Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 99 of 313
Found at i:32896944 original size:82 final size:81
Alignment explanation
Indices: 32896773--32896953 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32896763 GATTAAATTG
* *
32896773 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32896838 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32896854 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32896918 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32896936 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32896954 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32904870 original size:27 final size:27
Alignment explanation
Indices: 32904839--32905016 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
32904829 TAAATTGTAC
32904839 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
32904866 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32904892 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
32904920 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32904948 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32904975 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32905002 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32905017 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32904953 original size:82 final size:81
Alignment explanation
Indices: 32904840--32904995 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
32904830 AAATTGTACA
* *
32904840 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
32904904 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
32904921 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
32904986 TGCGAGTTGA
65 TGCGAATTGA
32904996 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:32905007 original size:82 final size:81
Alignment explanation
Indices: 32904836--32905016 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
32904826 GATTAAATTG
* *
32904836 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
32904901 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
32904917 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
32904981 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
32904999 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
32905017 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:32907248 original size:46 final size:49
Alignment explanation
Indices: 32907102--32907465 Score: 260
Period size: 46 Copynumber: 7.7 Consensus size: 49
32907092 TTTGTGTGCA
* * *
32907102 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ACTATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTAGAGCC
* * * * * *
32907148 AGTGTAAGTCCATGTCTGGGACATGGCATCGACATTGAGATG-AGAACT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* *
32907196 ACTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* * *
32907242 AGTGTAAGA-CATGTCAGGGACCT-GCATCGG-CTACGAGATGT---GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGAGCC
* * * *
32907286 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACG-TATAG-AGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GTA-GAGCC
* * * **
32907334 AGTTTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTAAGAGGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-AGAGCC
* * * ** ** * *
32907384 AGTGTAAGACCATGTCTGGGACAGGGCGTCAGCCTCGATTTCAATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
32907433 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
32907466 ATTATACCCT
Statistics
Matches: 257, Mismatches: 43, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
44 13 0.05
45 17 0.07
46 65 0.25
47 29 0.11
48 56 0.22
49 37 0.14
50 39 0.15
51 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
Found at i:32907342 original size:48 final size:48
Alignment explanation
Indices: 32907102--32907466 Score: 216
Period size: 48 Copynumber: 7.7 Consensus size: 48
32907092 TTTGTGTGCA
* *
32907102 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACACTAT-GA-GAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-GTATAGAGGTGTC
* * * * *
32907147 TAGTGTAAGTCCATGTCTGGGACATGGCATC-G-ACAT-TGAGATGAGAAC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGAGGTG-TC
* * ** * *
32907195 TACTGTAAGA-CATGTCTGGGACAT-GCATCAGC-C-TCGAGATGTAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGT--GTC
* * *
32907242 AGTGTAAGA-CATGTCAGGGACCT-GCATCGGCTACG---AGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTATAGAGGTGTC
32907286 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
* *
32907334 AGTTTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTAAGAG-GT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATA-G--AG-GTGTC
* * * * *
32907384 AGTGTAAGACCATGTCTGGGACAGGGCGTCAGCCTCGATTTCA-A--TAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCACG-TAT-AGAGGT-GTC
32907433 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
32907467 TTATACCCTA
Statistics
Matches: 261, Mismatches: 28, Indels: 58
0.75 0.08 0.17
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 19 0.07
46 63 0.24
47 32 0.12
48 66 0.25
49 30 0.11
50 27 0.10
51 8 0.03
52 2 0.01
53 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
Found at i:32908481 original size:28 final size:28
Alignment explanation
Indices: 32908429--32908482 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
32908419 CACGGGCTAA
* *
32908429 GACACGGGCGTGTCGAGGCCGTGTGAGG
1 GACACGGGCGTGTCCAGGCCATGTGAGG
32908457 GACACGGGCGTGTGCCA-GCCATGTGA
1 GACACGGGCGTGT-CCAGGCCATGTGA
32908483 AATCCCCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.17, C:0.24, G:0.44, T:0.15
Consensus pattern (28 bp):
GACACGGGCGTGTCCAGGCCATGTGAGG
Found at i:32911970 original size:43 final size:42
Alignment explanation
Indices: 32911909--32912073 Score: 122
Period size: 43 Copynumber: 3.9 Consensus size: 42
32911899 CAACGCGAAC
32911909 GTCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACATGTAATCACATATCGATGCCA-T
* * * *
32911952 GTCCCAGATAGGGTCTTACACG-AA-CTCATATACGTTGCCGAT
1 GTCCCAGACAGGGTCTTACATGTAATCACATAT-CGATGCC-AT
** * * *
32911994 GTCCCAGACATAGTCTTACATGTAAATCATAAATCGATGCCAAC
1 GTCCCAGACAGGGTCTTACATGT-AATCACATATCGATGCC-AT
* * * *
32912038 GTCTCAGGC-GTGGTCTTACACGCAATCACATATCGA
1 GTCCCAGACAG-GGTCTTACATGTAATCACATATCGA
32912074 AATCCTATGT
Statistics
Matches: 93, Mismatches: 22, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
41 6 0.06
42 27 0.29
43 30 0.32
44 26 0.28
45 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCACATATCGATGCCAT
Found at i:32913173 original size:13 final size:13
Alignment explanation
Indices: 32913155--32913179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32913145 ACAAACAATA
32913155 AAATTTTCACACG
1 AAATTTTCACACG
32913168 AAATTTTCACAC
1 AAATTTTCACAC
32913180 ATCAATTCAC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:32923217 original size:12 final size:14
Alignment explanation
Indices: 32923192--32923220 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32923182 ACTTCTATCC
32923192 TCTCTCATTCTTTT
1 TCTCTCATTCTTTT
32923206 TCTCTCATT-TTTT
1 TCTCTCATTCTTTT
32923219 TC
1 TC
32923221 ATTTCAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.66
Consensus pattern (14 bp):
TCTCTCATTCTTTT
Found at i:32930106 original size:43 final size:43
Alignment explanation
Indices: 32930054--32930137 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
32930044 TTGTAGAAAG
*
32930054 GAAACAAATCAATTGAAACAAAATCT-CAATCGAGAAACCTAGA
1 GAAACAAATCAAGTGAAACAAAAT-TACAATCGAGAAACCTAGA
* * * *
32930097 GAAAGAAATCTAGTGAAATAAAATTACAATTGAGAAACCTA
1 GAAACAAATCAAGTGAAACAAAATTACAATCGAGAAACCTA
32930138 TTAGAAAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.54, C:0.14, G:0.13, T:0.19
Consensus pattern (43 bp):
GAAACAAATCAAGTGAAACAAAATTACAATCGAGAAACCTAGA
Found at i:32933106 original size:17 final size:15
Alignment explanation
Indices: 32933069--32933099 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32933059 GTGTAGCATG
32933069 GTTTAATGAAATAGA
1 GTTTAATGAAATAGA
32933084 GTTTAATGAAATAGA
1 GTTTAATGAAATAGA
32933099 G
1 G
32933100 CGTTTAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (15 bp):
GTTTAATGAAATAGA
Found at i:32944149 original size:16 final size:16
Alignment explanation
Indices: 32944130--32944161 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32944120 TCTCTTCCAG
32944130 TCCACATCTTTTCCTT
1 TCCACATCTTTTCCTT
32944146 TCCACATCTTTTCCTT
1 TCCACATCTTTTCCTT
32944162 CATCAGCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.38, G:0.00, T:0.50
Consensus pattern (16 bp):
TCCACATCTTTTCCTT
Found at i:32946015 original size:7 final size:7
Alignment explanation
Indices: 32945974--32946013 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
32945964 AAGTTGCGAA
32945974 TGCCTAT
1 TGCCTAT
32945981 TGCCTAT
1 TGCCTAT
32945988 TGCCTAT
1 TGCCTAT
32945995 TGCCTAT
1 TGCCTAT
*
32946002 TGCCTGT
1 TGCCTAT
32946009 TGCCT
1 TGCCT
32946014 GTGCCGGACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.10, C:0.30, G:0.17, T:0.42
