Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 151 of 167
Found at i:49826331 original size:37 final size:37
Alignment explanation
Indices: 49826281--49826366 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
49826271 CTCCTCCCCT
*
49826281 AAACGACGCCGTTTTTGGAGCCACTGAATCAGGCTCA
1 AAACGACGCCGTTTTTGGAGCCACTAAATCAGGCTCA
*
49826318 AAACGACGCCGTTTTTGGAGCCACTAAATCAGGCTTA
1 AAACGACGCCGTTTTTGGAGCCACTAAATCAGGCTCA
*
49826355 AAACGATGCCGT
1 AAACGACGCCGT
49826367 ATTCAGCCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (37 bp):
AAACGACGCCGTTTTTGGAGCCACTAAATCAGGCTCA
Found at i:49827638 original size:111 final size:111
Alignment explanation
Indices: 49827478--49827700 Score: 320
Period size: 111 Copynumber: 2.0 Consensus size: 111
49827468 TTAAATCTGT
* * *
49827478 TTCACCGCAACTTCAGGAAGACAGGATTCGCCATCTTCGATCTGGTCCACTGCAACTTCAGGGAA
1 TTCACCGCAACTTCAGAAAGACAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTTCAGGGAA
*
49827543 ACAAGATCTACAATCTTTAGCCTACTCCACTACAACTTTAGGGAGA
66 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGA
* * * * * *
49827589 TTCACTGCAACTTCAGAAAGACAAGATTTGTCGTCTTCGATCTGCTCCACTGCAATTTCAGGTAA
1 TTCACCGCAACTTCAGAAAGACAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTTCAGGGAA
* * * *
49827654 ATAAGATCTACAATCTTCAGCCTATTCCATTACAGCTTTAGGGAGA
66 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGA
49827700 T
1 T
49827701 AGGATGGTAG
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 98 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (111 bp):
TTCACCGCAACTTCAGAAAGACAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTTCAGGGAA
ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGA
Found at i:49834365 original size:40 final size:38
Alignment explanation
Indices: 49834300--49834427 Score: 157
Period size: 38 Copynumber: 3.3 Consensus size: 38
49834290 AAACCCGAAC
* * *
49834300 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTTAAAC-CGGAT
* * *
49834340 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAAACCGGAT
* *
49834378 ATAATACCAGCACGAAGCCTGCGAGATTTAATCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAAACCGGAT
*
49834416 ATAATTCCAGCA
1 ATAATACCAGCA
49834428 TATAGCCTGC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 49 0.64
39 6 0.08
40 22 0.29
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAAACCGGAT
Found at i:49850961 original size:7 final size:6
Alignment explanation
Indices: 49850950--49850990 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
49850940 GTCCAAAACC
*
49850950 AAAAAT AGAAAAT AAAAGT AAAAAAT AAAAAT AAAAAT AAA
1 AAAAAT A-AAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAA
49850991 TAATTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:49850972 original size:19 final size:19
Alignment explanation
Indices: 49850950--49850990 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
49850940 GTCCAAAACC
*
49850950 AAAAATAGAAAATAAAAGTA
1 AAAAATA-AAAATAAAAATA
49850970 AAAAATAAAAATAAAAATA
1 AAAAATAAAAATAAAAATA
49850989 AA
1 AA
49850991 TAATTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAAATAAAAATAAAAATA
Found at i:49850974 original size:13 final size:12
Alignment explanation
Indices: 49850950--49850990 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
49850940 GTCCAAAACC
49850950 AAAAATAGAAAAT
1 AAAAATA-AAAAT
*
49850963 AAAAGTAAAAAAT
1 AAAAAT-AAAAAT
49850976 AAAAATAAAAAT
1 AAAAATAAAAAT
49850988 AAA
1 AAA
49850991 TAATTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 9 0.36
13 15 0.60
14 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:49857327 original size:17 final size:19
Alignment explanation
Indices: 49857286--49857327 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
49857276 TTTTATATTT
* *
49857286 TAAAAAATATTAATTACTA
1 TAAAAAATATTAAGTACGA
49857305 TAAAAAATATT-AGTACGA
1 TAAAAAATATTAAGTACGA
49857323 TAAAA
1 TAAAA
49857328 GAAATTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAAAAATATTAAGTACGA
Found at i:49859444 original size:19 final size:19
Alignment explanation
Indices: 49859420--49859461 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49859410 ATGAGTCCAA
49859420 TATTATATTTATTAGTT-TT
1 TATTAT-TTTATTAGTTATT
*
49859439 TATTATTTTATTATTTATT
1 TATTATTTTATTAGTTATT
49859458 TATT
1 TATT
49859462 TTAAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTATTTTATTAGTTATT
Found at i:49859581 original size:18 final size:19
Alignment explanation
Indices: 49859541--49859582 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
49859531 CAGGGCCTAA
***
49859541 AAAAAGCACTTCTGACTCT
1 AAAAAGCACTTCTGACAAG
49859560 AAAAAGCACTTCTGA-AAG
1 AAAAAGCACTTCTGACAAG
49859578 AAAAA
1 AAAAA
49859583 TTATGCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (19 bp):
AAAAAGCACTTCTGACAAG
Found at i:49860371 original size:13 final size:13
Alignment explanation
Indices: 49860321--49860371 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
49860311 TAAATCAAAA
49860321 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* * *
49860334 TTCTAAAAAGTAC
1 TTTTCAAAAGCAC
*
49860347 TTTTTC-ACAGCAC
1 -TTTTCAAAAGCAC
49860360 TTTTCAAAAGCA
1 TTTTCAAAAGCA
49860372 TTGCCAAACT
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
12 5 0.18
13 20 0.71
14 3 0.11
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:49860718 original size:32 final size:32
Alignment explanation
Indices: 49860682--49860750 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
49860672 AATTTGTCAA
*
49860682 TAATTATTTTTTAGATGGTTGATTAGAGCCAT
1 TAATTATTTCTTAGATGGTTGATTAGAGCCAT
* *
49860714 TAATTATTTCTTGGATGGTTGATTAGAGCTAT
1 TAATTATTTCTTAGATGGTTGATTAGAGCCAT
49860746 TAATT
1 TAATT
49860751 GAATTTGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.48
Consensus pattern (32 bp):
TAATTATTTCTTAGATGGTTGATTAGAGCCAT
Found at i:49862880 original size:45 final size:45
Alignment explanation
Indices: 49862831--49863060 Score: 253
Period size: 45 Copynumber: 5.1 Consensus size: 45
49862821 TTGTTATGCT
* * * *
49862831 TATATGGCATAAAAGCCAACACCGATACATAATACCTGTTGTATG
1 TATATGGCATGATAGCCAACACCGATACATAGTACCTGCTGTATG
* * * *
49862876 TATATGGTATGATAGCCAACACTGATATATAGTACCTGCTGTATT
1 TATATGGCATGATAGCCAACACCGATACATAGTACCTGCTGTATG
* * * * *
49862921 TATATGGCATGAAAGTCGATACCGATACATAGTACTTGCTGTATG
1 TATATGGCATGATAGCCAACACCGATACATAGTACCTGCTGTATG
* * * * * *
49862966 TATTTGGCATGATAGCCGACATCGATACGTAGTACCTACTATATG
1 TATATGGCATGATAGCCAACACCGATACATAGTACCTGCTGTATG
* * * *
49863011 TATATGACATGATAGCCAACACTGATACATAGTACCTCCTATATG
1 TATATGGCATGATAGCCAACACCGATACATAGTACCTGCTGTATG
49863056 TATAT
1 TATAT
49863061 CCTAATTGTT
Statistics
Matches: 152, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 152 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (45 bp):
TATATGGCATGATAGCCAACACCGATACATAGTACCTGCTGTATG
Found at i:49864181 original size:25 final size:25
Alignment explanation
Indices: 49864144--49864229 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
49864134 GATAATGGCT
*
49864144 TTTTAATTTATATGCTTTGCGTTTC
1 TTTTAATTAATATGCTTTGCGTTTC
* *
49864169 TTTTAATTAATAT--TTAT-CAATAT-
1 TTTTAATTAATATGCTT-TGC-GTTTC
*
49864192 TTTTAATTTATATGCTTTGCGTTTC
1 TTTTAATTAATATGCTTTGCGTTTC
*
49864217 TTTTCATTAATAT
1 TTTTAATTAATAT
49864230 TTATCAATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
23 15 0.32
24 6 0.13
25 26 0.55
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.59
Consensus pattern (25 bp):
TTTTAATTAATATGCTTTGCGTTTC
Found at i:49864199 original size:23 final size:23
Alignment explanation
Indices: 49864169--49864246 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
49864159 TTTGCGTTTC
49864169 TTTTAATTAATATTTATCAATAT
1 TTTTAATTAATATTTATCAATAT
* * *
49864192 TTTTAATTTATATGCTT-TGC-GTTT
1 TTTTAATTAATAT--TTAT-CAATAT
*
49864216 CTTTTCATTAATATTTATCAATAT
1 -TTTTAATTAATATTTATCAATAT
49864240 TTTTAAT
1 TTTTAAT
49864247 CTATAAAACA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
23 21 0.51
24 6 0.15
25 14 0.34
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTTAATTAATATTTATCAATAT
Found at i:49864214 original size:48 final size:48
Alignment explanation
Indices: 49864143--49864251 Score: 200
Period size: 48 Copynumber: 2.3 Consensus size: 48
49864133 GGATAATGGC
49864143 TTTTTAATTTATATGCTTTGCGTTTCTTTTAATTAATATTTATCAATA
1 TTTTTAATTTATATGCTTTGCGTTTCTTTTAATTAATATTTATCAATA
*
49864191 TTTTTAATTTATATGCTTTGCGTTTCTTTTCATTAATATTTATCAATA
1 TTTTTAATTTATATGCTTTGCGTTTCTTTTAATTAATATTTATCAATA
*
49864239 TTTTTAATCTATA
1 TTTTTAATTTATA
49864252 AAACACCCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.59
Consensus pattern (48 bp):
TTTTTAATTTATATGCTTTGCGTTTCTTTTAATTAATATTTATCAATA
Found at i:49865696 original size:22 final size:22
Alignment explanation
Indices: 49865644--49865705 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 22
49865634 TTTGTATTAA
* * *
49865644 TTTATTAAATTAAATTAAAAAT
1 TTTACTAAATTAAAATAAAAAC
*
49865666 TTTACTAAATTTAAAATATAAAC
1 TTTACTAAA-TTAAAATAAAAAC
49865689 TTTA-TAAA--AAAATAAAA
1 TTTACTAAATTAAAATAAAA
49865706 TTAAAAGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 8 0.24
22 12 0.35
23 14 0.41
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTACTAAATTAAAATAAAAAC
Found at i:49868814 original size:21 final size:21
Alignment explanation
Indices: 49868765--49868811 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
49868755 TTTCCTAAAA
49868765 TATAAATTAG-ATTAAATTGAG
1 TATAAATT-GTATTAAATTGAG
*
49868786 TATGAATTGTATTAAATTGA-
1 TATAAATTGTATTAAATTGAG
49868806 TATAAA
1 TATAAA
49868812 ATTTACTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
TATAAATTGTATTAAATTGAG
Found at i:49871870 original size:19 final size:17
Alignment explanation
Indices: 49871834--49871876 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
49871824 GTTATGCTTG
*
49871834 AAAATAAGAAATCAAAC
1 AAAATGAGAAATCAAAC
49871851 AAAATGAGACAATACAAAC
1 AAAATGAGA-AAT-CAAAC
49871870 -AAATGAG
1 AAAATGAG
49871877 TAATTGACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 10 0.43
19 5 0.22
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (17 bp):
AAAATGAGAAATCAAAC
Found at i:49876825 original size:21 final size:22
Alignment explanation
