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 161 of 250
Found at i:51707463 original size:2 final size:2
Alignment explanation
Indices: 51707456--51707533 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
51707446 GTTTATAAAG
51707456 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
51707498 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
51707534 TGGCTTATGC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:51714409 original size:13 final size:13
Alignment explanation
Indices: 51714391--51714415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51714381 TTTTTTATAG
51714391 AAATATAATAATA
1 AAATATAATAATA
51714404 AAATATAATAAT
1 AAATATAATAAT
51714416 TATTTATCAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATAATAATA
Found at i:51714546 original size:15 final size:15
Alignment explanation
Indices: 51714526--51714555 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51714516 ACTATTAGTA
51714526 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
*
51714541 ATTTTTTTAATATTT
1 ATTTTTTAAATATTT
51714556 TTCTATACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:51715982 original size:15 final size:14
Alignment explanation
Indices: 51715955--51716004 Score: 68
Period size: 13 Copynumber: 3.6 Consensus size: 14
51715945 CAAAATTCAA
51715955 AAAATATAAAAATT
1 AAAATATAAAAATT
51715969 AAAAT-TAATCAAATT
1 AAAATATAA--AAATT
51715984 AAAATATAAAAATT
1 AAAATATAAAAATT
51715998 -AAATATA
1 AAAATATA
51716005 CACCTTATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 10 0.30
14 10 0.30
15 10 0.30
16 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:51715982 original size:23 final size:23
Alignment explanation
Indices: 51715956--51715999 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
51715946 AAAATTCAAA
*
51715956 AAATATAAAA-ATTAAAATTAATC
1 AAAT-TAAAATATAAAAATTAATC
51715979 AAATTAAAATATAAAAATTAA
1 AAATTAAAATATAAAAATTAA
51716000 ATATACACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
AAATTAAAATATAAAAATTAATC
Found at i:51722014 original size:11 final size:11
Alignment explanation
Indices: 51721998--51722040 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
51721988 AGTTAAATAT
51721998 TATTTTATTAA
1 TATTTTATTAA
51722009 TATTTTAATTAGA
1 TATTTT-ATTA-A
*
51722022 TA-TTTATTAT
1 TATTTTATTAA
51722032 TATTTTATT
1 TATTTTATT
51722041 TACAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:51730962 original size:30 final size:30
Alignment explanation
Indices: 51730927--51730983 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
51730917 TAGGCATCTC
*
51730927 CACACGAGTAAACCACACGCCCGTGTGAGG
1 CACACGAGCAAACCACACGCCCGTGTGAGG
* **
51730957 CACACGGGCAGTCCACACGCCCGTGTG
1 CACACGAGCAAACCACACGCCCGTGTG
51730984 TCATGGCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.25, C:0.37, G:0.28, T:0.11
Consensus pattern (30 bp):
CACACGAGCAAACCACACGCCCGTGTGAGG
Found at i:51734781 original size:31 final size:32
Alignment explanation
Indices: 51734745--51734810 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
51734735 CTCCATGCAT
*
51734745 TTCTCATCTTCACCACTTTC-CTTCTTTTTTC
1 TTCTCATCTTCACCACTTTCACTACTTTTTTC
* *
51734776 TTCTCATTTTCTCCACTTTCATCTACTTTTTTC
1 TTCTCATCTTCACCACTTTCA-CTACTTTTTTC
51734809 TT
1 TT
51734811 GCTTCTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 18 0.60
33 12 0.40
ACGTcount: A:0.11, C:0.32, G:0.00, T:0.58
Consensus pattern (32 bp):
TTCTCATCTTCACCACTTTCACTACTTTTTTC
Found at i:51735049 original size:23 final size:23
Alignment explanation
Indices: 51735004--51735046 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
51734994 CTATCATTTT
51735004 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
51735027 TCTAAGTAAAA-ATTAATAAA
1 TCTAAATAAAATAATAATAAA
51735047 ATAATATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:51737174 original size:44 final size:44
Alignment explanation
Indices: 51737126--51737216 Score: 137
Period size: 44 Copynumber: 2.1 Consensus size: 44
51737116 TTTGAAATAA
* *
51737126 AATAGAAATTGTGATAATTTCACATTTTAAAATAATTATAATTT
1 AATAGAAATTGTGATAATTACACATTTAAAAATAATTATAATTT
* **
51737170 AATAGAAGTTGTGATAATTACTTATTTAAAAATAATTATAATTT
