 11248656--11248877 Score: 132
Period size: 46 Copynumber: 4.8 Consensus size: 45
11248646 GGGATATTTG
* * ** *
11248656 TGTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACATTATGA
1 TGTGCCAGTGTAAGATCATGTCTAGGACATGCATCGG--GTATGA-GA
* * * *
11248703 -GAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-GGTATTGAGA
1 TGTGCCAGTGTAAGATCATGTCTAGGACAT-GCATCGGGTA-TGAGA
* * * * *
11248748 CGAGAGCTAGTGTAAGAT-ATGTCTAGGACATGCATCGGCCT-CGAGA
1 --TGTGCCAGTGTAAGATCATGTCTAGGACATGCATCGG-GTATGAGA
* * *
11248794 TGTAAGCCGGCGTAAGA-CGTGTCTAGGACATGCATCGGGTATGAGA
1 TGT--GCCAGTGTAAGATCATGTCTAGGACATGCATCGGGTATGAGA
* *
11248840 TGTGTCAGTGTAAGATCATGTCTGGGACATGGCATCGG
1 TGTGCCAGTGTAAGATCATGTCTAGGACAT-GCATCGG
11248878 CATAGATATG
Statistics
Matches: 136, Mismatches: 25, Indels: 29
0.72 0.13 0.15
Matches are distributed among these distances:
44 10 0.07
45 16 0.12
46 65 0.48
47 26 0.19
48 19 0.14
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (45 bp):
TGTGCCAGTGTAAGATCATGTCTAGGACATGCATCGGGTATGAGA
Found at i:11249024 original size:96 final size:99
Alignment explanation
Indices: 11248843--11249024 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 99
11248833 TATGAGATGT
* * * *
11248843 GTCAGTGTAAGATCATGTCTGGGACATGGCATCGGCATAGATATGAAAGAGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCGACATAGATAGGAAAGAGCTAGTGTAAGACCA
**
11248908 TATCTGGAACATGGTGTCGGCCTCAATTTCGATA
66 TATCTGGAACATGGCATCGGCCTCAATTTCGATA
* *
11248942 GTCAGTGTAAGACCATGTCTGGGACATGACATCGAC-TCGAT-GGATA-AGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCGACATAGATAGGAAAGAGCTAGTGTAAGACCA
* *
11249004 TGTCTGGGACATGGCATCGGC
66 TATCTGGAACATGGCATCGGC
11249025 ATTATAACTT
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
96 33 0.45
97 3 0.04
98 4 0.05
99 33 0.45
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (99 bp):
GTCAGTGTAAGACCATGTCTGGGACATGACATCGACATAGATAGGAAAGAGCTAGTGTAAGACCA
TATCTGGAACATGGCATCGGCCTCAATTTCGATA
Found at i:11252999 original size:46 final size:46
Alignment explanation
Indices: 11252852--11253058 Score: 142
Period size: 46 Copynumber: 4.5 Consensus size: 46
11252842 TTTGTGTGCT
* ** * *
11252852 AGTGTAAGACATGTCTAGGACATGCATCAACCAC-ATTATG-AGAGCC
1 AGTGTAAGACATGT-TGGGACATGCATCGGCCTCGA-GATGTAGAGCC
* * * *
11252898 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGA-CATG-TTGGGACAT-GCATCGGCCTCGAGATGTAGAGCC
*
11252946 AGTGTAAGACATGCTTGAGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATG-TTGGGACATGCATCGGCCTCGAGATGTAGAGCC
* * * *
11252992 AGAGTAAGACGTGTCTGGGACATGCATTGG-CTACGAGATGT---GTC
1 AGTGTAAGACATGT-TGGGACATGCATCGGCCT-CGAGATGTAGAGCC
11253036 AGTGTAAGACCATGTTTGGGACA
1 AGTGTAAGA-CATG-TTGGGACA
11253059 CGACATTGGC
Statistics
Matches: 130, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.08
45 13 0.10
46 59 0.45
47 24 0.18
48 23 0.18
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTTGGGACATGCATCGGCCTCGAGATGTAGAGCC
Found at i:11254587 original size:50 final size:49
Alignment explanation
Indices: 11254421--11254645 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
11254411 CTGGTACGCA
* * * *
11254421 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGATGCACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* *
11254470 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
* ** *
11254519 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGATACACG
* * * * * *
11254569 TAGTAGCTTGCACTTAGTACTACACACGTGATCACAATTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGATACACG
11254620 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
11254646 TGCGACCTCA
Statistics
Matches: 151, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
49 74 0.49
50 41 0.27
51 35 0.23
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGATACACG
Found at i:11254653 original size:101 final size:99
Alignment explanation
Indices: 11254408--11254653 Score: 332
Period size: 101 Copynumber: 2.5 Consensus size: 99
11254398 TAGCCAAAGC
* * ** *
11254408 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGATGCACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
11254472 GTAGCCTGCACTTAGTACTACACACATGACCAAT
66 GTAGCCTGCACTTAGTACTACACACATGACCAAT
* * * * * *
11254506 TATCCGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
* *
11254571 GTAGCTTGCACTTAGTACTACACACGTGATCACAAT
66 GTAGCCTGCACTTAGTACTACACACATGA-C-CAAT
* *
11254607 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
11254654 CACAATAGAT
Statistics
Matches: 125, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 39 0.31
99 41 0.33
100 1 0.01
101 44 0.35
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACATGACCAAT
Found at i:11261343 original size:41 final size:41
Alignment explanation
Indices: 11261297--11261380 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
11261287 TAAATATATC
11261297 TACATTTCATTACCTCAATACCATAATGAAACAGTCTCGCA
1 TACATTTCATTACCTCAATACCATAATGAAACAGTCTCGCA
*
11261338 TACATTTCATTACCTCAATACCATAATGAAACATTCTCGCA
1 TACATTTCATTACCTCAATACCATAATGAAACAGTCTCGCA
11261379 TA
1 TA
11261381 ATCATTCTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (41 bp):
TACATTTCATTACCTCAATACCATAATGAAACAGTCTCGCA
Found at i:11261450 original size:13 final size:13
Alignment explanation
Indices: 11261432--11261457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11261422 ACTATCAAAT
11261432 CATTTTAACATTA
1 CATTTTAACATTA
11261445 CATTTTAACATTA
1 CATTTTAACATTA
11261458 GTCACAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
CATTTTAACATTA
Found at i:11262551 original size:196 final size:196
Alignment explanation
Indices: 11262217--11262610 Score: 788
Period size: 196 Copynumber: 2.0 Consensus size: 196
11262207 AATTTTACTT
11262217 ATTTTCATTTTAGTCCCTAAACTCAAAACTAATCAAAATTCCTTTACAAAATAGTCTTAATTAGC
1 ATTTTCATTTTAGTCCCTAAACTCAAAACTAATCAAAATTCCTTTACAAAATAGTCTTAATTAGC
11262282 AACCAAGTTTACAAATTCATCATTTAATCTCAAGAATGCCTAGAATTCATCAATGTAAAGTTTCA
66 AACCAAGTTTACAAATTCATCATTTAATCTCAAGAATGCCTAGAATTCATCAATGTAAAGTTTCA
11262347 AAGTTTTTAAAAATTTTACAAAATTGTCCCTGGTGTTAGCTAAATTAAGCTACAACTATCTCAAA
131 AAGTTTTTAAAAATTTTACAAAATTGTCCCTGGTGTTAGCTAAATTAAGCTACAACTATCTCAAA
11262412 A
196 A
11262413 ATTTTCATTTTAGTCCCTAAACTCAAAACTAATCAAAATTCCTTTACAAAATAGTCTTAATTAGC
1 ATTTTCATTTTAGTCCCTAAACTCAAAACTAATCAAAATTCCTTTACAAAATAGTCTTAATTAGC
11262478 AACCAAGTTTACAAATTCATCATTTAATCTCAAGAATGCCTAGAATTCATCAATGTAAAGTTTCA
66 AACCAAGTTTACAAATTCATCATTTAATCTCAAGAATGCCTAGAATTCATCAATGTAAAGTTTCA
11262543 AAGTTTTTAAAAATTTTACAAAATTGTCCCTGGTGTTAGCTAAATTAAGCTACAACTATCTCAAA
131 AAGTTTTTAAAAATTTTACAAAATTGTCCCTGGTGTTAGCTAAATTAAGCTACAACTATCTCAAA
11262608 A
196 A
11262609 AT
1 AT
11262611 ATAAAATTTA
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 198 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (196 bp):
ATTTTCATTTTAGTCCCTAAACTCAAAACTAATCAAAATTCCTTTACAAAATAGTCTTAATTAGC
AACCAAGTTTACAAATTCATCATTTAATCTCAAGAATGCCTAGAATTCATCAATGTAAAGTTTCA
AAGTTTTTAAAAATTTTACAAAATTGTCCCTGGTGTTAGCTAAATTAAGCTACAACTATCTCAAA
A
Found at i:11263878 original size:13 final size:13
Alignment explanation
Indices: 11263860--11263885 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11263850 ACTATCAAAT
11263860 CATTTTAACATTA
1 CATTTTAACATTA
11263873 CATTTTAACATTA
1 CATTTTAACATTA
11263886 GTCACAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
CATTTTAACATTA
Found at i:11267269 original size:28 final size:28
Alignment explanation
Indices: 11267232--11267338 Score: 151
Period size: 28 Copynumber: 3.8 Consensus size: 28
11267222 GCAATCAAAT
*
11267232 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
11267260 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* **
11267288 ATGGCACTTAGTGTGCGGGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
11267316 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
11267339 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:0.34, C:0.10, G:0.26, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:11269245 original size:41 final size:41
Alignment explanation
Indices: 11269199--11269282 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
11269189 TAAATATATC
*
11269199 TACATTTCATTACCTCAATACCATAATGAAACATTCTTGCA
1 TACATTTCATTACCTCAATACCATAATGAAACATTCTCGCA
* *
11269240 TACATTTTATTACCTTAATACCATAATGAAACATTCTCGCA
1 TACATTTCATTACCTCAATACCATAATGAAACATTCTCGCA
11269281 TA
1 TA
11269283 ATCATTCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (41 bp):
TACATTTCATTACCTCAATACCATAATGAAACATTCTCGCA
Found at i:11269352 original size:13 final size:13
Alignment explanation
Indices: 11269334--11269359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11269324 ACTATCAAAT
11269334 CATTTTAACATTA
1 CATTTTAACATTA
11269347 CATTTTAACATTA
1 CATTTTAACATTA
11269360 GTCACAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
CATTTTAACATTA
Found at i:11272298 original size:41 final size:40
Alignment explanation
Indices: 11272253--11272401 Score: 165
Period size: 40 Copynumber: 3.7 Consensus size: 40
11272243 ATAGAACAAC
* * *
11272253 AGCGGCGTTTTTTACTAAAACGCCACTAAAAACAGGGCATT
1 AGCGGCG-TTTTTAGTAAAACGCCGCTAAAAACAGAGCATT
* * *
11272294 AGCGGCG-CTTTAGGTAAAACACCGCTAAAACCAGAGCATT
1 AGCGGCGTTTTTA-GTAAAACGCCGCTAAAAACAGAGCATT
* **
11272334 AGCGGCGCTTTGGGTAAAACGCCGCTAAAAACCAGAGCATT
1 AGCGGCGTTTTTAGTAAAACGCCGCTAAAAA-CAGAGCATT
* *
11272375 AGCGGCGCTTTTGGTAAAACGCCGCTA
1 AGCGGCGTTTTTAGTAAAACGCCGCTA