Indices: 49876801--49876841 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
49876791 AATTTCAAAA
* *
49876801 TATAA-ATAAAGTCACTTAACT
1 TATAACATAAACTCAATTAACT
49876822 TATAACATAAACTCAATTAA
1 TATAACATAAACTCAATTAA
49876842 AAACTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (22 bp):
TATAACATAAACTCAATTAACT
Found at i:49887946 original size:27 final size:26
Alignment explanation
Indices: 49887895--49887954 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
49887885 TTTAACCCAT
*
49887895 TTAAAAATTATAAAACATTCAAAAAA
1 TTAAAAATTATAAAAAATTCAAAAAA
49887921 TTAAATAA-TATAAAAAATTCATAAAAA
1 TTAAA-AATTATAAAAAATTCA-AAAAA
49887948 TTAAAAA
1 TTAAAAA
49887955 GAAAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (26 bp):
TTAAAAATTATAAAAAATTCAAAAAA
Found at i:49887953 original size:17 final size:17
Alignment explanation
Indices: 49887895--49887954 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
49887885 TTTAACCCAT
49887895 TTAAAAATTATAAAACA
1 TTAAAAATTATAAAACA
*
49887912 TTCAAAAAATTA-AATAATA
1 TT--AAAAATTATAA-AACA
*
49887931 TAAAAAATTCATAAAA-A
1 TTAAAAATT-ATAAAACA
49887948 TTAAAAA
1 TTAAAAA
49887955 GAAAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 16 0.46
18 5 0.14
19 14 0.40
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (17 bp):
TTAAAAATTATAAAACA
Found at i:49887954 original size:19 final size:18
Alignment explanation
Indices: 49887897--49887954 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
49887887 TAACCCATTT
*
49887897 AAAAATTATAAAACATTCA
1 AAAAATTATAAAA-ATTAA
*
49887916 AAAAATTA-AATAA-TATA
1 AAAAATTATAAAAATTA-A
49887933 AAAAATTCATAAAAATTAA
1 AAAAATT-ATAAAAATTAA
49887952 AAA
1 AAA
49887955 GAAAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 4 0.12
19 16 0.50
20 2 0.06
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTATAAAAATTAA
Found at i:49914582 original size:18 final size:18
Alignment explanation
Indices: 49914540--49914586 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
49914530 ATGTTAGCAA
*
49914540 TATTTTCATTAATAATAT
1 TATTTTAATTAATAATAT
49914558 T-TATTTAATATAA-AATAT
1 TAT-TTTAAT-TAATAATAT
49914576 TATTTTAATTA
1 TATTTTAATTA
49914587 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTTAATTAATAATAT
Found at i:49917988 original size:60 final size:59
Alignment explanation
Indices: 49917910--49918039 Score: 174
Period size: 60 Copynumber: 2.2 Consensus size: 59
49917900 AACTGTGTTA
* * *
49917910 ATATGGGCAAGGTCCAATATA-TCTCGACT-TGTAATAGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTATGACCCAGATTAATATTG
*
49917970 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGACCCAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAAAGGGCTATGACCCAGATTAATATTG
49918030 ATATGGGCTA
1 ATATGGGCTA
49918040 AAGCCCAGTG
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
59 1 0.02
60 54 0.86
61 8 0.13
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTATGACCCAGATTAATATTG
Found at i:49927914 original size:26 final size:25
Alignment explanation
Indices: 49927880--49927942 Score: 94
Period size: 23 Copynumber: 2.5 Consensus size: 25
49927870 AGACGAAAAA
49927880 TCAATAAAAAAAAAGAAACAGATAGT
1 TCAA-AAAAAAAAAGAAACAGATAGT
49927906 TC--AAAAAAAAAGAAACAGATAGT
1 TCAAAAAAAAAAAGAAACAGATAGT
49927929 TCAAAAAACAAAAA
1 TCAAAAAA-AAAAA
49927943 AAAAGCAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 23 0.68
25 4 0.12
26 7 0.21
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.13
Consensus pattern (25 bp):
TCAAAAAAAAAAAGAAACAGATAGT
Found at i:49927935 original size:24 final size:23
Alignment explanation
Indices: 49927885--49927936 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
49927875 AAAAATCAAT
49927885 AAAAAAAAAGAAACAGATAGTTC
1 AAAAAAAAAGAAACAGATAGTTC
49927908 AAAAAAAAAGAAACAGATAGTTC
1 AAAAAAAAAGAAACAGATAGTTC
49927931 AAAAAA
1 AAAAAA
49927937 CAAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.69, C:0.08, G:0.12, T:0.12
Consensus pattern (23 bp):
AAAAAAAAAGAAACAGATAGTTC
Found at i:49929226 original size:3 final size:3
Alignment explanation
Indices: 49929218--49929314 Score: 72
Period size: 3 Copynumber: 31.7 Consensus size: 3
49929208 TAATTAATTA
* *
49929218 ATT ATT ATT ATT ATT AATGT A-T ATT ATT ATT GTT GTT ATT AATGT ATT
1 ATT ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT ATT ATT -AT-T ATT
* * * * * *
49929266 ATT ATT -GT ATT ATT GTT ATT ATT TTT ATT ATT ATC ACT ATT ATA ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
49929313 AT
1 AT
49929315 ATTTCCTTTC
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
2 3 0.04
3 62 0.84
4 7 0.09
5 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:49929258 original size:31 final size:30
Alignment explanation
Indices: 49929219--49929299 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
49929209 AATTAATTAA
49929219 TTATTATTATTATTAATGTATAT-TATTATTG
1 TTATTATTATTATTAAT-TAT-TGTATTATTG
*
49929250 TTGTTATTAATGTATT-ATTATTGTATTATTG
1 TTATTATT-AT-TATTAATTATTGTATTATTG
*
49929281 TTATTATTTTTATT-ATTAT
1 TTATTATTATTATTAATTAT
49929300 CACTATTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
29 9 0.20
30 2 0.05
31 25 0.57
32 4 0.09
33 4 0.09
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.64
Consensus pattern (30 bp):
TTATTATTATTATTAATTATTGTATTATTG
Found at i:49929276 original size:28 final size:25
Alignment explanation
Indices: 49929206--49929299 Score: 95
Period size: 25 Copynumber: 3.7 Consensus size: 25
49929196 TATTAGTAAG
*
49929206 ATTAAT-TA-ATTAATTATTATTATT
1 ATTAATGTATATT-ATTATTATTGTT
*
49929230 ATTAATGTATATTATTATTGTTGTT
1 ATTAATGTATATTATTATTATTGTT
49929255 ATTAATGTATTATTATTGTATTATTGTT
1 ATTAATGTA-TATTA-T-TATTATTGTT
* *
49929283 ATT-ATTTTTATTATTAT
1 ATTAATGTATATTATTAT
49929300 CACTATTATA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
24 9 0.15
25 22 0.37
26 13 0.22
27 4 0.07
28 12 0.20
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
ATTAATGTATATTATTATTATTGTT
Found at i:49934566 original size:34 final size:33
Alignment explanation
Indices: 49934545--49934695 Score: 158
Period size: 34 Copynumber: 4.5 Consensus size: 33
49934535 CATGAACATT
* *
49934545 TCAATACGGTAGCAATTAATATGCTTGTAACAGA
1 TCAATACAGTAGCAATTAATATGC-TATAACAGA
*
49934579 TCAATACAGTAGCAATTAATATGCTTATAATAGA
1 TCAATACAGTAGCAATTAATATGC-TATAACAGA
* * *
49934613 TCAATACAGTAACAATGAATATGCTTATAACATA
1 TCAATACAGTAGCAATTAATATGC-TATAACAGA
* * * *
49934647 TCAATACGGTAGCAATTCATATGCTTCTAACAAA
1 TCAATACAGTAGCAATTAATATGC-TATAACAGA
* *
49934681 TCATTAAAGTAGCAA
1 TCAATACAGTAGCAA
49934696 AAGACATGCT
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 101 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (33 bp):
TCAATACAGTAGCAATTAATATGCTATAACAGA
Found at i:49934637 original size:68 final size:68
Alignment explanation
Indices: 49934545--49934672 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 68
49934535 CATGAACATT
* * * *
49934545 TCAATACGGTAGCAATTAATATGCTTGTAACAGATCAATACAGTAGCAATTAATATGCTTATAAT
1 TCAATACAGTAACAATGAATATGCTTATAACAGATCAATACAGTAGCAATTAATATGCTTATAAT
49934610 AGA
66 AGA
* * *
49934613 TCAATACAGTAACAATGAATATGCTTATAACATATCAATACGGTAGCAATTCATATGCTT
1 TCAATACAGTAACAATGAATATGCTTATAACAGATCAATACAGTAGCAATTAATATGCTT
49934673 CTAACAAATC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (68 bp):
TCAATACAGTAACAATGAATATGCTTATAACAGATCAATACAGTAGCAATTAATATGCTTATAAT
AGA
Found at i:49935502 original size:25 final size:25
Alignment explanation
Indices: 49935456--49935504 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
49935446 TGGCTTGACA
**
49935456 TTTATTAAGCAATATCGGATATTCT
1 TTTATTAAGCAATATCAAATATTCT
*
49935481 TTTATTAGGCAATATCAAATATTC
1 TTTATTAAGCAATATCAAATATTC
49935505 AAATTATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (25 bp):
TTTATTAAGCAATATCAAATATTCT
Found at i:49937371 original size:147 final size:149
Alignment explanation
Indices: 49937201--49937498 Score: 519
Period size: 147 Copynumber: 2.0 Consensus size: 149
49937191 TTATTATTTT
*
49937201 ATTATTGTTTTATTCCGAATTTTTTATAATTATTAAGTATTTAAAGTTATTTAGGAATTTTATGT
1 ATTATTGTTTTATTCCGAATTTTTTATAATTATTAAGTATTTAAAGTTATTTAAGAATTTTATGT
*
49937266 TAACAAGAAAGTTTAATTTAAAACT-A-GTTTAGATTAAATTAGAGTTCTAACATACTTAGGAGT
66 TAACAAGAAAGTTTAATTTAAAACTAATGTTTAGACTAAATTAGAGTTCTAACATACTTAGGAGT
49937329 TTTATTTAGATTTATTTAG
131 TTTATTTAGATTTATTTAG
* *
49937348 ATTATTGTTTTATTCTGATTTTTTTATAATTATTAAGTATTTAAAGTTATTTAAGAATTTTATGT
1 ATTATTGTTTTATTCCGAATTTTTTATAATTATTAAGTATTTAAAGTTATTTAAGAATTTTATGT
*
49937413 TAACAAGAAAGTTTAATTTAAAACTACATTGTTTAGACTAAATTAGAGTTCTAGCATACTTAGGA
66 TAACAAGAAAGTTTAATTTAAAACTA-A-TGTTTAGACTAAATTAGAGTTCTAACATACTTAGGA
49937478 GTTTTATTTAGATTTATTTAG
129 GTTTTATTTAGATTTATTTAG
49937499 CTAGCCTATA
Statistics
Matches: 142, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
147 87 0.61
149 1 0.01
151 54 0.38
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (149 bp):
ATTATTGTTTTATTCCGAATTTTTTATAATTATTAAGTATTTAAAGTTATTTAAGAATTTTATGT
TAACAAGAAAGTTTAATTTAAAACTAATGTTTAGACTAAATTAGAGTTCTAACATACTTAGGAGT
TTTATTTAGATTTATTTAG
Found at i:49937882 original size:174 final size:174
Alignment explanation
Indices: 49937586--49937932 Score: 633
Period size: 174 Copynumber: 2.0 Consensus size: 174
49937576 AAATTCTCTG
49937586 TGAGTTTTTCTTTTCAAGAATTTCTCTTAAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTTAGA
1 TGAGTTTTTCTTTTCAAGAATTTCTCTTAAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTTAGA
*
49937651 TTATGGGGATCATCTTCAAACTTTTTCTTGCCAAGGTTTTTATCTTGGAGGGGAAATTAGAGCCG
66 TTATGGAGATCATCTTCAAACTTTTTCTTGCCAAGGTTTTTATCTTGGAGGGGAAATTAGAGCCG
*
49937716 CTT-TAAGGGGATTGTGGATTCTTCGTGTTTCCAAGGCTTCTTAC
131 CTTGAAAGGGG-TTGTGGATTCTTCGTGTTTCCAAGGCTTCTTAC
*
49937760 TGAGTTTTTCTTTTCAAGAATTTCTCTTGAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTTAGA
1 TGAGTTTTTCTTTTCAAGAATTTCTCTTAAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTTAGA
* *
49937825 TTGTGGAGATCATCTTCAAACTTTTTCTTGCCAAGGTTTTTATCTTGGAGTGGAAATTAGAGCCG
66 TTATGGAGATCATCTTCAAACTTTTTCTTGCCAAGGTTTTTATCTTGGAGGGGAAATTAGAGCCG
49937890 CTTGAAAGGGGTTGTGGATTCTTCGTGTTTCCAAGGCTTCTTA
131 CTTGAAAGGGGTTGTGGATTCTTCGTGTTTCCAAGGCTTCTTA
49937933 GGACTTCTAC
Statistics
Matches: 167, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