Consensus pattern (7 bp):
TGCCTAT
Found at i:32953570 original size:54 final size:55
Alignment explanation
Indices: 32953477--32953580 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 55
32953467 GAAATGATGA
*
32953477 AATGGAGAAACATGAAACATTGGGAAATGATTAAAGTTTTCTCCAAAATTAAAAT
1 AATGGAGAAACATGAAACATTGGGAAATGAATAAAGTTTTCTCCAAAATTAAAAT
* ***
32953532 AATGGAG-AA-ATGAAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATT
1 AATGGAGAAACATGAAA-CATTGGGAAATGAATAAAGTTTTCTCCAAAATT
32953581 GAAGTGAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 6 0.14
54 30 0.70
55 7 0.16
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (55 bp):
AATGGAGAAACATGAAACATTGGGAAATGAATAAAGTTTTCTCCAAAATTAAAAT
Found at i:32953596 original size:6 final size:6
Alignment explanation
Indices: 32953585--32953611 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
32953575 AAAATTGAAG
32953585 TGAAAA TGAAAA TGAAAA TGAAAA TGA
1 TGAAAA TGAAAA TGAAAA TGAAAA TGA
32953612 GAAACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.19
Consensus pattern (6 bp):
TGAAAA
Found at i:32971890 original size:20 final size:20
Alignment explanation
Indices: 32971851--32971890 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
32971841 CTAAAAGAAA
32971851 GAAATCGAAATTAGATCGAGG
1 GAAATCGAAATTA-ATCGAGG
32971872 GAAATCGAAAGTT-ATCGAG
1 GAAATCGAAA-TTAATCGAG
32971891 TAATCGATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 10 0.56
22 2 0.11
ACGTcount: A:0.42, C:0.10, G:0.28, T:0.20
Consensus pattern (20 bp):
GAAATCGAAATTAATCGAGG
Found at i:32986125 original size:197 final size:197
Alignment explanation
Indices: 32985790--32986184 Score: 790
Period size: 197 Copynumber: 2.0 Consensus size: 197
32985780 AATTAAGCGG
32985790 ATTTGATTGCACACCTAGAGATAGGGCAACAAGATTTTGCCAGATTAGTGTGAAACCTAATAAGG
1 ATTTGATTGCACACCTAGAGATAGGGCAACAAGATTTTGCCAGATTAGTGTGAAACCTAATAAGG
32985855 GAGTCCATAGATCGAGTTCATGCAACACTAGGTGTTAATTAGAAAGAGATTTCAATTAATCAACC
66 GAGTCCATAGATCGAGTTCATGCAACACTAGGTGTTAATTAGAAAGAGATTTCAATTAATCAACC
32985920 TGGGGTTAGACGCTGTTAGTCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAG
131 TGGGGTTAGACGCTGTTAGTCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAG
32985985 TC
196 TC
32985987 ATTTGATTGCACACCTAGAGATAGGGCAACAAGATTTTGCCAGATTAGTGTGAAACCTAATAAGG
1 ATTTGATTGCACACCTAGAGATAGGGCAACAAGATTTTGCCAGATTAGTGTGAAACCTAATAAGG
32986052 GAGTCCATAGATCGAGTTCATGCAACACTAGGTGTTAATTAGAAAGAGATTTCAATTAATCAACC
66 GAGTCCATAGATCGAGTTCATGCAACACTAGGTGTTAATTAGAAAGAGATTTCAATTAATCAACC
32986117 TGGGGTTAGACGCTGTTAGTCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAG
131 TGGGGTTAGACGCTGTTAGTCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAG
32986182 TC
196 TC
32986184 A
1 A
32986185 AATGAATAAA
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
197 198 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (197 bp):
ATTTGATTGCACACCTAGAGATAGGGCAACAAGATTTTGCCAGATTAGTGTGAAACCTAATAAGG
GAGTCCATAGATCGAGTTCATGCAACACTAGGTGTTAATTAGAAAGAGATTTCAATTAATCAACC
TGGGGTTAGACGCTGTTAGTCTCGAGAGAGATAATAATATAACTTAGGGATTTCTACGGATCAAG
TC
Found at i:32989935 original size:43 final size:43
Alignment explanation
Indices: 32989869--32990025 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
32989859 AGCTAGTATA
*
32989869 ATGCCAATGTCCCAAACATGGTCTTACATGTAA-TCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAGTCAAATAT-G
** * *
32989912 ATGCCGCTGTCCCAGACAGGGTCTTACACG-AAGTCAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAGTCAAATATG
* *
32989954 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCATAGGT-TG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAGTCA-A-ATATG
* *
32989998 ATGCTAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
32990026 CAAATACACA
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 29 0.30
43 38 0.39
44 29 0.30
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAAGTCAAATATG
Found at i:33000071 original size:43 final size:43
Alignment explanation
Indices: 32999991--33000118 Score: 145
Period size: 42 Copynumber: 3.0 Consensus size: 43
32999981 AGCTCGTACA
* * * *
32999991 ATGCTAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
*
33000034 ATGCC-ACTGTCCTAGAC-TGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACAT-GGTCTTACACGAAATCAAATATCG
* * *
33000076 ATGCCAACGTCCCAGACATGGTCTTACACAAAAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
33000119 GATCCTATGT
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
42 36 0.50
43 36 0.50
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:33001390 original size:26 final size:26
Alignment explanation
Indices: 33001359--33001411 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
33001349 ATTTTAGAAG
33001359 TTCCACTTAAACCCTTAAATATTTAT
1 TTCCACTTAAACCCTTAAATATTTAT
33001385 TTCCACTTAAACCCTTAAATATTTAT
1 TTCCACTTAAACCCTTAAATATTTAT
33001411 T
1 T
33001412 AACAAAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (26 bp):
TTCCACTTAAACCCTTAAATATTTAT
Found at i:33005976 original size:48 final size:49
Alignment explanation
Indices: 33005813--33006034 Score: 176
Period size: 50 Copynumber: 4.6 Consensus size: 49
33005803 CCATCAAGTT
* * * * *
33005813 GATGCCATGTCCCAGACATGGTCTTACACTGACTA--TCAAAATCGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAAC-ACCTCTATATCG-TGCC
* * * *
33005862 GACGCCGTGTCCCAAACATGGTCTTACACTAGC-TCTCATATATCTGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAACACCTC-TATATC-GTGCC
* *
33005912 GATGCTATGTCTCAAACATGGTCTTACACTAACACCTCTATA-CGTGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAACACCTCTATATCGTGCC
* * * * *
33005960 GATGCCATGTCCCAAACACGGTCTAACATTAACA---C-ATCTCGTAGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAACACCTCTATATCGT-GCC
*
33006006 GATG-CATGTCCCAGACAT-GTCTTACACTA
1 GATGCCATGTCCCAAACATGGTCTTACACTA
33006035 GCTTACATCT
Statistics
Matches: 141, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 6 0.04
48 34 0.24
49 31 0.22
50 39 0.28
51 4 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAACACCTCTATATCGTGCC
Found at i:33006133 original size:48 final size:47
Alignment explanation
Indices: 33005760--33006173 Score: 223
Period size: 46 Copynumber: 8.7 Consensus size: 47
33005750 CATAGGGTAA
* *
33005760 AATGCCGATACCATGTCCCAGACATGGTCTTACACTGGCT-T-ATCCATC
1 AATGCCGAT-GCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-C-TC
** * **
33005808 AA-GTTGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCAAAATC
1 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTCTC-ATCTC
* * * * * *
33005856 GAGGCCGACGCCGTGTCCCAAACATGGTCTTACACTAGCTCTCATATATC
1 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTC--ATCTC
** * * * *
33005906 TGTGCCGATGCTATGTCTCAAACATGGTCTTACACTAACAC-C-TCT-
1 AATGCCGATGC-ATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* * * * * *
33005951 ATACGTGCCGATGCCATGTCCCAAACACGGTCTAACATTA--ACACATCTC
1 A-A--TGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* *
33006000 -GTAGCTGATGCATGTCCCAGACAT-GTCTTACACTAGCT-TACATCTC
1 AAT-GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTC
* * *
33006046 GAGGCCGATGCATATCCCAGACAT-GTCTTACACTAGCTCTCATCTC
1 AATGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* *
33006092 AATGCTGATGACATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-
1 AATGCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
* *
33006137 AATGTGGCCGATGCATTTCCCAGGCAT-GTCTTACACT
1 AA--T-GCCGATGCATGTCCCAGACATGGTCTTACACT
33006174 GGCGCACAAA
Statistics
Matches: 290, Mismatches: 49, Indels: 56
0.73 0.12 0.14
Matches are distributed among these distances:
44 9 0.03
45 15 0.05
46 74 0.26
47 59 0.20
48 61 0.21
49 35 0.12
50 37 0.13
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (47 bp):
AATGCCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC
Found at i:33006148 original size:94 final size:95
Alignment explanation
Indices: 33005763--33006173 Score: 303
Period size: 94 Copynumber: 4.3 Consensus size: 95
33005753 AGGGTAAAAT
* * *
33005763 GCCGATACCATGTCCCAGACATGGTCTTACACTGGCT-T-ATCCATCAA-GTTGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-C-TCAATGCTGATG-CATGTCC
* * *
33005825 CAGACATGGTCTTACACTGACTATCAAAATCGAG
62 CAGACATGGTCTTACACTAACTCTCATAATCGAG
* * * * ** * *
33005859 GCCGACGCCGTGTCCCAAACATGGTCTTACACTAGCTCTCATATATCTGTGCCGATGCTATGTCT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTC--ATCTCAATGCTGATGC-ATGTCC
* * *
33005924 CAAACATGGTCTTACACTAACACCTC-T-ATACG-T
62 CAGACATGGTCTTACACTAAC-TCTCATAAT-CGAG
* * * * * * *
33005957 GCCGATGCCATGTCCCAAACACGGTCTAACATTA--ACACATCTC-GTAGCTGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACA-TGTCTTACACTAGCTCTCATCTCAAT-GCTGATGCATGTCCCA
* *
33006019 GACAT-GTCTTACACTAGCT-TACAT-CTCGAG
64 GACATGGTCTTACACTAACTCT-CATAATCGAG
*
33006049 GCCGATG-CATATCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATGACATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATG-CATGTCCCAG
** *
33006113 ACATGGTCTTACACTGGCTCTCATAAT-GTG
65 ACATGGTCTTACACTAACTCTCATAATCGAG
* *
