Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 165 of 250
Found at i:53131522 original size:93 final size:93
Alignment explanation
Indices: 53131363--53131533 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
53131353 GGATGGTTGA
* * * **
53131363 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCATTGAGT
53131428 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
53131456 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATACGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCATTGAGT
*
53131521 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
53131534 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53131800 original size:19 final size:20
Alignment explanation
Indices: 53131763--53131800 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
53131753 ATAAGGTGGT
53131763 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
53131783 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
53131801 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:53149035 original size:46 final size:46
Alignment explanation
Indices: 53148877--53149045 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 46
53148867 TGCCCCTAAG
* * * * *
53148877 TGAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCATCTATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAC
** * * * * *
53148923 TGAACTCTTACTCAACTCAACGAGTTCAGATGCCTAGTTACAT-C-TCAC
1 TGAACTCGGACTCAACTCAACGAGCTC-G--GAC-ATTTGCATCCATAAC
* *
53148971 -GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAC
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAC
53149016 TGAACTCGGACTCAACTCAACGAGCTCGGA
1 TGAACTCGGACTCAACTCAACGAGCTCGGA
53149046 TGCTCAATCA
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 52 0.53
47 25 0.26
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAC
Found at i:53149037 original size:93 final size:93
Alignment explanation
Indices: 53148878--53149048 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
53148868 GCCCCTAAGT
* * **
53148878 GAACTCGAACTCAACTCAACGAGCTCGGGCATTCGCATCTATAAATGAACTCTTACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
53148943 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGCTCAGATGCCTAGTTACATCTCAC
* * *
53148971 GAACTC-AGACTCAACTCAACGAGTTCGGACATTTGCATCCATAACTGAACTCGGACTCAACTCA
1 GAACTCGA-ACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
53149035 ACGAGCTCGGATGC
65 ACGAGCTCAGATGC
53149049 TCAATCATCC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 1 0.01
93 67 0.99
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:53156558 original size:93 final size:93
Alignment explanation
Indices: 53156443--53156613 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
53156433 GCCCCTAAGT
* *
53156443 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAATGAACTCGTACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
53156507 ACGAGTTCGGATGCCTAGTTACATCTCAG
65 ACGAGGTCGGATGCCTAGTTACATCTCAG
* * *
53156536 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
53156601 CGAGGTCGGATGC
66 CGAGGTCGGATGC
53156614 TCAATCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGGTCGGATGCCTAGTTACATCTCAG
Found at i:53156602 original size:46 final size:46
Alignment explanation
Indices: 53156438--53156610 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
53156428 AACCCGCCCC
* * *
53156438 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * * *
53156484 TAAATGAACTCGTACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
*
53156532 TCAG-GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
53156577 TAAGTGAACTCGGACTCAACTCAACGAGGTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53156611 TGCTCAATCA
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 5 0.05
46 56 0.53
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:53159084 original size:68 final size:67
Alignment explanation
Indices: 53159012--53159161 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
53159002 CATCATGTGT
* * * *
53159012 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
53159074 ATGTAG
62 ATGTAG
** * *
53159080 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
53159145 AG
66 AG
53159147 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
53159162 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:53159117 original size:64 final size:64
Alignment explanation
Indices: 53159036--53159219 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
53159026 AGACATTATG
* *
53159036 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
53159100 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53159165 AA
63 AA
* * * *
53159167 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
53159220 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53175121 original size:40 final size:40
Alignment explanation
Indices: 53175066--53175145 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
53175056 GGGAATGTAC
53175066 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
1 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
53175106 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
1 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
53175146 TTAACTCTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.38
Consensus pattern (40 bp):
AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
Found at i:53175155 original size:40 final size:40
Alignment explanation
Indices: 53175066--53175155 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
53175056 GGGAATGTAC
*
53175066 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
1 AGAACTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
*
53175106 AGAATTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
1 AGAACTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
**
53175146 TTAACTCTTG
1 AGAACTCTTG
53175156 CTTCCATCGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (40 bp):
AGAACTCTTGTTGCGTCATCTTGGTGAAAGGTATGTTGAA
Found at i:53177830 original size:34 final size:34
Alignment explanation
Indices: 53177787--53177855 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
53177777 CGAAGATAAT
* *
53177787 GCCAGTAGAACAGTTCATAGAGAGCTAATGGATG
1 GCCAGTAGAACAGTCCATAGAAAGCTAATGGATG
53177821 GCCAGTAGAACAGTCCATAGAAAGCTAATGGATG
1 GCCAGTAGAACAGTCCATAGAAAGCTAATGGATG
53177855 G
1 G
53177856 TTCATCACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (34 bp):
GCCAGTAGAACAGTCCATAGAAAGCTAATGGATG
Found at i:53183513 original size:14 final size:15
Alignment explanation
Indices: 53183483--53183519 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
53183473 GAAGATTATC
53183483 ACATTTTTATGTAAA
1 ACATTTTTATGTAAA
53183498 ACATTTTTATGTAAA
1 ACATTTTTATGTAAA
*
53183513 CCATTTT
1 ACATTTT
53183520 CCAGCATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (15 bp):
ACATTTTTATGTAAA
Found at i:53183889 original size:17 final size:18
Alignment explanation
Indices: 53183848--53183890 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
53183838 TGTATTTACT
53183848 TATTATATAAGTAAATAG
1 TATTATATAAGTAAATAG
*
53183866 TAATATA-AAGTAAAATA-
1 TATTATATAAGT-AAATAG
53183883 TATTATAT
1 TATTATAT
53183891 TATATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (18 bp):
TATTATATAAGTAAATAG
Found at i:53187815 original size:232 final size:232
Alignment explanation
Indices: 53187510--53187969 Score: 821
Period size: 232 Copynumber: 2.0 Consensus size: 232
53187500 TAACATCTAT
*
53187510 ATATCAAGACTTCATTTGCATAATTTCATTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
1 ATATCAAGACTTCATTTGCATAATTTCACTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
*
53187575 ACTTCAATTCAACCAAAATATAACATCAAAATAAGTAAAATCACATGGCTTAACATATACACAAA
66 ACTTCAATTCAACCAAAATATAACATCAAAATAAGCAAAATCACATGGCTTAACATATACACAAA
*
53187640 AATAAGCTAAAGTCAAGATATCAAGTAGCAAAATTATCATCCTTTAAACTAGCCTATACATGCCA
131 AATAAGCTAAAGTCAAGATATCAAGTAGCAAAACTATCATCCTTTAAACTAGCCTATACATGCCA
*
53187705 TATTTACAAATTCACAAGTTTAAAAGTACCAATCGGA
196 TATTTACAAATTCACAAGTTCAAAAGTACCAATCGGA
53187742 ATATCAAGACTTCATTTGCATAATTTCACTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
1 ATATCAAGACTTCATTTGCATAATTTCACTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
* * * *
53187807 ATTTCAATTGAACCAAAATATAACATCAAAATAAGCCAAATCACATGGCTTAACATATACATAAA
66 ACTTCAATTCAACCAAAATATAACATCAAAATAAGCAAAATCACATGGCTTAACATATACACAAA
* * *
53187872 AATATGCTAAAGTCAAGATATCAAGTAGCATAACTATCATCCTTTAAACTAGCCTATACATGTCA
131 AATAAGCTAAAGTCAAGATATCAAGTAGCAAAACTATCATCCTTTAAACTAGCCTATACATGCCA
53187937 TATTTACAAATTCACAAGTTCAAAAGTACCAAT
196 TATTTACAAATTCACAAGTTCAAAAGTACCAAT
53187970 TGAAATTTGA
Statistics
Matches: 217, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
232 217 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (232 bp):
ATATCAAGACTTCATTTGCATAATTTCACTCCATCTTTCCTTGCTAAAACATACCATAATTGAAC
ACTTCAATTCAACCAAAATATAACATCAAAATAAGCAAAATCACATGGCTTAACATATACACAAA
AATAAGCTAAAGTCAAGATATCAAGTAGCAAAACTATCATCCTTTAAACTAGCCTATACATGCCA
TATTTACAAATTCACAAGTTCAAAAGTACCAATCGGA
Found at i:53188491 original size:46 final size:46
Alignment explanation
Indices: 53188436--53188583 Score: 160
Period size: 46 Copynumber: 3.2 Consensus size: 46
53188426 AGCTGATAAA
53188436 CAGTAAGCTCTATTGAGCTGAAAATGGTAAGCCCTATTGAGCTGAA-
1 CAGTAAGCTCTATTGAGCTG-AAATGGTAAGCCCTATTGAGCTGAAT
* *