11272402 CAAATTTAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 45 0.48
41 44 0.47
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (40 bp):
AGCGGCGTTTTTAGTAAAACGCCGCTAAAAACAGAGCATT
Found at i:11272323 original size:40 final size:40
Alignment explanation
Indices: 11272268--11272401 Score: 205
Period size: 40 Copynumber: 3.3 Consensus size: 40
11272258 CGTTTTTTAC
* *
11272268 TAAAACGCCACTAAAAACAGGGCATTAGCGGCGCTTTAGG
1 TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTAGG
* * *
11272308 TAAAACACCGCTAAAACCAGAGCATTAGCGGCGCTTTGGG
1 TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTAGG
*
11272348 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 TAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTAGG
11272389 TAAAACGCCGCTA
1 TAAAACGCCGCTA
11272402 CAAATTTAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 50 0.59
41 35 0.41
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.18
Consensus pattern (40 bp):
TAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTAGG
Found at i:11272585 original size:14 final size:14
Alignment explanation
Indices: 11272563--11272602 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11272553 TTAATTATCA
* *
11272563 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
11272577 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
11272591 ATATGGTTTAAG
1 TTATGGTTTAAG
11272603 CAGGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:11273437 original size:15 final size:15
Alignment explanation
Indices: 11273419--11273450 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11273409 TTTAATTTAG
*
11273419 AAGATAAATGTATAT
1 AAGATAAATATATAT
11273434 AAGATAAATATATAT
1 AAGATAAATATATAT
11273449 AA
1 AA
11273451 AATATTATAA
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:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:11273450 original size:10 final size:10
Alignment explanation
Indices: 11273437--11273469 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11273427 TGTATATAAG
11273437 ATAAATATAT
1 ATAAATATAT
11273447 ATAAA-ATATT
1 ATAAATATA-T
11273457 ATAAATATAT
1 ATAAATATAT
11273467 ATA
1 ATA
11273470 TGAAAAGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 3 0.14
10 15 0.71
11 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATAAATATAT
Found at i:11275052 original size:18 final size:17
Alignment explanation
Indices: 11275031--11275073 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
11275021 ATCTTAATGA
11275031 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
11275049 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
11275066 TCGATGAT
1 T-GATGAT
11275074 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:11277309 original size:21 final size:22
Alignment explanation
Indices: 11277280--11277324 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
11277270 GTTTTTATAT
*
11277280 TTTGGTTCAACTTAAGTAT-TA
1 TTTGATTCAACTTAAGTATGTA
11277301 TTTGATTCAACTTAAGTATGTA
1 TTTGATTCAACTTAAGTATGTA
11277323 TT
1 TT
11277325 AATTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (22 bp):
TTTGATTCAACTTAAGTATGTA
Found at i:11283488 original size:21 final size:21
Alignment explanation
Indices: 11283462--11283505 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
11283452 TCAACTTAAA
11283462 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
11283483 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
11283504 GC
1 GC
11283506 AGAGCAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.20, G:0.57, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:11283862 original size:43 final size:43
Alignment explanation
Indices: 11283815--11284270 Score: 483
Period size: 43 Copynumber: 10.4 Consensus size: 43
11283805 ATTAGTGGCG
11283815 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCC
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCC
* * * *
11283858 TTTTTTTACAAAAAGCGCCGCTAAAAG-TATAGGTCTATAGCGGCA
1 -TTTTTTA-TAAAAGCGCCGCT-AAAGTTCTTGGTCTATAGCGGCC
11283903 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCC
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCC
* * * *
11283946 TTTTTTTACAAAAAGCGCCGCTAAAAG-TATAGGTCTATAGCGGCA
1 -TTTTTTA-TAAAAGCGCCGCT-AAAGTTCTTGGTCTATAGCGGCC
11283991 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCC
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCC
* * * *
11284034 TTTTTTTACAAAAAGCGCCGCTAAAAG-TATAGGTCTATAGCGGCA
1 -TTTTTTA-TAAAAGCGCCGCT-AAAGTTCTTGGTCTATAGCGGCC
*
11284079 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCGT
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGC-C
* * * * *
11284123 TTTTTTACAAAAGCGCCGCTAAAAGTAC-AGGTCTATAGTGGCG
1 TTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTATAGCGGCC
* * * *
11284166 TTTTTTATAAAAGCGCTGCTAAAGGTCTTGGTCTTTACCGGCGC
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGC-C
* ** * * *
11284210 TTTTATA-AAAAATGCCGCTAAAGGTCCTGGTCTTTAGCGGCGC
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGC-C
* *
11284253 TTTTATA-AAAAACGCCGC
1 TTTTTTATAAAAGCGCCGC
11284271 GAACTTTTGT
Statistics
Matches: 352, Mismatches: 45, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
42 17 0.05
43 157 0.45
44 79 0.22
45 87 0.25
46 12 0.03
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (43 bp):
TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCC
Found at i:11283918 original size:88 final size:88
Alignment explanation
Indices: 11283815--11284213 Score: 710
Period size: 88 Copynumber: 4.5 Consensus size: 88
11283805 ATTAGTGGCG
11283815 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCCTTTTTTTACAAAAAGCGCCGCT
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCCTTTTTTTACAAAAAGCGCCGCT
11283880 AAAAGTATAGGTCTATAGCGGCA
66 AAAAGTATAGGTCTATAGCGGCA
11283903 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCCTTTTTTTACAAAAAGCGCCGCT
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCCTTTTTTTACAAAAAGCGCCGCT
11283968 AAAAGTATAGGTCTATAGCGGCA
66 AAAAGTATAGGTCTATAGCGGCA
11283991 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCCTTTTTTTACAAAAAGCGCCGCT
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCCTTTTTTTACAAAAAGCGCCGCT
11284056 AAAAGTATAGGTCTATAGCGGCA
66 AAAAGTATAGGTCTATAGCGGCA
*
11284079 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCGTTTTTTTAC-AAAAGCGCCGCT
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCCTTTTTTTACAAAAAGCGCCGCT
* * *
11284143 AAAAGTACAGGTCTATAGTGGCG
66 AAAAGTATAGGTCTATAGCGGCA
* * * *
11284166 TTTTTTATAAAAGCGCTGCTAAAGGTCTTGGTCTTTACCGGCGCTTTT
1 TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGC-CTTTT
11284214 ATAAAAAATG
Statistics
Matches: 301, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
87 70 0.23
88 231 0.77
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (88 bp):
TTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAGCGGCCTTTTTTTACAAAAAGCGCCGCT
AAAAGTATAGGTCTATAGCGGCA
Found at i:11309403 original size:39 final size:38
Alignment explanation
Indices: 11309343--11309419 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
11309333 TAAATTTTTT
* *
11309343 GAATATGAAAAGCTCTGTCTCTGGGAAATATGTAGGGA
1 GAATATGAAAAACTCTGTCTCTAGGAAATATGTAGGGA
* *
11309381 NGAATATGAAAAACTCTTTCTCTATGAAATATGTAGGGA
1 -GAATATGAAAAACTCTGTCTCTAGGAAATATGTAGGGA
11309420 AATGAAGCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.29
Consensus pattern (38 bp):
GAATATGAAAAACTCTGTCTCTAGGAAATATGTAGGGA
Found at i:11315848 original size:46 final size:44
Alignment explanation
Indices: 11315690--11315903 Score: 168
Period size: 46 Copynumber: 4.7 Consensus size: 44
11315680 TTGTGTGAGC
* * * * *
11315690 TAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT--GTGT
* * *
11315736 CAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGA-GACGA-GTGC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACGA-GATGTGT
11315784 TAGTGTAAG-CATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGT
1 TAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGT--GT
* *
11315829 TAGTATAAGACATGCCTGGGACATGCATCGGCTACGAGATGTGT
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGT
*
11315873 CAGTGTAAGACCATGTCTGGGACATGGCATC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATC
11315904 AGCATAGATA
Statistics
Matches: 138, Mismatches: 15, Indels: 30
0.75 0.08 0.16
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 11 0.08
45 31 0.22
46 56 0.41
47 13 0.09
48 18 0.13
51 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGT
Found at i:11328282 original size:29 final size:29
Alignment explanation
Indices: 11328249--11328309 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
11328239 TATGATACAC
11328249 CTTTCTCCGTACAAATAATGTCTCCAAAT
1 CTTTCTCCGTACAAATAATGTCTCCAAAT
*
11328278 CTTTCTCCGTACAAGTAATGTCTCCAAAT
1 CTTTCTCCGTACAAATAATGTCTCCAAAT
11328307 CTT
1 CTT
11328310 AAGTGTGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (29 bp):
CTTTCTCCGTACAAATAATGTCTCCAAAT
Found at i:11331476 original size:26 final size:26
Alignment explanation
Indices: 11331430--11331482 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11331420 TCAAACATGC
*
11331430 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
11331456 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
11331482 A
1 A
11331483 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:11333213 original size:240 final size:240
Alignment explanation
Indices: 11332790--11333237 Score: 869