33006143 GCCGATG-CATTTCCCAGGCATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
33006174 GGCGCACAAA
Statistics
Matches: 250, Mismatches: 45, Indels: 42
0.74 0.13 0.12
Matches are distributed among these distances:
90 10 0.04
91 14 0.06
92 35 0.14
93 28 0.11
94 58 0.23
95 2 0.01
96 34 0.14
97 1 0.00
98 33 0.13
99 31 0.12
100 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCTGATGCATGTCCCAGA
CATGGTCTTACACTAACTCTCATAATCGAG
Found at i:33012190 original size:2 final size:2
Alignment explanation
Indices: 33012177--33012213 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
33012167 CCAGTTTTAA
*
33012177 TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
33012214 TTGTTTTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:33021881 original size:92 final size:92
Alignment explanation
Indices: 33021718--33021886 Score: 239
Period size: 92 Copynumber: 1.8 Consensus size: 92
33021708 CAGTATGAAC
* * * *
33021718 TGCCAGATCAGATAGTAGTACGTAGCGTAGCCAAGGTACATGCGGTATGGTGCAATGCAATAATT
1 TGCCAGATCAGATAATAGTACGTAGCGTAGCCAACGTACATGCGGTACGGTGCAATGCAATAATC
33021783 CACTATACCGATAGGTTGCAGTAAAAT
66 CACTATACCGATAGGTTGCAGTAAAAT
* * * * * *
33021810 TGCCAGTTCAGTTAATAGTATGTAGCGTAGCTAACGTACATGTGGTACGGTGCAATGCGATAATC
1 TGCCAGATCAGATAATAGTACGTAGCGTAGCCAACGTACATGCGGTACGGTGCAATGCAATAATC
*
33021875 CGCTATACCGAT
66 CACTATACCGAT
33021887 GTGTTGTCAT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (92 bp):
TGCCAGATCAGATAATAGTACGTAGCGTAGCCAACGTACATGCGGTACGGTGCAATGCAATAATC
CACTATACCGATAGGTTGCAGTAAAAT
Found at i:33026797 original size:20 final size:21
Alignment explanation
Indices: 33026772--33026815 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
33026762 GGTGCTTCAG
33026772 TCAAAA-CTTTCTT-CAACTTC
1 TCAAAAGC-TTCTTGCAACTTC
*
33026792 TCAAAAGCTTCTTGCAGCTTC
1 TCAAAAGCTTCTTGCAACTTC
33026813 TCA
1 TCA
33026816 GTCCATACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.36
Consensus pattern (21 bp):
TCAAAAGCTTCTTGCAACTTC
Found at i:33031532 original size:26 final size:26
Alignment explanation
Indices: 33031502--33031557 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
33031492 TGAAATTCCC
33031502 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33031528 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33031554 ATCA
1 ATCA
33031558 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33037261 original size:5 final size:5
Alignment explanation
Indices: 33037253--33037304 Score: 86
Period size: 5 Copynumber: 10.2 Consensus size: 5
33037243 TCTTTAGTTT
*
33037253 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATTAAA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A-TATA ATATA
33037304 A
1 A
33037305 AATATCTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 40 0.91
6 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:33037344 original size:8 final size:8
Alignment explanation
Indices: 33037260--33037355 Score: 53
Period size: 8 Copynumber: 12.1 Consensus size: 8
33037250 TTTATATAAT
33037260 ATAATATA
1 ATAATATA
33037268 AT-ATA-A
1 ATAATATA
33037274 TATAATATA
1 -ATAATATA
33037283 AT-ATA-A
1 ATAATATA
33037289 TATAAT-TA
1 -ATAATATA
33037297 A-AATATA
1 ATAATATA
*
33037304 A-AATATCTTT
1 ATAATA---TA
*
33037314 ATTATATA
1 ATAATATA
*
33037322 ATAATAGA
1 ATAATATA
33037330 ATAATATA
1 ATAATATA
33037338 ATAATATA
1 ATAATATA
*
33037346 CTAAATATA
1 AT-AATATA
33037355 A
1 A
33037356 AAAAAATCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
6 5 0.07
7 18 0.26
8 33 0.49
9 7 0.10
10 2 0.03
11 3 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:33042100 original size:34 final size:34
Alignment explanation
Indices: 33042057--33042124 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
33042047 CTCATTCTTG
33042057 TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
1 TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
33042091 TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
1 TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
33042125 AGATTAGGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (34 bp):
TCATTAATTGAATGAAAATAAGATTTAAGTCAAA
Found at i:33044433 original size:26 final size:26
Alignment explanation
Indices: 33044397--33044487 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 26
33044387 TTATTATTTG
33044397 AAAATTATAAAAAAAATTTAAAAATT
1 AAAATTATAAAAAAAATTTAAAAATT
** *
33044423 AAAATTAT-AAAAAGTTTTATAAA-T
1 AAAATTATAAAAAAAATTTAAAAATT
* * *
33044447 AAAA-AATAAAAAATATATTAAAATTT
1 AAAATTATAAAAAAAAT-TTAAAAATT
*
33044473 AAAATTATATAAAAA
1 AAAATTATAAAAAAA
33044488 TTAATAATAT
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
23 2 0.04
24 11 0.22
25 17 0.34
26 13 0.26
27 7 0.14
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (26 bp):
AAAATTATAAAAAAAATTTAAAAATT
Found at i:33044469 original size:18 final size:18
Alignment explanation
Indices: 33044448--33044507 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
33044438 TTTATAAATA
33044448 AAAAATAAAAAATATATT
1 AAAAATAAAAAATATATT
* * *
33044466 AAAATTTAAAATTATA-T
1 AAAAATAAAAAATATATT
* * *
33044483 AAAAATTAATAATATTTT
1 AAAAATAAAAAATATATT
*
33044501 AATAATA
1 AAAAATA
33044508 TTAAGTAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATAAAAAATATATT
Found at i:33044574 original size:18 final size:17
Alignment explanation
Indices: 33044549--33044582 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
33044539 TAATTCTCAT
33044549 AAATTTTTATAAAAATA
1 AAATTTTTATAAAAATA
33044566 AAATGTTTTATAAAAAT
1 AAAT-TTTTATAAAAAT
33044583 CTATTCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAATTTTTATAAAAATA
Found at i:33047528 original size:21 final size:21
Alignment explanation
Indices: 33047479--33047519 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33047469 TATGAGATTT
* *
33047479 AATGATTGCTGATAGATTATA
1 AATGTTTGATGATAGATTATA
33047500 AATGTTTGATGATAG-TTATA
1 AATGTTTGATGATAGATTATA
33047520 CAAGTTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATA
Found at i:33050673 original size:9 final size:9
Alignment explanation
Indices: 33050659--33050695 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33050649 TATAGTCTGA
33050659 TATTCGAAT
1 TATTCGAAT
33050668 TATTCGAAT
1 TATTCGAAT
* *
33050677 CATTCGAGT
1 TATTCGAAT
33050686 TATTCGAAT
1 TATTCGAAT
33050695 T
1 T
33050696 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33050772 original size:18 final size:18
Alignment explanation
Indices: 33050746--33050780 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33050736 ATTCAAGTTG
*
33050746 ACTCGAATAACTTGATTA
1 ACTCGAATAACTCGATTA
*
33050764 ACTCTAATAACTCGATT
1 ACTCGAATAACTCGATT
33050781 CGTTTAATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:33054554 original size:36 final size:36
Alignment explanation
Indices: 33054513--33054597 Score: 107
Period size: 36 Copynumber: 2.4 Consensus size: 36
33054503 AATAGTAAGT
*
33054513 TGTGCCCAACACTAGTTGGTAAAACCGAAAAATAGA
1 TGTGCCCAACACTAGTTAGTAAAACCGAAAAATAGA
* * * * *
33054549 TGTGCCCAACACTGGTTAGTATAACCGACAAATGGG
1 TGTGCCCAACACTAGTTAGTAAAACCGAAAAATAGA
*
33054585 TGTGCCCAGCACT
1 TGTGCCCAACACT
33054598 CCCGATACGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (36 bp):
TGTGCCCAACACTAGTTAGTAAAACCGAAAAATAGA
Found at i:33055339 original size:51 final size:51
Alignment explanation
Indices: 33055263--33055366 Score: 192
Period size: 51 Copynumber: 2.0 Consensus size: 51
33055253 TATTATTTGG
33055263 ATGCCCCTATACTTTTTCATTTTATTCAATTTAGTCCCTAAAATCAAAACT
1 ATGCCCCTATACTTTTTCATTTTATTCAATTTAGTCCCTAAAATCAAAACT
33055314 ATGCCCCTATACTTTTGT-ATTTTATTCAATTTAGTCCCTAAAATCAAAACT
1 ATGCCCCTATACTTTT-TCATTTTATTCAATTTAGTCCCTAAAATCAAAACT
33055365 AT
1 AT
33055367 CATAGTTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 51 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (51 bp):
ATGCCCCTATACTTTTTCATTTTATTCAATTTAGTCCCTAAAATCAAAACT
Found at i:33058706 original size:19 final size:20
Alignment explanation
Indices: 33058682--33058719 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33058672 ACTTTTTTCA
*
33058682 TTTTACTT-TCTCTCAAAAC
1 TTTTACTTCTCCCTCAAAAC
33058701 TTTTACTTCTCCCTCAAAA
1 TTTTACTTCTCCCTCAAAA
33058720 AATTTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTACTTCTCCCTCAAAAC
Found at i:33058721 original size:75 final size:74
Alignment explanation
Indices: 33058616--33058784 Score: 216
Period size: 74 Copynumber: 2.3 Consensus size: 74
33058606 CCTCAACCCC
* * * *
33058616 CTCTCAAACCCTTTTACTT-TCCCCTAAAAAATTTTACTTCTCCCCAAACTCTCAAAACTTTTTT
1 CTCTCAAA-ACTTTTACTTCTCCCCTAAAAAA-TTTAATTCTCCCCAAACCCCCAAAACTTTTTT
33058680 CATTTTACTTT
64 CATTTTACTTT
* * *
33058691 CTCTCAAAACTTTTACTTCT-CCCTCAAAAAATTTAATTCTCTCCGAACCCCCAAAACTTTTTTT
1 CTCTCAAAACTTTTACTTCTCCCCT-AAAAAATTTAATTCTCCCCAAACCCCCAAAACTTTTTTC
33058755 ATTTTACTTT
65 ATTTTACTTT
*
33058765 CTCCCTAAAACTTTTACTTC
1 CTCTC-AAAACTTTTACTTC
33058785 CCCAAACTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
74 54 0.65
75 29 0.35
ACGTcount: A:0.27, C:0.30, G:0.01, T:0.42