53188482 CAGTAAGCTCTATCGAGCT-AAATCGGTAAGCTCC-AATGAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAAT-GGTAAGC-CCTATTGAGCTGAAT
* * * * * *
53188528 CGGTAAGCTCCAATGAGCTGAAATAGTAAGCTCT-TACGAGCTGAAT
1 CAGTAAGCTCTATTGAGCTGAAATGGTAAGCCCTAT-TGAGCTGAAT
53188574 CAGTAAGCTC
1 CAGTAAGCTC
53188584 ATACGAGCTA
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
44 4 0.05
45 18 0.21
46 59 0.69
47 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (46 bp):
CAGTAAGCTCTATTGAGCTGAAATGGTAAGCCCTATTGAGCTGAAT
Found at i:53188514 original size:23 final size:23
Alignment explanation
Indices: 53188432--53188593 Score: 106
Period size: 23 Copynumber: 7.1 Consensus size: 23
53188422 CCCGAGCTGA
*
53188432 TAAA-CAGTAAGCTCTATTGAGC
1 TAAATCAGTAAGCTCTATCGAGC
* * *
53188454 TGAAAAT-GGTAAGCCCTATTGAGC
1 T--AAATCAGTAAGCTCTATCGAGC
*
53188478 TGAA-CAGTAAGCTCTATCGAGC
1 TAAATCAGTAAGCTCTATCGAGC
* *
53188500 TAAATCGGTAAGCTCCAAT-GAGC
1 TAAATCAGTAAGCT-CTATCGAGC
* * *
53188523 TGAATCGGTAAGCTCCAAT-GAGC
1 TAAATCAGTAAGCT-CTATCGAGC
53188546 TGAAAT-AGTAAGCTCT-TACGAGC
1 T-AAATCAGTAAGCTCTAT-CGAGC
*
53188569 TGAATCAGTAAGCTC-ATACGAGC
1 TAAATCAGTAAGCTCTAT-CGAGC
53188592 TA
1 TA
53188594 TGGTGAGTCC
Statistics
Matches: 114, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.01
22 24 0.21
23 64 0.56
24 25 0.22
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (23 bp):
TAAATCAGTAAGCTCTATCGAGC
Found at i:53188526 original size:69 final size:69
Alignment explanation
Indices: 53188432--53188583 Score: 179
Period size: 69 Copynumber: 2.2 Consensus size: 69
53188422 CCCGAGCTGA
* * *
53188432 TAAA-CAGTAAGCTCTATTGAGCTGAAAAT-GGTAAGC-CCTATTGAGCTG-AACAGTAAGCTC-
1 TAAATCAGTAAGCTCCAATGAGCTG--AATCGGTAAGCTCC-AATGAGCTGAAACAGTAAGCTCT
53188492 TATCGAGC
63 TA-CGAGC
* *
53188500 TAAATCGGTAAGCTCCAATGAGCTGAATCGGTAAGCTCCAATGAGCTGAAATAGTAAGCTCTTAC
1 TAAATCAGTAAGCTCCAATGAGCTGAATCGGTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTAC
53188565 GAGC
66 GAGC
*
53188569 TGAATCAGTAAGCTC
1 TAAATCAGTAAGCTC
53188584 ATACGAGCTA
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
67 3 0.04
68 19 0.26
69 48 0.67
70 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (69 bp):
TAAATCAGTAAGCTCCAATGAGCTGAATCGGTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTAC
GAGC
Found at i:53191026 original size:16 final size:16
Alignment explanation
Indices: 53190983--53191020 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
53190973 TTATTTATAT
*
53190983 TTATTCATATAATAAA
1 TTATTAATATAATAAA
53190999 TTATTAATATAATAAA
1 TTATTAATATAATAAA
53191015 TTATTA
1 TTATTA
53191021 TAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:53191064 original size:13 final size:14
Alignment explanation
Indices: 53191048--53191089 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
53191038 TTTCAATTTT
53191048 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
53191061 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
53191076 ATTTTAAATAATAT
1 ATTTT-AATAATAT
53191090 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:53191074 original size:16 final size:16
Alignment explanation
Indices: 53191052--53191088 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
53191042 AATTTTATTT
53191052 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
53191069 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
53191084 TAATA
1 TAATA
53191089 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:53195263 original size:18 final size:18
Alignment explanation
Indices: 53195240--53195277 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
53195230 TATTTCTCAA
*
53195240 TTCTCAATTCTCACACAT
1 TTCTCAATACTCACACAT
*
53195258 TTCTCAATAGTCACACAT
1 TTCTCAATACTCACACAT
53195276 TT
1 TT
53195278 TTTAGAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (18 bp):
TTCTCAATACTCACACAT
Found at i:53195748 original size:21 final size:22
Alignment explanation
Indices: 53195722--53195777 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
53195712 TTTTGTCTTA
53195722 GGGCAGCTTGTTGA-TGAGTTG
1 GGGCAGCTTGTTGACTGAGTTG
* * *
53195743 GGGCAG-TAGGTAACTGAGTTG
1 GGGCAGCTTGTTGACTGAGTTG
*
53195764 GGGCAGCCTGTTGA
1 GGGCAGCTTGTTGA
53195778 ATTGGGGTAC
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 3 0.12
ACGTcount: A:0.18, C:0.12, G:0.43, T:0.27
Consensus pattern (22 bp):
GGGCAGCTTGTTGACTGAGTTG
Found at i:53195825 original size:21 final size:21
Alignment explanation
Indices: 53195779--53195818 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53195769 GCCTGTTGAA
*
53195779 TTGGGGTACCCTCTTGCTGGC
1 TTGGGGTACCCTATTGCTGGC
*
53195800 TTGGGGTAGCCTATTGCTG
1 TTGGGGTACCCTATTGCTG
53195819 AGTTGGGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.35, T:0.35
Consensus pattern (21 bp):
TTGGGGTACCCTATTGCTGGC
Found at i:53196584 original size:40 final size:40
Alignment explanation
Indices: 53196529--53196670 Score: 198
Period size: 40 Copynumber: 3.5 Consensus size: 40
53196519 AAAAAAATAC
53196529 TCACTGCATGCATATTAAAAAATAGACAACATACCAACAA
1 TCACTGCATGCATATTAAAAAATAGACAACATACCAACAA
* *
53196569 TCACTGTATGCATATTAAAAAATAGGC-A-ATACCCAAACAA
1 TCACTGCATGCATATTAAAAAATAGACAACATA-CC-AACAA
* * *
53196609 TCACTGCATGCATATTAAAAAATAGTCAACACAACAACAA
1 TCACTGCATGCATATTAAAAAATAGACAACATACCAACAA
*
53196649 TCAGTGCATGCATATTAAAAAA
1 TCACTGCATGCATATTAAAAAA
53196671 CATTTACTAA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
38 3 0.03
39 3 0.03
40 81 0.89
41 2 0.02
42 2 0.02
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.22
Consensus pattern (40 bp):
TCACTGCATGCATATTAAAAAATAGACAACATACCAACAA
Found at i:53198870 original size:12 final size:12
Alignment explanation
Indices: 53198789--53198872 Score: 55
Period size: 12 Copynumber: 7.0 Consensus size: 12
53198779 AAATAACCCT
* *
53198789 AAATCGAAATCC
1 AAATCTAAATCA
*
53198801 AAATCGAAATCAA
1 AAATCTAAATC-A
* *
53198814 AAAT-TAATTCT
1 AAATCTAAATCA
*
53198825 AATTCTAAATCA
1 AAATCTAAATCA
* * *
53198837 ATATCAAAATCG
1 AAATCTAAATCA
53198849 AAAT-TGAAATCA
1 AAATCT-AAATCA
53198861 AAATCTAAATCA
1 AAATCTAAATCA
53198873 GAATTGGTGA
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
11 3 0.06
12 46 0.85
13 5 0.09
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.26
Consensus pattern (12 bp):
AAATCTAAATCA
Found at i:53198912 original size:18 final size:18
Alignment explanation
Indices: 53198888--53198953 Score: 87
Period size: 18 Copynumber: 3.7 Consensus size: 18
53198878 GGTGAGTGTT
*
53198888 TCAAAATTGTAATCAAAA
1 TCAAAATTGAAATCAAAA
*
53198906 TCGAAATTGAAATCAAAA
1 TCAAAATTGAAATCAAAA
**
53198924 TCAAAATCAAAATCAAAA
1 TCAAAATTGAAATCAAAA
*
53198942 TTAAAATTGAAA
1 TCAAAATTGAAA
53198954 CCGAAATAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.59, C:0.11, G:0.06, T:0.24
Consensus pattern (18 bp):
TCAAAATTGAAATCAAAA
Found at i:53198949 original size:6 final size:6
Alignment explanation
Indices: 53198898--53198948 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
53198888 TCAAAATTGT
* ** *
53198898 AATCAA AATCGA AATTGA AATCAA AATCAA AATCAA AATCAA AATTAA
1 AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA AATCAA
53198946 AAT
1 AAT
53198949 TGAAACCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.63, C:0.12, G:0.04, T:0.22
Consensus pattern (6 bp):
AATCAA
Found at i:53199700 original size:27 final size:27
Alignment explanation
Indices: 53199670--53199721 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
53199660 TTAATAACTA
*
53199670 TAATTAAAAA-TATAATATTTAAAATTT
1 TAATTAAAAATTA-AATATATAAAATTT
*
53199697 TAATTAAATATTAAATATATAAAAT
1 TAATTAAAAATTAAATATATAAAAT
53199722 CACATGCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TAATTAAAAATTAAATATATAAAATTT
Found at i:53207192 original size:7 final size:7
Alignment explanation
Indices: 53207180--53207215 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
53207170 TATATATATG
53207180 GTGAAGA
1 GTGAAGA
53207187 GTGAAGA
1 GTGAAGA
53207194 GTGAAGA
1 GTGAAGA
53207201 GTGAAGA
1 GTGAAGA
53207208 GTGAAGA
1 GTGAAGA
53207215 G
1 G
53207216 AGTGGGACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.44, T:0.14
Consensus pattern (7 bp):
GTGAAGA
Found at i:53208976 original size:22 final size:21
Alignment explanation
Indices: 53208925--53208977 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
53208915 AAATTATATG
* * *
53208925 AAAATTAAAATTTAAATATAA
1 AAAATGAAAATTAAAAGATAA
*
53208946 AAGAGTGAAAATTAAAAGGATAA
1 AA-AATGAAAATTAAAA-GATAA
53208969 AAAATGAAA
1 AAAATGAAA
53208978 GGGTTATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (21 bp):
AAAATGAAAATTAAAAGATAA
Found at i:53211247 original size:30 final size:28
Alignment explanation
Indices: 53211192--53211265 Score: 87
Period size: 30 Copynumber: 2.6 Consensus size: 28
53211182 TTTTACCTTG
*
53211192 TGTATATTTTGAATTTATATATATATAT
1 TGTATATTTTAAATTTATATATATATAT
*
53211220 AT-TATATTTTAAACTATTATATGTATATAT
1 -TGTATATTTTAAA-T-TTATATATATATAT
*
53211250 TGTCTATTTTAAATTT
1 TGTATATTTTAAATTT
53211266 CATGTGTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 12 0.31
29 4 0.10
30 23 0.59
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (28 bp):
TGTATATTTTAAATTTATATATATATAT
Found at i:53211488 original size:20 final size:21
Alignment explanation
Indices: 53211463--53211517 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
53211453 TATTACTTTC
53211463 ATTCTT-TATTCACTATTATT