174 161 0.96
175 6 0.04
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.43
Consensus pattern (174 bp):
TGAGTTTTTCTTTTCAAGAATTTCTCTTAAGTTTCTTTTAGAAGAGTTTTAACAATCTTTTTAGA
TTATGGAGATCATCTTCAAACTTTTTCTTGCCAAGGTTTTTATCTTGGAGGGGAAATTAGAGCCG
CTTGAAAGGGGTTGTGGATTCTTCGTGTTTCCAAGGCTTCTTAC
Found at i:49937970 original size:11 final size:12
Alignment explanation
Indices: 49937954--49937982 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
49937944 CGCCACGTTC
49937954 TATCTTTCCA-T
1 TATCTTTCCATT
49937965 TATCTTTCCATT
1 TATCTTTCCATT
49937977 TATCTT
1 TATCTT
49937983 CTTTATTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:49940591 original size:3 final size:3
Alignment explanation
Indices: 49940583--49940615 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
49940573 ATTGTTTGAT
49940583 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
49940616 CTTTCTCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:49942113 original size:72 final size:72
Alignment explanation
Indices: 49942021--49942205 Score: 268
Period size: 72 Copynumber: 2.6 Consensus size: 72
49942011 AACAAATTTT
* *
49942021 ATATCC-AAAATCAAACATAAACCACTATTGATAAAACTAGATTACA-AATAAA-AATGTATAAC
1 ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACAA-AAATAA-GTAGAAC
49942083 ATAAATTCA
64 ATAAATTCA
*
49942092 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACAAAAATAAGTAGAACAT
1 ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACAAAAATAAGTAGAACAT
**
49942157 AAATTTG
66 AAATTCA
*
49942164 ATATCCAAAAATCAAATATAAACAACTATTGATAAAAACTAG
1 ATATCCAAAAATCAAACATAAACAACTATTGAT-AAAACTAG
49942206 TTTAGCATTG
Statistics
Matches: 103, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
71 6 0.06
72 85 0.83
73 12 0.12
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (72 bp):
ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACAAAAATAAGTAGAACAT
AAATTCA
Found at i:49946049 original size:28 final size:28
Alignment explanation
Indices: 49946010--49946068 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
49946000 ATTATTTTAA
49946010 AAAATCTACAATAATATCATCTCATACT
1 AAAATCTACAATAATATCATCTCATACT
49946038 AAAATCTACAATAATATCATCTCATACT
1 AAAATCTACAATAATATCATCTCATACT
49946066 AAA
1 AAA
49946069 TATATAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAATCTACAATAATATCATCTCATACT
Found at i:49949202 original size:20 final size:21
Alignment explanation
Indices: 49949160--49949204 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
49949150 GTTAAAATTC
*
49949160 TTAAAAGATTTAAAAGATTCT
1 TTAAAAGATTTAAAAGATCCT
**
49949181 TTAAAAGA-TTACGAGATCCT
1 TTAAAAGATTTAAAAGATCCT
49949201 TTAA
1 TTAA
49949205 TATTACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (21 bp):
TTAAAAGATTTAAAAGATCCT
Found at i:49952116 original size:27 final size:27
Alignment explanation
Indices: 49952075--49952127 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
49952065 GACAACGCCC
*
49952075 AGCAGCAACAGCAGCAGCAGCCACAAG
1 AGCAGCAACAACAGCAGCAGCCACAAG
49952102 AGCAGCAACAACAGCAGCAGCCACAA
1 AGCAGCAACAACAGCAGCAGCCACAA
49952128 CCGCAGCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.34, G:0.23, T:0.00
Consensus pattern (27 bp):
AGCAGCAACAACAGCAGCAGCCACAAG
Found at i:49952127 original size:15 final size:15
Alignment explanation
Indices: 49952074--49952134 Score: 65
Period size: 15 Copynumber: 4.3 Consensus size: 15
49952064 AGACAACGCC
*
49952074 CAGCAGCAACAGCAG
1 CAGCAGCAACAACAG
*
49952089 CAGCAGCCAC-A-AG
1 CAGCAGCAACAACAG
49952102 -AGCAGCAACAACAG
1 CAGCAGCAACAACAG
* *
49952116 CAGCAGCCACAACCG
1 CAGCAGCAACAACAG
49952131 CAGC
1 CAGC
49952135 TGCCGCGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 8 0.21
13 3 0.08
14 2 0.05
15 25 0.66
ACGTcount: A:0.39, C:0.38, G:0.23, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAG
Found at i:49952133 original size:27 final size:27
Alignment explanation
Indices: 49952074--49952134 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
49952064 AGACAACGCC
*
49952074 CAGCAGCAACAGCAGCAGCAGCCACAA
1 CAGCAGCAACAACAGCAGCAGCCACAA
*
49952101 GAGCAGCAACAACAGCAGCAGCCACAA
1 CAGCAGCAACAACAGCAGCAGCCACAA
*
49952128 CCGCAGC
1 CAGCAGC
49952135 TGCCGCGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.38, G:0.23, T:0.00
Consensus pattern (27 bp):
CAGCAGCAACAACAGCAGCAGCCACAA
Found at i:49952197 original size:18 final size:18
Alignment explanation
Indices: 49952163--49952201 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49952153 AACTGGTCAA
*
49952163 GGTTAAGAAAGTAGTGGT
1 GGTTAAGAAAGAAGTGGT
49952181 GGTTAAG-AAGAAGGTGGT
1 GGTTAAGAAAGAA-GTGGT
49952199 GGT
1 GGT
49952202 GGGAGCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.26
Consensus pattern (18 bp):
GGTTAAGAAAGAAGTGGT
Found at i:49966606 original size:178 final size:179
Alignment explanation
Indices: 49966306--49966661 Score: 660
Period size: 178 Copynumber: 2.0 Consensus size: 179
49966296 TCCTTTTTTC
* *
49966306 TTTTTCAATCTTTTAACTTTGTTTATTTGCTCCAATTTTACTGTTGGGTGCATCCTGCTTAACGT
1 TTTTTCAATCTTTTAACGTTGTTTATTTGCTCCAATTTTACTGTTGGGTGCATCCTGCGTAACGT
49966371 GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
66 GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
* *
49966436 ATAGCTATGTCCCCTGATTTACCACTTTGTGCATCAGTGACAGTGACTT
131 ATAGCTATGTCCCCCGATTTACCACTCTGTGCATCAGTGACAGTGACTT
*
49966485 TTTTTCAATCTTTTAACGTTGTTTATTTGCT-CATTTTTACTGTTGGGTGCATCCTGCGTAACGT
1 TTTTTCAATCTTTTAACGTTGTTTATTTGCTCCAATTTTACTGTTGGGTGCATCCTGCGTAACGT
49966549 GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
66 GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
49966614 ATAGCTATGTCCCCCGATTTACCACTCTGTGCATCAGTGACAGTGACT
131 ATAGCTATGTCCCCCGATTTACCACTCTGTGCATCAGTGACAGTGACT
49966662 GGATGAAAAG
Statistics
Matches: 172, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
178 142 0.83
179 30 0.17
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (179 bp):
TTTTTCAATCTTTTAACGTTGTTTATTTGCTCCAATTTTACTGTTGGGTGCATCCTGCGTAACGT
GAAAACATGACATTTTTGTACCCCAAAAAAAGCATGACACATTTCTGGTTCAAACCGAGATTGAT
ATAGCTATGTCCCCCGATTTACCACTCTGTGCATCAGTGACAGTGACTT
Found at i:49970690 original size:15 final size:15
Alignment explanation
Indices: 49970670--49970699 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49970660 GCGCAAGCCT
49970670 ATAAAATAATTAAAA
1 ATAAAATAATTAAAA
*
49970685 ATAAAATTATTAAAA
1 ATAAAATAATTAAAA
49970700 TCTATAAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAAATAATTAAAA
Found at i:49971144 original size:16 final size:16
Alignment explanation
Indices: 49971123--49971182 Score: 102
Period size: 16 Copynumber: 3.8 Consensus size: 16
49971113 TTTGGTTCGC
*
49971123 TGTAATAGAATAGAGT
1 TGTAATGGAATAGAGT
49971139 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
*
49971155 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGT
49971171 TGTAATGGAATA
1 TGTAATGGAATA
49971183 AAACTGTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.40, C:0.02, G:0.28, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:49971189 original size:16 final size:16
Alignment explanation
Indices: 49971121--49971192 Score: 99
Period size: 16 Copynumber: 4.5 Consensus size: 16
49971111 CGTTTGGTTC
*
49971121 GCTGTAATAGAATAGA
1 GCTGTAATGGAATAGA
*
49971137 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
49971153 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
49971169 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
*
49971185 ACTGTAAT
1 GCTGTAAT
49971193 TAGTAATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:49981084 original size:12 final size:12
Alignment explanation
Indices: 49981067--49981091 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49981057 TTTGTAAAGA
49981067 TAATGCATAAAT
1 TAATGCATAAAT
49981079 TAATGCATAAAT
1 TAATGCATAAAT
49981091 T
1 T
49981092 TGGTACCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATGCATAAAT
Found at i:49985693 original size:27 final size:28
Alignment explanation
Indices: 49985661--49985717 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
49985651 ATCTAACAAG
*
49985661 TTTAATTAATTAGTT-TGAGTTATCAAA
1 TTTAATTAATTAATTATGAGTTATCAAA
*
49985688 TTTAATTAATTAATTATGAGTTATGAAA
1 TTTAATTAATTAATTATGAGTTATCAAA
49985716 TT
1 TT
49985718 CAAGTAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTAATTAATTAATTATGAGTTATCAAA
Found at i:49986438 original size:19 final size:20
Alignment explanation
Indices: 49986409--49986451 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
49986399 CATTATCATG
49986409 TTATATTTTTCTATTATT-TT
1 TTATATTTTTCTATT-TTATT
49986429 TTAT-TTTTTCTATTTTATT
1 TTATATTTTTCTATTTTATT
49986448 TTAT
1 TTAT
49986452 GTCATGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.09
19 16 0.73
20 4 0.18
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATATTTTTCTATTTTATT
Found at i:49994499 original size:39 final size:39
Alignment explanation
Indices: 49994455--49994594 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
49994445 GCTCTGATGA
*
49994455 GCTTCAATTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
* * * *
49994494 ACTTCAGTTAGCCTTCGGGCTTTCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
*
49994533 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
* * *
49994572 GCTTTAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
49994595 AGATCACGAA
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTGTGT
Found at i:50000788 original size:39 final size:39
Alignment explanation
Indices: 50000742--50000835 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
50000732 ACTCTGATGA
** *
50000742 GCTTCAGTTAGCCTTCAGGATTCTGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCAGGATTCCATTTAACACTTATGT
* *
50000781 GCTTCAGTTAGCCTAT-AGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCT-TCAGGATTCCATTTAACACTTATGT
* *
50000820 GCTTCAGCTAGACTTC
1 GCTTCAGTTAGCCTTC
50000836 GGGCTTCAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.02
39 44 0.96
40 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCAGGATTCCATTTAACACTTATGT
Found at i:50000824 original size:21 final size:21
Alignment explanation
Indices: 50000767--50000824 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 21
50000757 CAGGATTCTG