Consensus pattern (74 bp):
CTCTCAAAACTTTTACTTCTCCCCTAAAAAATTTAATTCTCCCCAAACCCCCAAAACTTTTTTCA
TTTTACTTT
Found at i:33058725 original size:20 final size:20
Alignment explanation
Indices: 33058683--33058731 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
33058673 CTTTTTTCAT
* **
33058683 TTTACTT-TCTCTCAAAACT
1 TTTACTTCTCCCTCAAAAAA
33058702 TTTACTTCTCCCTCAAAAAA
1 TTTACTTCTCCCTCAAAAAA
*
33058722 TTTAATTCTC
1 TTTACTTCTC
33058732 TCCGAACCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTACTTCTCCCTCAAAAAA
Found at i:33060253 original size:5 final size:5
Alignment explanation
Indices: 33060243--33060267 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
33060233 GCTCTCAGAG
33060243 TCTCC TCTCC TCTCC TCTCC TCTCC
1 TCTCC TCTCC TCTCC TCTCC TCTCC
33060268 CTGCCTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (5 bp):
TCTCC
Found at i:33061203 original size:16 final size:16
Alignment explanation
Indices: 33061182--33061213 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33061172 TCATGAAGTC
33061182 GAATTGGCAATAAAGA
1 GAATTGGCAATAAAGA
33061198 GAATTGGCAATAAAGA
1 GAATTGGCAATAAAGA
33061214 AAGAAGTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.25, T:0.19
Consensus pattern (16 bp):
GAATTGGCAATAAAGA
Found at i:33064614 original size:23 final size:22
Alignment explanation
Indices: 33064588--33064631 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33064578 AATTTATAAT
*
33064588 TATAAAATATTAAAAAATAAAAA
1 TATAAAAT-TAAAAAAATAAAAA
33064611 TATAAAATTAAAAAAATAAAA
1 TATAAAATTAAAAAAATAAAA
33064632 CAACTCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
TATAAAATTAAAAAAATAAAAA
Found at i:33065063 original size:15 final size:15
Alignment explanation
Indices: 33065039--33065077 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
33065029 GCCCGTGAGT
33065039 GAAGGAGAAGAAAAA
1 GAAGGAGAAGAAAAA
* *
33065054 GAATGAGAAGAAGAA
1 GAAGGAGAAGAAAAA
33065069 GAAGGAGAA
1 GAAGGAGAA
33065078 TGAGAGGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.03
Consensus pattern (15 bp):
GAAGGAGAAGAAAAA
Found at i:33065063 original size:21 final size:21
Alignment explanation
Indices: 33065039--33065082 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
33065029 GCCCGTGAGT
*
33065039 GAAGGAGAAGAAAAAGAATGA
1 GAAGAAGAAGAAAAAGAATGA
**
33065060 GAAGAAGAAGAAGGAGAATGA
1 GAAGAAGAAGAAAAAGAATGA
33065081 GA
1 GA
33065083 GGGCGGGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (21 bp):
GAAGAAGAAGAAAAAGAATGA
Found at i:33065097 original size:5 final size:5
Alignment explanation
Indices: 33065087--33065112 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33065077 ATGAGAGGGC
33065087 GGGAA GGGAA GGGAA GGGAA GGGAA G
1 GGGAA GGGAA GGGAA GGGAA GGGAA G
33065113 AGAAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:33065569 original size:63 final size:63
Alignment explanation
Indices: 33065501--33065627 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
33065491 TTGGCATGTT
33065501 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
1 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
33065564 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
1 ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
33065627 A
1 A
33065628 ATTTGGAATT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.54
Consensus pattern (63 bp):
ATTTTTTTGATTATTTTATTTTTTATTTTTTTATGTAGGTAAAAGATGAGACCATTGATATGG
Found at i:33067215 original size:14 final size:14
Alignment explanation
Indices: 33067196--33067224 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33067186 GACAAATTCT
33067196 TTATAATGATACTA
1 TTATAATGATACTA
33067210 TTATAATGATACTA
1 TTATAATGATACTA
33067224 T
1 T
33067225 ATTTACCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
TTATAATGATACTA
Found at i:33068082 original size:33 final size:33
Alignment explanation
Indices: 33068040--33068131 Score: 96
Period size: 33 Copynumber: 2.8 Consensus size: 33
33068030 TCTTTGGGTT
* * *
33068040 GTATCCACCGTAGTACAGCACTTCT-TCCGACCC
1 GTATCCACCGCAGTACAACACTCCTCTCCGA-CC
*
33068073 GTATCCACCGCAGTACAACACTCCTCTCGGACC
1 GTATCCACCGCAGTACAACACTCCTCTCCGACC
** **
33068106 GTATCCACTACAGTACTTCACTCCTC
1 GTATCCACCGCAGTACAACACTCCTC
33068132 CTGGGTCGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
33 46 0.92
34 4 0.08
ACGTcount: A:0.23, C:0.40, G:0.13, T:0.24
Consensus pattern (33 bp):
GTATCCACCGCAGTACAACACTCCTCTCCGACC
Found at i:33073097 original size:15 final size:17
Alignment explanation
Indices: 33073077--33073108 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
33073067 CCCTCTCTAT
33073077 TCTTTTT-GTTG-TTTC
1 TCTTTTTAGTTGCTTTC
33073092 TCTTTTTAGTTGCTTTC
1 TCTTTTTAGTTGCTTTC
33073109 AGCCGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.03, C:0.16, G:0.12, T:0.69
Consensus pattern (17 bp):
TCTTTTTAGTTGCTTTC
Found at i:33079730 original size:27 final size:27
Alignment explanation
Indices: 33079687--33079738 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
33079677 GATAATAGTC
* *
33079687 CATTTCTAGCTAAATCAAATTTATTGT
1 CATTTCTAGATAAATCAAATATATTGT
33079714 CATTTCTA-ATAATATCAAATATATT
1 CATTTCTAGATAA-ATCAAATATATT
33079739 AAAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.44
Consensus pattern (27 bp):
CATTTCTAGATAAATCAAATATATTGT
Found at i:33081074 original size:20 final size:19
Alignment explanation
Indices: 33081045--33081082 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
33081035 ATAGTCATGA
33081045 TTCATATTAAAAAAATGATC
1 TTCATATT-AAAAAATGATC
*
33081065 TTCATGTTAAAAAATGAT
1 TTCATATTAAAAAATGAT
33081083 AAAATTACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (19 bp):
TTCATATTAAAAAATGATC
Found at i:33081165 original size:21 final size:21
Alignment explanation
Indices: 33081139--33081178 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33081129 ATATAATTAT
33081139 AAAA-TTACACTTTCATTTTCA
1 AAAATTTACA-TTTCATTTTCA
*
33081160 AAAATTTATATTTCATTTT
1 AAAATTTACATTTCATTTT
33081179 TACTCTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATTTACATTTCATTTTCA
Found at i:33084141 original size:15 final size:15
Alignment explanation
Indices: 33084123--33084151 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33084113 TTATTTTTAA
33084123 TATATATATTTGAAG
1 TATATATATTTGAAG
33084138 TATATATATTTGAA
1 TATATATATTTGAA
33084152 AATATTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (15 bp):
TATATATATTTGAAG
Found at i:33090265 original size:21 final size:21
Alignment explanation
Indices: 33090239--33090279 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33090229 ATCTGCTCAA
* *
33090239 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
33090260 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
33090280 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:33094761 original size:16 final size:16
Alignment explanation
Indices: 33094742--33094772 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33094732 CTTCTTCACT
33094742 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
33094758 TACTTACTTACTTAA
1 TACTCACTTACTTAA
33094773 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:33094778 original size:20 final size:20
Alignment explanation
Indices: 33094739--33094778 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33094729 AAACTTCTTC
* *
33094739 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
33094759 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
33094779 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:33094898 original size:5 final size:5
Alignment explanation
Indices: 33094888--33094920 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
33094878 TATAACTCGT
33094888 CTTAC CTTAC CTTAC CTTAC CTTAC CTTAC CTT
1 CTTAC CTTAC CTTAC CTTAC CTTAC CTTAC CTT
33094921 GATATTCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.42
Consensus pattern (5 bp):
CTTAC
Found at i:33095169 original size:55 final size:53
Alignment explanation
Indices: 33095026--33095233 Score: 197
Period size: 55 Copynumber: 3.8 Consensus size: 53
33095016 ATCCTTTTGA
* * *
33095026 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* *
33095079 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* * * *** *
33095133 TAACTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTGA-G
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
33095186 AAACCCTACCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTT
1 -AACTC-ACCAA-TGCCATGTCTTGA-CATGGTCTTACATGGGATCCTT
33095234 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
52 2 0.02
53 48 0.38
54 6 0.05
55 68 0.54
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:33099820 original size:13 final size:14
Alignment explanation
Indices: 33099802--33099834 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
33099792 GGGCCTCATG
33099802 TTTTTG-TCATGTA
1 TTTTTGATCATGTA
33099815 TTTTTGTATCATGTA
1 TTTTTG-ATCATGTA
33099830 TTTTT
1 TTTTT
33099835 ATACCATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
15 12 0.67