1 ATTCTTATATTCACTATTATT
* *
53211483 ATTCTTACTAATGCATTATTATT
1 ATTCTTA-T-ATTCACTATTATT
53211506 ATTCTTATATTC
1 ATTCTTATATTC
53211518 TACTTCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
21 3 0.10
22 2 0.07
23 18 0.62
ACGTcount: A:0.27, C:0.15, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTCTTATATTCACTATTATT
Found at i:53211820 original size:3 final size:3
Alignment explanation
Indices: 53211812--53211901 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
53211802 GTATTTACTT
* * *
53211812 TTA TTA TTA CTTA -TA TTA TTA TTA CTA TTA TCA TTA TGA TTTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * *
53211858 CT- TTA TTA TTA TCA TTA TTA CTA CTA TTA -TA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
53211902 ATTTTTGCCC
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
2 5 0.07
3 60 0.86
4 5 0.07
ACGTcount: A:0.32, C:0.08, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:53211867 original size:27 final size:25
Alignment explanation
Indices: 53211806--53211904 Score: 82
Period size: 26 Copynumber: 4.0 Consensus size: 25
53211796 CTCTCTGTAT
53211806 TTACTTTTATTATTA-C-TTATATTA
1 TTAC-TTTATTATTATCATTATATTA
*
53211830 TTA--TTACTATTATCATTATGATTTA
1 TTACTTTATTATTATCATTAT-A-TTA
*
53211855 TTACTTTATTATTATCATTATTACTA
1 TTACTTTATTATTATCATTA-TATTA
* *
53211881 CTA-TTATATTATTATTATTATATT
1 TTACTT-TATTATTATCATTATATT
53211905 TTTGCCCATT
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
21 8 0.13
22 1 0.02
23 4 0.07
24 4 0.07
25 11 0.18
26 17 0.28
27 15 0.25
28 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (25 bp):
TTACTTTATTATTATCATTATATTA
Found at i:53215232 original size:12 final size:13
Alignment explanation
Indices: 53215214--53215245 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
53215204 TCGATATCTC
53215214 AATTTCAATTCAT
1 AATTTCAATTCAT
53215227 -ATTTCAATTCAT
1 AATTTCAATTCAT
53215239 AATTTCA
1 AATTTCA
53215246 CTTTCTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTCAATTCAT
Found at i:53216872 original size:20 final size:20
Alignment explanation
Indices: 53216847--53216887 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
53216837 CTGTTTCGAA
53216847 TGCTGTCTGTTCTTTCTCCT
1 TGCTGTCTGTTCTTTCTCCT
53216867 TGCTGTCTGTTCTTTCTCCT
1 TGCTGTCTGTTCTTTCTCCT
53216887 T
1 T
53216888 TCTTTTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.29, G:0.15, T:0.56
Consensus pattern (20 bp):
TGCTGTCTGTTCTTTCTCCT
Found at i:53217212 original size:23 final size:24
Alignment explanation
Indices: 53217156--53217214 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
53217146 AAATAAATTA
* *
53217156 TTTTATAACAAGTGTACATATATC
1 TTTTATTACAAATGTACATATATC
53217180 TATTTATTACAAATGTACCA-ATAT-
1 T-TTTATTACAAATGTA-CATATATC
53217204 TTTTATTACAA
1 TTTTATTACAA
53217215 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 17 0.55
26 2 0.06
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (24 bp):
TTTTATTACAAATGTACATATATC
Found at i:53217428 original size:3 final size:3
Alignment explanation
Indices: 53217420--53217462 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
53217410 GACTTCATTT
*
53217420 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
53217463 TAAATCTACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:53219720 original size:30 final size:29
Alignment explanation
Indices: 53219665--53219744 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
53219655 TTAAATTAGT
53219665 AATAATAAAATTATACATTATCTTTTAAA
1 AATAATAAAATTATACATTATCTTTTAAA
*
53219694 AATAATAAAATTTTA-ATTTAATCTTTTAAA
1 AATAATAAAATTATACA-TT-ATCTTTTAAA
* * * *
53219724 AGTTATAAAAATATAGATTAT
1 AATAATAAAATTATACATTAT
53219745 TAAAATGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.02
29 18 0.42
30 23 0.53
31 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (29 bp):
AATAATAAAATTATACATTATCTTTTAAA
Found at i:53227767 original size:14 final size:15
Alignment explanation
Indices: 53227743--53227775 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
53227733 TATCATTATT
53227743 TCATGTTTTCATATA
1 TCATGTTTTCATATA
*
53227758 TCAT-TTTTCATGTA
1 TCATGTTTTCATATA
53227772 TCAT
1 TCAT
53227776 CATTTGCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.55
Consensus pattern (15 bp):
TCATGTTTTCATATA
Found at i:53234899 original size:3 final size:3
Alignment explanation
Indices: 53234891--53234921 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
53234881 CCTCTTTTGT
*
53234891 ATA ATA ATA ATA ATA ATA ATA ATT ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
53234922 AAGCAGTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:53235556 original size:22 final size:22
Alignment explanation
Indices: 53235515--53235573 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
53235505 GTTTTAAGAA
* *
53235515 TTGTTTTAGTA-TCATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
53235536 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
53235558 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
53235574 GATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.48
22 10 0.30
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.68
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:53235572 original size:20 final size:22
Alignment explanation
Indices: 53235528--53235573 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
53235518 TTTTAGTATC
* *
53235528 ATTTTTATTTGTTTTAATATTT
1 ATTTTTATGTGTTTTAATATAT
53235550 ATTTTTATGT-TTTTAA-ATAT
1 ATTTTTATGTGTTTTAATATAT
53235570 ATTT
1 ATTT
53235574 GATTTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTTTATGTGTTTTAATATAT
Found at i:53235590 original size:26 final size:24
Alignment explanation
Indices: 53235544--53235603 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
53235534 ATTTGTTTTA
*
53235544 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
53235568 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
53235594 TTTTTTATTT
1 ATATTTATTT
53235604 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:53241035 original size:27 final size:27
Alignment explanation
Indices: 53241005--53241069 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
53240995 GATCACTGAA
* *
53241005 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
53241032 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
*
53241059 CACCTTGCCAT
1 CACTTTGCCAT
53241070 AGTTCAACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.37
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:53241205 original size:31 final size:31
Alignment explanation
Indices: 53241159--53241337 Score: 268
Period size: 31 Copynumber: 5.8 Consensus size: 31
53241149 CTTTTCACTT
* * *
53241159 GTAGCCGAAGTTACCACTATTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
53241190 GTAGCTGGAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
53241221 GTAGCCGAAGCTACTACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
53241252 GTAGCTGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
53241283 GTAGCCGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
53241314 GTAGCCGAAGCTTCCACTTTTCAC
1 GTAGCCGAAGCTACCACTTTTCAC
53241338 ATTGTACACA
Statistics
Matches: 133, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 133 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:53241420 original size:33 final size:33
Alignment explanation
Indices: 53241330--53241442 Score: 140
Period size: 33 Copynumber: 3.5 Consensus size: 33
53241320 GAAGCTTCCA
* *
53241330 CTTTTCACA-TTGTACACACAAGGCGTACATTTC
1 CTTTTCA-AGTTGTACACACAAAGTGTACATTTC
*
53241363 CTTTTCAAG-TGTACACACAAAGTGTACGTTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
* * *
53241395 CTTTTTAAGTTGTATACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
*
53241428 CTTTTCCAGTTGTAC
1 CTTTTCAAGTTGTAC
53241443 CTTTTAGGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
32 29 0.43
33 39 0.57
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGTGTACATTTC
Found at i:53242553 original size:21 final size:21
Alignment explanation
Indices: 53242528--53242570 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
53242518 CTTACACCAT
53242528 TTCTTCTATGAAAAACTAGAC
1 TTCTTCTATGAAAAACTAGAC
53242549 TTCTTCTATGAAAAACTAGAC
1 TTCTTCTATGAAAAACTAGAC
53242570 T
1 T
53242571 CAGTAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (21 bp):
TTCTTCTATGAAAAACTAGAC
Found at i:53243160 original size:11 final size:11
Alignment explanation
Indices: 53243144--53243193 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
53243134 TATACTAAAT
53243144 AAATATTAATA
1 AAATATTAATA
53243155 AAATATTAAT-
1 AAATATTAATA
*
53243165 AAATATCTCATTA
1 AAATAT-T-AATA
53243178 AAATATTAATA
1 AAATATTAATA
53243189 AAATA
1 AAATA
53243194 ATATTTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 6 0.18
11 19 0.56
12 3 0.09
13 6 0.18
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATATTAATA
Found at i:53243183 original size:23 final size:21
Alignment explanation
Indices: 53243141--53243190 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 21
53243131 TTATATACTA
53243141 AATAAATATTAATAAAATATT
1 AATAAATATTAATAAAATATT
*
53243162 AATAAATATCTCATTAAAATATT
1 AATAAATAT-T-AATAAAATATT
53243185 AATAAA
1 AATAAA
53243191 ATAATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 9 0.35
22 1 0.04
23 16 0.62