Period size: 240 Copynumber: 1.9 Consensus size: 240
11332780 ACTTACCTTC
11332790 AATTTTCTTCCCCAAGTAACCGAACATTCAAGAGCTTTCTCCTCTCCTTTCTCTTCTCTAACTTT
1 AATTTTCTTCCCCAAGTAACCGAACATTCAAGAGCTTTCTCCTCTCCTTTCTCTTCTCTAACTTT
11332855 AGGCTATGATGAACAAAGATGGACAAAACTTTGTTCTTTTCACCCCTTTTTCTTTTAATAAAATT
66 AGGCTATGATGAACAAAGATGGACAAAACTTTGTTCTTTTCACCCCTTTTTCTTTTAATAAAATT
*
11332920 TCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATTCCAATCATGGAACATTTACC
131 TCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATTCCAATCATGAAACATTTACC
11332985 TAACCCATTATCAATTTGTATCAATTTGTACCATAAATTATGGAT
196 TAACCCATTATCAATTTGTATCAATTTGTACCATAAATTATGGAT
*
11333030 AATTTTCTTCCCCAAGTGACCGAACATTCAAGAGCTTTCTCCTCTCCTTTCTCTTCTCTAACTTT
1 AATTTTCTTCCCCAAGTAACCGAACATTCAAGAGCTTTCTCCTCTCCTTTCTCTTCTCTAACTTT
*
11333095 AGGCTATGATGAACAAATATGGACAAAACTTTGTTCTTTTCACCCCTTTTTCTTTTAATAAAATT
66 AGGCTATGATGAACAAAGATGGACAAAACTTTGTTCTTTTCACCCCTTTTTCTTTTAATAAAATT
11333160 TCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATTCCAATCATGAAACATTTACC
131 TCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATTCCAATCATGAAACATTTACC
11333225 TAACCCATTATCA
196 TAACCCATTATCA
11333238 TGGAACATTT
Statistics
Matches: 205, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
240 205 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (240 bp):
AATTTTCTTCCCCAAGTAACCGAACATTCAAGAGCTTTCTCCTCTCCTTTCTCTTCTCTAACTTT
AGGCTATGATGAACAAAGATGGACAAAACTTTGTTCTTTTCACCCCTTTTTCTTTTAATAAAATT
TCATATTTCATCCATTTAATTCTTTAATACAAAAGACATGAAATTCCAATCATGAAACATTTACC
TAACCCATTATCAATTTGTATCAATTTGTACCATAAATTATGGAT
Found at i:11333244 original size:26 final size:26
Alignment explanation
Indices: 11333208--11333263 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
11333198 TGAAATTCCA
11333208 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
11333234 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
11333260 ATCA
1 ATCA
11333264 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:11353019 original size:28 final size:29
Alignment explanation
Indices: 11352987--11353043 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
11352977 CTCTGAAGTT
*
11352987 CTGATAT-CATGGCCTGAAGCCAAATCAG
1 CTGATATGCATGGCCCGAAGCCAAATCAG
11353015 CTGATATGCATGGCCCGAAGCCAAATCAG
1 CTGATATGCATGGCCCGAAGCCAAATCAG
11353044 TATAATTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (29 bp):
CTGATATGCATGGCCCGAAGCCAAATCAG
Found at i:11354244 original size:42 final size:42
Alignment explanation
Indices: 11354196--11354282 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
11354186 AACAATCATA
*
11354196 TTATCATGCTGAATACATTAAAATATTGATAAAACATAATTT
1 TTATCATGCTGAATACATTAAAATATTAATAAAACATAATTT
*
11354238 TTATCATGCTGCATACATTAAAATATTAATAAAACATAATTT
1 TTATCATGCTGAATACATTAAAATATTAATAAAACATAATTT
11354280 TTA
1 TTA
11354283 CTTCAAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (42 bp):
TTATCATGCTGAATACATTAAAATATTAATAAAACATAATTT
Found at i:11358190 original size:68 final size:68
Alignment explanation
Indices: 11358081--11358216 Score: 218
Period size: 68 Copynumber: 2.0 Consensus size: 68
11358071 TTCATGGGCT
* *
11358081 TAGGCCGATTTTGGGCCACAATGGGCCCAAATGGGCCGTGTGGGCCCCACGGGCTCGAGGGCCAT
1 TAGGCCGATTTTGGGCCACAATGGGCCAAAATGGGCCGTGTGGGCCCCACGGGCTAGAGGGCCAT
11358146 GCA
66 GCA
* ** *
11358149 TAGGCCGATTTTGGGCCACGATGGGCCAAAATGGGTTGTGTGGGCCCTACGGGCTAGAGGGCCAT
1 TAGGCCGATTTTGGGCCACAATGGGCCAAAATGGGCCGTGTGGGCCCCACGGGCTAGAGGGCCAT
11358214 GCA
66 GCA
11358217 CGAGCAAGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.18, C:0.26, G:0.38, T:0.18
Consensus pattern (68 bp):
TAGGCCGATTTTGGGCCACAATGGGCCAAAATGGGCCGTGTGGGCCCCACGGGCTAGAGGGCCAT
GCA
Found at i:11358501 original size:27 final size:27
Alignment explanation
Indices: 11358465--11358559 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
11358455 TTTGCCCTTC
* *
11358465 TAGGGAAAAATGACTGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
* *
11358492 TAAGGTAAAATAACCGAAATACCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
*
11358519 TAGGGTAAAATGACCGAAATATCCCCA
1 TAGGGTAAAATGACCGAAATACCCCCA
11358546 TAGGGTAAAATGAC
1 TAGGGTAAAATGAC
11358560 TATTTTGCCC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (27 bp):
TAGGGTAAAATGACCGAAATACCCCCA
Found at i:11359082 original size:34 final size:35
Alignment explanation
Indices: 11359024--11359101 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 35
11359014 AGATGGGCCT
11359024 AGGCCCAGACTGTTTACTGATACTAAAATAGGCTA
1 AGGCCCAGACTGTTTACTGATACTAAAATAGGCTA
* * * * *
11359059 AGGCCCAGATTG-TTACTGTTACTAACATGGGCTT
1 AGGCCCAGACTGTTTACTGATACTAAAATAGGCTA
11359093 AGGCCCAGA
1 AGGCCCAGA
11359102 ATGTATTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
34 27 0.71
35 11 0.29
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (35 bp):
AGGCCCAGACTGTTTACTGATACTAAAATAGGCTA
Found at i:11359214 original size:69 final size:69
Alignment explanation
Indices: 11359103--11359240 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
11359093 AGGCCCAGAA
11359103 TGTATTTACTCTCTGTATGTTCGACTATTTGTTTATTATCGGGATTACACACTGAGTTTTCGTAA
1 TGTATTTACTCTCTGTATGTTCGACTATTTGTTTATTATCGGGATTACACACTGAGTTTTCGTAA
11359168 ACTC
66 ACTC
*
11359172 TGTATTTACTCTCTGTATGTTTGACTATTTGTTTATTATCGGGATTACACACTGAGTTTTCGTAA
1 TGTATTTACTCTCTGTATGTTCGACTATTTGTTTATTATCGGGATTACACACTGAGTTTTCGTAA
11359237 ACTC
66 ACTC
11359241 ACCCAACTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.46
Consensus pattern (69 bp):
TGTATTTACTCTCTGTATGTTCGACTATTTGTTTATTATCGGGATTACACACTGAGTTTTCGTAA
ACTC
Found at i:11360029 original size:42 final size:42
Alignment explanation
Indices: 11359921--11360087 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 42
11359911 CGATATGTGT
* * * **
11359921 TTTCGTGTAAGACCACGTCTGGGACATTGAAATTG-ACTTATGA
1 TTTCATGTAAGACCACGTCTAGGACGTTGGCATTGTA-TT-TGA
*
11359964 TTTACATGTAAGACCACGCCTAGGACGTTGGCATTGTATTTGA
1 TTT-CATGTAAGACCACGTCTAGGACGTTGGCATTGTATTTGA
** *
11360007 TTTCATGTAAGACCTTGTCTAGGACAG-TGGCATCGATATTTGA
1 TTTCATGTAAGACCACGTCTAGGAC-GTTGGCATTG-TATTTGA
* * *
11360050 TTACATGTAAGACCACATCTAGGACGTTGGAATTGTAT
1 TTTCATGTAAGACCACGTCTAGGACGTTGGCATTGTAT
11360088 GAGCTTTCCG
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
42 30 0.29
43 44 0.43
44 28 0.27
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (42 bp):
TTTCATGTAAGACCACGTCTAGGACGTTGGCATTGTATTTGA
Found at i:11382398 original size:40 final size:40
Alignment explanation
Indices: 11382350--11383296 Score: 1831
Period size: 40 Copynumber: 23.7 Consensus size: 40
11382340 GCAAACACAT
* * *
11382350 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
11382390 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382430 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382470 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382510 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382550 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382590 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382630 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382670 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382710 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382750 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382790 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382830 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382870 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382910 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382950 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11382990 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11383030 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11383070 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11383110 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11383150 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
11383190 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
11383230 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
*
11383270 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCATAGCCCGGATATA
11383297 ATCCAATGCT
Statistics
Matches: 901, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 901 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:11385765 original size:53 final size:49
Alignment explanation
Indices: 11385691--11385836 Score: 143
Period size: 49 Copynumber: 2.9 Consensus size: 49
11385681 TACTATAAGG
* * * * *
11385691 AAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTC
1 AAAAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTTC
* *
11385738 ATAAGGCAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTTC
1 --AA---AAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTTC
* * *
11385792 AAAAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 AAAAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAG
11385837 GTACCCGTGT
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
49 40 0.49
52 6 0.07
53 32 0.40
54 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (49 bp):
AAAAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTTC
Found at i:11385931 original size:23 final size:24
Alignment explanation
Indices: 11385905--11385949 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
11385895 AAGGTAAGGT
*
11385905 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
*
11385928 AAGGTAATACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