1 AATAGAAATTGTGATAATTACACATTTAAAAATAATTATAATTT
51737214 AAT
1 AAT
51737217 TTAAAATTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (44 bp):
AATAGAAATTGTGATAATTACACATTTAAAAATAATTATAATTT
Found at i:51750325 original size:20 final size:20
Alignment explanation
Indices: 51750300--51750341 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
51750290 ATGACTCACC
51750300 ATTGTTAATTTAGTCGAAAA
1 ATTGTTAATTTAGTCGAAAA
51750320 ATTGTTAATTTAGTCGAAAA
1 ATTGTTAATTTAGTCGAAAA
51750340 AT
1 AT
51750342 AATTTAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (20 bp):
ATTGTTAATTTAGTCGAAAA
Found at i:51750346 original size:16 final size:17
Alignment explanation
Indices: 51750304--51750349 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 17
51750294 CTCACCATTG
51750304 TTAATTTAGTCGAAAAA
1 TTAATTTAGTCGAAAAA
51750321 TTGTTAATTTAGTCGAAAAA
1 ---TTAATTTAGTCGAAAAA
51750341 -TAATTTAGT
1 TTAATTTAGT
51750350 AACCTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.35
20 17 0.65
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (17 bp):
TTAATTTAGTCGAAAAA
Found at i:51758974 original size:17 final size:18
Alignment explanation
Indices: 51758948--51758996 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
51758938 ATTTATCACT
*
51758948 AAAATTTTAAATTTTAA-
1 AAAATATTAAATTTTAAC
51758965 AAAATATTAAA-TTTAAC
1 AAAATATTAAATTTTAAC
51758982 AATATATATTAAATT
1 AA-A-ATATTAAATT
51758997 CACAACTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 1 0.04
19 8 0.30
20 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATATTAAATTTTAAC
Found at i:51761531 original size:18 final size:18
Alignment explanation
Indices: 51761510--51761544 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51761500 GTTTTTCATA
*
51761510 AATTTTTATTTTTTAAAC
1 AATTTTTAATTTTTAAAC
51761528 AATTTTTAATTTTTAAA
1 AATTTTTAATTTTTAAA
51761545 ATATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTTTAATTTTTAAAC
Found at i:51762955 original size:20 final size:20
Alignment explanation
Indices: 51762930--51762978 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
51762920 TATGTTGGAT
51762930 TTTTTATATAATTATTCCTA
1 TTTTTATATAATTATTCCTA
* * *
51762950 TTTTTATGTATTTATTTCTA
1 TTTTTATATAATTATTCCTA
51762970 TTTATTATA
1 TTT-TTATA
51762979 CATTTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTATATAATTATTCCTA
Found at i:51766169 original size:65 final size:64
Alignment explanation
Indices: 51765981--51766223 Score: 207
Period size: 65 Copynumber: 3.7 Consensus size: 64
51765971 ACAAGATTTA
* *
51765981 GATAGCACACTTGTTTAAAGTGGTTTTACCTCTTTAAGATAATATGCTTCTTTAAAGCGAACTTA
1 GATAGCACACTTCTTTAAAGTGGCTTTACCTCTTTAAG-TAATATGCTTCTTTAAAGCGAACTT-
51766046 GAT
64 --T
* * * ** * ** * *
51766049 AGATAACATACATCTTTAAAGTGTTTTTAACTCTTTCAAGTAATACACCTCTTTAAAGCAAACTT
1 -GATAGCACACTTCTTTAAAGTGGCTTTACCTCTTT-AAGTAATATGCTTCTTTAAAGCGAACTT
51766114 T
64 T
** * * * * *
51766115 GATAGCACACTTCTTTGTAGTGCCTTTACCTCTTTAAGTTAATATGCTTATTTAAGGTGAACTTA
1 GATAGCACACTTCTTTAAAGTGGCTTTACCTCTTTAAG-TAATATGCTTCTTTAAAGCGAACTTT
* * * *
51766180 AATAGCTCACTTTTTTAAAGTGGCTTGACCTCTTTAAGGTAATA
1 GATAGCACACTTCTTTAAAGTGGCTTTACCTCTTTAA-GTAATA
51766224 ATAAAATGTG
Statistics
Matches: 138, Mismatches: 33, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
64 3 0.02
65 80 0.58
66 2 0.01
69 50 0.36
70 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (64 bp):
GATAGCACACTTCTTTAAAGTGGCTTTACCTCTTTAAGTAATATGCTTCTTTAAAGCGAACTTT
Found at i:51767987 original size:13 final size:13
Alignment explanation
Indices: 51767971--51767996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51767961 GAGTTTATAA
51767971 ATAATTAATAGAG
1 ATAATTAATAGAG
51767984 ATAATTAATAGAG
1 ATAATTAATAGAG
51767997 CAAAATCATA
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:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
ATAATTAATAGAG
Found at i:51769841 original size:30 final size:30
Alignment explanation
Indices: 51769805--51769867 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
51769795 ACTTATTTTA
51769805 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
* *
51769835 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