* *
50000767 TTTAACACTTGTGTGCTT-CA
1 TTTAGCACTTATGTGCTTCCA
*
50000787 GTTAGC-C-TATAG-GCTTCCA
1 TTTAGCACTTAT-GTGCTTCCA
50000806 TTTAGCACTTATGTGCTTC
1 TTTAGCACTTATGTGCTTC
50000825 AGCTAGACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
18 6 0.21
19 9 0.31
20 6 0.21
21 8 0.28
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
TTTAGCACTTATGTGCTTCCA
Found at i:50001547 original size:12 final size:12
Alignment explanation
Indices: 50001523--50001556 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
50001513 TGAGTTTTTT
*
50001523 TAAAATAAT-AA
1 TAAAAAAATAAA
50001534 TAAAAAAATAAA
1 TAAAAAAATAAA
50001546 TAAAAAAATAA
1 TAAAAAAATAA
50001557 CTATATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:50008549 original size:4 final size:4
Alignment explanation
Indices: 50008542--50009356 Score: 1630
Period size: 4 Copynumber: 203.8 Consensus size: 4
50008532 TCCTTCGTAC
50008542 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50008590 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50008638 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50008686 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50008734 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50008782 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50008830 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50008878 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50008926 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50008974 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50009022 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50009070 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50009118 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50009166 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50009214 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50009262 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
50009310 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
50009357 CATGTGTGTG
Statistics
Matches: 811, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 811 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:50016226 original size:20 final size:20
Alignment explanation
Indices: 50016184--50016226 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
50016174 CGAAAAAAAA
* *
50016184 AACATCATATAAAATTACAC
1 AACATAATATAAAATAACAC
50016204 AACATAATA-AAAATAACATC
1 AACATAATATAAAATAACA-C
50016224 AAC
1 AAC
50016227 GAACCCATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (20 bp):
AACATAATATAAAATAACAC
Found at i:50018171 original size:25 final size:25
Alignment explanation
Indices: 50018143--50018228 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
50018133 ATATTGATAA
* *
50018143 ATATTAATGAAAAGAAACGCAAAGC
1 ATATAAATTAAAAGAAACGCAAAGC
**
50018168 ATATAAATTAAAA-ATATTG-ATAA--
1 ATATAAATTAAAAGA-AACGCA-AAGC
*
50018191 ATATTAATTAAAAGAAACGCAAAGC
1 ATATAAATTAAAAGAAACGCAAAGC
50018216 ATATAAATTAAAA
1 ATATAAATTAAAA
50018229 AGCCATTATC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
23 16 0.34
24 4 0.09
25 27 0.57
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.24
Consensus pattern (25 bp):
ATATAAATTAAAAGAAACGCAAAGC
Found at i:50018197 original size:48 final size:48
Alignment explanation
Indices: 50018121--50018229 Score: 200
Period size: 48 Copynumber: 2.3 Consensus size: 48
50018111 TTGGGTGTTT
*
50018121 TATAGATTAAAAATATTGATAAATATTAATGAAAAGAAACGCAAAGCA
1 TATAAATTAAAAATATTGATAAATATTAATGAAAAGAAACGCAAAGCA
*
50018169 TATAAATTAAAAATATTGATAAATATTAATTAAAAGAAACGCAAAGCA
1 TATAAATTAAAAATATTGATAAATATTAATGAAAAGAAACGCAAAGCA
50018217 TATAAATTAAAAA
1 TATAAATTAAAAA
50018230 GCCATTATCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.27
Consensus pattern (48 bp):
TATAAATTAAAAATATTGATAAATATTAATGAAAAGAAACGCAAAGCA
Found at i:50018199 original size:23 final size:23
Alignment explanation
Indices: 50018126--50018203 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
50018116 TGTTTTATAG
50018126 ATTAAAAATATTGATAAATATTA
1 ATTAAAAATATTGATAAATATTA
* ** *
50018149 ATGAAAAGA-AACGCA-AAGCATATAA
1 ATTAAAA-ATATTG-ATAA--ATATTA
50018174 ATTAAAAATATTGATAAATATTA
1 ATTAAAAATATTGATAAATATTA
50018197 ATTAAAA
1 ATTAAAA
50018204 GAAACGCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
23 22 0.54
24 4 0.10
25 15 0.37
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (23 bp):
ATTAAAAATATTGATAAATATTA
Found at i:50019376 original size:45 final size:45
Alignment explanation
Indices: 50019312--50019541 Score: 246
Period size: 45 Copynumber: 5.1 Consensus size: 45
50019302 AACAATTAGG
* * *
50019312 ATATACATATAGGAGGTACTATGTATCAGTGTTGGCTATCATGTC
1 ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
* * * *
50019357 ATATACATATAGTAGGTACTACGTATC-GATGTCGGCTATCATGCC
1 ATATACATACAGCAGGTACTATGTATCAG-TGTTGGCTATCATGCC
* * * * * * *
50019402 AAATACATACAGCAAGTACTATGTATCGGTATCGACTTTCATGCC
1 ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
* * *
50019447 ATATAAATACAGCAGGTACTATATATCAGTGTTGGCTATCATACC
1 ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
* * * * *
50019492 ATATACATACAACAGGTATTATGTATCGGTGTTGGCTTTTATGCC
1 ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
50019537 ATATA
1 ATATA
50019542 AGCATAACAA
Statistics
Matches: 153, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
44 1 0.01
45 151 0.99
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (45 bp):
ATATACATACAGCAGGTACTATGTATCAGTGTTGGCTATCATGCC
Found at i:50019560 original size:45 final size:44
Alignment explanation
Indices: 50019327--50019571 Score: 167
Period size: 45 Copynumber: 5.5 Consensus size: 44
50019317 CATATAGGAG
* * * * *
50019327 GTACTATGTATCAGTGTTGGCTATCATGTCATAT-ACATATAGTAG
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACATA-A-CAA
* * * * *
50019372 GTACTACGTATCGATGTCGGCTATCATGCCAAAT-ACATACAGCAA
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACATA-A-CAA
* * * *
50019417 GTACTATGTATCGGTATCGACTTTCATGCCATATAA-ATACAGCAG
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACATA-A-CAA
* * * * *
50019462 GTACTATATATCAGTGTTGGCTATCATACCATAT-ACATACAACAG
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACAT--AACAA
* *
50019507 GTATTATGTATCGGTGTTGGCTTTTATGCCATATAAGCATAACAA
1 GTACTATGTATCGGTGTTGGCTTTCATGCCATATAA-CATAACAA
*
50019552 GTAATATGTA-CGGGTGTTGG
1 GTACTATGTATC-GGTGTTGG
50019572 TTATTTTTCC
Statistics
Matches: 162, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
44 2 0.01
45 153 0.94
46 3 0.02
47 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (44 bp):
GTACTATGTATCGGTGTTGGCTTTCATGCCATATAACATAACAA
Found at i:50019571 original size:90 final size:90
Alignment explanation
Indices: 50019390--50019558 Score: 207
Period size: 90 Copynumber: 1.9 Consensus size: 90
50019380 TATCGATGTC
* *
50019390 GGCTATCATGCCAAATACATACAGCAAGTACTATGTATCGGTATCGACTTTCATGCCATATAAAT
1 GGCTATCATACCAAATACATACAACAAGTACTATGTATCGGTATCGACTTTCATGCCATATAAAT
* *
50019455 ACAGCAGGTACTATATATCAGTGTT
66 ACAGCAAGTAATATATATCAGTGTT
* * * * * * *
50019480 GGCTATCATACCATATACATACAACAGGTATTATGTATCGGTGTTGGCTTTTATGCCATATAAGC
1 GGCTATCATACCAAATACATACAACAAGTACTATGTATCGGTATCGACTTTCATGCCATATAA--
50019545 ATA-A-CAAGTAATAT
64 ATACAGCAAGTAATAT
50019559 GTACGGGTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
90 62 0.94
91 1 0.02
92 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (90 bp):
GGCTATCATACCAAATACATACAACAAGTACTATGTATCGGTATCGACTTTCATGCCATATAAAT
ACAGCAAGTAATATATATCAGTGTT
Found at i:50021658 original size:32 final size:32
Alignment explanation
Indices: 50021622--50021690 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
50021612 CAACAAATTC
*
50021622 AATTAATAGCTCTAATCAACCATCCAAGAAAT
1 AATTAATAGCTCTAATCAACCATCCAAAAAAT
* *
50021654 AATTAATGGCTCTAATCAACCATCTAAAAAAT
1 AATTAATAGCTCTAATCAACCATCCAAAAAAT
50021686 AATTA
1 AATTA
50021691 TTGACAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.28
Consensus pattern (32 bp):
AATTAATAGCTCTAATCAACCATCCAAAAAAT
Found at i:50022243 original size:40 final size:40
Alignment explanation
Indices: 50022199--50022325 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
50022189 TTTAGTAAGA
*
50022199 ATATAAAAAAATTATTATAACTTCTTGTTAATATTTTAAT
1 ATATAAAAAAATTATTATAACTTATTGTTAATATTTTAAT
* * *
50022239 ATATAAAAAAATTAGT-TAA--TATTATT-ATATTTTAGT
1 ATATAAAAAAATTATTATAACTTATTGTTAATATTTTAAT
* *
50022275 AAGAATATAAAAAATTATTATAACTTTTTGTTAATATTTTAAT
1 -A-TATA-AAAAAATTATTATAACTTATTGTTAATATTTTAAT
50022318 ATATAAAA
1 ATATAAAA
50022326 TATAAATTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
36 9 0.13
37 6 0.09
38 3 0.04
39 13 0.19
40 21 0.30
41 3 0.04
42 6 0.09
43 9 0.13
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (40 bp):
ATATAAAAAAATTATTATAACTTATTGTTAATATTTTAAT
Found at i:50022325 original size:79 final size:80
Alignment explanation
Indices: 50022167--50022325 Score: 302
Period size: 79 Copynumber: 2.0 Consensus size: 80
50022157 AATAATATTT
50022167 AAATTAGTTAATATTATTATATTTTAGTAAGAATATAAAAAAATTATTATAACTTCTTGTTAATA
1 AAATTAGTTAATATTATTATATTTTAGTAAGAATATAAAAAAATTATTATAACTTCTTGTTAATA
50022232 TTTTAATATATAAAA
66 TTTTAATATATAAAA
*
50022247 AAATTAGTTAATATTATTATATTTTAGTAAGAATAT-AAAAAATTATTATAACTTTTTGTTAATA
1 AAATTAGTTAATATTATTATATTTTAGTAAGAATATAAAAAAATTATTATAACTTCTTGTTAATA
50022311 TTTTAATATATAAAA
66 TTTTAATATATAAAA
50022326 TATAAATTTA
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
79 42 0.54
80 36 0.46
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (80 bp):
AAATTAGTTAATATTATTATATTTTAGTAAGAATATAAAAAAATTATTATAACTTCTTGTTAATA
TTTTAATATATAAAA
Found at i:50023006 original size:16 final size:18
Alignment explanation
Indices: 50022987--50023031 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
50022977 TCTTAAAATT
*
50022987 TAAAATAA-ATAAA-TAA
1 TAAAATAATAAAAACTAA
50023003 TAAAATAATAAAAACTAA
1 TAAAATAATAAAAACTAA
50023021 TAAATATAATA
1 TAAA-ATAATA
50023032 TTGGACTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 4 0.16
18 7 0.28
19 6 0.24
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAATAATAAAAACTAA
Found at i:50023014 original size:19 final size:19
Alignment explanation
Indices: 50022990--50023031 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