11385950 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:11391678 original size:83 final size:83
Alignment explanation
Indices: 11391539--11391729 Score: 239
Period size: 83 Copynumber: 2.3 Consensus size: 83
11391529 AATACTCGAT
*
11391539 ATCTCACACACTAAGTGCCAAAGCATAGCTGAAGCTATTATAATTTCGCACACTAAGTGCCTTT-
1 ATCTCACACACTAAGTGCCAAAGCATAGCCGAAGCTATTATAATTTCGCACACTAAGTG-CTTTA
11391603 TATAGCCGAAGCTATCTCA
65 TATAGCCGAAGCTATCTCA
* * * *
11391622 ATCTCACACACTAAGTGCCATATA-TATAGCCGAAGCTATTCTGA-TTCGCATACTAAGTGCTTT
1 ATCTCACACACTAAGTGCCA-A-AGCATAGCCGAAGCTATTATAATTTCGCACACTAAGTGCTTT
* *
11391685 ATATAGCCGAAGCTATTTCG
64 ATATAGCCGAAGCTATCTCA
* *
11391705 AT-ACGCACACTAAGTGCCAAA-CATA
1 ATCTCACACACTAAGTGCCAAAGCATA
11391730 ATCGATTCGT
Statistics
Matches: 95, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
80 4 0.04
81 1 0.01
82 19 0.20
83 53 0.56
84 17 0.18
85 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (83 bp):
ATCTCACACACTAAGTGCCAAAGCATAGCCGAAGCTATTATAATTTCGCACACTAAGTGCTTTAT
ATAGCCGAAGCTATCTCA
Found at i:11391698 original size:40 final size:42
Alignment explanation
Indices: 11391563--11391722 Score: 179
Period size: 40 Copynumber: 3.9 Consensus size: 42
11391553 GTGCCAAAGC
* *
11391563 ATAGCTGAAGCTATTAT-AATTTCGCACACTAAGTGCCTTT-T
1 ATAGCCGAAGCTATTCTCAA-TTCGCACACTAAGTGCCTTTAT
* *
11391604 ATAGCCGAAGCTA-TCTCAATCTCACACACTAAGTGCCATATAT
1 ATAGCCGAAGCTATTCTCAAT-TCGCACACTAAGTGCC-TTTAT
* *
11391647 ATAGCCGAAGCTATTCT-GATTCGCATACTAAGTG-CTTTAT
1 ATAGCCGAAGCTATTCTCAATTCGCACACTAAGTGCCTTTAT
* *
11391687 ATAGCCGAAGCTATT-TCGATACGCACACTAAGTGCC
1 ATAGCCGAAGCTATTCTCAATTCGCACACTAAGTGCC
11391723 AAACATAATC
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 37 0.36
41 31 0.30
42 14 0.14
43 16 0.16
44 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATAGCCGAAGCTATTCTCAATTCGCACACTAAGTGCCTTTAT
Found at i:11394155 original size:15 final size:15
Alignment explanation
Indices: 11394135--11394168 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11394125 TGTGCTTTAT
11394135 TCAAAATTATCTGAA
1 TCAAAATTATCTGAA
*
11394150 TCAAAATTATTTGAA
1 TCAAAATTATCTGAA
11394165 TCAA
1 TCAA
11394169 CTCTGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (15 bp):
TCAAAATTATCTGAA
Found at i:11399393 original size:56 final size:56
Alignment explanation
Indices: 11399325--11399479 Score: 181
Period size: 56 Copynumber: 2.8 Consensus size: 56
11399315 TCTAGGACAG
**
11399325 TGGCATCGATATGTGATTTCAATATGTGTGA-GCAAGTAAGACCAT-GTTTAATATGT
1 TGGCATCGATATGTGATTTCAATATGTGT-ATGCAAGTAAGACC-TCGTTTAATACAT
* * *
11399381 TGGCATCAATATGTGA-TTCTGATATGTGTATGCGAGTAAGACCTCGTTTAATACAT
1 TGGCATCGATATGTGATTTC-AATATGTGTATGCAAGTAAGACCTCGTTTAATACAT
* * * *
11399437 TGGCATCGATATGTGATTCCAATATGTGTTTACGAGTAAGACC
1 TGGCATCGATATGTGATTTCAATATGTGTATGCAAGTAAGACC
11399480 CTGTCTGGGA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
55 5 0.06
56 78 0.92
57 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (56 bp):
TGGCATCGATATGTGATTTCAATATGTGTATGCAAGTAAGACCTCGTTTAATACAT
Found at i:11399500 original size:56 final size:56
Alignment explanation
Indices: 11399304--11399506 Score: 180
Period size: 56 Copynumber: 3.6 Consensus size: 56
11399294 TTTGATTCGT
* * *
11399304 GTAAGACCATGTCTAGGACAGTGGCATCGATATGTGATTTCAATATGTG-TGAGCAA
1 GTAAGACCATGTCTAGGACAGTGGCATCGATATGTGATTCCAATATGTGTTTA-CGA
* * * ** * *
11399360 GTAAGACCATGTTTA--ATATGTTGGCATCAATATGTGATTCTGATATGTGTATGCGA
1 GTAAGACCATGTCTAGGACA-G-TGGCATCGATATGTGATTCCAATATGTGTTTACGA
* ** *
11399416 GTAAGACC-TCGTTTAATACATTGGCATCGATATGTGATTCCAATATGTGTTTACGA
1 GTAAGACCAT-GTCTAGGACAGTGGCATCGATATGTGATTCCAATATGTGTTTACGA
* * * *
11399472 GTAAGACCCTGTCTGGGATAGTGTCATCGATATGT
1 GTAAGACCATGTCTAGGACAGTGGCATCGATATGT
11399507 AATTACATAT
Statistics
Matches: 116, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
54 2 0.02
55 2 0.02
56 109 0.94
57 1 0.01
58 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
GTAAGACCATGTCTAGGACAGTGGCATCGATATGTGATTCCAATATGTGTTTACGA
Found at i:11402700 original size:40 final size:40
Alignment explanation
Indices: 11402605--11402733 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
11402595 ATCTCACACG
* *
11402605 CTAAGTGCCTTT-TATAGCTGAAGCTATCTCAG-TCTCGCACA
1 CTAAGTG-CTTTATATAGCCGAAGCTAT-TCCGAT-TCGCACA
**
11402646 CTAAGTGCCATATATAGCCGAAGCTATTCCGATTCGCACA
1 CTAAGTGCTTTATATAGCCGAAGCTATTCCGATTCGCACA
* *
11402686 CTAAGTGCTTTATATAGCCGAAGCTATTTCGATACGCACA
1 CTAAGTGCTTTATATAGCCGAAGCTATTCCGATTCGCACA
11402726 CTAAGTGC
1 CTAAGTGC
11402734 CAAACATAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
40 56 0.72
41 22 0.28
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (40 bp):
CTAAGTGCTTTATATAGCCGAAGCTATTCCGATTCGCACA
Found at i:11417787 original size:32 final size:32
Alignment explanation
Indices: 11417751--11417813 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
11417741 AGTCTAAGCA
11417751 ATATTCCTCATGAAACTAAAATTTTGACTAAT
1 ATATTCCTCATGAAACTAAAATTTTGACTAAT
*
11417783 ATATTCCTCATGAAACTAAGATTTTGACTAA
1 ATATTCCTCATGAAACTAAAATTTTGACTAA
11417814 CAAACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (32 bp):
ATATTCCTCATGAAACTAAAATTTTGACTAAT
Found at i:11419648 original size:41 final size:41
Alignment explanation
Indices: 11419512--11419630 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
11419502 ATTACTCGAT
*
11419512 ATCTCGCACACTCAGTGCATTACATAGCCGAAGCTATTATA
1 ATCTCGCACACTAAGTGCATTACATAGCCGAAGCTATTATA
* * * *
11419553 ATCTCACACACTAAGTTCATTACATAGCCAAAGTTATTATA
1 ATCTCGCACACTAAGTGCATTACATAGCCGAAGCTATTATA
*
11419594 ATCTCGTACACTAAGTGCATTACATAGCCGAAGCTAT
1 ATCTCGCACACTAAGTGCATTACATAGCCGAAGCTAT
11419631 CTCGATATTG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCATTACATAGCCGAAGCTATTATA
Found at i:11419958 original size:122 final size:122
Alignment explanation
Indices: 11419776--11420016 Score: 419
Period size: 122 Copynumber: 2.0 Consensus size: 122
11419766 CAGACGTAAA
* * * *
11419776 AACAACGAAACCAGTCGATTAGTCGAGTACTTTATTCTTGCCTCAATCTAAATCCGAGTTCCTTT
1 AACAACAAAACCAGTCGATTAGTCGACTACTTTATTCTTGCCTCAATCTAAATCCAAGTTCCTCT
*
11419841 TTTCTTGATCTATATTATAACAAATTCAACTCATTTAATCACATAATCTTTCAAGTT
66 TTTCTTAATCTATATTATAACAAATTCAACTCATTTAATCACATAATCTTTCAAGTT
* *
11419898 AACAACAAAACTAGTCGATTAGTCGACTACTTTATTCTTGCCTCGATCTAAATCCAAGTTCCTCT
1 AACAACAAAACCAGTCGATTAGTCGACTACTTTATTCTTGCCTCAATCTAAATCCAAGTTCCTCT
11419963 TTTCTTAATCTATATTATAACAAATTCAACTCATTTAATCACATAATCTTTCAA
66 TTTCTTAATCTATATTATAACAAATTCAACTCATTTAATCACATAATCTTTCAA
11420017 TTTAGTCCAC
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
122 112 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (122 bp):
AACAACAAAACCAGTCGATTAGTCGACTACTTTATTCTTGCCTCAATCTAAATCCAAGTTCCTCT
TTTCTTAATCTATATTATAACAAATTCAACTCATTTAATCACATAATCTTTCAAGTT
Found at i:11421693 original size:27 final size:27
Alignment explanation
Indices: 11421663--11421766 Score: 154
Period size: 27 Copynumber: 3.9 Consensus size: 27
11421653 ATTACCAAAG
11421663 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
11421690 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTT
** *
11421717 TACCCTTAATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
11421744 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
11421767 AAAATACCCT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:11421774 original size:27 final size:27
Alignment explanation
Indices: 11421744--11422152 Score: 411
Period size: 27 Copynumber: 15.2 Consensus size: 27
11421734 ATTATTGTTT
** *
11421744 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
11421771 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
11421798 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * * *
11421825 TACCCTAG-TCTATAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
11421851 TACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
*
11421878 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
11421905 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
11421932 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
11421959 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
11421986 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
11422013 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
11422040 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
11422067 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
11422094 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
11422121 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
11422148 TACCC
1 TACCC
11422153 CTGATTTACA
Statistics
Matches: 317, Mismatches: 50, Indels: 30
0.80 0.13 0.08
Matches are distributed among these distances:
26 32 0.10
27 281 0.89
28 4 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:11421791 original size:54 final size:54
Alignment explanation
Indices: 11421650--11421792 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
11421640 CTCAAATTGT
* * * *
11421650 AAAATTACCAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTAT
1 AAAATTACTAAAATACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTAC
* *** * *
11421704 AGAATTACTATTTTACCCTTAATTTATAGAATTATTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTAC
* * *
11421758 AAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 AAAATTACTAAAATACCCTTGATTTATAGAATTAC
11421793 CAAAATACCC