51769865 TTG
1 TTG
51769868 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:51770022 original size:13 final size:11
Alignment explanation
Indices: 51769988--51770015 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
51769978 TATATATATT
51769988 TAAAAATAATA
1 TAAAAATAATA
51769999 TAAAAATAATA
1 TAAAAATAATA
51770010 TAAAAA
1 TAAAAA
51770016 ATTAATACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:51771155 original size:13 final size:14
Alignment explanation
Indices: 51771134--51771164 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
51771124 TTTAAAAAAT
51771134 AATTAAAATATACA
1 AATTAAAATATACA
51771148 AATT-AAATATACA
1 AATTAAAATATACA
51771161 AATT
1 AATT
51771165 TTGTACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
AATTAAAATATACA
Found at i:51771632 original size:14 final size:14
Alignment explanation
Indices: 51771613--51771640 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51771603 GCTACTGATT
51771613 ACAATGTTGTGTTG
1 ACAATGTTGTGTTG
51771627 ACAATGTTGTGTTG
1 ACAATGTTGTGTTG
51771641 TTAATCTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
ACAATGTTGTGTTG
Found at i:51771897 original size:21 final size:21
Alignment explanation
Indices: 51771847--51771897 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
51771837 AAAAGAATTG
51771847 TACTATTTTTTACTGTTTTGC
1 TACTATTTTTTACTGTTTTGC
* *
51771868 TGCTATTTTTT-TTGTTTT-C
1 TACTATTTTTTACTGTTTTGC
51771887 TCACTATTTTT
1 T-ACTATTTTT
51771898 CTATCATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.08
20 14 0.54
21 10 0.38
ACGTcount: A:0.12, C:0.14, G:0.08, T:0.67
Consensus pattern (21 bp):
TACTATTTTTTACTGTTTTGC
Found at i:51773847 original size:11 final size:11
Alignment explanation
Indices: 51773831--51773855 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51773821 CCTTCCAACC
51773831 ATTATCCTAAT
1 ATTATCCTAAT
51773842 ATTATCCTAAT
1 ATTATCCTAAT
51773853 ATT
1 ATT
51773856 TTTTTGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTATCCTAAT
Found at i:51792158 original size:30 final size:30
Alignment explanation
Indices: 51792117--51792179 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
51792107 TTTTTTTTGA
*
51792117 AAGATCCGAAACATGATCTTCAACGGTAGC
1 AAGATCCGAAACATGATCTTCAACGGTAAC
*
51792147 AAGATCGGAAACATGATCTTCAACGGTAAC
1 AAGATCCGAAACATGATCTTCAACGGTAAC
51792177 AAG
1 AAG
51792180 CTTGGCGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (30 bp):
AAGATCCGAAACATGATCTTCAACGGTAAC
Found at i:51792247 original size:81 final size:81
Alignment explanation
Indices: 51792112--51792311 Score: 337
Period size: 81 Copynumber: 2.5 Consensus size: 81
51792102 TTAATTTTTT
* * * *
51792112 TTTGAAAGATCCGAAACATGATCTTCAACGGTAGCAAGATCGGAAACATGATCTTCAACGGTAAC
1 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAACGGTAAC
51792177 AAGCTTGGCGGTGAAG
66 AAGCTTGGCGGTGAAG
* * *
51792193 TTTGAAATATACGAAGCAAGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAGCGGTAAC
1 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAACGGTAAC
51792258 AAGCTTGGCGGTGAAG
66 AAGCTTGGCGGTGAAG
51792274 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAG
1 TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAG
51792312 CTTGGCGGTG
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 110 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (81 bp):
TTTGAAATATCCGAAGCATGATCTTCAACGGTAACAAGATCCGAAACATGATCTTCAACGGTAAC
AAGCTTGGCGGTGAAG
Found at i:51793368 original size:39 final size:39
Alignment explanation
Indices: 51793304--51793384 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
51793294 ATAAAAGTGG
*
51793304 AATTTGACATGTGAAAAATAGTCTTA-TACTTTATATTTT
1 AATTTGACATGTGAAAAATAGTCTTATTAATTT-TATTTT
* *
51793343 AATTT-ACATGTTAAAAATTATTCTTATTAATTTTATTTT
1 AATTTGACATGTGAAAAA-TAGTCTTATTAATTTTATTTT
51793382 AAT
1 AAT
51793385 ATACTAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 11 0.30
39 21 0.57
40 5 0.14
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (39 bp):
AATTTGACATGTGAAAAATAGTCTTATTAATTTTATTTT
Found at i:51799386 original size:18 final size:19
Alignment explanation
Indices: 51799365--51799406 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