50022980 TAAAATTTAA
50022990 AATAAATAAATAATAAA-AT
1 AATAAA-AAATAATAAATAT
*
50023009 AATAAAAACTAATAAATAT
1 AATAAAAAATAATAAATAT
50023028 AATA
1 AATA
50023032 TTGGACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAAAATAATAAATAT
Found at i:50025147 original size:18 final size:19
Alignment explanation
Indices: 50025124--50025165 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
50025114 TTAGAATTTC
*
50025124 TTTTATCGT-ACTAATATT
1 TTTTATAGTAACTAATATT
*
50025142 TTTTATAGTAATTAATATT
1 TTTTATAGTAACTAATATT
50025161 TTTTA
1 TTTTA
50025166 AAATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTATAGTAACTAATATT
Found at i:50031470 original size:6 final size:6
Alignment explanation
Indices: 50031461--50031501 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
50031451 ATTATAATTA
*
50031461 TTTATT TTTATT TTTATTT TTTACT TTTATT TTCTATT TTT
1 TTTATT TTTATT TTTA-TT TTTATT TTTATT TT-TATT TTT
50031502 GGTTTTGGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:50031483 original size:13 final size:13
Alignment explanation
Indices: 50031461--50031501 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
50031451 ATTATAATTA
50031461 TTTA-TTTTTATT
1 TTTATTTTTTATT
*
50031473 TTTATTTTTTACT
1 TTTATTTTTTATT
*
50031486 TTTATTTTCTATT
1 TTTATTTTTTATT
50031499 TTT
1 TTT
50031502 GGTTTTGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTTATT
Found at i:50031488 original size:19 final size:20
Alignment explanation
Indices: 50031461--50031501 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
50031451 ATTATAATTA
*
50031461 TTTATTTTTATTTT-TATTT
1 TTTACTTTTATTTTCTATTT
50031480 TTTACTTTTATTTTCTATTT
1 TTTACTTTTATTTTCTATTT
50031500 TT
1 TT
50031502 GGTTTTGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTACTTTTATTTTCTATTT
Found at i:50048644 original size:38 final size:38
Alignment explanation
Indices: 50048602--50048702 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
50048592 TTAAAGACCA
* *
50048602 GCAGGCTATATGCTGGAATTATATCCGGATTAAA-TCTC
1 GCAGGCTATGTGCTGGTATTATATCCGGATTAAATTC-C
*
50048640 GCAGGCT-TCGTGCTGGTATTATATCCGGGTTAAATTCC
1 GCAGGCTAT-GTGCTGGTATTATATCCGGATTAAATTCC
50048678 GCAGGCCTA-GTGCTGGTATTATATC
1 GCAGG-CTATGTGCTGGTATTATATC
50048703 TGAGTTTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
37 1 0.02
38 51 0.91
39 4 0.07
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (38 bp):
GCAGGCTATGTGCTGGTATTATATCCGGATTAAATTCC
Found at i:50055545 original size:111 final size:111
Alignment explanation
Indices: 50055341--50055563 Score: 320
Period size: 111 Copynumber: 2.0 Consensus size: 111
50055331 CTACCATCCT
*
50055341 ATCTCCCTAAAGCTGTAATGGAATAGGCTGAAGATTGTAGATCTTATTTACCTGAAATTGCAGTG
1 ATCTCCCTAAAGCTGTAATGGAATAGGCTAAAGATTGTAGATCTTATTTACCTGAAATTGCAGTG
* * *
50055406 GAGCAGATCGAAGACGACAAATCTTGTCTTTCTGAAGTTGCAGTGA
66 GACCAGATCGAAGACGACAAATCCTGTCTTCCTGAAGTTGCAGTGA
* * * * * *
50055452 ATCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTG
1 ATCTCCCTAAAGCTGTAATGGAATAGGCTAAAGATTGTAGATCTTATTTACCTGAAATTGCAGTG
* * * *
50055517 GACCAGATCGAAGATGGCGAATCCTGTCTTCCTGAAGTTGCGGTGA
66 GACCAGATCGAAGACGACAAATCCTGTCTTCCTGAAGTTGCAGTGA
50055563 A
1 A
50055564 ACAGATTTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 98 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (111 bp):
ATCTCCCTAAAGCTGTAATGGAATAGGCTAAAGATTGTAGATCTTATTTACCTGAAATTGCAGTG
GACCAGATCGAAGACGACAAATCCTGTCTTCCTGAAGTTGCAGTGA
Found at i:50055662 original size:45 final size:44
Alignment explanation
Indices: 50055492--50055697 Score: 143
Period size: 45 Copynumber: 4.7 Consensus size: 44
50055482 AAGATTGTAG
* * *
50055492 ATCTTGTTTCCCTGAAGTTGCAGTGGACCAGATCGAAGATGGC-GA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAG-T-GCACA
* * * * * ** * *
50055537 ATCCTGTCTTCCTGAAGTTGCGGTGAAACAGATTTAAG-CCACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTGCACA
* * * * *
50055580 ATCTTATCTCCCTAAAGTTGTAGTGGAGTA-AGCCGAAGTTTGCA-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGA-TCGAAG--TGCACA
50055625 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGT-CACA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTGCACA
* * *
50055668 ATCTTCATCTCTCTGAAGTTGCAGTAGAGC
1 ATCTT-GTCTCCCTGAAGTTGCAGTGGAGC
50055698 GGGATAAAAA
Statistics
Matches: 120, Mismatches: 33, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
42 4 0.03
43 31 0.26
44 21 0.17
45 61 0.51
46 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (44 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTGCACA
Found at i:50056716 original size:37 final size:37
Alignment explanation
Indices: 50056675--50056760 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
50056665 AGGGCTGAAT
* *
50056675 ACGGCATCGTTTTAAGCCTGATTTAGTGGCTCCAAAA
1 ACGGCGTCGTTTTAAGCCTGATTCAGTGGCTCCAAAA
*
50056712 ACGGCGTCGTTTTGAGCCTGATTCAGTGGCTCCAAAA
1 ACGGCGTCGTTTTAAGCCTGATTCAGTGGCTCCAAAA
50056749 ACGGCGTCGTTT
1 ACGGCGTCGTTT
50056761 AGGGGAGGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (37 bp):
ACGGCGTCGTTTTAAGCCTGATTCAGTGGCTCCAAAA
Found at i:50059583 original size:25 final size:25
Alignment explanation
Indices: 50059531--50059670 Score: 149
Period size: 25 Copynumber: 5.6 Consensus size: 25
50059521 ATATTCGGGA
* * *
50059531 AAGCTCATACGAGCACATA-AATGGG
1 AAGCTCATGCGAGC-CATATAACGAG
* *
50059556 AAGCTCTTTCGAGCCATATAACGAG
1 AAGCTCATGCGAGCCATATAACGAG
* * *
50059581 AAGCTCATGTGAGCCATGTACCGAG
1 AAGCTCATGCGAGCCATATAACGAG
*
50059606 AAGCTCATGCGAGCCATGTAACGAG
1 AAGCTCATGCGAGCCATATAACGAG
* *
50059631 AAGCTCATGCGAGCCGTA-ATCGAG
1 AAGCTCATGCGAGCCATATAACGAG
*
50059655 AAGCTCATACGAGCCA
1 AAGCTCATGCGAGCCA
50059671 GTATCGGGAA
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
24 23 0.23
25 75 0.77
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (25 bp):
AAGCTCATGCGAGCCATATAACGAG
Found at i:50060447 original size:18 final size:17
Alignment explanation
Indices: 50060420--50060467 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
50060410 CGGGCCCATA
50060420 AAAAATAAAATAAAACC
1 AAAAATAAAATAAAACC
*
50060437 AAAAATAAAAATAAACCC
1 AAAAAT-AAAATAAAACC
*
50060455 AAACA-AAAATAAA
1 AAAAATAAAATAAA
50060468 TAATAGACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 8 0.29
17 6 0.21
18 14 0.50
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAATAAAATAAAACC
Found at i:50063849 original size:13 final size:13
Alignment explanation
Indices: 50063831--50063858 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50063821 TTTTATTTTA
50063831 TTATTTATCATCT
1 TTATTTATCATCT
50063844 TTATTTATCATCT
1 TTATTTATCATCT
50063857 TT
1 TT
50063859 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:50066176 original size:25 final size:20
Alignment explanation
Indices: 50066121--50066163 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
50066111 TAGGTATTTG
50066121 TTGCTGATTGTGGTGGAATT
1 TTGCTGATTGTGGTGGAATT
50066141 TTGCTGATTGTGGTGGAATT
1 TTGCTGATTGTGGTGGAATT
50066161 TTG
1 TTG
50066164 ATCTGGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.05, G:0.35, T:0.47
Consensus pattern (20 bp):
TTGCTGATTGTGGTGGAATT
Found at i:50071480 original size:41 final size:41
Alignment explanation
Indices: 50071336--50071470 Score: 211
Period size: 41 Copynumber: 3.3 Consensus size: 41
50071326 ACCGACACTT
50071336 AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTA
*
50071377 AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTT
1 AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTA
* *
50071418 AGCCTGCTAGACTTAAAGTCTG-AAT-TACTTCACCGGCATTA
1 AGCCTGCTAGACATATAGTCTGAAATGTA--TCACCGGCATTA
50071459 AGCCTGCTAGAC
1 AGCCTGCTAGAC
50071471 GTAACGTCTG
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 83 0.94
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACATATAGTCTGAAATGTATCACCGGCATTA
Found at i:50075484 original size:98 final size:98
Alignment explanation
Indices: 50075364--50075560 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
50075354 CAAAAAATAA
* * *
50075364 TAAAGGAAATATTCCGAGTTTGGGATTTTGGAGGCATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
50075429 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAAACTTGGATAAGTGGATGTTCTTTTAAAG
50075462 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
50075527 TTAAAACTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAAACTTGGATAAGTGGATGTTCTTTTAAAG
50075560 T
1 T
50075561 TTTATTGCAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAAACTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:50086891 original size:44 final size:44
Alignment explanation
Indices: 50086831--50087510 Score: 374
Period size: 44 Copynumber: 15.8 Consensus size: 44
50086821 TAGTGGTCGG
* * * *
50086831 GATCCTATCTTCCTGAAGTTGCAGTGGGGCGGATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * ***
50086875 GATCTTATCTCTCTGAAGTTGCA--AGAGCAGA-TCGCATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
50086915 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* * **
50086959 G-TCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGATTGAAGATAACA
1 GATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATT-AAAATCTCA
* * ** **
50087003 AATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
50087047 AATCCTATCACCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * **
50087091 GATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT-GTATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * **
50087132 G-TCTTATCTCCCTGAAGTGGCAGTGCAGTTGATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
** * ***
50087175 GATCTTATCTTTCTGAAGTTGCAG-AGAGCAGA-TCGCATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *
50087216 G-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* * * * **
50087260 G-TCTTATC-CTCTTGAAGTGGCAGT-GAGGCAGACTGAAGATGGCA
1 GATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCTCA
* * ** *
50087304 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGACA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-TCA
* *
50087349 -AT-TCTATCTCCCTAAAGTTGCAGTGGAGCTGATTAAAATCTCA
1 GATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * * * ***
50087392 GATCTTATCTCTCTAAAGTTACAG-AGACCAGA-TCGTATCT-A