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
AATAAATATTAATAAAATATT
Found at i:53243449 original size:23 final size:23
Alignment explanation
Indices: 53243412--53243455 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
53243402 GATCATTCCA
53243412 TCCTTAAAATATTTTCACTATTGG
1 TCCTTAAAATATTTTCA-TATTGG
*
53243436 TCCTTCAAA-ATTTTCATATT
1 TCCTTAAAATATTTTCATATT
53243456 TACACTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.48
Consensus pattern (23 bp):
TCCTTAAAATATTTTCATATTGG
Found at i:53244582 original size:49 final size:48
Alignment explanation
Indices: 53244528--53244629 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 48
53244518 TTATTTAAAC
* * *
53244528 TATTTTAATTTTGAGTCATATTTGGTTTAGGTCAATTTTGAATGCAAAT
1 TATTTTAATTTTGAGTCATATTTGATTTAGGT-AAATTTGAACGCAAAT
53244577 TATTTTAATTTTGAGTCATATTTGATTTAGGTAAATTTGAACGCAAAT
1 TATTTTAATTTTGAGTCATATTTGATTTAGGTAAATTTGAACGCAAAT
53244625 TATTT
1 TATTT
53244630 AGGGTTTGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
48 19 0.38
49 31 0.62
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (48 bp):
TATTTTAATTTTGAGTCATATTTGATTTAGGTAAATTTGAACGCAAAT
Found at i:53247313 original size:151 final size:151
Alignment explanation
Indices: 53246877--53247735 Score: 1317
Period size: 151 Copynumber: 5.7 Consensus size: 151
53246867 CAGTTTTTTT
*
53246877 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTTAAATAATAT---AAA-AAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* * * *
53246938 ACGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATATTAAAAATACAAACAAAAGG-CCAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAA-GAAAGGACCAAA
* *
53247002 ATCAGTGTTATTTATTAAATTA
130 ATCAGGGTTATTTACTAAATTA
* * *
53247024 ATATAAAAAACACTAAATTAATACATGTGAAATATTATGTACTAAAATAATAT-AAAAA-AAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* *
53247087 ACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAGGGCCAAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAGGACCAAAA
*
53247152 TCAGGATTATTTACTAAATTA
131 TCAGGGTTATTTACTAAATTA
*
53247173 ATATAAAAAACACTAAAATAATACATTTGAAATATTATGTACTAAAATAATATAAAAAATAAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* * *
53247238 ACGAAAATAGTATATTTTTAAAAATAAAATTCGAAAACTTTAAAAATATAAAGAAAGGACCAAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAGGACCAAAA
53247303 TCAGGGTTATTTACTAAATTA
131 TCAGGGTTATTTACTAAATTA
53247324 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
1 ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
* ** *
53247389 ACGAAAATAATATATTTTTAAAAATAAAATCCGGGAATTTTAAAAATACAAACAAAGGGA-CAAA
66 ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAA-GGACCAAA
* * *
53247453 TTTAGGTTTATTTACTAAATTA
130 ATCAGGGTTATTTACTAAATTA
*
53247475 ATATAAAAAAACACT--AATAATACATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAA
1 ATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAA
* **
53247538 TATGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAAGGGTCAA
65 TACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAG-AAAGGACCAA
53247603 AATCAGGGTTATTTACTAAATTA
129 AATCAGGGTTATTTACTAAATTA
*
53247626 ATATAAAAAAACACTAAAATAATACATTTGAAACATTATATACTAAAATAATA-AAAAAATAAAA
1 ATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAA
* *
53247690 TATGAAAATAGTATATTTTTAAAAATAAGATCCGAAAATTTTAAAA
65 TACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAA
53247736 TAGGAAATTT
Statistics
Matches: 659, Mismatches: 42, Indels: 17
0.92 0.06 0.02
Matches are distributed among these distances:
147 49 0.07
148 5 0.01
149 133 0.20
150 103 0.16
151 266 0.40
152 69 0.10
153 34 0.05
ACGTcount: A:0.57, C:0.08, G:0.07, T:0.29
Consensus pattern (151 bp):
ATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAAT
ACGAAAATAGTATATTTTTAAAAATAAAATCCGAAAATTTTAAAAATACAAAGAAAGGACCAAAA
TCAGGGTTATTTACTAAATTA
Found at i:53247951 original size:15 final size:15
Alignment explanation
Indices: 53247908--53247951 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
53247898 GCTGGGTGTA
*
53247908 TTAAATATATTATATT
1 TTAAAT-TATAATATT
* *
53247924 TTAAACTAAAATATT
1 TTAAATTATAATATT
53247939 TTAAATTATAATA
1 TTAAATTATAATA
53247952 AAAATATTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAATTATAATATT
Found at i:53248094 original size:19 final size:18
Alignment explanation
Indices: 53248072--53248108 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
53248062 CTTTTTTTTA
53248072 TTTTTTTTTCGTTTTTAAC
1 TTTTTTTTTC-TTTTTAAC
53248091 TTTTTTTTTCTTTTTAAC
1 TTTTTTTTTCTTTTTAAC
53248109 AGAAAATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTAAC
Found at i:53248424 original size:20 final size:19
Alignment explanation
Indices: 53248388--53248431 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
53248378 TCATTTTATG
*
53248388 TAAAAAATTTTAAAAATA-
1 TAAAAAAATTTAAAAATAT
53248406 TAAAAAAATTTAAGCAAATAT
1 TAAAAAAATTTAA--AAATAT
53248427 TAAAA
1 TAAAA
53248432 TCAAACTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
20 5 0.23
21 5 0.23
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
TAAAAAAATTTAAAAATAT
Found at i:53251814 original size:13 final size:13
Alignment explanation
Indices: 53251796--53251821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53251786 AATTTTACTA
53251796 AAATTTTATATTT
1 AAATTTTATATTT
53251809 AAATTTTATATTT
1 AAATTTTATATTT
53251822 CATTTAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AAATTTTATATTT
Found at i:53252219 original size:20 final size:20
Alignment explanation
Indices: 53252191--53252236 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
53252181 TAATAATTAT
* *
53252191 TTTTA-ATATTTAAAATATA
1 TTTTATATATTCAAAATAAA
*
53252210 TTTTATATATTCAAATTAAA
1 TTTTATATATTCAAAATAAA
53252230 TTTTATA
1 TTTTATA
53252237 AACAATTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTATATATTCAAAATAAA
Found at i:53252906 original size:23 final size:22
Alignment explanation
Indices: 53252866--53252909 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
53252856 ACATCAAAGA
**
53252866 ATAATTTTAAAATGATATAAAT
1 ATAATTTTAAAAAAATATAAAT
53252888 ATAATTTTAAAAAAAATATAAA
1 ATAATTTT-AAAAAAATATAAA
53252910 AAGTTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAATTTTAAAAAAATATAAAT
Found at i:53267579 original size:28 final size:28
Alignment explanation
Indices: 53267520--53267582 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
53267510 AAAGGCCCTT
* * *
53267520 TTTTTAATTAATTAGGTTTTTAGGTATT
1 TTTTAAATTAATTAGGTCTTTAGGTATG
53267548 TTTTAAATTAATTAGGTCTTTAGGT-TGG
1 TTTTAAATTAATTAGGTCTTTAGGTAT-G
53267576 TTTTAAA
1 TTTTAAA
53267583 ATTATTAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.56
Consensus pattern (28 bp):
TTTTAAATTAATTAGGTCTTTAGGTATG
Found at i:53267579 original size:29 final size:28
Alignment explanation
Indices: 53267518--53267572 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
53267508 GTAAAGGCCC
* *
53267518 TTTTTTTAATTAATTAGGTTTTTAGGTA
1 TTTTTTAAATTAATTAGGTCTTTAGGTA
53267546 TTTTTTAAATTAATTAGGTCTTTAGGT
1 TTTTTTAAATTAATTAGGTCTTTAGGT
53267573 TGGTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (28 bp):
TTTTTTAAATTAATTAGGTCTTTAGGTA
Found at i:53267836 original size:9 final size:9
Alignment explanation
Indices: 53267808--53267864 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
53267798 TTCACATTCA
53267808 TCTCTCAAC
1 TCTCTCAAC
* *
53267817 TCTCGCGAC
1 TCTCTCAAC
53267826 TCTCTCAAC
1 TCTCTCAAC
53267835 TCTCTCAAAC
1 TCTCTC-AAC
* * *
53267845 CCTTTCAAG
1 TCTCTCAAC
53267854 TCTCTCAAC
1 TCTCTCAAC
53267863 TC
1 TC
53267865 ACTCGTTTTA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
9 30 0.81
10 7 0.19
ACGTcount: A:0.21, C:0.42, G:0.05, T:0.32
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:53268544 original size:30 final size:30
Alignment explanation
Indices: 53268510--53268566 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
53268500 AGGCACTTCT
53268510 ACACGGGT-GAGCCACACGCCCGTGTGTGAC
1 ACACGGGTAGA-CCACACGCCCGTGTGTGAC
53268540 ACACGGGTAGACCACACGCCCGTGTGT
1 ACACGGGTAGACCACACGCCCGTGTGT
53268567 CATGGCCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.33, G:0.32, T:0.14
Consensus pattern (30 bp):
ACACGGGTAGACCACACGCCCGTGTGTGAC
Found at i:53269779 original size:16 final size:15
Alignment explanation
Indices: 53269739--53269787 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
53269729 TTAGTGAAAG
53269739 ATATTTAT-TAAATAA
1 ATATTTATAT-AATAA
*
53269754 ATAATTATATAATAA
1 ATATTTATATAATAA
*
53269769 TATATTTATATGATAA
1 -ATATTTATATAATAA
53269785 ATA
1 ATA
53269788 AATGTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
ATATTTATATAATAA
Found at i:53272077 original size:46 final size:46
Alignment explanation
Indices: 53272025--53272161 Score: 229
Period size: 46 Copynumber: 3.0 Consensus size: 46
53272015 GTGTGCTCTC
**
53272025 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
*
53272071 TGATATGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
53272117 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
53272162 ATGACAGAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:53272167 original size:46 final size:46
Alignment explanation
Indices: 53272039--53272214 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
53272029 ATGAAATGTG
* * *
53272039 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
* *