51799355 TTTTATGGCC
51799365 TTTTTAGAAATTT-GG-TT
1 TTTTTAGAAATTTGGGATT
**
51799382 TTTTTTTAAATTTGGGATT
1 TTTTTAGAAATTTGGGATT
51799401 TTTTTA
1 TTTTTA
51799407 TAATTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 11 0.55
18 2 0.10
19 7 0.35
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (19 bp):
TTTTTAGAAATTTGGGATT
Found at i:51799392 original size:17 final size:17
Alignment explanation
Indices: 51799372--51799412 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
51799362 GCCTTTTTAG
**
51799372 AAATTTGGTTTTTTTTT
1 AAATTTGGGATTTTTTT
51799389 AAATTTGGGATTTTTTT
1 AAATTTGGGATTTTTTT
51799406 ATAATTT
1 A-AATTT
51799413 TAATAGGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.63
Consensus pattern (17 bp):
AAATTTGGGATTTTTTT
Found at i:51813562 original size:151 final size:151
Alignment explanation
Indices: 51813283--51813594 Score: 615
Period size: 151 Copynumber: 2.1 Consensus size: 151
51813273 TGAAATGTTA
51813283 AAGGTAATTTCAGTCAAATTATACTCGACTAAGGATTTAGTCCTATACTTTGATTTGACATATTT
1 AAGG-AATTTCAGTCAAATTATACTCGACTAAGGATTTAGTCCTATACTTTGATTTGACATATTT
51813348 TGGTACTCTTATTATTATTAGGTTAAAATATGCTATAGGTCCCTGTACTCTTTGTAAATTTGAAA
65 TGGTACTCTTATTATTATTAGGTTAAAATATGCTATAGGTCCCTGTACTCTTTGTAAATTTGAAA
51813413 TTAGTCCTCTTACTTCTATTTC
130 TTAGTCCTCTTACTTCTATTTC
51813435 AAGGAATTTCAGTCAAATTATACTCGACTAAGGATTTAGTCCTATACTTTGATTTGACATATTTT
1 AAGGAATTTCAGTCAAATTATACTCGACTAAGGATTTAGTCCTATACTTTGATTTGACATATTTT
51813500 GGTACTCTTATTATTATTAGGTTAAAATATGCTATAGGTCCCTGTACTCTTTGTAAATTTGAAAT
66 GGTACTCTTATTATTATTAGGTTAAAATATGCTATAGGTCCCTGTACTCTTTGTAAATTTGAAAT
51813565 TAGTCCTCTTACTTCTATTTC
131 TAGTCCTCTTACTTCTATTTC
51813586 AAGGAATTT
1 AAGGAATTT
51813595 AGTTCTACTT
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
151 156 0.98
152 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (151 bp):
AAGGAATTTCAGTCAAATTATACTCGACTAAGGATTTAGTCCTATACTTTGATTTGACATATTTT
GGTACTCTTATTATTATTAGGTTAAAATATGCTATAGGTCCCTGTACTCTTTGTAAATTTGAAAT
TAGTCCTCTTACTTCTATTTC
Found at i:51815068 original size:8 final size:8
Alignment explanation
Indices: 51815038--51815076 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
51815028 ATTGGTTTGG
51815038 TTTTTAAAA
1 TTTTT-AAA
*
51815047 TATTTAATA
1 TTTTTAA-A
51815056 TTTTTAAA
1 TTTTTAAA
51815064 TTTTTAAA
1 TTTTTAAA
51815072 TTTTT
1 TTTTT
51815077 TAAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 16 0.59
9 11 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTTAAA
Found at i:51815077 original size:17 final size:16
Alignment explanation
Indices: 51815038--51815092 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
51815028 ATTGGTTTGG
*
51815038 TTTTTAAAATATTTAA
1 TTTTTTAAATATTTAA
*
51815054 TATTTTTAAATTTTTAAA
1 T-TTTTTAAATATTT-AA
*
51815072 TTTTTTAAAAATTTTAA
1 TTTTTTAAATA-TTTAA
51815089 TTTT
1 TTTT
51815093 GAATTAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 1 0.03
17 25 0.78
18 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTTAAATATTTAA
Found at i:51815086 original size:18 final size:16
Alignment explanation
Indices: 51815038--51815092 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 16
51815028 ATTGGTTTGG
51815038 TTTTTAAAATATTTAAT
1 TTTTTAAAAT-TTTAAT
*
51815055 ATTTTTAAATTTTTAAAT
1 -TTTTTAAAATTTT-AAT
51815073 TTTTTAAAAATTTTAAT
1 TTTTT-AAAATTTTAAT
51815090 TTT
1 TTT
51815093 GAATTAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 14 0.42
18 19 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTAAAATTTTAAT
Found at i:51818736 original size:28 final size:30
Alignment explanation
Indices: 51818705--51818764 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 30
51818695 GTTATTGTAG
51818705 TATTTATATATT-TAG-AATTTAG-TCTTTA
1 TATTTATAT-TTCTAGAAATTTAGATCTTTA
*
51818733 TATTTTTATTTCTAGAAATTTAGATTCTTTA
1 TATTTATATTTCTAGAAATTTAGA-TCTTTA
51818764 T
1 T
51818765 TTTTCAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 2 0.07
28 11 0.41
29 7 0.26
31 7 0.26
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (30 bp):
TATTTATATTTCTAGAAATTTAGATCTTTA
Found at i:51819200 original size:22 final size:21
Alignment explanation