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * **
50087433 G-TCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTAAGGAA--GAA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* * *
50087476 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATT
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
50087511 GAAGCACTAG
Statistics
Matches: 478, Mismatches: 119, Indels: 78
0.71 0.18 0.12
Matches are distributed among these distances:
39 20 0.04
40 59 0.12
41 36 0.08
42 26 0.05
43 31 0.06
44 243 0.51
45 57 0.12
46 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
Found at i:50087067 original size:89 final size:88
Alignment explanation
Indices: 50086916--50087124 Score: 210
Period size: 89 Copynumber: 2.4 Consensus size: 88
50086906 TCGCATCTAG
* * * * *
50086916 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAAGAAAATCCTATCCTCCTAAAGTTGCA
*
50086981 GT-GAGGCAGATTGAAGATAACAAA
66 GTGGA-GCAGATT-AAAATAACAAA
* ** *
50087005 TCTTATCACCCTGAAGTTGCAGTGGAGCAGATTAAAG-CCGAAAATCCTATCAC-CCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGTAAGAAAATCCTATC-CTCCTAAAGTTG
* ** *
50087068 CAGTGGAGCGGATTAAAATCTCAGA
64 CAGTGGAGCAGATTAAAATAACAAA
* *
50087093 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
50087125 GTATCTAGTC
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
87 9 0.09
88 27 0.27
89 58 0.58
90 6 0.06
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGTAAGAAAATCCTATCCTCCTAAAGTTGCA
GTGGAGCAGATTAAAATAACAAA
Found at i:50087166 original size:84 final size:84
Alignment explanation
Indices: 50087052--50087240 Score: 297
Period size: 84 Copynumber: 2.2 Consensus size: 84
50087042 CCGAAAATCC
* *
50087052 TATCACCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGCAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAGAG
* *
50087117 AGCAGATTGTATCTAGTCT
66 AGCAGATCGCATCTAGTCT
* ** *
50087136 TATCTCCCTGAAGTGGCAGTGCAGTTGATTAAAATCTCAGATCTTATCTTTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGCAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAGAG
50087201 AGCAGATCGCATCTAGTCT
66 AGCAGATCGCATCTAGTCT
*
50087220 TATCTCCCTAAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTG
50087241 GAGCAGACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 95 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGCAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCATCTAGTCT
Found at i:50087265 original size:84 final size:84
Alignment explanation
Indices: 50087052--50087291 Score: 234
Period size: 84 Copynumber: 2.8 Consensus size: 84
50087042 CCGAAAATCC
* * * * * * * *
50087052 TATCACCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTAAAGTGGCAGTGCAGCAGACTAAAAGCTAAGATCTTATCTCTCTGAAGTTGCAGAG
* *
50087117 AGCAGATTGTATCTAGTCT
66 AGCAGATCGCATCTAGTCT
* ** * * * *
50087136 TATCTCCCTGAAGTGGCAGTGCAGTTGATTAAAATCTCAGATCTTATCTTTCTGAAGTTGCAGAG
1 TATCTCCCTAAAGTGGCAGTGCAGCAGACTAAAAGCTAAGATCTTATCTCTCTGAAGTTGCAGAG
50087201 AGCAGATCGCATCTAGTCT
66 AGCAGATCGCATCTAGTCT
* * *
50087220 TATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAG-TCTTATC-CTCTTGAAGTGGCA
1 TATCTCCCTAAAGTGGCAGTGCAGCAGACTAA--AAGCTAAGATCTTATCTCTC-TGAAGTTGCA
*
50087282 GTGAGGCAGA
63 GAGA-GCAGA
50087292 CTGAAGATGG
Statistics
Matches: 133, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
83 2 0.02
84 121 0.91
85 7 0.05
86 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (84 bp):
TATCTCCCTAAAGTGGCAGTGCAGCAGACTAAAAGCTAAGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCATCTAGTCT
Found at i:50087385 original size:301 final size:300
Alignment explanation
Indices: 50086862--50087457 Score: 985
Period size: 301 Copynumber: 2.0 Consensus size: 300
50086852 CAGTGGGGCG
50086862 GATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAAGAGCAGATCGCATCTAGTCTTATCTCCC
1 GATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAAGAGCAGATCGCATCTAGTCTTATCTCCC
* * * *
50086927 TGAAGTTGCAGTGGAGCGGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGAT
66 TAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTGGCAGTGAGGCAGAC
50086992 TGAAGATAACAAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAAAATCCTATCA
131 TGAAGATAACAAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAAAATCCTATCA
* * * *
50087057 CCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAG
196 CCCTAAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTAAAGTTACAGAGACCAG
*
50087122 ATTGTATCTAGTCTTATCTCCCTGAAGTGGCAGTGCAGTT
261 ATCGTATCTAGTCTTATCTCCCTGAAGTGGCAGTGCAGTT
*
50087162 GATTAAAATCTCAGATCTTATCTTTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCC
1 GATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCA-AGAGCAGATCGCATCTAGTCTTATCTCC
* *
50087227 CTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCTTGAAGTGGCAGTGAGGCAGA
65 CTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTGGCAGTGAGGCAGA
** * * * *
50087292 CTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGACAATTCTATC
130 CTGAAGATAACAAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAAAATCCTATC
* *
50087357 TCCCTAAAGTTGCAGTGGAGCTGATTAAAATCTCAGATCTTATCTCTCTAAAGTTACAGAGACCA
195 ACCCTAAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTAAAGTTACAGAGACCA
* *
50087422 GATCGTATCTAGTCTTATCTTCCTGAAGTTGCAGTG
260 GATCGTATCTAGTCTTATCTCCCTGAAGTGGCAGTG
50087458 GAGCAGACTA
Statistics
Matches: 273, Mismatches: 22, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
300 35 0.13
301 238 0.87
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (300 bp):
GATTAAAATCTCAGATCTTATCTCTCTGAAGTTGCAAGAGCAGATCGCATCTAGTCTTATCTCCC
TAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTGGCAGTGAGGCAGAC
TGAAGATAACAAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAAAATCCTATCA
CCCTAAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTAAAGTTACAGAGACCAG
ATCGTATCTAGTCTTATCTCCCTGAAGTGGCAGTGCAGTT
Found at i:50087767 original size:14 final size:14
Alignment explanation
Indices: 50087748--50087774 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50087738 CAATTTAAAA
50087748 CAGTGGCCCAAATT
1 CAGTGGCCCAAATT
50087762 CAGTGGCCCAAAT
1 CAGTGGCCCAAAT
50087775 CATTTACAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (14 bp):
CAGTGGCCCAAATT
Found at i:50088129 original size:72 final size:72
Alignment explanation
Indices: 50088043--50088186 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
50088033 AGAGCAAAAA
50088043 CCGATTAAAGGTGGTTATTTACATTTTTCATTCCTATTATTTTTCTATACATAAATAAATAGGAT
1 CCGATTAAAGGTGGTTATTTACATTTTTCATTCCTATTATTTTTCTATACATAAATAAATAGGAT
50088108 AAAGAAG
66 AAAGAAG
* *
50088115 CCGATTAAAGGTGGTTATTTACATTTTTCTTTCCTGTTATTTTTCTATACATAAATAAATAGGAT
1 CCGATTAAAGGTGGTTATTTACATTTTTCATTCCTATTATTTTTCTATACATAAATAAATAGGAT
50088180 AAAGAAG
66 AAAGAAG
50088187 GGTAAAAAGG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (72 bp):
CCGATTAAAGGTGGTTATTTACATTTTTCATTCCTATTATTTTTCTATACATAAATAAATAGGAT
AAAGAAG
Found at i:50088993 original size:199 final size:199
Alignment explanation
Indices: 50088653--50089048 Score: 697
Period size: 199 Copynumber: 2.0 Consensus size: 199
50088643 GAAAACGGTA
* *
50088653 CCGTTTTGAAGGGAGGATCCGCGCGTCGACCCGACCTGTATCCAGGGATCCGCATGTTTTCATAC
1 CCGTTTTGAAGGGAGGATCCGCGCGTCGACCCGACCAGTATCCAAGGATCCGCATGTTTTCATAC
50088718 GGAGGGGCAAATTAAATTTTTGACCCCTCCGCCTTTTAATGAATTTTCAATTAGGTTTTTTTTGT
66 GGAGGGGCAAATTAAATTTTTGACCCCTCCGCCTTTTAATGAATTTTCAATTAGGTTTTTTTTGT
50088783 GTTTTTTAAATTTGTTCTTTAATTTATTTTCCATTTCAATTTAATCCTACTGGAACGGCGCCATT
131 GTTTTTTAAATTTGTTCTTTAATTTATTTTCCATTTCAATTTAATCCTACTGGAACGGCGCCATT
50088848 TTCG
196 TTCG
*
50088852 CCGTTTTGGAA-GGAGGATCCGCGCGTCGACCCGACCCAG-ATCCAAGGATCCGCGTGTTTTCAT
1 CCGTTTT-GAAGGGAGGATCCGCGCGTCGACCCGA-CCAGTATCCAAGGATCCGCATGTTTTCAT
** *
50088915 ACGGAGGGGCAAATTGTATTTTTGACCCCTCTGCCTTTTAATGAATTTTCAATTAGGTTTTTTTT
64 ACGGAGGGGCAAATTAAATTTTTGACCCCTCCGCCTTTTAATGAATTTTCAATTAGGTTTTTTTT
*
50088980 GTGTTTTTTAAATTTTTTCTTTAATTTATTTTCCATTTCAATTTAATCCTACTGGAACGGCGCCA
129 GTGTTTTTTAAATTTGTTCTTTAATTTATTTTCCATTTCAATTTAATCCTACTGGAACGGCGCCA
50089045 TTTT
194 TTTT
50089049 AGAGGAGAAG
Statistics
Matches: 188, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
199 182 0.97
200 6 0.03
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (199 bp):
CCGTTTTGAAGGGAGGATCCGCGCGTCGACCCGACCAGTATCCAAGGATCCGCATGTTTTCATAC
GGAGGGGCAAATTAAATTTTTGACCCCTCCGCCTTTTAATGAATTTTCAATTAGGTTTTTTTTGT
GTTTTTTAAATTTGTTCTTTAATTTATTTTCCATTTCAATTTAATCCTACTGGAACGGCGCCATT
TTCG
Found at i:50089946 original size:98 final size:98
Alignment explanation
Indices: 50089826--50090019 Score: 298
Period size: 98 Copynumber: 2.0 Consensus size: 98
50089816 CTAAAAATAA
* * * * * * *
50089826 TAAATGAAATATTCTGAGTTTGGGATTTTGGAGGAGTTATGCGCTAACGTATTGGGTGTGATATC
1 TAAAGGAAATATTCCGAGTTTGGAATTTTAGAGGAATCATGCCCTAACGTATTGGGTGTGATATC
*
50089891 TTGAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
50089924 TAAAGGAAATATTCCGAGTTTGGAATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGAATTTTAGAGGAATCATGCCCTAACGTATTGGGTGTGATATC
50089989 TTAAATCTTGGATAAGTGGATGTTCTTTTAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAA
50090020 TGTTTTATTG
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.27, C:0.09, G:0.26, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGAATTTTAGAGGAATCATGCCCTAACGTATTGGGTGTGATATC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:50090475 original size:43 final size:42
Alignment explanation
Indices: 50090424--50090732 Score: 239
Period size: 43 Copynumber: 7.3 Consensus size: 42
50090414 TTCGACATAC
* *
50090424 GTAATCACAGTACAATGTCAATGTCCCAGACATGGTCTTACAT
1 GTAATCACA-TACAATGCCAATGTCCCAGACATGGTCTTATAT
* * * ** *
50090467 GTTATCACATATCGATACCGCTGTCCCAGACAGGGTCTTATAT
1 GTAATCACATA-CAATGCCAATGTCCCAGACATGGTCTTATAT
* * * * * *
50090510 GAAATCATA-ATAATGTCAATGTCCCAAACATGGTCTTATAC
1 GTAATCACATACAATGCCAATGTCCCAGACATGGTCTTATAT
* *
50090551 GTAATCACAATACAATGCCAATGTCCTAGACATGGTCTTACAT
1 GTAATCAC-ATACAATGCCAATGTCCCAGACATGGTCTTATAT
* * * * *
50090594 GTTATCACATATCGATGCCACTGTCCCAGACA-GGATATTATAC
1 GTAATCACATA-CAATGCCAATGTCCCAGACATGG-TCTTATAT
** * * *
50090637 AAAATCATATA-ATGATGCAAATGT-CCAGACATGGTCTTATAC
1 GTAATCACATACA--ATGCCAATGTCCCAGACATGGTCTTATAT
* * * *
50090679 GTAATCACAGTACGATGCCAATGTTCTAGACATGGTCTTACAT