53272085 TAAGACTATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
53272131 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G-A--A
* * * *
53272180 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
53272215 TTAAAGATAA
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
45 5 0.04
46 79 0.68
47 1 0.01
49 1 0.01
50 30 0.26
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
Found at i:53273866 original size:46 final size:46
Alignment explanation
Indices: 53273816--53274029 Score: 259
Period size: 46 Copynumber: 4.6 Consensus size: 46
53273806 AACTGTGTAT
* * **
53273816 GACCATGGTTGAAAGATACCATGGCAACCTAATATAAAATGTGTAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGATATAAAATGAATAA
*
53273862 GACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGATATAAAATGAATAA
*
53273908 GACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAATAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGATAT-AAAATGAATAA
* * * *
53273954 GACCATAGTTGAAAGATACCATGGCAACATGACAAAAAATGAATGAGTAA
1 GACCATGGTTGAAAGATACCATGGCAACGTGATATAAAATG-A--A-TAA
* * *
53274004 GACCATAGTTGAAAGACACTATGGCA
1 GACCATGGTTGAAAGATACCATGGCA
53274030 TGATGTCAAA
Statistics
Matches: 150, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
45 4 0.03
46 114 0.76
47 4 0.03
49 1 0.01
50 27 0.18
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (46 bp):
GACCATGGTTGAAAGATACCATGGCAACGTGATATAAAATGAATAA
Found at i:53287458 original size:12 final size:12
Alignment explanation
Indices: 53287443--53287468 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53287433 AATTACTCCT
53287443 TAAAACTCTAAC
1 TAAAACTCTAAC
53287455 TAAAACTCTAAC
1 TAAAACTCTAAC
53287467 TA
1 TA
53287469 TTCAACAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAACTCTAAC
Found at i:53287879 original size:38 final size:38
Alignment explanation
Indices: 53287834--53287909 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
53287824 TTAAGGGTAT
53287834 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
1 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
53287872 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
1 GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
53287910 ATTCCTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (38 bp):
GTTTATTTTATAAGTCCTTACATAAGTTTAATTTAAAG
Found at i:53289352 original size:12 final size:13
Alignment explanation
Indices: 53289335--53289364 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
53289325 TTTCACTTTG
53289335 TTTTAG-TTTTAA
1 TTTTAGTTTTTAA
53289347 TTTTAGTTTTTAA
1 TTTTAGTTTTTAA
53289360 TTTTA
1 TTTTA
53289365 AACCTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTTTAGTTTTTAA
Found at i:53289671 original size:43 final size:43
Alignment explanation
Indices: 53289611--53289817 Score: 324
Period size: 43 Copynumber: 4.8 Consensus size: 43
53289601 GTTTATTGAA
* *
53289611 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGTGTTTGTTGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
* *
53289654 AAAAGCGCCGCAAAAGGTCAAGGCTTTTAGCGGCGTTTGTTAG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
*
53289697 AAAGGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
* * **
53289740 AAAAGCGCCGCTAAAGATCAAGGCTTTTAGTGGCGTTTGCAGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
*
53289783 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGTGGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCG
53289818 CTTTTTCTAC
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 151 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTTGG
Found at i:53289927 original size:31 final size:31
Alignment explanation
Indices: 53289892--53289958 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
53289882 CTTCCTGCAT
* *
53289892 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
53289923 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
53289954 TAAAA
1 TAAAA
53289959 AATACAATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:53295828 original size:9 final size:9
Alignment explanation
Indices: 53295814--53295932 Score: 94
Period size: 9 Copynumber: 12.6 Consensus size: 9
53295804 ATGTATTAGT
53295814 TAAGTTATG
1 TAAGTTATG
53295823 TAAGTTGTTATG
1 TAA---GTTATG
*
53295835 TACGTTATG
1 TAAGTTATG
* *
53295844 TGACTTATG
1 TAAGTTATG
*
53295853 TAAATTATG
1 TAAGTTATG
*
53295862 TGAGTTATG
1 TAAGTTATG
53295871 TAAGTTGTTATG
1 TAA---GTTATG
*
53295883 TAAATTATG
1 TAAGTTATG
*
53295892 TAAGTTATA
1 TAAGTTATG
*
53295901 TGAGTTATG
1 TAAGTTATG
53295910 TAAGTTATG
1 TAAGTTATG
* *
53295919 TAATTTATT
1 TAAGTTATG
53295928 TAAGT
1 TAAGT
53295933 AATGATCAAT
Statistics
Matches: 86, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
9 69 0.80
12 17 0.20
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:53295873 original size:48 final size:48
Alignment explanation
Indices: 53295814--53295921 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
53295804 ATGTATTAGT
** * *
53295814 TAAGTTATGTAAGTTGTTATGTACGTTATGTGACTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAACTTATATAAATTATG
* * * *
53295862 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAACTTATATAAATTATG
53295910 TAAGTTATGTAA
1 TAAGTTATGTAA
53295922 TTTATTTAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAACTTATATAAATTATG
Found at i:53295881 original size:39 final size:39
Alignment explanation
Indices: 53295838--53295915 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
53295828 TGTTATGTAC
* * *
53295838 GTTATGTGACTTATGTAAATTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAATTATATGAGTTATGTAAGTT
*
53295877 GTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAATTATATGAGTTATGTAAGTT
53295916 ATGTAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAATTATATGAGTTATGTAAGTT
Found at i:53296475 original size:241 final size:241
Alignment explanation
Indices: 53296052--53296758 Score: 1326
Period size: 241 Copynumber: 2.9 Consensus size: 241
53296042 TGAATATAGT
*
53296052 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGG
53296117 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTT-AAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
* *
53296181 AAGTTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATGAA
131 AAG-TTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAA
53296246 TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
195 TATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
***
53296293 AATTTTTTAAGATTCATCATACGTGATATTGTTACACCTAGGGAGGATCCATTATATCTTACAGG
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGG
53296358 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
53296423 AAGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
131 AAGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
53296488 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
*
53296534 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAGG
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGG
53296599 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
*
53296664 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
131 AAGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
53296729 ATTCAATAGTAAATGAGCTCGATAGAACTT
196 ATTCAATAGTAAATGAGCTCGATAGAACTT
53296759 AAAAAGGTAT
Statistics
Matches: 454, Mismatches: 11, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
241 446 0.98
242 8 0.02
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGG
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAAAA
AAGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGCACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
Found at i:53296867 original size:24 final size:24
Alignment explanation
Indices: 53296800--53296870 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
53296790 TTAACTTAAA
* *
53296800 TGATAAAATGGACGATAATATTTG
1 TGATAAAACGGAAGATAATATTTG
*
53296824 TGATAAAACAGACA-ATAATATTTG
1 TGATAAAACGGA-AGATAATATTTG
*
53296848 TGATAAAACGGAAGAGAATATTT
1 TGATAAAACGGAAGATAATATTT
53296871 CAATAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 39 0.98
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (24 bp):
TGATAAAACGGAAGATAATATTTG
Found at i:53297007 original size:64 final size:64
Alignment explanation
Indices: 53296918--53297051 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
53296908 ATATTTTATT
* *
53296918 AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATCAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAG
* *
53296982 AAATATTTTTATATTAGATGAGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAG
53297046 AAATAT
1 AAATAT
53297052 AGAAATATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.38
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGAGACATATTATATCAATAAATAAATTTATCAAAAATCGTGATAG
Found at i:53300208 original size:18 final size:18
Alignment explanation
Indices: 53300185--53300223 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
53300175 ACCCTAAAAC
53300185 CATATATAATACTATAAA
1 CATATATAATACTATAAA
*
53300203 CATATATAATACTCTAAA
1 CATATATAATACTATAAA
53300221 CAT
1 CAT
53300224 GTACTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (18 bp):
CATATATAATACTATAAA
Found at i:53300807 original size:18 final size:17
Alignment explanation
Indices: 53300784--53300818 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
53300774 AAAATTAGTT
*
53300784 TCAAATATCAAAATAAAA