Indices: 51819166--51819206 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
51819156 TTGTATTTGT
51819166 ATTTTTATTTTTTAAAAAATA
1 ATTTTTATTTTTTAAAAAATA
*
51819187 ATTTTTTTTATTTTAAAAAA
1 ATTTTTATT-TTTTAAAAAA
51819207 GTAAGGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTATTTTTTAAAAAATA
Found at i:51819352 original size:21 final size:22
Alignment explanation
Indices: 51819328--51819375 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
51819318 ACGATCCTTA
51819328 ATTTAATATT-AAAGTAAAAAT
1 ATTTAATATTAAAAGTAAAAAT
** *
51819349 ATTTTTTTTTAAAAAGTAAAAAT
1 ATTTAATATT-AAAAGTAAAAAT
51819372 ATTT
1 ATTT
51819376 TGAATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 7 0.32
23 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTTAATATTAAAAGTAAAAAT
Found at i:51819475 original size:31 final size:29
Alignment explanation
Indices: 51819432--51819490 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
51819422 AGAATAATTT
51819432 ATTAAATAAAAATAAAATAATATTTTTTGAA
1 ATTAAATAAAAATAAAA-AAT-TTTTTTGAA
*
51819463 ATTAAA-ACAAAATAATAAATTTTTTTGA
1 ATTAAATA-AAAATAAAAAATTTTTTTGA
51819491 CAATGCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
30 4 0.15
31 14 0.54
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (29 bp):
ATTAAATAAAAATAAAAAATTTTTTTGAA
Found at i:51819485 original size:27 final size:25
Alignment explanation
Indices: 51819424--51819486 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
51819414 ATTTGATGAG
*
51819424 AATAATTTATTAAATAAAAATAAAAT
1 AATAATTT-TTAAATAAAAACAAAAT
* *
51819450 AATATTTTTTGAAATTAAAACAAAAT
1 AATAATTTTT-AAATAAAAACAAAAT
51819476 AATAAATTTTT
1 AAT-AATTTTT
51819487 TTGACAATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 2 0.06
26 23 0.74
27 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AATAATTTTTAAATAAAAACAAAAT
Found at i:51819866 original size:29 final size:29
Alignment explanation
Indices: 51819824--51819893 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
51819814 ATAAGTAAGT
* *
51819824 CCTTAAAGTATTTTTGT-ATCTAAAGAAGC
1 CCTTAAACTATTTTT-TAACCTAAAGAAGC
* *
51819853 CCTTAAACTTTTTTTTACACCTAAATAAGC
1 CCTTAAACTATTTTTTA-ACCTAAAGAAGC
51819883 CCTTAAACTAT
1 CCTTAAACTAT
51819894 AATGACTTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 1 0.03
29 13 0.38
30 20 0.59
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (29 bp):
CCTTAAACTATTTTTTAACCTAAAGAAGC
Found at i:51827300 original size:5 final size:5
Alignment explanation
Indices: 51827290--51827330 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
51827280 TAATATGTAC
51827290 TTACA TTACA TTACA TTACA TTACA TTACA TTTACA -TACA T
1 TTACA TTACA TTACA TTACA TTACA TTACA -TTACA TTACA T
51827331 GCAGTTGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
5 25 0.74
6 5 0.15
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (5 bp):
TTACA
Found at i:51836801 original size:84 final size:83
Alignment explanation
Indices: 51836693--51836855 Score: 202
Period size: 84 Copynumber: 2.0 Consensus size: 83
51836683 CTCTTCCTTT
* * * * * *
51836693 TTTTTTTCACTCAATTGAGCACTTGATCTTTCAAAATATATCAAAAAGATCCTCAAACTTCTTAA
1 TTTTTTTCACTAAATTGAGCACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAAATT-TTAA
51836758 AAAAAAGCAAGTAAGTACA
65 AAAAAAGCAAGTAAGTACA
* * **
51836777 TTTTTTTCACTAAATTCG-GTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTTTTC
1 TTTTTTTCACTAAATT-GAGCACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAAATTTTAA
*
51836841 AAAAAAGCAATTAAG
65 AAAAAAGCAAGTAAG
51836856 CCATGATCTT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
83 16 0.24
84 50 0.75
85 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.33
Consensus pattern (83 bp):
TTTTTTTCACTAAATTGAGCACTTGAACTTTCAAAATACATAAAAAAGACCCTCAAAATTTTAAA
AAAAAGCAAGTAAGTACA
Found at i:51837230 original size:44 final size:44
Alignment explanation
Indices: 51837182--51837269 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
51837172 TTATAGAAAA
51837182 ATTATGAAATGGTTCTTTTGGTATGATAATTTTTATAAATTTTT
1 ATTATGAAATGGTTCTTTTGGTATGATAATTTTTATAAATTTTT
51837226 ATTATGAAATGGTTCTTTTGGTATGATAATTTTTATAAATTTTT
1 ATTATGAAATGGTTCTTTTGGTATGATAATTTTTATAAATTTTT