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTTGATTTATAGAATTACTGTTTTACCCTCGATTTAC
Found at i:11421802 original size:54 final size:53
Alignment explanation
Indices: 11421744--11422263 Score: 438
Period size: 54 Copynumber: 9.6 Consensus size: 53
11421734 ATTATTGTTT
** * **
11421744 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAA
** * * * * *
11421798 TACCCTCGATCAGTAAAATTACCAAAATACCCTAGTCTATAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAA
* * **
11421851 TACCC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACCCT-GGTTTGTAAAATTACCAAAA
* * *
11421905 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACC-CTGGTTTGTAAAATTACCAAAA
* *
11421959 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAA
* * * **
11422013 TACCACT-GGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTGTAAAATTACCAAAATACCCT-GGTTTGTAAAATTACCAAAA
* * *
11422067 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACC-CTGGTTTGTAAAATTACCAAAA
* * ** *
11422121 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTCGATTTGTAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACCA-AAA
* * *** ** **
11422175 TACCCTTGACTTTCTAAAAATTATGGAAATACCACTGGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTGT-AAAATTACCAAAATACC-CTGGTTTGTAAAATTACCAAAA
* * * * *
11422231 TACCCTTGGTTTGTAGATTTACCAAAACACCCT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCT
11422264 TGTAGGATGA
Statistics
Matches: 380, Mismatches: 68, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
52 1 0.00
53 51 0.13
54 267 0.70
55 24 0.06
56 37 0.10
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (53 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAA
Found at i:11421953 original size:81 final size:81
Alignment explanation
Indices: 11421758--11422154 Score: 645
Period size: 81 Copynumber: 4.9 Consensus size: 81
11421748 CTCGATTTAC
* *** * * **
11421758 AAAATTACTAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
* *
11421822 AAATA-CCCTAGTCTAT
65 AAATACCCCTAGTTTGT
* * * *
11421838 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
11421903 AATACCCCTAGTTTGT
66 AATACCCCTAGTTTGT
11421919 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
11421984 AATACCCCTAGTTTGT
66 AATACCCCTAGTTTGT
11422000 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
11422065 AATACCCCTAGTTTGT
66 AATACCCCTAGTTTGT
11422081 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
11422146 AATACCCCT
66 AATACCCCT
11422155 GATTTACAAA
Statistics
Matches: 302, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
80 60 0.20
81 242 0.80
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTTTGT
Found at i:11422159 original size:27 final size:27
Alignment explanation
Indices: 11421758--11422262 Score: 393
Period size: 27 Copynumber: 18.7 Consensus size: 27
11421748 CTCGATTTAC
* * * **
11421758 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
**
11421785 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* *
11421812 AAAATTACCAAAATA-CCCT-AGTCTAT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* * *
11421838 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
11421865 AAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
11421892 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
11421919 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
11421946 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
11421973 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
11422000 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
11422027 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
11422054 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
11422081 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
11422108 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
**
11422135 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
11422162 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCCTGA-TTTGT
*** * * **
11422190 AAAAATTATGGAAATACCACTGGTTTAC
1 -AAAATTACCAAAATACCCCTGATTTGT
** * *
11422218 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
11422245 AGATTTACCAAAACACCC
1 AAAATTACCAAAATACCC
11422263 TTGTAGGATG
Statistics
Matches: 383, Mismatches: 73, Indels: 44
0.77 0.15 0.09
Matches are distributed among these distances:
25 1 0.00
26 37 0.10
27 308 0.80
28 22 0.06
29 15 0.04
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:11422337 original size:27 final size:27
Alignment explanation
Indices: 11422307--11422397 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
11422297 TAAAAAGACC
11422307 GTAGGGTAAAGTGACCGTAAAGCCCTT
1 GTAGGGTAAAGTGACCGTAAAGCCCTT
*
11422334 GTAGGGTGAAGTGACCGTAAAGCCCTT
1 GTAGGGTAAAGTGACCGTAAAGCCCTT
* * *
11422361 GTAGGGTGAAGTGACTGTAATA-CCCCT
1 GTAGGGTAAAGTGACCGTAA-AGCCCTT
*
11422388 GTATGGTAAA
1 GTAGGGTAAA
11422398 ATGATGAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (27 bp):
GTAGGGTAAAGTGACCGTAAAGCCCTT
Found at i:11423297 original size:25 final size:26
Alignment explanation
Indices: 11423174--11423322 Score: 230
Period size: 26 Copynumber: 5.8 Consensus size: 26
11423164 GAGGAAGTGC
*
11423174 AAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
11423200 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
11423226 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
11423252 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
11423278 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
11423303 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
11423323 ATTAAAGAGG
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
25 31 0.27
26 85 0.73
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:11423526 original size:42 final size:42
Alignment explanation
Indices: 11423467--11423558 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
11423457 TAGTCTCCCC
* ** *
11423467 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
11423509 AAATGGGCTTGCATACATCCGTTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
11423551 AAATGGGC
1 AAATGGGC
11423559 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:11423659 original size:31 final size:31
Alignment explanation
Indices: 11423582--11423660 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
11423572 CATTTACAGT
*
11423582 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
11423613 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
11423644 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
11423661 AACCATTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:11436637 original size:16 final size:16
Alignment explanation
Indices: 11436618--11436654 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11436608 TTTCATTAAG
11436618 TTTTTAAGACTCATTT
1 TTTTTAAGACTCATTT
*
11436634 TTTTTAAGATTCATTT
1 TTTTTAAGACTCATTT
*
11436650 GTTTT
1 TTTTT
11436655 CCTTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTTTAAGACTCATTT
Found at i:11438401 original size:42 final size:43
Alignment explanation
Indices: 11438283--11438432 Score: 194
Period size: 43 Copynumber: 3.5 Consensus size: 43
11438273 GGACCAAGAT
* * *
11438283 TTTTAGCGGCATTTGTGGGAAAAGCATCACTAAAAGTCATGGA
1 TTTTAGCGGCATTTGTGGGAAAAGCGTCGCTAAAAGTCATGGC
* * * *
11438326 TTTTAGTGGCATTTATGGGAAAAGCGCCGCTAAAAGTCGTGGC
1 TTTTAGCGGCATTTGTGGGAAAAGCGTCGCTAAAAGTCATGGC
* * *
11438369 TTTTAGCGGCGTTTGT-CGAAAAGCGTCGCTAAAAGTTATGGC
1 TTTTAGCGGCATTTGTGGGAAAAGCGTCGCTAAAAGTCATGGC
*
11438411 TTTTAGCGGCGTTTGTGGGAAA
1 TTTTAGCGGCATTTGTGGGAAA
11438433 GGCGCCAAGC
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 38 0.42
43 53 0.58
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (43 bp):
TTTTAGCGGCATTTGTGGGAAAAGCGTCGCTAAAAGTCATGGC
Found at i:11438870 original size:21 final size:21
Alignment explanation
Indices: 11438846--11438917 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
11438836 TTGCCATTGA
*
11438846 TGCTGCCTCTGCCTCTCTCGC
1 TGCTGCCTCTGCCTCCCTCGC
* *
11438867 TGCTGTCGCTGCCTCCCTCGC
1 TGCTGCCTCTGCCTCCCTCGC
*
11438888 TGCTG-CTGCTGCCTCCCTCTC
1 TGCTGCCT-CTGCCTCCCTCGC
11438909 TGCTGCCTC
1 TGCTGCCTC
11438918 CGCTCTAAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.93
22 2 0.05
ACGTcount: A:0.00, C:0.47, G:0.21, T:0.32
Consensus pattern (21 bp):
TGCTGCCTCTGCCTCCCTCGC
Found at i:11438911 original size:15 final size:16
Alignment explanation
Indices: 11438893--11438923 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11438883 CTCGCTGCTG
11438893 CTGCTGCCTCC-CTCT
1 CTGCTGCCTCCGCTCT
11438908 CTGCTGCCTCCGCTCT
1 CTGCTGCCTCCGCTCT
11438924 AAGTTGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (16 bp):
CTGCTGCCTCCGCTCT
Found at i:11439353 original size:13 final size:14
Alignment explanation
Indices: 11439327--11439355 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11439317 ACTAACAACG
11439327 AATTAAACCATTAT
1 AATTAAACCATTAT
11439341 AATTAAA-CATTAT
1 AATTAAACCATTAT
11439354 AA
1 AA
11439356 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:11444448 original size:9 final size:9
Alignment explanation
Indices: 11444433--11444539 Score: 83
Period size: 9 Copynumber: 11.7 Consensus size: 9
11444423 ATATTTATGT
11444433 ATTATGTAA
1 ATTATGTAA
*
11444442 GTTATGTAA
1 ATTATGTAA
11444451 ATTATGTAA
1 ATTATGTAA
* ***
11444460 GTTATCCGA
1 ATTATGTAA
11444469 ATTATGTAA
1 ATTATGTAA
11444478 ATTATGTAA
1 ATTATGTAA
11444487 GA-TATGATATA
1 -ATTATG-TA-A
* *
11444498 TATT-TATAT
1 -ATTATGTAA
11444507 ATTATGTAA
1 ATTATGTAA
*