ACGTcount: A:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (14 bp):
TTTTTGATCATGTA
Found at i:33100730 original size:129 final size:132
Alignment explanation
Indices: 33100540--33100834 Score: 309
Period size: 129 Copynumber: 2.3 Consensus size: 132
33100530 CGGTGATTGA
* * * * * *
33100540 CAATTCGG-GAATCATGCCCTATCGTGCTGGGTTGTGACTTCTCGTTTGCGCAAAACGATCGAAT
1 CAATTCGGAGAATCGTGCCCTATCGTGCTGGGTTGTGACTTCTCATTCGCCCAAAACAATCGAAG
* * * * * *
33100604 AGT-CCTT-TAGGTTTTCACTCATGTTTAT-TAAAAATCCTTCAAAAC-AAAGGA-TGTTCGATG
66 A-TCCCTTCGAAG-TTTCACTCAGGTTT-TCTAAAAACCCTTCAAAACGAAAGAAGTGCTCGATG
33100664 TTTGG
128 TTTGG
* * * *
33100669 CGATT-TGAGAATCGTGCCCTATCGTGCTGGGTTGTG-CTTTTTCATTCGCCCTAAACAATCGAA
1 CAATTCGGAGAATCGTGCCCTATCGTGCTGGGTTGTGAC-TTCTCATTCGCCCAAAACAATCGAA
* *
33100732 GATCCCTTCGAAGTTTCATTCAGGTTTTCTAAAAACCCTTTAAAACGAAAGAAGTGCTCGATGTT
65 GATCCCTTCGAAGTTTCACTCAGGTTTTCTAAAAACCCTTCAAAACGAAAGAAGTGCTCGATGTT
33100797 TGG
130 TGG
* * *
33100800 CAATTCGGGGAATAGAGCCCTATCGTGCTGGGTTG
1 CAATTCGGAGAATCGTGCCCTATCGTGCTGGGTTG
33100835 CAATCTCCCG
Statistics
Matches: 135, Mismatches: 23, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
128 4 0.03
129 82 0.61
130 7 0.05
131 17 0.13
132 25 0.19
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (132 bp):
CAATTCGGAGAATCGTGCCCTATCGTGCTGGGTTGTGACTTCTCATTCGCCCAAAACAATCGAAG
ATCCCTTCGAAGTTTCACTCAGGTTTTCTAAAAACCCTTCAAAACGAAAGAAGTGCTCGATGTTT
GG
Found at i:33114482 original size:30 final size:30
Alignment explanation
Indices: 33114448--33114517 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
33114438 ACCATCTCGC
33114448 ATGCGAACCCCCTTGCATGT-GAACCTCTAT
1 ATGCGAACCCCCTTGCATGTGGAACC-CTAT
*
33114478 ATGCGAAACCCCTTGCATGTGGAACCCTAT
1 ATGCGAACCCCCTTGCATGTGGAACCCTAT
*
33114508 ATACGAACCC
1 ATGCGAACCC
33114518 ATTTATATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 31 0.86
31 5 0.14
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (30 bp):
ATGCGAACCCCCTTGCATGTGGAACCCTAT
Found at i:33114908 original size:23 final size:21
Alignment explanation
Indices: 33114873--33114931 Score: 64
Period size: 23 Copynumber: 2.7 Consensus size: 21
33114863 GAACCCAATA
* *
33114873 TGTATGTGTGAACCCTACATG
1 TGTATATGCGAACCCTACATG
*
33114894 TTGTGATATGCGAACCCTATATG
1 -TGT-ATATGCGAACCCTACATG
*
33114917 TGTATATGCAAACCC
1 TGTATATGCGAACCC
33114932 ATATGTGCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 11 0.34
22 6 0.19
23 15 0.47
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (21 bp):
TGTATATGCGAACCCTACATG
Found at i:33114935 original size:20 final size:20
Alignment explanation
Indices: 33114895--33114938 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
33114885 CCCTACATGT
*
33114895 TGTGATATGCGAACCCTATA
1 TGTGATATGCAAACCCTATA
33114915 TGTGTATATGCAAACCC-ATA
1 TGTG-ATATGCAAACCCTATA
33114935 TGTG
1 TGTG
33114939 CGAATCCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (20 bp):
TGTGATATGCAAACCCTATA
Found at i:33115646 original size:48 final size:48
Alignment explanation
Indices: 33115575--33115670 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
33115565 CAAGATCACT
*
33115575 TCGATGATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
1 TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
33115623 TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
1 TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
33115671 GTCGGGAGTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
TCGATAATCAATGTAACACCTTCGACTTAGCTGAAACTCTTAGGCCGG
Found at i:33122002 original size:13 final size:13
Alignment explanation
Indices: 33121986--33122021 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
33121976 CAATGCTTTT
33121986 GAAAAGTGCTGCA
1 GAAAAGTGCTGCA
*
33121999 GAAAAGTGCTGTA
1 GAAAAGTGCTGCA
*
33122012 GAGAAGTGCT
1 GAAAAGTGCT
33122022 CTTGAGAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.33, T:0.19
Consensus pattern (13 bp):
GAAAAGTGCTGCA
Found at i:33132716 original size:3 final size:3
Alignment explanation
Indices: 33132708--33132962 Score: 148
Period size: 3 Copynumber: 83.3 Consensus size: 3
33132698 CTATTTTACC
* * *
33132708 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TGT ATC CTT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* ** * *
33132753 A-T ATT ATT ATC ATT -TCCT CCT ATT ATT ATT AACCT ATT ATT ATT CTT
1 ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT -A-TT ATT ATT ATT ATT
* *
33132800 ATT AGT A-T ATT ATT ATT -TCCT ATT CTT -TAT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT--T ATT ATT AT-T ATT ATT ATT ATT ATT
* *
33132845 ATT ATT ATT ATT ATT CATGT ATAT ATT ATT ATT GTT ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT -AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
33132893 ATT AAT ATT CTT ATC GTT ACT ATT ATT TTT ATT CCTT -TT ATT AGTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT A-TT
* *
33132939 ATT ATC AAT A-T ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
33132963 CCACCGTATT
Statistics
Matches: 195, Mismatches: 37, Indels: 40
0.72 0.14 0.15
Matches are distributed among these distances:
2 12 0.06
3 162 0.83
4 18 0.09
5 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:33133026 original size:7 final size:8
Alignment explanation
Indices: 33133011--33133038 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
33133001 GTCACCATTA
33133011 TATTTTTT
1 TATTTTTT
33133019 TATTTTTT
1 TATTTTTT
33133027 TATTTTTT
1 TATTTTTT
33133035 TATT
1 TATT
33133039 ATTACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TATTTTTT
Found at i:33133349 original size:14 final size:14
Alignment explanation
Indices: 33133300--33133351 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
33133290 TAATTTCAAA
33133300 TATTT-TTTTAGCT
1 TATTTATTTTAGCT
*
33133313 TATTTATTATT-TCT
1 TATTTATT-TTAGCT
*
33133327 TTTTTATTTTAGCT
1 TATTTATTTTAGCT
*
33133341 TATTCATTTTA
1 TATTTATTTTA
33133352 CCCATTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 22 0.71
15 2 0.06
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.69
Consensus pattern (14 bp):
TATTTATTTTAGCT
Found at i:33135489 original size:27 final size:27
Alignment explanation
Indices: 33135442--33135497 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
33135432 TAAATTAGAA
* *
33135442 AAAAAATTAAATATAATTTTTAATATT
1 AAAAAATTAAATATAAGTTTTAACATT
* *
33135469 AAAAAATTGAATTTAAGTTTTAACATT
1 AAAAAATTAAATATAAGTTTTAACATT
33135496 AA
1 AA
33135498 TTTTTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (27 bp):
AAAAAATTAAATATAAGTTTTAACATT
Found at i:33136353 original size:23 final size:22
Alignment explanation
Indices: 33136327--33136372 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
33136317 TGTATATATC
33136327 TTTTAAAGATTATGCAATATACT
1 TTTTAAAGATTATGCAAT-TACT
** *
33136350 TTTTAATTATTGTGCAATTACT
1 TTTTAAAGATTATGCAATTACT
33136372 T
1 T
33136373 AATTATGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.50
Consensus pattern (22 bp):
TTTTAAAGATTATGCAATTACT
Found at i:33136483 original size:75 final size:75
Alignment explanation
Indices: 33136389--33136540 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
33136379 GATTTGAAAG
* *
33136389 AATGTTACGAAATACAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACGTTATATGAG
1 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACATTATATGAG
33136454 TGAGCAAAAC
66 TGAGCAAAAC
*
33136464 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCTTGTACATTATATGAG
1 AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACATTATATGAG
33136529 TGAGCAAAAC
66 TGAGCAAAAC
33136539 AA
1 AA
33136541 CACTTCCATT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (75 bp):
AATGTTACGAAATAAAATATTTTATTGAATAAAAATATCAATTTAGCCCCTGTACATTATATGAG
TGAGCAAAAC
Found at i:33138854 original size:9 final size:9
Alignment explanation
Indices: 33138840--33138876 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33138830 TATAGTTTAA
33138840 TATTCGAAT
1 TATTCGAAT
33138849 TATTCGAAT
1 TATTCGAAT
*
33138858 TATTCGAGT
1 TATTCGAAT
33138867 TATTCGAAT
1 TATTCGAAT
33138876 T
1 T
33138877 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33138942 original size:9 final size:9
Alignment explanation
Indices: 33138928--33138960 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
33138918 ATTCGAGTTG
33138928 ACTCGAATA
1 ACTCGAATA
*
33138937 ACTCGATTA
1 ACTCGAATA
33138946 ACTCGAATA
1 ACTCGAATA
33138955 ACTCGA
1 ACTCGA
33138961 TTTGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:33138951 original size:18 final size:18
Alignment explanation
Indices: 33138928--33138962 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33138918 ATTCGAGTTG
33138928 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
33138946 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
33138963 TGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:33148936 original size:94 final size:92
Alignment explanation
Indices: 33148777--33148947 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 92
33148767 CTTTGTCGAG