51837270 TCTTAACAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (44 bp):
ATTATGAAATGGTTCTTTTGGTATGATAATTTTTATAAATTTTT
Found at i:51837375 original size:227 final size:225
Alignment explanation
Indices: 51837043--51837459 Score: 543
Period size: 229 Copynumber: 1.8 Consensus size: 225
51837033 AAAAATATTT
* **
51837043 TTAACAATTAACTTTAACTATTGATTGTTAAAGTTAACGACCCCTAGTTTTTTTTCAATTAAAGT
1 TTAACAATTAACTTTAACTATTGATCGTTAAAGTTAACGACCCCTA-TTTTTTTAAAATTAAAGT
* ** * * * *
51837108 CATCGCGTGTTGCAACATAGTGTGATATGTGGCAAAAAATGAT-AATAAA-AAAAATCAATAAAA
65 CATCACGTGTCACAACATAGCGTGACATGTAGCAAAAAATGATAAAAAAATAAAAATCAATAAAA
* ** *
51837171 ATTATAGAAAAATTATGAAATGGTTCTTTTGGTATGATAATTTTTATAAATTTTTATTATGAAAT
130 ATTATAGAAAAATTAT-AAA--ATT-TTTTGGTACAATAATTTTTAT-AATTTTTATTACGAAAT
51837236 GGTTCTTTTGGTATGATAATTTTTATAAATTTTTTC
190 GGTTCTTTTGGTATGATAATTTTTATAAATTTTTTC
* * * * *
51837272 TTAACAATTAGCTTTAATTGTTGATCGTTAAAGTTAATGACCTCT-TTTTTTTAAAATTAAAGTC
1 TTAACAATTAACTTTAACTATTGATCGTTAAAGTTAACGACCCCTATTTTTTTAAAATTAAAGTC
** *
51837336 ATCACGTGTCACAACATAGCGTGACATGTAGTGAAAAATGATAAAAAAATAAAAATCAATAAAAG
66 ATCACGTGTCACAACATAGCGTGACATGTAGCAAAAAATGATAAAAAAATAAAAATCAATAAAAA
* *
51837401 TTATAGAAAAATTGTAAAATTTTTTGGTACAATAATTTTTATAATTTTTTTTACGAAAT
131 TTATAGAAAAATTATAAAATTTTTTGGTACAATAATTTTTATAATTTTTATTACGAAAT
51837460 TTATATTTCT
Statistics
Matches: 162, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
224 15 0.09
225 19 0.12
226 2 0.01
227 51 0.31
228 8 0.05
229 67 0.41
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (225 bp):
TTAACAATTAACTTTAACTATTGATCGTTAAAGTTAACGACCCCTATTTTTTTAAAATTAAAGTC
ATCACGTGTCACAACATAGCGTGACATGTAGCAAAAAATGATAAAAAAATAAAAATCAATAAAAA
TTATAGAAAAATTATAAAATTTTTTGGTACAATAATTTTTATAATTTTTATTACGAAATGGTTCT
TTTGGTATGATAATTTTTATAAATTTTTTC
Found at i:51837554 original size:28 final size:28
Alignment explanation
Indices: 51837505--51837559 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
51837495 ACTTTATAAA
* *
51837505 ATTTTATAATTTTTTTATATTTCTATAT
1 ATTTTATAATTCTTTTAGATTTCTATAT
*
51837533 ATTTTATAA-TCTTTTACGATTTTTATA
1 ATTTTATAATTCTTTTA-GATTTCTATA
51837560 AAAATTTACC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (28 bp):
ATTTTATAATTCTTTTAGATTTCTATAT
Found at i:51837632 original size:37 final size:38
Alignment explanation
Indices: 51837591--51837668 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 38
51837581 TTTTCTAATT
*
51837591 TTTAAGAAAATTT-TAATATTTTAATATTTTATTA-AAA
1 TTTAAGAAAATTTAT-AGATTTTAATATTTTATTATAAA
* * * *
51837628 TTTAATAATATTTATAGATTTTAATTTTTTTTTATAAA
1 TTTAAGAAAATTTATAGATTTTAATATTTTATTATAAA
51837666 TTT
1 TTT
51837669 TTTCTAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 27 0.79
38 7 0.21
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.58
Consensus pattern (38 bp):
TTTAAGAAAATTTATAGATTTTAATATTTTATTATAAA
Found at i:51837859 original size:85 final size:84
Alignment explanation
Indices: 51837697--51837862 Score: 237
Period size: 85 Copynumber: 2.0 Consensus size: 84
51837687 ATCAGGGGCT
*
51837697 TAATTACTTTTTTTGAAAAATTTTGAGGGTCTTTTTTGATACATTTTGAAAGTTCAAGTACCCAA
1 TAATTACTTTTTTTGAAAAATTTTGAGGGTCATTTTTGATACATTTTGAAAGTTCAAGTACCCAA
*
51837762 TTGAGTTAAAAAAAAGTAG
66 TTGAGTGAAAAAAAAGTAG
* * *
51837781 TAATTACTTCTTTTTTAAAAATGTTTGAGGGT-ATTTTTGATGCATTTTGAAATTTCAAGTACCC
1 TAATTACTT-TTTTTGAAAAAT-TTTGAGGGTCATTTTTGATACATTTTGAAAGTTCAAGTACCC
51837845 AAATT-AGTGCAAAAAAAA
64 -AATTGAGTG-AAAAAAAA
51837863 AGGGACTTAA
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
84 9 0.12
85 43 0.59
86 21 0.29
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (84 bp):
TAATTACTTTTTTTGAAAAATTTTGAGGGTCATTTTTGATACATTTTGAAAGTTCAAGTACCCAA
TTGAGTGAAAAAAAAGTAG
Found at i:51837880 original size:86 final size:84
Alignment explanation
Indices: 51837690--51837898 Score: 219
Period size: 85 Copynumber: 2.4 Consensus size: 84
51837680 TAATAAAATC
* *
51837690 AGGGGCTTAATTACTTTTTTTGAAAAATTTTGAGGGTCTTTTTTGATACATTTTGAAAGTTCAAG
1 AGGGACTTAATT-C-TTTTTTGAAAAATTTTGAGGGTCATTTTTGATACATTTTGAAAGTTCAAG
*
51837755 TACCCAATTGAGTTAAAAAAA
64 TACCCAATTGAGTAAAAAAAA
* * * * *
51837776 AGTAGTAATTACTTCTTTTTT-AAAAATGTTTGAGGGT-ATTTTTGATGCATTTTGAAATTTCAA