11444516 GTTATGTAA
1 ATTATGTAA
11444525 ATTATGTAA
1 ATTATGTAA
*
11444534 AATATG
1 ATTATG
11444540 ATATATATTT
Statistics
Matches: 75, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
8 3 0.04
9 63 0.84
10 5 0.07
11 3 0.04
12 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (9 bp):
ATTATGTAA
Found at i:11444742 original size:5 final size:5
Alignment explanation
Indices: 11444732--11444761 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
11444722 TTTTCATGGT
11444732 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
11444762 CTTTAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:11444936 original size:96 final size:95
Alignment explanation
Indices: 11444737--11445006 Score: 440
Period size: 91 Copynumber: 2.9 Consensus size: 95
11444727 ATGGTTAAAA
*
11444737 TAAAATAAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTATTTAGGTAATTTAAAAATA
1 TAAAAT-AAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
11444802 AAATAAAAGTAGACAAAAGTTTTTTCCAGAT
65 AAATAAAAGTAGACAAAAGTTTTTTCCAGAT
* *
11444833 T---A-AAATAAAATAAAATAAAAATTTAAATACAATTTACTTTAATTAGGTAATTTAAAAATAA
1 TAAAATAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
* **
11444894 AATAAAAGTAGACAAAGGTTTTTTCGTGAT
66 AATAAAAGTAGACAAAAGTTTTTTCCAGAT
11444924 TAAAATAGAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
1 TAAAATA-AATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATA
11444989 AAATAAAAGTAGACAAAA
65 AAATAAAAGTAGACAAAA
11445007 TATTTTAAAC
Statistics
Matches: 160, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
91 84 0.52
93 1 0.01
94 1 0.01
95 1 0.01
96 73 0.46
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.32
Consensus pattern (95 bp):
TAAAATAAATAAAATAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAA
AATAAAAGTAGACAAAAGTTTTTTCCAGAT
Found at i:11445137 original size:99 final size:99
Alignment explanation
Indices: 11444969--11445252 Score: 461
Period size: 99 Copynumber: 2.9 Consensus size: 99
11444959 AATTTAATTT
* **
11444969 AATTAGGTAATTTAAAAATAAAATAAAAGTA--GACAA--AAT-ATTTTAAACATTGTTAAGTCT
1 AATTAGGTAATTTAAAAATAAAATAAAA-TATTTA-AATTAATGACATTAAAC-TTGTTAAGTCT
11445029 TTCTTTTAATTTGCATTTATTAATTTGTTAATTTAAA
63 TTCTTTTAATTTGCATTTATTAATTTGTTAATTTAAA
11445066 AATTAGGTAATTTAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTTC
1 AATTAGGTAATTTAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTTC
11445131 TTTTAATTTGCATTTATTAATTTGTTAATTTAAA
66 TTTTAATTTGCATTTATTAATTTGTTAATTTAAA
*
11445165 AATTAGGTAATATAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTTC
1 AATTAGGTAATTTAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTTC
*
11445230 TTTTAATTTGCATTTGTTAATTT
66 TTTTAATTTGCATTTATTAATTT
11445253 AAGTAAACAT
Statistics
Matches: 177, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
96 2 0.01
97 30 0.17
98 1 0.01
99 137 0.77
100 7 0.04
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (99 bp):
AATTAGGTAATTTAAAAATAAAATAAAATATTTAAATTAATGACATTAAACTTGTTAAGTCTTTC
TTTTAATTTGCATTTATTAATTTGTTAATTTAAA
Found at i:11445928 original size:8 final size:8
Alignment explanation
Indices: 11445915--11445969 Score: 67
Period size: 8 Copynumber: 7.0 Consensus size: 8
11445905 CAAAAAATTC
11445915 CACTATTA
1 CACTATTA
11445923 CACTATTA
1 CACTATTA
11445931 CACTA-TA
1 CACTATTA
* *
11445938 CGCAATTA
1 CACTATTA
*
11445946 CACTATTC
1 CACTATTA
*
11445954 CACTATTC
1 CACTATTA
11445962 CACTATTA
1 CACTATTA
11445970 TCATAATCAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
7 5 0.12
8 35 0.88
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.35
Consensus pattern (8 bp):
CACTATTA
Found at i:11447981 original size:158 final size:157
Alignment explanation
Indices: 11447698--11448005 Score: 392
Period size: 158 Copynumber: 2.0 Consensus size: 157
11447688 CACTAATTTT
* * *
11447698 TTTTGTGGCGTTTATTTAAAAAACGCCGCTAATCCCTATATATTCAACTAAAACGACGACGTGTA
1 TTTTATGGCGTTTATATAAAAAACACCGCTAATCCCTATATATTCAACTAAAACGACGACGTGTA
* *
11447763 CAGTAAACTTTAATTATTTTGCGGCGTTTTTAAAAGCTCCACTAATACCCTCATATACTAAAACG
66 CAGTAAACTTTAATTATATTGCGGCGTTTTTAAAAGCGCCACTAATACCCTCATATACTAAAACG
*
11447828 GGGCCATTTTCTTTAAACTAAACTATC
131 AGGCCATTTTCTTTAAACTAAACTATC
*
11447855 TTTTATGGCGTTT-TATATAAAAACACCGCTAATCCCCTATATATTCATCTAAAACGACGACGCT
1 TTTTATGGCGTTTATATA-AAAAACACCGCTAAT-CCCTATATATTCAACTAAAACGACGACG-T
* * * * *
11447919 -TCCAGTACACTTTACTTCTATTGCGGCGTTTTTCAAAA-CGCCACTAATACTCT-ATCCA-ACT
63 GTACAGTAAACTTTAATTATATTGCGGCGTTTTT-AAAAGCGCCACTAATACCCTCAT--ATACT
* * *
11447980 AAAATGATGCCATTTTCTTTCAACTA
125 AAAACGAGGCCATTTTCTTTAAACTA
11448006 TACTGTTTTT
Statistics
Matches: 130, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
156 3 0.02
157 28 0.22
158 93 0.72
159 6 0.05
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (157 bp):
TTTTATGGCGTTTATATAAAAAACACCGCTAATCCCTATATATTCAACTAAAACGACGACGTGTA
CAGTAAACTTTAATTATATTGCGGCGTTTTTAAAAGCGCCACTAATACCCTCATATACTAAAACG
AGGCCATTTTCTTTAAACTAAACTATC
Found at i:11448815 original size:7 final size:7
Alignment explanation
Indices: 11448807--11448910 Score: 109
Period size: 7 Copynumber: 14.4 Consensus size: 7
11448797 AATACACACA
*
11448807 TAAACCA
1 TAAACCC
11448814 TAAACCC
1 TAAACCC
11448821 TAAACCC
1 TAAACCC
11448828 TAAACCCC
1 TAAA-CCC
*
11448836 TAAACCA
1 TAAACCC
*
11448843 TAAACCT
1 TAAACCC
*
11448850 TTAACCC
1 TAAACCC
11448857 TAAACCCC
1 TAAA-CCC
*
11448865 TAACCCC
1 TAAACCC
*
11448872 TAAACCA
1 TAAACCC
*
11448879 TAAACAC
1 TAAACCC
*
11448886 TTAACCC
1 TAAACCC
11448893 TAAACCC
1 TAAACCC
11448900 TTAAACCC
1 -TAAACCC
11448908 TAA
1 TAA
11448911 CCCGGCCCTA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
7 60 0.75
8 20 0.25
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:11448855 original size:29 final size:29
Alignment explanation
Indices: 11448807--11448910 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
11448797 AATACACACA
11448807 TAAACCATAAACCCTAAACCCTAAACCCC
1 TAAACCATAAACCCTAAACCCTAAACCCC
* *
11448836 TAAACCATAAACCTTTAACCCTAAACCCC
1 TAAACCATAAACCCTAAACCCTAAACCCC
* * * * *
11448865 TAACCCCTAAACCATAAACACTTAA-CCC
1 TAAACCATAAACCCTAAACCCTAAACCCC
*
11448893 TAAACCCTTAAACCCTAA
1 TAAA-CCATAAACCCTAA
11448911 CCCGGCCCTA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 6 0.10
29 57 0.90
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.18
Consensus pattern (29 bp):
TAAACCATAAACCCTAAACCCTAAACCCC
Found at i:11448856 original size:36 final size:35
Alignment explanation
Indices: 11448805--11448907 Score: 145
Period size: 36 Copynumber: 2.8 Consensus size: 35
11448795 ACAATACACA
*
11448805 CATAAACCATAAACCCTAAACCCTAAACCCCTAAAC
1 CATAAACC-TTAACCCTAAACCCTAAACCCCTAAAC
11448841 CATAAACCTTTAACCCTAAACCCCT-AACCCCTAAAC
1 CATAAACC-TTAACCCTAAA-CCCTAAACCCCTAAAC
11448877 CATAAACACTTAACCCTAAACCCTTAAACCC
1 CATAAAC-CTTAACCCTAAACCC-TAAACCC
11448908 TAACCCGGCC
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
35 3 0.05
36 48 0.79
37 10 0.16
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (35 bp):
CATAAACCTTAACCCTAAACCCTAAACCCCTAAAC
Found at i:11450884 original size:40 final size:39
Alignment explanation
Indices: 11450793--11450941 Score: 178
Period size: 39 Copynumber: 3.8 Consensus size: 39
11450783 TGGATGAAAA
* ** * *
11450793 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
11450832 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
11450872 CCGGGCTAAGTCCCGAAGGCA-AT-TGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAAT
* *
11450910 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
11450942 AGTTATATCC
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
38 29 0.30
39 35 0.36
40 32 0.33
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:11450914 original size:38 final size:40
Alignment explanation
Indices: 11450793--11450930 Score: 153
Period size: 38 Copynumber: 3.5 Consensus size: 40
11450783 TGGATGAAAA
* *
11450793 CCGGGCTAAGTCCCGAAGGC-ATCTGC-A-CTAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCAATCTGCGAGTTACT--CTAAT
* * *
11450832 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
1 CCGGGCTAAGTCCCGAAGGCA-ATCTGCGAGTTACTCTAAT
11450872 CCGGGCTAAGTCCCGAAGGCAAT-TGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCAATCTGCGAGTTACTCTAAT
*
11450910 CCGGGCTATGTCCCGAAGGCA
1 CCGGGCTAAGTCCCGAAGGCA
11450931 TTTGAGCGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
38 31 0.36
39 23 0.27
40 24 0.28
41 4 0.05
42 1 0.01
43 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATCTGCGAGTTACTCTAAT
Found at i:11450953 original size:78 final size:78
Alignment explanation
Indices: 11450793--11450941 Score: 205
Period size: 78 Copynumber: 1.9 Consensus size: 78
11450783 TGGATGAAAA
* *
11450793 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATCTGCACTACT-ACTAATCCGGGCTAAGTCCCGAAGGCATTTGA
11450858 GCGAGTTACTAAAT
65 GCGAGTTACTAAAT
* *
11450872 CCGGGCTAAGTCCCGAAGGCAAT-TGCGAGTTACT-CTAA-CCGGGCTATGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGC-ATCTGC-A-CTACTACTAATCCGGGCTAAGTCCCGAAGGCATTT
11450934 GAGCGAGT
63 GAGCGAGT
11450942 AGTTATATCC
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
78 30 0.48
79 27 0.43
80 3 0.05
81 3 0.05
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATCTGCACTACTACTAATCCGGGCTAAGTCCCGAAGGCATTTGAG
CGAGTTACTAAAT
Found at i:11452955 original size:41 final size:40
Alignment explanation
Indices: 11452909--11453004 Score: 122