* * ** *
33148777 GCCGATGCATGTCCTAGACATGTCTTACTCTGGCACTCATAATATGGCTGAAGCATGTCCTAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAATACGGCCAAAGCATGTCCCAGAC
33148842 ATGTCTTACACTAGCCCTTATCTGGAT
66 ATGTCTTACACTAGCCCTTATCTGGAT
* *
33148869 GCCGATGCCATGTCCCAGACATGGTCTTA-TACTGGCTCTCATAGTACGGCCAAAGCATGTCCCA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACT-CTGGCACTCATAATACGGCCAAAGCATGTCCCA
33148933 GACATGTCTTACACT
63 GACATGTCTTACACT
33148948 GGCGTACAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 48 0.70
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACTCTGGCACTCATAATACGGCCAAAGCATGTCCCAGAC
ATGTCTTACACTAGCCCTTATCTGGAT
Found at i:33152756 original size:47 final size:46
Alignment explanation
Indices: 33152636--33152817 Score: 192
Period size: 47 Copynumber: 3.9 Consensus size: 46
33152626 ATAATTTCAC
*
33152636 CCATAATGAACTCGGAACGCAACTCAACGAGCTTAGG-TGCTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAG-TTCGGATGCTCACAT
* * * **
33152682 CCATAATGAACTCGGAACACAATTCAACAAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTCACAT
* *
33152728 CCATAAGTGAAC-CTGTAACGCAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTC-GGAACGCAACTCAACGAGTTCGGATG-CTCA-CAT
* * *
33152777 TC-TCACGAACTCGGAACGCAACTCAACGAGTTCGGAT-CTCA
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTCA
33152818 ATTTCCTAGT
Statistics
Matches: 113, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
45 8 0.07
46 42 0.37
47 55 0.49
48 5 0.04
49 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTCACAT
Found at i:33160417 original size:93 final size:92
Alignment explanation
Indices: 33160239--33160418 Score: 279
Period size: 93 Copynumber: 1.9 Consensus size: 92
33160229 CCACTTCTCC
* * * *
33160239 TGGAAGATACAGTCTAGATTTGGGTGTTCCTTTTTCCCCTTTTTTCCAATATGCTATACAGCCAG
1 TGGAAGATAAAATCTAGATTTGGGTGTTCCTTTTTCCCCTTTTTTCCAATATGCAACACAGCCAG
* *
33160304 TTTATAAAGAATTATCTAATCCCCTAT
66 TATATAAAGAAATATCTAATCCCCTAT
* *
33160331 TGGAAGATAAAATCTAGATTTGGGTGTTCTTTTTTCCCCTTTTTTTCCATTATGCAACACAGCCA
1 TGGAAGATAAAATCTAGATTTGGGTGTTCCTTTTTCCCC-TTTTTTCCAATATGCAACACAGCCA
33160396 GTATATAAAGAAATATCTAATCC
65 GTATATAAAGAAATATCTAATCC
33160419 TCAACTTTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 36 0.46
93 43 0.54
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (92 bp):
TGGAAGATAAAATCTAGATTTGGGTGTTCCTTTTTCCCCTTTTTTCCAATATGCAACACAGCCAG
TATATAAAGAAATATCTAATCCCCTAT
Found at i:33161035 original size:174 final size:174
Alignment explanation
Indices: 33160744--33161093 Score: 673
Period size: 174 Copynumber: 2.0 Consensus size: 174
33160734 GCCTATAGCA
33160744 TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
1 TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
*
33160809 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCTATTTGAGTGGCTTAGTAAG
66 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCAATTTGAGTGGCTTAGTAAG
33160874 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
131 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
* *
33160918 TTACTACTGCAGGTAATAATGTATTTTATGCTTACATTACGTATGTTTCATAAATATATGAAGAG
1 TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
33160983 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCAATTTGAGTGGCTTAGTAAG
66 GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCAATTTGAGTGGCTTAGTAAG
33161048 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
131 CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
33161092 TT
1 TT
33161094 TCTATCCCTT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 173 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (174 bp):
TTACTACTGCAGGTAATAATCTATTTTATGCTTACATTACATATGTTTCATAAATATATGAAGAG
GTAAAAGGAAGTTGATATGATATGAATGTATCGGGCAGTAATCCCAATTTGAGTGGCTTAGTAAG
CATCTTTCCTCATGGTCTTTGTTTCAGCATATGAGTAAACTGTC
Found at i:33165181 original size:14 final size:14
Alignment explanation
Indices: 33165162--33165192 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
33165152 TAGTTTAAAC
33165162 TTGATAATCACAAA
1 TTGATAATCACAAA
33165176 TTGATAATCACAAA
1 TTGATAATCACAAA
33165190 TTG
1 TTG
33165193 GAGAATAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (14 bp):
TTGATAATCACAAA
Found at i:33165537 original size:26 final size:25
Alignment explanation
Indices: 33165508--33165556 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
33165498 TTATATCAAT
*
33165508 TTTAAAAAATTATAAAATATAAAAAA
1 TTTAAAAAAGTATAAAA-ATAAAAAA
*
33165534 TTTAGAAAAGTATAAAAATAAAA
1 TTTAAAAAAGTATAAAAATAAAA
33165557 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
TTTAAAAAAGTATAAAAATAAAAAA
Found at i:33165542 original size:18 final size:18
Alignment explanation
Indices: 33165510--33165551 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
33165500 ATATCAATTT
*
33165510 TAAAAAATTATAAAA-TA
1 TAAAAAATTAGAAAAGTA
33165527 TAAAAAATTTAGAAAAGTA
1 TAAAAAA-TTAGAAAAGTA
33165546 TAAAAA
1 TAAAAA
33165552 TAAAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 7 0.32
19 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAAAATTAGAAAAGTA
Found at i:33165552 original size:18 final size:17
Alignment explanation
Indices: 33165510--33165552 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
33165500 ATATCAATTT
* *
33165510 TAAAAAATTATAAAATA
1 TAAAAATTTAGAAAATA
33165527 TAAAAAATTTAGAAAAGTA
1 T-AAAAATTTAGAAAA-TA
33165546 TAAAAAT
1 TAAAAAT
33165553 AAAATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAAAATTTAGAAAATA
Found at i:33165561 original size:14 final size:15
Alignment explanation
Indices: 33165539--33165571 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33165529 AAAAATTTAG
33165539 AAAAGTAT-AAAAAT
1 AAAAGTATAAAAAAT
*
33165553 AAAATTATAAAAAAT
1 AAAAGTATAAAAAAT
33165568 AAAA
1 AAAA
33165572 AATCATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAGTATAAAAAAT
Found at i:33165572 original size:22 final size:23
Alignment explanation
Indices: 33165508--33165574 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 23
33165498 TTATATCAAT
33165508 TTTA-AAAAATTATAAAATATAAAAAA
1 TTTAGAAAAA-TATAAAA-AT--AAAA
*
33165534 TTTAGAAAAGTATAAAAATAAAA
1 TTTAGAAAAATATAAAAATAAAA
33165557 TTATA-AAAAATA-AAAAAT
1 TT-TAGAAAAATATAAAAAT
33165575 CATTAATTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 6 0.16
23 12 0.32
24 2 0.05
25 2 0.05
26 11 0.30
27 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (23 bp):
TTTAGAAAAATATAAAAATAAAA
Found at i:33167108 original size:14 final size:14
Alignment explanation
Indices: 33167089--33167119 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
33167079 TAGTTTAAAC
33167089 TTGATAATCACAAA
1 TTGATAATCACAAA
33167103 TTGATAATCACAAA
1 TTGATAATCACAAA
33167117 TTG
1 TTG
33167120 GAGAATAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (14 bp):
TTGATAATCACAAA
Found at i:33167464 original size:26 final size:25
Alignment explanation
Indices: 33167435--33167483 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
33167425 TTATATCAAT
*
33167435 TTTAAAAAATTATAAAATATAAAAAA
1 TTTAAAAAAGTATAAAA-ATAAAAAA
*
33167461 TTTAGAAAAGTATAAAAATAAAA
1 TTTAAAAAAGTATAAAAATAAAA
33167484 TTATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
TTTAAAAAAGTATAAAAATAAAAAA
Found at i:33167469 original size:18 final size:18
Alignment explanation
Indices: 33167437--33167478 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
33167427 ATATCAATTT
*
33167437 TAAAAAATTATAAAA-TA
1 TAAAAAATTAGAAAAGTA
33167454 TAAAAAATTTAGAAAAGTA
1 TAAAAAA-TTAGAAAAGTA
33167473 TAAAAA
1 TAAAAA
33167479 TAAAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 7 0.32
19 8 0.36
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAAAATTAGAAAAGTA
Found at i:33167479 original size:18 final size:17
Alignment explanation
Indices: 33167437--33167479 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
33167427 ATATCAATTT
* *
33167437 TAAAAAATTATAAAATA
1 TAAAAATTTAGAAAATA
33167454 TAAAAAATTTAGAAAAGTA
1 T-AAAAATTTAGAAAA-TA
33167473 TAAAAAT
1 TAAAAAT
33167480 AAAATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAAAATTTAGAAAATA
Found at i:33167488 original size:14 final size:15
Alignment explanation
Indices: 33167466--33167498 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33167456 AAAAATTTAG
33167466 AAAAGTAT-AAAAAT
1 AAAAGTATAAAAAAT
*
33167480 AAAATTATAAAAAAT
1 AAAAGTATAAAAAAT
33167495 AAAA
1 AAAA
33167499 AATCATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAGTATAAAAAAT
Found at i:33167499 original size:22 final size:23
Alignment explanation
Indices: 33167435--33167501 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 23
33167425 TTATATCAAT
33167435 TTTA-AAAAATTATAAAATATAAAAAA
1 TTTAGAAAAA-TATAAAA-AT--AAAA
*
33167461 TTTAGAAAAGTATAAAAATAAAA
1 TTTAGAAAAATATAAAAATAAAA
33167484 TTATA-AAAAATA-AAAAAT
1 TT-TAGAAAAATATAAAAAT
33167502 CATTAATTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 6 0.16
23 12 0.32
24 2 0.05
25 2 0.05
26 11 0.30
27 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (23 bp):