1 AG--GGACTTAATTCTTTTTTGAAAAAT-TTTGAGGGTCATTTTTGATACATTTTGAAAGTTCAA
51837839 GTACCCAAATT-AGTGCAAAAAAAA
63 GTACCC-AATTGAGT--AAAAAAAA
51837863 AGGGACTTAATTGCTTTTTTCGAAACAA-TTTGAGGG
1 AGGGACTTAATT-CTTTTTT-GAAA-AATTTTGAGGG
51837899 GTTTTTTTCA
Statistics
Matches: 102, Mismatches: 11, Indels: 19
0.77 0.08 0.14
Matches are distributed among these distances:
85 45 0.44
86 28 0.27
87 18 0.18
88 9 0.09
89 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.39
Consensus pattern (84 bp):
AGGGACTTAATTCTTTTTTGAAAAATTTTGAGGGTCATTTTTGATACATTTTGAAAGTTCAAGTA
CCCAATTGAGTAAAAAAAA
Found at i:51843589 original size:16 final size:16
Alignment explanation
Indices: 51843565--51843595 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51843555 TTAATTGTTA
51843565 ATTACAACTCTATTTC
1 ATTACAACTCTATTTC
*
51843581 ATTATAACTCTATTT
1 ATTACAACTCTATTT
51843596 TATTCCAATA
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:0.32, C:0.19, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTACAACTCTATTTC
Found at i:51851344 original size:2 final size:2
Alignment explanation
Indices: 51851301--51851333 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
51851291 CAATCAAAGA
51851301 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
51851334 GTTTGTCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:51854229 original size:29 final size:29
Alignment explanation
Indices: 51854176--51854241 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
51854166 AAAATTTATA
*
51854176 TTTAAAAAAATATAAAAAACATT-AATTT
1 TTTAAAAAAATATAAAAAACATTAAAATT
* *
51854204 TTTAAAGAATATATAAAGAAA-TTTAAAATT
1 TTTAAA-AAAATATAAA-AAACATTAAAATT
51854234 TTTAAAAA
1 TTTAAAAA
51854242 TTTCTAAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 6 0.19
29 13 0.41
30 13 0.41
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (29 bp):
TTTAAAAAAATATAAAAAACATTAAAATT
Found at i:51854458 original size:21 final size:21
Alignment explanation
Indices: 51854429--51854470 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51854419 GAATAATTTC
* *
51854429 ATTTGATTTGACTCAACTTGA
1 ATTTCATTTCACTCAACTTGA
*
51854450 ATTTCATTTCACTCCACTTGA
1 ATTTCATTTCACTCAACTTGA
51854471 TTCAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (21 bp):
ATTTCATTTCACTCAACTTGA
Found at i:51854704 original size:13 final size:13
Alignment explanation
Indices: 51854686--51854710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51854676 TAGGATTGAT
51854686 TTAATATTTATTA
1 TTAATATTTATTA
51854699 TTAATATTTATT
1 TTAATATTTATT
51854711 TTCAAAATAA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATATTTATTA
Found at i:51870860 original size:22 final size:21
Alignment explanation
Indices: 51870825--51870900 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
51870815 AAAAGATATC
* *
51870825 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
51870846 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
51870869 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
51870888 TGC-AATCATATCT
1 TACAAATCATATCT
51870901 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:51870917 original size:35 final size:37
Alignment explanation
Indices: 51870854--51870951 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
51870844 ATTACAAAAT
51870854 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
51870890 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
51870925 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
51870952 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:51870959 original size:17 final size:19
Alignment explanation
Indices: 51870861--51870951 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
51870851 AATCATATCT
51870861 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
51870880 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
51870898 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
51870915 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
51870934 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
51870952 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:51871107 original size:21 final size:20
Alignment explanation