1 GTAATCACA-TACAATGCCAATGTCCCAGACATGGTCTTATAT
*
50090722 GTTATCACATA
1 GTAATCACATA
50090733 TCGGTAACCC
Statistics
Matches: 203, Mismatches: 52, Indels: 23
0.73 0.19 0.08
Matches are distributed among these distances:
41 28 0.14
42 40 0.20
43 135 0.67
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (42 bp):
GTAATCACATACAATGCCAATGTCCCAGACATGGTCTTATAT
Found at i:50090582 original size:84 final size:84
Alignment explanation
Indices: 50090437--50090590 Score: 202
Period size: 84 Copynumber: 1.8 Consensus size: 84
50090427 ATCACAGTAC
* * * * **
50090437 AATGTCAATGTCCCAGACATGGTCTTACATGTTATCACATATCGATACCGCTGTCCCAGACAGGG
1 AATGTCAATGTCCCAAACATGGTCTTACACGTAATCACATATCAATACCAATGTCCCAGACAGGG
50090502 TCTTATATGAAATCATAAT
66 TCTTATATGAAATCATAAT
* * * *
50090521 AATGTCAATGTCCCAAACATGGTCTTATACGTAATCACA-ATACAATGCCAATGTCCTAGACATG
1 AATGTCAATGTCCCAAACATGGTCTTACACGTAATCACATAT-CAATACCAATGTCCCAGACAGG
50090585 GTCTTA
65 GTCTTA
50090591 CATGTTATCA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 2 0.03
84 57 0.97
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (84 bp):
AATGTCAATGTCCCAAACATGGTCTTACACGTAATCACATATCAATACCAATGTCCCAGACAGGG
TCTTATATGAAATCATAAT
Found at i:50090729 original size:128 final size:127
Alignment explanation
Indices: 50090420--50090735 Score: 483
Period size: 127 Copynumber: 2.5 Consensus size: 127
50090410 TGGTTTCGAC
* *
50090420 ATACGTAATCACAGTACAATGTCAATGTCCCAGACATGGTCTTACATGTTATCACATATCGATAC
1 ATACGTAATCACAGTACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATATCGATAC
* * * **
50090485 CGCTGTCCCAGACAGGGTCTTATATGAAATCATAATAATGTCAATGTCCCAAACATGGTCTT
66 CACTGTCCCAGACAGGATATTATACAAAATCATAATAATGTCAATGTCCCAAACATGGTCTT
* *
50090547 ATACGTAATCACAATACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATATCGATGC
1 ATACGTAATCACAGTACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATATCGATAC
*
50090612 CACTGTCCCAGACAGGATATTATACAAAATCAT-ATAATGATGCAAATGT-CCAGACATGGTCTT
66 CACTGTCCCAGACAGGATATTATACAAAATCATAATAATG-T-C-AATGTCCCAAACATGGTCTT
* *
50090675 ATACGTAATCACAGTACGATGCCAATGTTCTAGACATGGTCTTACATGTTATCACATATCG
1 ATACGTAATCACAGTACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATATCG
50090736 GTAACCCTAA
Statistics
Matches: 173, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
126 6 0.03
127 90 0.52
128 72 0.42
129 5 0.03
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (127 bp):
ATACGTAATCACAGTACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATATCGATAC
CACTGTCCCAGACAGGATATTATACAAAATCATAATAATGTCAATGTCCCAAACATGGTCTT
Found at i:50093613 original size:21 final size:21
Alignment explanation
Indices: 50093575--50093626 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
50093565 GGTCAAAATG
50093575 CCCATGTGAGAGGAGGCAGACA
1 CCCATGTG-GAGGAGGCAGACA
* *
50093597 CCCATGTGGATGAGGCATACA
1 CCCATGTGGAGGAGGCAGACA
*
50093618 CCCGTGTGG
1 CCCATGTGG
50093627 GCAAGGGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (21 bp):
CCCATGTGGAGGAGGCAGACA
Found at i:50096495 original size:13 final size:13
Alignment explanation
Indices: 50096477--50096501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50096467 TAACATATTT
50096477 ATTAATTAAAAAC
1 ATTAATTAAAAAC
50096490 ATTAATTAAAAA
1 ATTAATTAAAAA
50096502 TAATAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:50113445 original size:88 final size:88
Alignment explanation
Indices: 50113275--50113445 Score: 186
Period size: 89 Copynumber: 1.9 Consensus size: 88
50113265 TAAAAAGTTT
* * *
50113275 TCAAATTTTTTTAGAAAAAAGTAATTAAGTCCCTACTTTTTTTTTACTCAATTGAGTACTTGAAC
1 TCAAATTTTTTCAAAAAAAAGTAATTAAG-ACCTACTTTTTTTTTACTCAATTGAGTACTTGAAC
**
50113340 TTTTAAAATACATAAAAAAGACCC
65 TGGTAAAATACATAAAAAAGACCC
* * * *
50113364 TCAAATTTTTTCAAAAAAAAGTAATTAA-ACCT-TTTTTTTTTTGCGCTCAATTGGGTGCTTGAA
1 TCAAATTTTTTCAAAAAAAAGTAATTAAGACCTACTTTTTTTTT--ACTCAATTGAGTACTTGAA
* * *
50113427 C-GGTCAAATGCATCAAAAA
64 CTGGTAAAATACATAAAAAA
50113446 TGCCCTTTGA
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
86 9 0.13
87 16 0.24
88 17 0.25
89 26 0.38
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (88 bp):
TCAAATTTTTTCAAAAAAAAGTAATTAAGACCTACTTTTTTTTTACTCAATTGAGTACTTGAACT
GGTAAAATACATAAAAAAGACCC
Found at i:50113848 original size:8 final size:9
Alignment explanation
Indices: 50113812--50113899 Score: 52
Period size: 9 Copynumber: 9.1 Consensus size: 9
50113802 TTTTAGTACG
50113812 ATAATTTTT
1 ATAATTTTT
50113821 ATAATTTTT
1 ATAATTTTT
* *
50113830 TTGCGATTTTT
1 AT--AATTTTT
50113841 ATAATTTTT
1 ATAATTTTT
50113850 AATAATCTTTTT
1 -ATAA--TTTTT
*
50113862 ATATTTTTT
1 ATAATTTTT
* *
50113871 ATTTAAATTTA
1 A--TAATTTTT
50113882 AT-ATTTTT
1 ATAATTTTT
*
50113890 ATAAATTTT
1 ATAATTTTT
50113899 A
1 A
50113900 CTTTTTATCA
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
8 6 0.10
9 29 0.48
10 4 0.07
11 16 0.27
12 5 0.08
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:50133299 original size:29 final size:29
Alignment explanation
Indices: 50133211--50133305 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
50133201 GTGTATTATT
* *
50133211 TGGTACTTGTACTTTTATAAAATGTTTAATG
1 TGGTACTTATAC-TTT-GAAAATGTTTAATG
* * ** **
50133242 TAGTACTTCTACTTTGAAAACATCCAATG
1 TGGTACTTATACTTTGAAAATGTTTAATG
50133271 TGGTACTTATACTTTGAAAATGTTTAATG
1 TGGTACTTATACTTTGAAAATGTTTAATG
50133300 TGGTAC
1 TGGTAC
50133306 CCGAACTATC
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 38 0.75
30 3 0.06
31 10 0.20
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.42
Consensus pattern (29 bp):
TGGTACTTATACTTTGAAAATGTTTAATG
Found at i:50133870 original size:31 final size:31
Alignment explanation
Indices: 50133828--50133935 Score: 85
Period size: 31 Copynumber: 3.5 Consensus size: 31
50133818 GAACATTCTC
*
50133828 AAAGTATAAGTACCACATTAGACAATTTATG
1 AAAGTACAAGTACCACATTAGACAATTTATG
* * * *
50133859 AAAGTACAAGTACTAAATAATACACAA-AT-TG
1 AAAGTACAAGTACCACAT--TAGACAATTTATG
* * * * *
50133890 ATAGTTCAGGTACCACATTGGACATTTTATG
1 AAAGTACAAGTACCACATTAGACAATTTATG
*
50133921 AAAGTACAAATACCA
1 AAAGTACAAGTACCA
50133936 AATAATATAC
Statistics
Matches: 55, Mismatches: 18, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
29 4 0.07
30 1 0.02
31 43 0.78
32 1 0.02
33 6 0.11
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (31 bp):
AAAGTACAAGTACCACATTAGACAATTTATG
Found at i:50133919 original size:62 final size:62
Alignment explanation
Indices: 50133837--50134000 Score: 229
Period size: 62 Copynumber: 2.6 Consensus size: 62
50133827 CAAAGTATAA
* * * *
50133837 GTACCACATTAGACAATTTATGAAAGTACAAGTACTAAATAATACACAAATTGATAGTTCAG
1 GTACCACATTGGACATTTTATGAAAGTACAAGTACCAAATAATACACAAATTAATAGTTCAG
* * *
50133899 GTACCACATTGGACATTTTATGAAAGTACAAATACCAAATAATATACAAATTAATAGTTTAG
1 GTACCACATTGGACATTTTATGAAAGTACAAGTACCAAATAATACACAAATTAATAGTTCAG
* * * *
50133961 GTATCACATTGAACATTTTATAAAAGTACAAGTAGCAAAT
1 GTACCACATTGGACATTTTATGAAAGTACAAGTACCAAAT
50134001 GTGACATTAC
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 90 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (62 bp):
GTACCACATTGGACATTTTATGAAAGTACAAGTACCAAATAATACACAAATTAATAGTTCAG
Found at i:50140950 original size:45 final size:45
Alignment explanation
Indices: 50140880--50140979 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 45
50140870 CATCGGGATG
* * * * **
50140880 TGGGTGCACTGCAAAGTATCGCAGATAAAATCTGTCACTAGGCTA
1 TGGGTGTACAGCAAAATATCACAGATAAAATCTACCACTAGGCTA
50140925 TGGGTGTACAGCAAAATATCACAGATAAAATCTACCACTAGGCTA
1 TGGGTGTACAGCAAAATATCACAGATAAAATCTACCACTAGGCTA
* *
50140970 TAGATGTACA
1 TGGGTGTACA
50140980 ATATATTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (45 bp):
TGGGTGTACAGCAAAATATCACAGATAAAATCTACCACTAGGCTA
Found at i:50141222 original size:34 final size:34
Alignment explanation
Indices: 50141184--50141251 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
50141174 ATTATACTTT
* *
50141184 TAACAGGACAGTACAGTAGCAATTAATATGCTTA
1 TAACAGGACAATACAGTAGCAAATAATATGCTTA
**
50141218 TAACAGTTCAATACAGTAGCAAATAATATGCTTA
1 TAACAGGACAATACAGTAGCAAATAATATGCTTA
50141252 AAATAGATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (34 bp):
TAACAGGACAATACAGTAGCAAATAATATGCTTA
Found at i:50141269 original size:34 final size:34
Alignment explanation
Indices: 50141195--50141272 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
50141185 AACAGGACAG
* * *
50141195 TACAGTAGCAATTAATATGCTTATAACAGTTCAA
1 TACAGTAGCAAATAATATGCTTAAAACAGATCAA
*
50141229 TACAGTAGCAAATAATATGCTTAAAATAGATCAA
1 TACAGTAGCAAATAATATGCTTAAAACAGATCAA
50141263 CT-CAGTAGCA
1 -TACAGTAGCA
50141273 CAATTCATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (34 bp):
TACAGTAGCAAATAATATGCTTAAAACAGATCAA
Found at i:50145194 original size:20 final size:21
Alignment explanation
Indices: 50145159--50145197 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
50145149 ATGATATATA
50145159 TAATTAACTAGTTAATCAATT
1 TAATTAACTAGTTAATCAATT
*
50145180 TAATTAA-TTGTTAATCAA
1 TAATTAACTAGTTAATCAA
50145198 ATGGATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (21 bp):
TAATTAACTAGTTAATCAATT
Found at i:50148669 original size:51 final size:52
Alignment explanation
Indices: 50148585--50148682 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 52
50148575 CCAAAAATAG
* * * *
50148585 CAGAGGATTTTCCTCAACCGAAAATATTTTGAAAAT-ATTTTTTGCAACATT
1 CAGAAGATTTTCCACAACCAAAAATATTCTGAAAATAATTTTTTGCAACATT
*
50148636 CAGAAGATTTTCCACAACTAAAAATATTCTGAAAATAATTTTTTGCA
1 CAGAAGATTTTCCACAACCAAAAATATTCTGAAAATAATTTTTTGCA
50148683 TTATCAACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 31 0.76
52 10 0.24
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (52 bp):
CAGAAGATTTTCCACAACCAAAAATATTCTGAAAATAATTTTTTGCAACATT
Found at i:50154932 original size:28 final size:26
Alignment explanation
Indices: 50154883--50154939 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 26
50154873 ATTACAGTGT
50154883 AAATATAAAAATATTAAAAATTGAAATA
1 AAATATAAAAATATTAAAAATT--AATA
*
50154911 AAATAT-AAAATATCTAAGAATTAATA
1 AAATATAAAAATAT-TAAAAATTAATA
50154937 AAA
1 AAA
50154940 GCAAAACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 7 0.26
27 7 0.26
28 13 0.48
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (26 bp):