1 TCAAAT-TCAAAACAAAA
53300802 TCAAATTCAAAACAAAA
1 TCAAATTCAAAACAAAA
53300819 ATAAGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
TCAAATTCAAAACAAAA
Found at i:53301008 original size:41 final size:39
Alignment explanation
Indices: 53300931--53301087 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 39
53300921 ATGGTGCTAT
*
53300931 AAAACGCCGCTATTACTCAGTTTTAGCAGCGTTTGGACTA
1 AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTGGAC-A
* *
53300971 AAAACGCCGCTATTTCTAAGTTTTTAGCGGCGTTTGGACCA
1 AAAACGCCGCTATTACTCAG-TTTTAGCGGCGTTTGGA-CA
*
53301012 AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTTGAGCA
1 AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTGGA-CA
53301052 AAAACGCCGCTATTACTCAGTTTTTTAGCGGCGTTT
1 AAAACGCCGCTATTACTCAG--TTTTAGCGGCGTTT
53301088 TTGTGCAAAC
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
40 56 0.53
41 35 0.33
42 15 0.14
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (39 bp):
AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTGGACA
Found at i:53301074 original size:81 final size:82
Alignment explanation
Indices: 53300931--53301087 Score: 255
Period size: 81 Copynumber: 1.9 Consensus size: 82
53300921 ATGGTGCTAT
*
53300931 AAAACGCCGCTATTACTCAGTTTTAGCAGCGTTTGGACTAAAAACGCCGCTATTTCTAAG-TTTT
1 AAAACGCCGCTATTACTCAGTTTTAGCAGCGTTTGGACTAAAAACGCCGCTATTACTAAGTTTTT
53300995 TAGCGGCGTTTGGACCA
66 TAGCGGCGTTTGGACCA
* * *
53301012 AAAACGCCGCTATTACTCAGTTTTAGCGGCGTTTTGAGC-AAAAACGCCGCTATTACTCAGTTTT
1 AAAACGCCGCTATTACTCAGTTTTAGCAGCGTTTGGA-CTAAAAACGCCGCTATTACTAAGTTTT
53301076 TTAGCGGCGTTT
65 TTAGCGGCGTTT
53301088 TTGTGCAAAC
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 54 0.77
82 16 0.23
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (82 bp):
AAAACGCCGCTATTACTCAGTTTTAGCAGCGTTTGGACTAAAAACGCCGCTATTACTAAGTTTTT
TAGCGGCGTTTGGACCA
Found at i:53312228 original size:44 final size:45
Alignment explanation
Indices: 53312133--53312261 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
53312123 ACAGGACAGA
* *
53312133 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
53312179 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
53312223 ACAGGAATAATTCATGTAAGTCCATGTCAAATATATGGC
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGC
53312262 TAATCCATGT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:53328355 original size:40 final size:40
Alignment explanation
Indices: 53328318--53328500 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
53328308 GCTACTCGTT
*
53328318 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
53328358 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
53328398 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGT-A-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
53328435 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
53328476 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53328501 CATCATTCGA
Statistics
Matches: 124, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
36 2 0.02
37 15 0.12
38 14 0.11
39 16 0.13
40 64 0.52
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:53328460 original size:77 final size:81
Alignment explanation
Indices: 53328320--53328500 Score: 214
Period size: 77 Copynumber: 2.3 Consensus size: 81
53328310 TACTCGTTCA
* *
53328320 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
53328384 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
53328400 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-A-TCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
53328460 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
53328477 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
53328501 CATCATTCGA
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
76 3 0.03
77 43 0.49
78 16 0.18
79 13 0.15
80 13 0.15
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:53329689 original size:54 final size:56
Alignment explanation
Indices: 53329629--53329746 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
53329619 TATTAGTTTA
53329629 TTGCCCATGCTTCTTA-TTT-TTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
53329683 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
53329739 TTGCCCAT
1 TTGCCCAT
53329747 CATCCCTTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
54 16 0.26
55 3 0.05
56 42 0.69
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:53335211 original size:54 final size:56
Alignment explanation
Indices: 53335150--53335267 Score: 213
Period size: 55 Copynumber: 2.1 Consensus size: 56
53335140 TATTAGTTTA
53335150 TTGCCCATGCTTCTTATTTT-TTCTTCCATTAACACAACATGTTTCATGACATG-T
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
53335204 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
53335260 TTGCCCAT
1 TTGCCCAT
53335268 CATCCCTTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
54 20 0.33
55 32 0.52
56 9 0.15
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:53352346 original size:39 final size:40
Alignment explanation
Indices: 53352301--53352524 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
53352291 GCTCCTCGTT
* * * *
53352301 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
53352341 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
53352380 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
53352419 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
53352459 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
53352500 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53352525 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 70 0.45
40 76 0.48
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53352404 original size:79 final size:77
Alignment explanation
Indices: 53352301--53352524 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 77
53352291 GCTCCTCGTT
* * *
53352301 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCACACAAAGCCTTCGGGACTTAACCCGGA
53352366 TTTAATAACTCGCA
65 TTT-ATAACTCGCA
* * * *
53352380 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCACACAAA-GCCTTCGGGACTTAACCCGG-
* *
53352445 ATTTGTATCTCGCA
64 ATTTATAACTCGCA
* * * * *
53352459 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ACTCA-CACAAAGCCTTCGGGACTTAACCCG
53352523 GA
63 GA
53352525 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 12 0.10
79 79 0.65
80 25 0.20
81 6 0.05
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCACACAAAGCCTTCGGGACTTAACCCGGAT
TTATAACTCGCA
Found at i:53352533 original size:41 final size:41
Alignment explanation
Indices: 53352456--53352533 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
53352446 TTTGTATCTC
* * *
53352456 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
53352497 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
53352534 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:53359907 original size:39 final size:40
Alignment explanation
Indices: 53359862--53360085 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
53359852 GCTCCTCGTT
* * * *
53359862 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
53359902 C-AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
53359941 CGAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
53359980 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
53360020 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
53360061 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
53360086 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 70 0.45
40 76 0.48
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:53359965 original size:79 final size:77
Alignment explanation
Indices: 53359862--53360085 Score: 252
Period size: 79 Copynumber: 2.8 Consensus size: 77
53359852 GCTCCTCGTT
* * *
53359862 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCACACAAAGCCTTCGGGACTTAACCCGGA
53359927 TTTAATAACTCGCA
65 TTT-ATAACTCGCA
* * * *
53359941 CGAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCACACAAA-GCCTTCGGGACTTAACCCGG-
* *
53360006 ATTTGTATCTCGCA
64 ATTTATAACTCGCA
* * * * *
53360020 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-ACTCA-CACAAAGCCTTCGGGACTTAACCCG
53360084 GA
63 GA
53360086 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 12 0.10
79 79 0.65
80 25 0.20
81 6 0.05
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCACACAAAGCCTTCGGGACTTAACCCGGAT
TTATAACTCGCA
Found at i:53360094 original size:41 final size:41
Alignment explanation
Indices: 53360017--53360094 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
53360007 TTTGTATCTC
* * *
53360017 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
53360058 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
53360095 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:53364837 original size:4 final size:4
Alignment explanation
Indices: 53364828--53364867 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
53364818 ATTACTACCA
53364828 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
53364868 TTTTTTTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:53365884 original size:6 final size:6
Alignment explanation
Indices: 53365868--53365903 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
53365858 AATAAGAGAC
53365868 AAAAT- AAAATA AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
53365904 TAGTAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.17