Period size: 41 Copynumber: 2.4 Consensus size: 40
11452899 TTTCTCCAAG
*
11452909 GCGCCGCTAATGGTCAAGC-TATAGCGCCGTTTCTCATATAA
1 GCGCCGCTAATGCTCAA-CATATAGCGCCGTTTC-CATATAA
* * *
11452950 GCGCCGCTAATTCTCAACATATAGCGGCGTTTCCTTATAA
1 GCGCCGCTAATGCTCAACATATAGCGCCGTTTCCATATAA
*
11452990 GAGCCGCTAATGCTC
1 GCGCCGCTAATGCTC
11453005 GTTTTTTAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 20 0.42
41 28 0.58
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCGCCGCTAATGCTCAACATATAGCGCCGTTTCCATATAA
Found at i:11454721 original size:19 final size:21
Alignment explanation
Indices: 11454680--11454727 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
11454670 TTAAAATTTT
11454680 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
11454701 AA-TAAAAAT-TTAGAATCAA
1 AACTAAAAATATTAAAATAAA
11454720 AACTAAAA
1 AACTAAAA
11454728 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.23
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:11456597 original size:44 final size:44
Alignment explanation
Indices: 11456534--11456622 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
11456524 ATATAGCATC
11456534 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
1 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
11456578 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
1 ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
11456622 A
1 A
11456623 AAGCGATAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (44 bp):
ATATAAGGCATAACATCTGTTAAAATAAAGTTGACACCTAAATG
Found at i:11457136 original size:29 final size:29
Alignment explanation
Indices: 11457092--11457149 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11457082 TACAATACAG
11457092 ATATACAGAGAAAGAGCAAGTTCTACCTT
1 ATATACAGAGAAAGAGCAAGTTCTACCTT
*
11457121 ATATACAGAGAGAGAGCAAGTTCTACCTT
1 ATATACAGAGAAAGAGCAAGTTCTACCTT
11457150 CTAAAATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (29 bp):
ATATACAGAGAAAGAGCAAGTTCTACCTT
Found at i:11460189 original size:26 final size:26
Alignment explanation
Indices: 11460154--11460261 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
11460144 TGAAATGCCC
*
11460154 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11460180 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
11460206 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11460232 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11460258 ATCA
1 ATCA
11460262 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11469407 original size:28 final size:28
Alignment explanation
Indices: 11469375--11469503 Score: 74
Period size: 28 Copynumber: 5.2 Consensus size: 28
11469365 TGTGAAATAT
11469375 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
11469403 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
11469423 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
11469451 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
11469471 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
11469499 GAATG
1 GAATG
11469504 GCTAGTGTGA
Statistics
Matches: 69, Mismatches: 16, Indels: 32
0.59 0.14 0.27
Matches are distributed among these distances:
20 16 0.23
21 8 0.12
22 8 0.12
26 8 0.12
27 8 0.12
28 21 0.30
ACGTcount: A:0.36, C:0.06, G:0.29, T:0.29
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:11469567 original size:48 final size:48
Alignment explanation
Indices: 11469142--11469567 Score: 694
Period size: 48 Copynumber: 8.9 Consensus size: 48
11469132 CAAGATAAAT
* * *
11469142 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATAT-ATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAG
* * * *
11469190 ATATGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
11469238 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
* * *
11469286 ATATGTATATGTGGTAAAGCCGAATAGCTAATGTGAAATAT-ATATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAG
*
11469334 ATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
11469382 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
11469430 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
* *
11469478 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGCATGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
*
11469526 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
11469568 TAGGAGATGT
Statistics
Matches: 355, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 1 0.00
48 353 0.99
49 1 0.00
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
Found at i:11469766 original size:37 final size:37
Alignment explanation
Indices: 11469716--11469818 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
11469706 GGAAATATAT
11469716 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
11469753 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
11469790 TCCGGGTAAGACCCTATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
11469819 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:11470706 original size:26 final size:26
Alignment explanation
Indices: 11470675--11471146 Score: 662
Period size: 26 Copynumber: 18.2 Consensus size: 26
11470665 TGAAATGCCC
*
11470675 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11470701 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
11470727 ATCCTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11470753 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * * *
11470779 ATCAATTTGTATCA---ATCTAATCCATT
1 ATC-A--TGGAACATTTACCTAACCCATT
11470805 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
11470831 ATCCTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11470857 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
11470883 ATCCTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11470909 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
11470935 ATCCTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11470961 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
11470987 ATCCTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11471013 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
11471039 ATCCTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11471065 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
11471091 ATCCTGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
11471117 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11471143 ATCA
1 ATCA
11471147 ATTTGTATCA
Statistics
Matches: 389, Mismatches: 51, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
23 5 0.01
25 1 0.00
26 377 0.97
27 1 0.00
29 5 0.01
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11470752 original size:52 final size:52
Alignment explanation
Indices: 11470679--11471145 Score: 839
Period size: 52 Copynumber: 9.0 Consensus size: 52
11470669 ATGCCCATCA
* *
11470679 TGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATTATCC
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
*
11470731 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCAAT
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATC--C
* ** *
11470785 TTG--TATCAATCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
11470835 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
11470887 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
11470939 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
11470991 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
11471043 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
11471095 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATC
1 TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATC
11471146 AATTTGTATC
Statistics
Matches: 399, Mismatches: 12, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
50 2 0.01
52 395 0.99
54 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.34
Consensus pattern (52 bp):
TGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATTATCC
Found at i:11475215 original size:32 final size:32
Alignment explanation
Indices: 11475174--11475244 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
11475164 AAGTAAACTT
*
11475174 TAAATCCTAAATCATTTAATATATATAAAGCC
1 TAAATCCTAAACCATTTAATATATATAAAGCC
*
11475206 TAAATCCTAAACCATTTAATATATATAAAGTC
1 TAAATCCTAAACCATTTAATATATATAAAGCC
11475238 T-AATCCT
1 TAAATCCT
11475245 TAAGTAAACC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 6 0.16
32 31 0.84
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (32 bp):
TAAATCCTAAACCATTTAATATATATAAAGCC
Found at i:11475369 original size:14 final size:14
Alignment explanation
Indices: 11475340--11475384 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
11475330 TCATACACTT
*
11475340 TAAACTCTAAACCA
1 TAAACCCTAAACCA
* *
11475354 TATACCCTAAATCA
1 TAAACCCTAAACCA
*
11475368 TAAACCCTAAACTA
1 TAAACCCTAAACCA
11475382 TAA
1 TAA
11475385 TAATACTTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:11475527 original size:22 final size:22
Alignment explanation
Indices: 11475477--11475525 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
11475467 TACTAATTAA
11475477 TCTAAACCCTAAACTCATAATC
1 TCTAAACCCTAAACTCATAATC
11475499 TCTAAACCCTAAACT-ATAAATC
1 TCTAAACCCTAAACTCAT-AATC
11475521 -CTAAA
1 TCTAAA
11475526 ACATAAACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.27
Consensus pattern (22 bp):
TCTAAACCCTAAACTCATAATC
Found at i:11475580 original size:14 final size:14
Alignment explanation
Indices: 11475552--11475581 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11475542 CTGAACCTTG
*