AAATATAAAAATATTAAAAATTAATA
Found at i:50161975 original size:15 final size:15
Alignment explanation
Indices: 50161950--50161982 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
50161940 GGCCCAATTA
50161950 CAACACCCAATA-CC
1 CAACACCCAATAGCC
50161964 CAACAGCCCAATAGCC
1 CAACA-CCCAATAGCC
50161980 CAA
1 CAA
50161983 AATCATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.42, C:0.45, G:0.06, T:0.06
Consensus pattern (15 bp):
CAACACCCAATAGCC
Found at i:50165137 original size:19 final size:19
Alignment explanation
Indices: 50165097--50165139 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
50165087 GTCTCTTTAG
* *
50165097 GCATTCATTTCATGCATTT
1 GCATTCATTGCATGCATAT
50165116 GCATTGCATTGCAT-CATAT
1 GCATT-CATTGCATGCATAT
50165135 GCATT
1 GCATT
50165140 AGATTTTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (19 bp):
GCATTCATTGCATGCATAT
Found at i:50169464 original size:44 final size:44
Alignment explanation
Indices: 50169415--50169553 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
50169405 AGTTAAAGAT
*
50169415 CTTGCCTTCCTGCATTGATAGTGAAGCAGATCGAAGACATAAAC
1 CTTGCCTTCCTGCATTGATAGTGAAGCAGATCGAAGACAAAAAC
* * * * * * * *
50169459 CTTGCC-TCTTTCGGTTG-T-GATGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGATAG-TGAAGCAGATCGAAGACAAAA-AC
* * * *
50169503 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGATAGTGAAGCAGATCGAAGACAAAAAC
50169547 CTTGCCT
1 CTTGCCT
50169554 CTTTCAGTTG
Statistics
Matches: 68, Mismatches: 21, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
42 1 0.01
43 21 0.31
44 27 0.40
45 18 0.26
46 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGATAGTGAAGCAGATCGAAGACAAAAAC
Found at i:50169496 original size:43 final size:43
Alignment explanation
Indices: 50169447--50169584 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
50169437 GAAGCAGATC
*
50169447 GAAGACATAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTT
1 GAAGACAAAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTT
* ** * * * *
50169490 GAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGATC
1 GAAGACAAAA-ACCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGGTT
* * *
50169535 GAAGACACAAACCTTGCCTCTTTCAGTTGTGATAGAGCTGGTT
1 GAAGACAAAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTT
50169578 GAAGACA
1 GAAGACA
50169585 GCAGATCTTG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 8 0.12
43 25 0.36
44 12 0.17
45 16 0.23
46 8 0.12
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
GAAGACAAAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTT
Found at i:50169558 original size:88 final size:86
Alignment explanation
Indices: 50169411--50169820 Score: 429
Period size: 88 Copynumber: 4.7 Consensus size: 86
50169401 ATGAAGTTAA
* * * * *
50169411 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGATCGAAGACATAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCATTCGGTTG
*
50169476 TGATGGAGCTGGTTGAAGACAAA
64 TGATGGAGCTGGTTGAAGACAAC
* * * *
50169499 AGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCAGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAACCTTGCCTCATTCGGTTG
* *
50169564 TGATAGAGCTGGTTGAAGACAGC
64 TGATGGAGCTGGTTGAAGACAAC
* * *
50169587 AGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATTG-AAA-AATCCTTGCCTTCATT-GGTTG-
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCC-TCATTCGGTTGT
* * *
50169648 CAGTGGAGCTGGTTAAAGA-ATC
65 GA-TGGAGCTGGTTGAAGACAAC
* *
50169670 AGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTTCATT-GGCTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAA-CCTTGCC-TCATTCGGTTG
* * * *
50169734 CGATGGAGCTAGTTGAAGATAGC
64 TGATGGAGCTGGTTGAAGACAAC
** * *
50169757 AGATCTTGCCTTCCTGTGTTAACAACGAAGCAGATTGAAAACAAAGCCTTGCCTCCA-TCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAA-CCTTGCCT-CATTCGGTTG
50169821 CAGTGGAGTA
Statistics
Matches: 281, Mismatches: 32, Indels: 19
0.85 0.10 0.06
Matches are distributed among these distances:
83 37 0.13
84 30 0.11
85 7 0.02
86 34 0.12
87 60 0.21
88 113 0.40
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (86 bp):
AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAACCTTGCCTCATTCGGTTGTG
ATGGAGCTGGTTGAAGACAAC
Found at i:50169595 original size:44 final size:43
Alignment explanation
Indices: 50169459--50169597 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 43
50169449 AGACATAAAC
* * *
50169459 CTTGCCTCTTTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCAGTTGTGATAGAGCTGGTTGAAGAC-ACAGAT
** ** * * * * *
50169503 CTTGCCT-TTCTGCA-TTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTCTT-T-CAGTTGTGATAG-AGCTGGTTGAAGACACAGAT
50169547 CTTGCCTCTTTCAGTTGTGATAGAGCTGGTTGAAGACAGCAGAT
1 CTTGCCTCTTTCAGTTGTGATAGAGCTGGTTGAAGACA-CAGAT
50169591 CTTGCCT
1 CTTGCCT
50169598 TCCTGCGTTA
Statistics
Matches: 69, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 16 0.23
44 39 0.57
45 14 0.20
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (43 bp):
CTTGCCTCTTTCAGTTGTGATAGAGCTGGTTGAAGACACAGAT
Found at i:50169770 original size:170 final size:174
Alignment explanation
Indices: 50169411--50169828 Score: 481
Period size: 170 Copynumber: 2.4 Consensus size: 174
50169401 ATGAAGTTAA
* * * ** * * **
50169411 AGATCTTGCCTTCCTGCATTGATAGTGAAGCAGATCGAAGACATAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATTGAA-ACA-AAGCCTTGCCTCCATCGGTTG
* * * * *
50169476 -TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGA
64 CAG-TGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGA
* * * *
50169540 CACAAACCTTGCCTCTTTCAGTTGTGATAGAGCTGGTTGAAGACAGC
128 CACAAACCTTGCCTCATTCAGCTGCGATAGAGCTAGTTGAAGACAGC
* * * *
50169587 AGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATTG-AA-AAATCCTTGCCTTCATTGGTTGCA
1 AGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATTGAAACAAAGCCTTGCCTCCATCGGTTGCA
**
50169650 GTGGAGCTGGTTAAAGA-ATCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAA-A-AC
66 GTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACAC
* * *
50169712 AAAGCCTTGCCTTCATT-GGCTGCGATGGAGCTAGTTGAAGATAGC
131 AAA-CCTTGCC-TCATTCAGCTGCGATAGAGCTAGTTGAAGACAGC
*
50169757 AGATCTTGCCTTCCTGTGTTAACAACGAAGCAGATTGAAAACAAAGCCTTGCCTCCATCGGTTGC
1 AGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATTG-AAACAAAGCCTTGCCTCCATCGGTTGC
50169822 AGTGGAG
65 AGTGGAG
50169829 TAGATTGAGG
Statistics
Matches: 207, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
169 5 0.02
170 65 0.31
171 41 0.20
172 33 0.16
173 29 0.14
174 1 0.00
175 1 0.00
176 32 0.15
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (174 bp):
AGATCTTGCCTTCCTGCGTTAACAACGAAGCAGATTGAAACAAAGCCTTGCCTCCATCGGTTGCA
GTGGAGCTGGTTAAAGACAAAAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAGACAC
AAACCTTGCCTCATTCAGCTGCGATAGAGCTAGTTGAAGACAGC
Found at i:50170707 original size:15 final size:15
Alignment explanation
Indices: 50170682--50170714 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
50170672 GGCCCAATTA
50170682 CAACACCCAATA-CC
1 CAACACCCAATAGCC
50170696 CAACAGCCCAATAGCC
1 CAACA-CCCAATAGCC
50170712 CAA
1 CAA
50170715 AATCATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.42, C:0.45, G:0.06, T:0.06
Consensus pattern (15 bp):
CAACACCCAATAGCC
Found at i:50189810 original size:28 final size:27
Alignment explanation
Indices: 50189779--50189863 Score: 66
Period size: 29 Copynumber: 3.0 Consensus size: 27
50189769 ATAGATATTT
50189779 ATTTCTTTCAAATATTTTAACATCTTTA
1 ATTT-TTTCAAATATTTTAACATCTTTA
** * *
50189807 ATTTATTTCAGCTTATTTCAACATCGTTA
1 ATTT-TTTCA-AATATTTTAACATCTTTA
*
50189836 ATTTATTCAAATTTATTTTAA-AT-TTTA
1 ATTTTTTCAAA--TATTTTAACATCTTTA
50189863 A
1 A
50189864 ATTTATATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
27 4 0.09
28 15 0.34
29 25 0.57
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTTTTTCAAATATTTTAACATCTTTA
Found at i:50194767 original size:19 final size:19
Alignment explanation
Indices: 50194743--50194784 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
50194733 GAGTCAAAAA
*
50194743 AAAAAAGAA-GAAGAAGATG
1 AAAAAAGAATGAAAAAG-TG
50194762 AAAAAAGAATGAAAAAGTG
1 AAAAAAGAATGAAAAAGTG
50194781 AAAA
1 AAAA
50194785 TGAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (19 bp):
AAAAAAGAATGAAAAAGTG
Found at i:50194795 original size:23 final size:24
Alignment explanation
Indices: 50194763--50194809 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
50194753 AAGAAGATGA
*
50194763 AAAAAGAATGAAAAAGTGAAAATG
1 AAAAAGAATGAAAAAGTAAAAATG
*
50194787 AAAAA-AATGAAAAGGTAAAAATG
1 AAAAAGAATGAAAAAGTAAAAATG
50194810 GGGAGGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (24 bp):
AAAAAGAATGAAAAAGTAAAAATG
Found at i:50195868 original size:23 final size:23
Alignment explanation
Indices: 50195837--50195911 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
50195827 GTGTTATTGA
* *
50195837 TCAGAGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
50195860 TCAGTGGTAGCTTTGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
50195883 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
50195906 TCAGTG
1 TCAGTG
50195912 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:50196082 original size:38 final size:37
Alignment explanation
Indices: 50196040--50196113 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 37
50196030 TATGTGTGGA
* *
50196040 TTTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAAT
1 TTTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAAT
50196078 TTTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
50196114 ATTATGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.39
38 16 0.48
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAAT
Found at i:50198611 original size:44 final size:44
Alignment explanation
Indices: 50198549--50198660 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 44
50198539 ACACCTGCCT
* ** * * * *
50198549 TATCTCCCTAAGGGTACAGTGGAGCAGATTGAAGCGAGAAATCT
1 TATCTCCCTGAGATTACAGTGGAGCAAATTGAAACCAGAAATCC
* * *
50198593 TATCTCCTTGAGATTACAGCGGAGCAAATTGAAACCAGTAATCC
1 TATCTCCCTGAGATTACAGTGGAGCAAATTGAAACCAGAAATCC
*
50198637 TATTTCCCTGAGATTACAGTGGAG
1 TATCTCCCTGAGATTACAGTGGAG
50198661 TGGATTAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAGCAAATTGAAACCAGAAATCC
Done.