6 25 0.83
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:53365896 original size:18 final size:17
Alignment explanation
Indices: 53365868--53365913 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
53365858 AATAAGAGAC
53365868 AAAATAAAATAAAAATA
1 AAAATAAAATAAAAATA
53365885 AAAATAAAAATAAAAATA
1 AAAAT-AAAATAAAAATA
* *
53365903 ATAGTAAAATA
1 AAAATAAAATA
53365914 TAGGGACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:53368687 original size:51 final size:50
Alignment explanation
Indices: 53368614--53368804 Score: 208
Period size: 50 Copynumber: 3.8 Consensus size: 50
53368604 TCTATTGTGA
53368614 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-AAACTGT
* * * *** *** *
53368665 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACT-TGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA-TGCGTACCCGAAACTGT
* * *
53368715 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAACTG-T
*
53368764 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
53368805 AGATAGCTTC
Statistics
Matches: 114, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.03
49 36 0.32
50 39 0.34
51 35 0.31
52 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAACTGT
Found at i:53368792 original size:49 final size:49
Alignment explanation
Indices: 53368614--53368807 Score: 221
Period size: 49 Copynumber: 3.9 Consensus size: 49
53368604 TCTATTGTGA
* *
53368614 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTT
* * ** ** *
53368665 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACTTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
*
53368715 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* *
53368764 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
53368808 TAGCTTCGGC
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.02
49 41 0.34
50 41 0.34
51 35 0.29
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:53370480 original size:23 final size:21
Alignment explanation
Indices: 53370454--53370516 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 21
53370444 ACTCCAAATC
53370454 AAAATAATAAACATAAATGAAAG
1 AAAATAATAAA-ATAAAT-AAAG
*
53370477 AAAATAAACAAAAATAAATAAAG
1 AAAAT-AA-TAAAATAAATAAAG
*
53370500 AACATAATAGAAATAAA
1 AAAATAATA-AAATAAA
53370517 CAGAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 1 0.03
22 9 0.26
23 13 0.38
24 8 0.24
25 3 0.09
ACGTcount: A:0.73, C:0.05, G:0.06, T:0.16
Consensus pattern (21 bp):
AAAATAATAAAATAAATAAAG
Found at i:53375298 original size:30 final size:30
Alignment explanation
Indices: 53375255--53375350 Score: 147
Period size: 30 Copynumber: 3.2 Consensus size: 30
53375245 ACGGCCATGA
* * *
53375255 CACACGGGCGTGTGTACTGCCCGTGTGCCT
1 CACACGAGTGTGTGTACTACCCGTGTGCCT
*
53375285 CACACGAGTGTGTGTACTACTCGTGTGCCT
1 CACACGAGTGTGTGTACTACCCGTGTGCCT
*
53375315 CACACGAGTGTGTGTACTACCAGTGTGCCT
1 CACACGAGTGTGTGTACTACCCGTGTGCCT
53375345 CACACG
1 CACACG
53375351 GGCGTGTGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 60 1.00
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.25
Consensus pattern (30 bp):
CACACGAGTGTGTGTACTACCCGTGTGCCT
Found at i:53375325 original size:15 final size:15
Alignment explanation
Indices: 53375277--53375350 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
53375267 TGTACTGCCC
53375277 GTGTGCCTCACACGA
1 GTGTGCCTCACACGA
** **
53375292 GTGTGTGT-ACTACTC
1 GTGTGCCTCAC-ACGA
53375307 GTGTGCCTCACACGA
1 GTGTGCCTCACACGA
** *
53375322 GTGTGTGT-ACTACCA
1 GTGTGCCTCAC-ACGA
53375337 GTGTGCCTCACACG
1 GTGTGCCTCACACG
53375351 GGCGTGTGGT
Statistics
Matches: 41, Mismatches: 14, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
14 4 0.10
15 33 0.80
16 4 0.10
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (15 bp):
GTGTGCCTCACACGA
Found at i:53375371 original size:30 final size:30
Alignment explanation
Indices: 53375255--53375371 Score: 130
Period size: 30 Copynumber: 3.9 Consensus size: 30
53375245 ACGGCCATGA
* * *
53375255 CACACGGGCGTGTGTACTGCCCGTGTGCCT
1 CACACGAGCGTGTGTACTACCTGTGTGCCT
*
53375285 CACACGAGTGTGTGTACTA-CTCGTGTGCCT
1 CACACGAGCGTGTGTACTACCT-GTGTGCCT
* *
53375315 CACACGAGTGTGTGTACTACCAGTGTGCCT
1 CACACGAGCGTGTGTACTACCTGTGTGCCT
* *
53375345 CACACGGGCGTGTGGT-TTACCTGTGTG
1 CACACGAGCGTGT-GTACTACCTGTGTG
53375372 GGAGTGCCTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.01
30 71 0.95
31 3 0.04
ACGTcount: A:0.15, C:0.27, G:0.31, T:0.27
Consensus pattern (30 bp):
CACACGAGCGTGTGTACTACCTGTGTGCCT
Found at i:53386406 original size:22 final size:22
Alignment explanation
Indices: 53386381--53386424 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
53386371 ATTTCACCTC
53386381 CCAATTTTTTTAGAATTTTTGA
1 CCAATTTTTTTAGAATTTTTGA
53386403 CCAATTTTTTTAGAATTTTTGA
1 CCAATTTTTTTAGAATTTTTGA
53386425 ATTACCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (22 bp):
CCAATTTTTTTAGAATTTTTGA
Found at i:53389721 original size:32 final size:31
Alignment explanation
Indices: 53389670--53389729 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
53389660 AAATTTTTTA
*
53389670 AAAATTTTATGAGAATTAA-TAAGAATTTCCC
1 AAAATTTTAGGAGAATTAATTAA-AATTTCCC
*
53389701 AAAATTTTAGGAGAGTTTAATTAAAATTT
1 AAAATTTTAGGAGA-ATTAATTAAAATTT
53389730 TTAAAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 13 0.52
32 9 0.36
33 3 0.12
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (31 bp):
AAAATTTTAGGAGAATTAATTAAAATTTCCC
Found at i:53390426 original size:30 final size:30
Alignment explanation
Indices: 53390354--53390650 Score: 162
Period size: 34 Copynumber: 9.8 Consensus size: 30
53390344 TAAAAATGAT
*
53390354 TTAAATTAGGGTTTAT-GATTTTGAAATAGA
1 TTAAATTAGGGTTTATGGATTTT-AAATAAA
53390384 TTAAGCAAATTAGGGTTCTA-GGATTTTAAATAAA
1 TT----AAATTAGGGTT-TATGGATTTTAAATAAA
*
53390418 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAA
1 TTAAATTAGGGTTTATGGATTTTAAAT--A--AA
* *
53390452 GTAAATTAGGGTTCTATGG-TTTTAGATAAA
1 TTAAATTAGGGTT-TATGGATTTTAAATAAA
53390482 TTAAATTAGGG-TT-T--A----AAATAAA
1 TTAAATTAGGGTTTATGGATTTTAAATAAA
53390504 TTAAA-TAGGGTTTAT-GATTTTTAAATAGATTAA
1 TTAAATTAGGGTTTATGGA-TTTTAAAT--A--AA
* * * *
53390537 GTAAATTAGGGTTT-TGG-GTTAAAATTAA
1 TTAAATTAGGGTTTATGGATTTTAAATAAA
53390565 TTAAATTAGGGTTTATGG-TTTTAAAATAGATTAA
1 TTAAATTAGGGTTTATGGATTTT-AAAT--A--AA
* * * *
53390599 GTAAATTAGAGTTCTATGG-TTTTAGATAAG
1 TTAAATTAGGGTT-TATGGATTTTAAATAAA
53390629 TTAAATTAGGGTTT-TGGATTTT
1 TTAAATTAGGGTTTATGGATTTT
53390651 GGGTTAAAAA
Statistics
Matches: 212, Mismatches: 20, Indels: 71
0.70 0.07 0.23
Matches are distributed among these distances:
21 5 0.02
22 13 0.06
23 1 0.00
24 1 0.00
27 1 0.00
28 19 0.09
29 17 0.08
30 51 0.24
31 1 0.00
32 9 0.04
33 7 0.03
34 65 0.31
35 22 0.10
ACGTcount: A:0.37, C:0.01, G:0.20, T:0.42
Consensus pattern (30 bp):
TTAAATTAGGGTTTATGGATTTTAAATAAA
Found at i:53390426 original size:64 final size:64
Alignment explanation
Indices: 53390354--53390496 Score: 234
Period size: 64 Copynumber: 2.2 Consensus size: 64
53390344 TAAAAATGAT
53390354 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTA-GGATTTTAAATAAA
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTATGG-TTTTAAATAAA
* * * *
53390418 TTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTATGGTTTTAGATAAA
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTATGGTTTTAAATAAA
53390482 TTAAATTAGGGTTTA
1 TTAAATTAGGGTTTA
53390497 AAATAAATTA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
64 72 0.97
65 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (64 bp):
TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTATGGTTTTAAATAAA
Found at i:53390512 original size:21 final size:22
Alignment explanation
Indices: 53390477--53390517 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
53390467 ATGGTTTTAG
53390477 ATAAATTAAATTAGGGTTTAAA
1 ATAAATTAAATTAGGGTTTAAA
53390499 ATAAATTAAA-TAGGGTTTA
1 ATAAATTAAATTAGGGTTTA
53390518 TGATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (22 bp):
ATAAATTAAATTAGGGTTTAAA
Found at i:53390513 original size:85 final size:84
Alignment explanation
Indices: 53390402--53390579 Score: 268
Period size: 85 Copynumber: 2.1 Consensus size: 84
53390392 ATTAGGGTTC
* * *
53390402 TAGGATTTTAAATAAATTAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCT
1 TAGGGTTTAAAATAAATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTT-T
* * *
53390467 ATGGTTTTAGATAAATTAAAT
65 -TGGGTTAAAATAAATTAAAT
53390488 TAGGGTTTAAAATAAATTAAA-TAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTT
1 TAGGGTTTAAAATAAATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTT
*
53390552 GGGTTAAAATTAATTAAAT
66 GGGTTAAAATAAATTAAAT
53390571 TAGGGTTTA
1 TAGGGTTTA
53390580 TGGTTTTAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
83 25 0.29
84 1 0.01
85 40 0.47
86 19 0.22
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.42
Consensus pattern (84 bp):
TAGGGTTTAAAATAAATTAAATTAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTTTT
GGGTTAAAATAAATTAAAT
Found at i:53390580 original size:62 final size:64
Alignment explanation
Indices: 53390494--53390650 Score: 198
Period size: 62 Copynumber: 2.5 Consensus size: 64
53390484 AAATTAGGGT
* * *
53390494 TTAAAATAAATTAAA-TAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTT-T-TGGG
1 TTAAAATTAATTAAATTAGGGTTTATGATTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGG
* *