11475552 AACCCCTAACCCTT
1 AACCCCTAACACTT
11475566 AACCCCTAACACTT
1 AACCCCTAACACTT
11475580 AA
1 AA
11475582 ACCTTAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCCCTAACACTT
Found at i:11475628 original size:25 final size:25
Alignment explanation
Indices: 11475583--11475630 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
11475573 AACACTTAAA
*
11475583 CCTTAAATCACAACCCTTAAACCAC
1 CCTTAAACCACAACCCTTAAACCAC
*
11475608 CCTTAAACCATAATCCC-TAAACC
1 CCTTAAACCACAA-CCCTTAAACC
11475631 CATAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (25 bp):
CCTTAAACCACAACCCTTAAACCAC
Found at i:11475825 original size:22 final size:22
Alignment explanation
Indices: 11475775--11475823 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
11475765 TACTAATTAA
11475775 TCTAAACCCTAAACTCATAATC
1 TCTAAACCCTAAACTCATAATC
11475797 TCTAAACCCTAAACT-ATAAATC
1 TCTAAACCCTAAACTCAT-AATC
11475819 -CTAAA
1 TCTAAA
11475824 ACATAAACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.27
Consensus pattern (22 bp):
TCTAAACCCTAAACTCATAATC
Found at i:11476205 original size:41 final size:42
Alignment explanation
Indices: 11476160--11476252 Score: 124
Period size: 38 Copynumber: 2.3 Consensus size: 42
11476150 AGATCAAGCA
11476160 TTAGTGGCGTTTTTTTTA-AAAGCGCCGCTAATGCTCATTCT
1 TTAGTGGCGTTTTTTTTACAAAGCGCCGCTAATGCTCATTCT
**
11476201 TTAGT---G-TTTTTTTACAAAGCGCCGCTAATGCTTGTTCT
1 TTAGTGGCGTTTTTTTTACAAAGCGCCGCTAATGCTCATTCT
*
11476239 TTAGCGGCGTTTTT
1 TTAGTGGCGTTTTT
11476253 CATTCAAACT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
37 8 0.18
38 26 0.59
41 6 0.14
42 4 0.09
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.44
Consensus pattern (42 bp):
TTAGTGGCGTTTTTTTTACAAAGCGCCGCTAATGCTCATTCT
Found at i:11476465 original size:80 final size:80
Alignment explanation
Indices: 11476373--11476534 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 80
11476363 TTTGTTTTGG
11476373 TTAGCACAAAATAATTAAATGAAAATATAATTATTAGGATAACAATTTCACTCTTTTGTAATTAA
1 TTAGCACAAAATAATTAAATGAAAATATAATTATTAGGATAACAATTTCACTCTTTTGTAATTAA
11476438 AAAGAATTGTAATTC
66 AAAGAATTGTAATTC
*
11476453 TTAGCACAAAATAATTAAATGAAAATATAATTATTAGGATAACAATTTCACTCTTTTTTAATTAA
1 TTAGCACAAAATAATTAAATGAAAATATAATTATTAGGATAACAATTTCACTCTTTTGTAATTAA
11476518 AAAGAATTGTAATTC
66 AAAGAATTGTAATTC
11476533 TT
1 TT
11476535 TACACTTGTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (80 bp):
TTAGCACAAAATAATTAAATGAAAATATAATTATTAGGATAACAATTTCACTCTTTTGTAATTAA
AAAGAATTGTAATTC
Found at i:11477914 original size:11 final size:11
Alignment explanation
Indices: 11477889--11477943 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
11477879 TATTTTAGAA
11477889 TTTTTTAAAA-
1 TTTTTTAAAAT
*
11477899 CTTTTTAAAAT
1 TTTTTTAAAAT
*
11477910 TTTTTT-ATA-
1 TTTTTTAAAAT
*
11477919 TTTTTTATAAT
1 TTTTTTAAAAT
*
11477930 TTTTTTATAAT
1 TTTTTTAAAAT
11477941 TTT
1 TTT
11477944 AAATTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
9 6 0.16
10 12 0.32
11 19 0.51
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTTAAAAT
Found at i:11477935 original size:20 final size:19
Alignment explanation
Indices: 11477876--11477953 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 19
11477866 TCTACAAAAT
*
11477876 TATTATTTTAGAATTTTTTAA
1 TATT-TTTTA-AATTTTTTTA
* *
11477897 AACTTTTTAAAATTTTTTTA
1 TA-TTTTTTAAATTTTTTTA
11477917 TATTTTTTATAATTTTTTTA
1 TATTTTTTA-AATTTTTTTA
*
11477937 TA-ATTTTAAATTTTTTT
1 TATTTTTTAAATTTTTTT
11477954 TAAAAACTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 9 0.18
19 11 0.22
20 22 0.45
21 5 0.10
22 2 0.04
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (19 bp):
TATTTTTTAAATTTTTTTA
Found at i:11477943 original size:10 final size:10
Alignment explanation
Indices: 11477881--11477943 Score: 65
Period size: 10 Copynumber: 6.2 Consensus size: 10
11477871 AAAATTATTA
*
11477881 TTTTAGAATT
1 TTTTATAATT
* *
11477891 TTTTAAAACT
1 TTTTATAATT
*
11477901 TTTTAAAATT
1 TTTTATAATT
11477911 TTTT-TATATT
1 TTTTATA-ATT
11477921 TTTTATAATTT
1 TTTTATAA-TT
11477932 TTTTATAATT
1 TTTTATAATT
11477942 TT
1 TT
11477944 AAATTTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
9 1 0.02
10 33 0.72
11 12 0.26
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTTATAATT
Found at i:11477953 original size:10 final size:11
Alignment explanation
Indices: 11477900--11477943 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
11477890 TTTTTAAAAC
*
11477900 TTTTTAAAATT
1 TTTTTATAATT
11477911 TTTTTAT-A-T
1 TTTTTATAATT
11477920 TTTTTATAATT
1 TTTTTATAATT
11477931 TTTTTATAATT
1 TTTTTATAATT
11477942 TT
1 TT
11477944 AAATTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 8 0.27
10 2 0.07
11 20 0.67
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:11478038 original size:21 final size:20
Alignment explanation
Indices: 11477985--11478037 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
11477975 TTATTATAAA
* *
11477985 TATTTTGA-ATTTAAAAAAT
1 TATTTTGATTTTTTAAAAAT
11478004 TATTTTGATTTTTTAAAAAT
1 TATTTTGATTTTTTAAAAAT
11478024 TATTTTGATTTTTT
1 TATTTTGATTTTTT
11478038 TTTTTGCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (20 bp):
TATTTTGATTTTTTAAAAAT
Found at i:11479863 original size:39 final size:40
Alignment explanation
Indices: 11479755--11479939 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
11479745 TTGAATGATG
* * *
11479755 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * * *
11479794 ATCTGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
11479835 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
11479874 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
11479913 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
11479940 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:11479953 original size:40 final size:40
Alignment explanation
Indices: 11479838--11479958 Score: 113
Period size: 40 Copynumber: 3.0 Consensus size: 40
11479828 TACTAATTCT
* ** *
11479838 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA-CC
* ** *
11479877 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAACC
* *
11479917 GGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAACC
11479957 GG
1 GG
11479959 TTAAATTCCG
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
39 8 0.11
40 61 0.86
41 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAACC
Found at i:11479961 original size:79 final size:79
Alignment explanation
Indices: 11479808--11479972 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
11479798 GGACTAAGAT
* * * ** *
11479808 CCGAAGGTATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
*
11479873 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
11479887 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* *
11479950 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
11479966 CCGAAGG
1 CCGAAGG
11479973 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.63
80 24 0.34
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:11486820 original size:42 final size:42
Alignment explanation
Indices: 11486773--11486857 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
11486763 ATTTTAGTTG
*
11486773 ATATTGAGTGAGTTATCAAGTGATTTTTGTAAACCTTGTTAA
1 ATATTGAGTGAGTTATCAAGTGATTTTTGTAAACCATGTTAA
11486815 ATATTGAGTGAGTTATCAAGTGATTTTTGTAAACCATGTTAA
1 ATATTGAGTGAGTTATCAAGTGATTTTTGTAAACCATGTTAA
11486857 A
1 A
11486858 ATTTTGATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (42 bp):
ATATTGAGTGAGTTATCAAGTGATTTTTGTAAACCATGTTAA
Found at i:11488111 original size:40 final size:39
Alignment explanation
Indices: 11488027--11488183 Score: 181
Period size: 40 Copynumber: 3.9 Consensus size: 39
11488017 TTGAATGATG
* * * *
11488027 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
11488067 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
11488107 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
11488146 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA
11488184 TAACATGGCT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 35 0.35
40 57 0.57
41 8 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:11488163 original size:79 final size:80
Alignment explanation
Indices: 11488027--11488183 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
11488017 TTGAATGATG
* *
11488027 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
11488092 GTGCGAGATACTAAT
66 GTGCGAGATACTAAT
* * * **
11488107 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAA
*
11488169 TTGTGCGAGTTACTA
64 TTGTGCGAGATACTA
11488184 TAACATGGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 48 0.72
80 18 0.27
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
GTGCGAGATACTAAT
Found at i:11488194 original size:79 final size:80
Alignment explanation
Indices: 11488030--11488211 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 80
11488020 AATGATGTCC
* *
11488030 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTG
* *
11488095 CGAGATACTAATTCC
66 CGAGATACTAATACA
* * * **
11488110 GGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAATTG
1 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAATTG
*
11488172 TGCGAGTTACT-ATAACA
64 TGCGAGATACTAAT-ACA
* *
11488189 TGGCTATGTCCCGAAGGCGTTTG
1 GGGCTAAGTCCCGAAGGC-TTTG
11488212 AACGAGTAGC
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.04
79 54 0.64
80 28 0.33
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTG
CGAGATACTAATACA
Done.