TTTAGAAAAATATAAAAATAAAA
Found at i:33171044 original size:16 final size:16
Alignment explanation
Indices: 33171023--33171057 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
33171013 TCTGAATTAC
33171023 CAGTCCAAACTAAATT
1 CAGTCCAAACTAAATT
**
33171039 CAGTCCAGGCTAAATT
1 CAGTCCAAACTAAATT
33171055 CAG
1 CAG
33171058 ACCCTAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (16 bp):
CAGTCCAAACTAAATT
Found at i:33174930 original size:19 final size:19
Alignment explanation
Indices: 33174902--33174938 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33174892 CTGGCGCACA
33174902 AAGCGAATGCTAGCACACG
1 AAGCGAATGCTAGCACACG
* *
33174921 AAGCGCATGCTGGCACAC
1 AAGCGAATGCTAGCACAC
33174939 AAGGTGCATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.30, G:0.27, T:0.11
Consensus pattern (19 bp):
AAGCGAATGCTAGCACACG
Found at i:33175283 original size:18 final size:18
Alignment explanation
Indices: 33175260--33175296 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33175250 GTATATTTAT
33175260 CTAATTAACACATATAGG
1 CTAATTAACACATATAGG
33175278 CTAATTAACACATATAGG
1 CTAATTAACACATATAGG
33175296 C
1 C
33175297 AAGCACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (18 bp):
CTAATTAACACATATAGG
Found at i:33178297 original size:43 final size:43
Alignment explanation
Indices: 33178229--33178398 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
33178219 AACTCGTACA
*
33178229 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
* *
33178272 ATGCC-ACTGTCCCAGACAG-GATCTTACATAAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATATCG
* * * ** *
33178314 ATGCCGATGTCCTAGATATGGTCTTACACGTAAAT-ATCAA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AAATCA--AATATCG
*
33178358 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATAT
33178399 TGGAAATCCT
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
42 26 0.26
43 44 0.44
44 30 0.30
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATCG
Found at i:33180417 original size:17 final size:18
Alignment explanation
Indices: 33180397--33180430 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33180387 AAAATTAATT
*
33180397 AAAATTAAAAA-ATAAAG
1 AAAATAAAAAAGATAAAG
33180414 AAAATAAAAAAGATAAA
1 AAAATAAAAAAGATAAA
33180431 ATAATTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAG
Found at i:33180498 original size:115 final size:118
Alignment explanation
Indices: 33180278--33180514 Score: 281
Period size: 115 Copynumber: 2.0 Consensus size: 118
33180268 AAAAAACTAA
* ** * *
33180278 AATT-AAATCTAAAAAATAAAAACATAAAGAAATTTAAATTAGTTTTTCCTATAAAAATTCAGAT
1 AATTAAAATCTAAAAAATAAAAAAATAAAGAAAGATAAAATAATTTTTCCTATAAAAATTCAGAT
* * *
33180342 AATTTCTAGTAAAATCTCATGTTTTTTCTTTTTACT-GGAAA-AACTAAAATT
66 AATTTCTAGTAAAATCTAATGTTTTTTCCTTTTACTAGAAAACAACTAAAATT
* * *
33180393 AATTAAAAT-TAAAAAATAAAGAAAATAAA-AAAGATAAAATAATTTTTCTTATAAAAATTGAGG
1 AATTAAAATCTAAAAAATAAA-AAAATAAAGAAAGATAAAATAATTTTTCCTATAAAAATTCAGA
* *
33180456 TAATTTCTA-TAAAATCTTAATTTTTTTTCCTTTTA-TAAGAAAACAACTGAAATT
65 TAATTTCTAGTAAAATC-TAATGTTTTTTCCTTTTACT-AGAAAACAACTAAAATT
33180510 AATTA
1 AATTA
33180515 TAAAAAATTA
Statistics
Matches: 103, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
114 8 0.08
115 66 0.64
116 15 0.15
117 14 0.14
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.38
Consensus pattern (118 bp):
AATTAAAATCTAAAAAATAAAAAAATAAAGAAAGATAAAATAATTTTTCCTATAAAAATTCAGAT
AATTTCTAGTAAAATCTAATGTTTTTTCCTTTTACTAGAAAACAACTAAAATT
Found at i:33188095 original size:30 final size:31
Alignment explanation
Indices: 33188025--33188095 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
33188015 AACCGAACAT
*
33188025 TATTCTAT-TTTTTTAATTCATATATAATTAA
1 TATT-TATATTTTTTAATTCATATAAAATTAA
33188056 T-TTTA-ATTTTTT-ATT-ATATAAAATTAAA
1 TATTTATATTTTTTAATTCATATAAAATT-AA
33188084 TATTTATATTTT
1 TATTTATATTTT
33188096 AAAAAGTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 9 0.26
28 6 0.17
29 12 0.34
30 7 0.20
31 1 0.03
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (31 bp):
TATTTATATTTTTTAATTCATATAAAATTAA
Found at i:33189171 original size:62 final size:62
Alignment explanation
Indices: 33189095--33189218 Score: 194
Period size: 62 Copynumber: 2.0 Consensus size: 62
33189085 ATGTTATTTG
* *
33189095 AATGAGTAATTAGGTTCAAGTGGTAAATCCATAAAGTCAAGTGGTTTTAGAAAATGAGGTAT
1 AATGAGTAATTAGGTTCAAGTGGTAAATCCATAAAGTCAAGCGATTTTAGAAAATGAGGTAT
* ** *
33189157 AATGAGTAATTAGGTTTAAGTGGTAAATCTTTAAAGTTAAGCGATTTTAGAAAATGAGGTAT
1 AATGAGTAATTAGGTTCAAGTGGTAAATCCATAAAGTCAAGCGATTTTAGAAAATGAGGTAT
33189219 CGAGACCTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (62 bp):
AATGAGTAATTAGGTTCAAGTGGTAAATCCATAAAGTCAAGCGATTTTAGAAAATGAGGTAT
Found at i:33191798 original size:41 final size:42
Alignment explanation
Indices: 33191736--33191814 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
33191726 TACCTAGTAC
*
33191736 CTCATCGGATTTAATCCGAAGCAATCA-TACAACACATAGTGT
1 CTCATCGGAATTAATCCGAAGCAAT-ATTACAACACATAGTGT
*
33191778 CTCATCGGAATT-ATCCGAAGCAATATTACTACACATA
1 CTCATCGGAATTAATCCGAAGCAATATTACAACACATA
33191815 TAGTGCCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 1 0.03
41 22 0.65
42 11 0.32
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (42 bp):
CTCATCGGAATTAATCCGAAGCAATATTACAACACATAGTGT
Found at i:33198459 original size:371 final size:371
Alignment explanation
Indices: 33197776--33198518 Score: 1486
Period size: 371 Copynumber: 2.0 Consensus size: 371
33197766 ATCAAGCTTT
33197776 AAACCTTGAAATCCCTATTTTCCCTTTCTTTCTTTCTTTTCTTTCTTCTCCCCTGTTTTTCGCTT
1 AAACCTTGAAATCCCTATTTTCCCTTTCTTTCTTTCTTTTCTTTCTTCTCCCCTGTTTTTCGCTT
33197841 GGCTATTTTGTTTCTTTTCTAACTTTGTTTCTTTATTTCTTTATTTAATTTATGTTTTATTATAT
66 GGCTATTTTGTTTCTTTTCTAACTTTGTTTCTTTATTTCTTTATTTAATTTATGTTTTATTATAT
33197906 TATATTATATTAACTTAATAATTATTTCTTAAATTATAAGTAAATACATGTATTTATTACAAATG
131 TATATTATATTAACTTAATAATTATTTCTTAAATTATAAGTAAATACATGTATTTATTACAAATG
33197971 TATGTATATTATTTAATACACATGTATTTTATTTTTAGCACACACTTGGCACCTATTGCTTAATT
196 TATGTATATTATTTAATACACATGTATTTTATTTTTAGCACACACTTGGCACCTATTGCTTAATT
33198036 GCTAATTTAGTCCCTCATCTTTTCTTTATTCTACAATTAAACTTTCACACTTTATTCAATTTAAT
261 GCTAATTTAGTCCCTCATCTTTTCTTTATTCTACAATTAAACTTTCACACTTTATTCAATTTAAT
33198101 CCTGACACTAAATTAACCATAATTCAAGCTAATTCGCCTAGCCAAA
326 CCTGACACTAAATTAACCATAATTCAAGCTAATTCGCCTAGCCAAA
33198147 AAACCTTGAAATCCCTATTTTCCCTTTCTTTCTTTCTTTTCTTTCTTCTCCCCTGTTTTTCGCTT
1 AAACCTTGAAATCCCTATTTTCCCTTTCTTTCTTTCTTTTCTTTCTTCTCCCCTGTTTTTCGCTT
33198212 GGCTATTTTGTTTCTTTTCTAACTTTGTTTCTTTATTTCTTTATTTAATTTATGTTTTATTATAT
66 GGCTATTTTGTTTCTTTTCTAACTTTGTTTCTTTATTTCTTTATTTAATTTATGTTTTATTATAT
33198277 TATATTATATTAACTTAATAATTATTTCTTAAATTATAAGTAAATACATGTATTTATTACAAATG
131 TATATTATATTAACTTAATAATTATTTCTTAAATTATAAGTAAATACATGTATTTATTACAAATG
33198342 TATGTATATTATTTAATACACATGTATTTTATTTTTAGCACACACTTGGCACCTATTGCTTAATT
196 TATGTATATTATTTAATACACATGTATTTTATTTTTAGCACACACTTGGCACCTATTGCTTAATT
33198407 GCTAATTTAGTCCCTCATCTTTTCTTTATTCTACAATTAAACTTTCACACTTTATTCAATTTAAT
261 GCTAATTTAGTCCCTCATCTTTTCTTTATTCTACAATTAAACTTTCACACTTTATTCAATTTAAT
33198472 CCTGACACTAAATTAACCATAATTCAAGCTAATTCGCCTAGCCAAA
326 CCTGACACTAAATTAACCATAATTCAAGCTAATTCGCCTAGCCAAA
33198518 A
1 A
33198519 CTTAATTAAC
Statistics
Matches: 372, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
371 372 1.00
ACGTcount: A:0.27, C:0.18, G:0.06, T:0.48
Consensus pattern (371 bp):
AAACCTTGAAATCCCTATTTTCCCTTTCTTTCTTTCTTTTCTTTCTTCTCCCCTGTTTTTCGCTT
GGCTATTTTGTTTCTTTTCTAACTTTGTTTCTTTATTTCTTTATTTAATTTATGTTTTATTATAT
TATATTATATTAACTTAATAATTATTTCTTAAATTATAAGTAAATACATGTATTTATTACAAATG
TATGTATATTATTTAATACACATGTATTTTATTTTTAGCACACACTTGGCACCTATTGCTTAATT
GCTAATTTAGTCCCTCATCTTTTCTTTATTCTACAATTAAACTTTCACACTTTATTCAATTTAAT
CCTGACACTAAATTAACCATAATTCAAGCTAATTCGCCTAGCCAAA
Found at i:33200544 original size:33 final size:33
Alignment explanation
Indices: 33200506--33200574 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
33200496 AGATGAAAAG
33200506 TTAGAACTTAATTATAAATCATTTGAACTTTAA
1 TTAGAACTTAATTATAAATCATTTGAACTTTAA
33200539 TTAGAACTTAATTATAAATCATTTGAACTTTAA
1 TTAGAACTTAATTATAAATCATTTGAACTTTAA
33200572 TTA
1 TTA
33200575 CATATGTCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (33 bp):
TTAGAACTTAATTATAAATCATTTGAACTTTAA
Found at i:33207519 original size:28 final size:28
Alignment explanation
Indices: 33207487--33207541 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
33207477 GCAGAGTTTC
33207487 CCTCTTCATTGTTTTACAATATTTTATG
1 CCTCTTCATTGTTTTACAATATTTTATG
33207515 CCTCTTCATTGTTTTACAATATTTTAT
1 CCTCTTCATTGTTTTACAATATTTTAT
33207542 ATATTTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.05, T:0.55
Consensus pattern (28 bp):
CCTCTTCATTGTTTTACAATATTTTATG
Found at i:33210081 original size:29 final size:29
Alignment explanation
Indices: 33210044--33210099 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
33210034 AAGCTTCTTC
33210044 AAAGAATGAAATATTCACAAAAAGGTGTA
1 AAAGAATGAAATATTCACAAAAAGGTGTA
* *
33210073 AAAGCATGAAATATTCATAAAAAGGTG