53390555 TTAAAATTAATTAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGT
1 TTAAAATTAATTAAATTAGGGTTTATGATTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGG
* *
53390619 TTTAGA-TAAGTTAAATTAGGGTTT-TGGATTTT
1 TTAAAATTAA-TTAAATTAGGGTTTAT-GATTTT
53390651 GGGTTAAAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
61 14 0.17
62 38 0.46
63 5 0.06
64 26 0.31
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (64 bp):
TTAAAATTAATTAAATTAGGGTTTATGATTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGG
Found at i:53390585 original size:35 final size:34
Alignment explanation
Indices: 53390546--53390678 Score: 91
Period size: 35 Copynumber: 4.0 Consensus size: 34
53390536 AGTAAATTAG
53390546 GGTTTTGGGTTAAAATTAATTAAATTAGGGTTTAT
1 GGTTTTGGGTT-AAATTAATTAAATTAGGGTTTAT
**** * * *
53390581 GGTTTTAAAATAGATTAAGTAAATTAGAGTTCTAT
1 GGTTTTGGGTTAAATTAATTAAATTAGGGTT-TAT
*
53390616 GG--TT---TTAGA-TAAGTTAAATTAGGGTTT-T
1 GGTTTTGGGTTAAATTAA-TTAAATTAGGGTTTAT
*
53390644 GGATTTTGGGTTAAAAATAATTAAATTAGGGTTTA
1 GG-TTTTGGGTT-AAATTAATTAAATTAGGGTTTA
53390679 GTTTTTTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 21
0.70 0.10 0.19
Matches are distributed among these distances:
28 3 0.04
29 4 0.05
30 15 0.20
31 2 0.03
33 2 0.03
34 19 0.25
35 28 0.37
36 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.43
Consensus pattern (34 bp):
GGTTTTGGGTTAAATTAATTAAATTAGGGTTTAT
Found at i:53390633 original size:147 final size:150
Alignment explanation
Indices: 53390354--53390642 Score: 476
Period size: 147 Copynumber: 1.9 Consensus size: 150
53390344 TAAAAATGAT
* *
53390354 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGATTTTAAATAAAT
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGAGTTAAAATAAAT
* *
53390419 TAAATTAGGGTTTATGGTTTTTAAATAGATTAAGTAAATTAGGGTTCTATGGTTTTAGATAAATT
66 TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAAATT
53390484 AAATTAGGGTTTAAAATAAA
131 AAATTAGGGTTTAAAATAAA
* * * *
53390504 TTAAA-TAGGGTTTATGATTTTTAAATAGATTAAGTAAATTAGGGTT-TTGG-GTTAAAATTAAT
1 TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGAGTTAAAATAAAT
*
53390566 TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAAGTT
66 TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAAATT
53390631 AAATTAGGGTTT
131 AAATTAGGGTTT
53390643 TGGATTTTGG
Statistics
Matches: 130, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
147 83 0.64
148 3 0.02
149 39 0.30
150 5 0.04
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.42
Consensus pattern (150 bp):
TTAAATTAGGGTTTATGATTTTGAAATAGATTAAGCAAATTAGGGTTCTAGGAGTTAAAATAAAT
TAAATTAGGGTTTATGGTTTTAAAATAGATTAAGTAAATTAGAGTTCTATGGTTTTAGATAAATT
AAATTAGGGTTTAAAATAAA
Found at i:53390884 original size:126 final size:126
Alignment explanation
Indices: 53390736--53391493 Score: 1158
Period size: 126 Copynumber: 6.0 Consensus size: 126
53390726 CTATTTTTAC
* * * *
53390736 CCTGAAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTATCAAAAACGCTTTAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* * * *
53390801 GCACTGTCAGCAAAAATACAGAAAAAAGCTACCACGTGGACGTTTTTTTGCTATAGTAGTT
66 GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * * *
53390862 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTAAAAAATGCTTTAATCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* *
53390927 GCACTGTCAGCAAAAATATAAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * *
53390988 CTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
53391053 GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* *
53391114 CCTGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAATCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
*
53391179 GCACTGTCAGCAAAAATATAGAAAAAAAGCTACCACGTGGATGCTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATATAG-AAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * *
53391241 CTTGAAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAATGTCAAAAACGCTTCAATCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* * *
53391306 GCACTGTCAGTAAAAATATAGAAAAAAGCTACTACGTGGACGTTCTTTTGCTACAGTAGTT
66 GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
* * *
53391367 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTCAAAAACACTTCAAGCAGGAT
1 CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
* * * * * * * *
53391432 GCAATATCATC-AAAATTTCTGAAAAATGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
66 GCACTGTCAGCAAAAATAT-AGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
53391493 C
1 C
53391494 ATGCTTGGCC
Statistics
Matches: 577, Mismatches: 53, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 6 0.01
126 452 0.78
127 119 0.21
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (126 bp):
CCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAATCAGGAT
GCACTGTCAGCAAAAATATAGAAAAAAGCTACCACGTGGACGCTCTTTTGCTACAGTAGTT
Found at i:53395024 original size:18 final size:18
Alignment explanation
Indices: 53394998--53395039 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
53394988 GACTAAGAAA
* * *
53394998 AGGAAACATATATGGGTT
1 AGGATACATATAAGGGCT
53395016 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
53395034 AGGATA
1 AGGATA
53395040 TGTAGCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.29, T:0.24
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:53395134 original size:30 final size:30
Alignment explanation
Indices: 53395100--53395158 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
53395090 CATTGAGCTC
* **
53395100 GGTGATTGTGTGGGTGCTGTTGATGGGCCA
1 GGTGATTGTGTGGCTAATGTTGATGGGCCA
53395130 GGTGATTGTGTGGCTAATGTTGATGGGCC
1 GGTGATTGTGTGGCTAATGTTGATGGGCC
53395159 CGTGCCTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.12, C:0.10, G:0.44, T:0.34
Consensus pattern (30 bp):
GGTGATTGTGTGGCTAATGTTGATGGGCCA
Found at i:53396642 original size:20 final size:19
Alignment explanation
Indices: 53396616--53396701 Score: 56
Period size: 19 Copynumber: 4.6 Consensus size: 19
53396606 AAAATTAATT
*
53396616 AAAATTACATAAATGAAAA
1 AAAATTAAATAAATGAAAA
*
53396635 AAATATTAAAT-AAT-ATTAA
1 AAA-ATTAAATAAATGA-AAA
* **
53396654 AAAATT--A-AAATTAATT
1 AAAATTAAATAAATGAAAA
*
53396670 AAAATTACATAAATGAAAA
1 AAAATTAAATAAATGAAAA
53396689 AAATATTAAATAA
1 AAA-ATTAAATAA
53396702 TATTCAAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
16 10 0.20
17 1 0.02
18 5 0.10
19 20 0.40
20 14 0.28
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATTAAATAAATGAAAA
Found at i:53396655 original size:18 final size:18
Alignment explanation
Indices: 53396634--53396716 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 18
53396624 ATAAATGAAA
53396634 AAAATATTAAATAATATT
1 AAAATATTAAATAATATT
* *
53396652 AAAAAATTAAA-ATTAATT
1 AAAATATTAAATAAT-ATT
*
53396670 AAAATTACATAAATGAA-A--
1 AAAA-TA-TTAAAT-AATATT
53396688 AAAATATTAAATAATATT
1 AAAATATTAAATAATATT
53396706 CAAAAT-TTAAA
1 -AAAATATTAAA
53396717 ATAAAATGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
15 2 0.04
16 6 0.12
17 4 0.08
18 26 0.52
19 6 0.12
20 5 0.10
22 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAATATTAAATAATATT
Found at i:53396679 original size:54 final size:54
Alignment explanation
Indices: 53396595--53396718 Score: 221
Period size: 54 Copynumber: 2.3 Consensus size: 54
53396585 GTTATAAAAA
*
53396595 ATTATAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
1 ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
53396649 ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
1 ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
* *
53396703 ATTCAAAATTTAAAAT
1 ATTAAAAAATTAAAAT
53396719 AAAATGTTAC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (54 bp):
ATTAAAAAATTAAAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAAT
Found at i:53400124 original size:36 final size:36
Alignment explanation
Indices: 53400083--53400156 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
53400073 ATACAAATAC
53400083 AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
1 AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
53400119 AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
1 AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
53400155 AA
1 AA
53400157 GAGTTGTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (36 bp):
AATTATCTTTTGGTGAGTTTGAATACATTGGATTGT
Found at i:53403890 original size:18 final size:18
Alignment explanation
Indices: 53403867--53403923 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 18
53403857 TGACATAAAC
53403867 AATTGAAAAAAGAAAAAA
1 AATTGAAAAAAGAAAAAA
***
53403885 AATTG-AATCTGAAAAAA
1 AATTGAAAAAAGAAAAAA
* *
53403902 AATTAAAAAAATAAAATAA
1 AATTGAAAAAAGAAAA-AA
53403921 AAT
1 AAT
53403924 ACTGGTCTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
17 13 0.45
18 11 0.38
19 5 0.17
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (18 bp):
AATTGAAAAAAGAAAAAA
Found at i:53403964 original size:27 final size:27
Alignment explanation
Indices: 53403924--53403979 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
53403914 AAAATAAAAT
*
53403924 ACTGGTCTTACCTCTGTCAGAGGCGGC
1 ACTGGTCTTACCTCTGCCAGAGGCGGC
*
53403951 ACTGGTCTTGCCTCTGCCAGAGGCGGC
1 ACTGGTCTTACCTCTGCCAGAGGCGGC
53403978 AC
1 AC
53403980 CAGTTGGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.14, C:0.32, G:0.30, T:0.23
Consensus pattern (27 bp):
ACTGGTCTTACCTCTGCCAGAGGCGGC
Done.