1 AAAGAATGAAATATTCACAAAAAGGTG
33210100 CAGTAGTGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (29 bp):
AAAGAATGAAATATTCACAAAAAGGTGTA
Found at i:33226930 original size:41 final size:42
Alignment explanation
Indices: 33226829--33226943 Score: 135
Period size: 44 Copynumber: 2.7 Consensus size: 42
33226819 TATTGCAAAT
*
33226829 CTTATCGCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAAC
1 CTTATCCCTCTGAAGTTGCAGTAGAGCAGATTAAA-C-ATAAAC
* * **
33226873 CTTATCCCTCTGAAGTTGCAGTAGAGCAGGTTAAA-ATTAGT
1 CTTATCCCTCTGAAGTTGCAGTAGAGCAGATTAAACATAAAC
*
33226914 CTTATCTCCT-TGAAGTTGCAGTGGAGCAGA
1 CTTATC-CCTCTGAAGTTGCAGTAGAGCAGA
33226944 CTGAAGATAG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 27 0.43
42 3 0.05
44 33 0.52
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
CTTATCCCTCTGAAGTTGCAGTAGAGCAGATTAAACATAAAC
Found at i:33227277 original size:44 final size:44
Alignment explanation
Indices: 33227110--33227312 Score: 156
Period size: 44 Copynumber: 4.6 Consensus size: 44
33227100 CATGGCGAAT
* * * * *
33227110 CTTATCTCCCTGAAGTTGCAGAGGAGCAGATTGAAATC-ACTAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCTACAAAC
* * * ** * * *
33227154 CTTTTCTCCTTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAAC
* * * * * * *
33227199 TTTACCTCTCTGAAGTTGCATTAGAGCAGATTAAAGCTATAAAC
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * **
33227243 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAGTTACAAGT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
*
33227287 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTAAAGTTGCAGTGGAG
33227313 TGGATCGACT
Statistics
Matches: 123, Mismatches: 34, Indels: 4
0.76 0.21 0.02
Matches are distributed among these distances:
43 2 0.02
44 89 0.72
45 32 0.26
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
Found at i:33227839 original size:35 final size:35
Alignment explanation
Indices: 33227783--33227850 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
33227773 TTTATTTAAT
*
33227783 ATTTCTTTATTCTTTTATTTATTTGCTTATTTTCA
1 ATTTCTTTATTCTTTTATTTATTTACTTATTTTCA
* *
33227818 ATTT-TTTATTTTATTTGTTTATTTACTTATTTT
1 ATTTCTTTATTCT-TTTATTTATTTACTTATTTT
33227851 TTAACTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 7 0.24
35 22 0.76
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.72
Consensus pattern (35 bp):
ATTTCTTTATTCTTTTATTTATTTACTTATTTTCA
Found at i:33227874 original size:27 final size:26
Alignment explanation
Indices: 33227788--33227906 Score: 89
Period size: 27 Copynumber: 4.4 Consensus size: 26
33227778 TTAATATTTC
* *
33227788 TTTATTCTTTTATTTATTTG-CTTATT
1 TTTATT-TTTTAATTATTTGTTTTATT
* *
33227814 TTCAATTTTTTATTTTATTTG-TTTATT
1 TT-TATTTTTTA-ATTATTTGTTTTATT
*
33227841 TACTTATTTTTTAACTTGTTTGTTTTATT
1 T--TTATTTTTTAA-TTATTTGTTTTATT
* * *
33227870 TTTATTTCTTTTATTATTTATCTTATT
1 TTTATTT-TTTAATTATTTGTTTTATT
33227897 TTTATTTTTT
1 TTTATTTTTT
33227907 GCTCTTATTA
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
26 10 0.13
27 41 0.53
28 18 0.23
29 8 0.10
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (26 bp):
TTTATTTTTTAATTATTTGTTTTATT
Found at i:33228715 original size:3 final size:3
Alignment explanation
Indices: 33228709--33228755 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
33228699 GGTTTCGACA
33228709 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33228756 CAACTTGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33230603 original size:17 final size:15
Alignment explanation
Indices: 33230582--33230621 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
33230572 TAATTGAGAT
33230582 ATTAAATTATATAAAA
1 ATTAAA-TATATAAAA
33230598 ATTTAAA-ATATAAAA
1 A-TTAAATATATAAAA
33230613 ATTAAATAT
1 ATTAAATAT
33230622 TGAATTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.23
15 11 0.50
16 1 0.05
17 5 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTAAATATATAAAA
Found at i:33231658 original size:20 final size:20
Alignment explanation
Indices: 33231633--33231671 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33231623 TAAATGTATA
33231633 TTAAAAAAT-TACTAAAAATC
1 TTAAAAAATATA-TAAAAATC
*
33231653 TTAAAAGATATATAAAAAT
1 TTAAAAAATATATAAAAAT
33231672 ACTAATCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
TTAAAAAATATATAAAAATC
Found at i:33232175 original size:17 final size:17
Alignment explanation
Indices: 33232153--33232190 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
33232143 TCTCCATTGG
33232153 ATGTTCATTGATAGATA
1 ATGTTCATTGATAGATA
*
33232170 ATGTTCATTGGTAGATA
1 ATGTTCATTGATAGATA
33232187 ATGT
1 ATGT
33232191 GGCTCCGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (17 bp):
ATGTTCATTGATAGATA
Found at i:33234005 original size:11 final size:11
Alignment explanation
Indices: 33233991--33234035 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
33233981 AGATAAATAT
33233991 TATTTTATTAA
1 TATTTTATTAA
*
33234002 TATTTTAATAAGA
1 TATTTT-ATTA-A
33234015 TATTTTATTAA
1 TATTTTATTAA
33234026 TATTTTATTA
1 TATTTTATTA
33234036 GTATATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 17 0.57
12 6 0.20
13 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:33235871 original size:46 final size:46
Alignment explanation
Indices: 33235819--33236185 Score: 482
Period size: 46 Copynumber: 8.0 Consensus size: 46
33235809 GCTCCCTGAA
**
33235819 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
33235865 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
**
33235911 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * *
33235957 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
33236003 ATGAAAAGAATAAGACCATGGTTGAGAGATACCATGGAAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * * *
33236049 GGGAAATGAATAAGACCATGGTTAAAAGATACTATGGCAGCGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
33236095 GTGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
33236141 ATGAAAAGAATAAAACCATGGTTGAAAAATACCATGACAACATGA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA
33236186 CAGAAAATGA
Statistics
Matches: 290, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 290 1.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:33235890 original size:21 final size:21
Alignment explanation
Indices: 33235866--33235937 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
33235856 CAACATGATA
33235866 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
33235887 TGAAA-G-ATACCATGACAACATGAT
1 TGAAATGTGTA--A-GAC--CATGGT
33235911 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
33235933 TGAAA
1 TGAAA
33235938 GATACCATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.21
24 8 0.21
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:33236067 original size:138 final size:138
Alignment explanation
Indices: 33235819--33236195 Score: 549
Period size: 138 Copynumber: 2.7 Consensus size: 138
33235809 GCTCCCTGAA
* * * **
33235819 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
* * ** *
33235884 GGTTGAAAGATACCATGACAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGACAACATGACAGGAAATGAATAAGACCATGGTTAAAAGATACCATGGC
33235949 AACATGAT
131 AACATGAT
33235957 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
* * *
33236022 GGTTGAGAGATACCATGGA-AACATGACGGGAAATGAATAAGACCATGGTTAAAAGATACTATGG
66 GGTTGAAAGATACCAT-GACAACATGACAGGAAATGAATAAGACCATGGTTAAAAGATACCATGG
* *
33236086 CAGCGTGAT
130 CAACATGAT
* ** *
33236095 GTGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAAACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
* *
33236160 GGTTGAAAAATACCATGACAACATGACAGAAAATGA
66 GGTTGAAAGATACCATGACAACATGACAGGAAATGA
33236196 GTATTTATAA
Statistics
Matches: 214, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
137 2 0.01
138 210 0.98
139 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCAT
GGTTGAAAGATACCATGACAACATGACAGGAAATGAATAAGACCATGGTTAAAAGATACCATGGC
AACATGAT
Found at i:33238790 original size:20 final size:20
Alignment explanation
Indices: 33238765--33238803 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33238755 TAAATGTATA
33238765 TTAAAAAAT-TACTAAAAATC
1 TTAAAAAATATA-TAAAAATC
*
33238785 TTAAAAGATATATAAAAAT
1 TTAAAAAATATATAAAAAT
33238804 ACTAATCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
TTAAAAAATATATAAAAATC
Found at i:33240743 original size:48 final size:46
Alignment explanation
Indices: 33240680--33240813 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 46
33240670 GTGATAATTT
*
33240680 TAAATTTTCAATACTATTCGATATTTTTTTAATTTATGCAAATT-TAAA
1 TAAA-TTTCAATACTATT-GATATTTTTTTCATTTATGC-AATTATAAA
* *
33240728 TAAATTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAAT
1 TAAATTT-CAATACTA-TTGATATTTTTTTCATTTATGCAATTATAAA
* *
33240776 TACAATTTCAATACTGCTTGATTTTTTTTTCATTTATG
1 TA-AATTTCAATACT-ATTGATATTTTTTTCATTTATG
33240814 ATGTTTGCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
47 7 0.09
48 61 0.81
49 7 0.09
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (46 bp):
TAAATTTCAATACTATTGATATTTTTTTCATTTATGCAATTATAAA
Done.