Indices: 51871070--51871108 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
51871060 TTGGACTTCG
**
51871070 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
51871090 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
51871109 TCTGGGCCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:51871420 original size:45 final size:45
Alignment explanation
Indices: 51871301--51871529 Score: 207
Period size: 45 Copynumber: 5.1 Consensus size: 45
51871291 AGAAGGCGAT
* * *
51871301 ATCTGCTATCTTTGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
51871346 ATCTGCT-TCTTCAATCTGCTCCCCATCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
51871390 ATCTGTTATCTTCGATTTGCTCTCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * *
51871435 CT-TTTTCATCTTGGATCTG--CCTCGATGTAA-ACACATGGAGGTCAG
1 ATCTGTT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA--GATGCCAA
*
51871480 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
51871527 ATC
1 ATC
51871530 ATCTTTGATC
Statistics
Matches: 143, Mismatches: 30, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
43 7 0.05
44 46 0.32
45 57 0.40
46 1 0.01
47 19 0.13
48 5 0.03
49 8 0.06
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:51871602 original size:78 final size:78
Alignment explanation
Indices: 51871473--51871685 Score: 354
Period size: 78 Copynumber: 2.7 Consensus size: 78
51871463 AAACACATGG
*
51871473 AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTTGA
1 AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGA
51871538 TCTGCTTCAATGA
66 TCTGCTTCAATGA
* *
51871551 AGGTCATATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGA
1 AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGA
*
51871616 TCTGCTTTAATGA
66 TCTGCTTCAATGA
* * **
51871629 AGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
51871686 TGTTTCTTCG
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 125 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (78 bp):
AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGA
TCTGCTTCAATGA
Found at i:51871814 original size:87 final size:89
Alignment explanation
Indices: 51871718--51871880 Score: 215
Period size: 89 Copynumber: 1.9 Consensus size: 89
51871708 ACAGTACAGA
* *
51871718 GATGCCAAATCATCTTAGATCTGCTTC-A-GCGTAAACATGT-GAAAGCCAAATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACAT-TCGAAAGCCAAATCTGCTATGTCT
51871780 TCGATCTACTCCTTTTCAACGTAAG
65 TCGATCTACTCCTTTTCAACGTAAG
* * * ** *
51871805 GATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATTCGAAGGTTAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACATTCGAAAGCCAAATCTGCTATGTCTT
*
51871870 CGATCTGCTCC
66 CGATCTACTCC
51871881 CCATCTAATA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 25 0.39
88 2 0.03
89 37 0.58
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
GATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACATTCGAAAGCCAAATCTGCTATGTCTT
CGATCTACTCCTTTTCAACGTAAG
Found at i:51871976 original size:78 final size:78
Alignment explanation
Indices: 51871847--51872217 Score: 573
Period size: 78 Copynumber: 4.8 Consensus size: 78
51871837 GAAAACATTC
* * *
51871847 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATTATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
51871912 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* *
51871925 GAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCACCTT
1 GAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
51871989 GGATCTGCTTCAAT
65 GGATCTGCTTCAAT
* *
51872003 GAAGGTCAGATCTGCTGTGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
*
51872068 GATTTGCTTCAAT
66 GATCTGCTTCAAT
* *
51872081 GAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATCCCAAATCATCTTG
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
51872146 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* * * * * **
51872159 AAAGGTCAGATCTACTATGCCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
51872218 TGTTTTTTCG
Statistics
Matches: 269, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
77 2 0.01
78 266 0.99
79 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (78 bp):
GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
GATCTGCTTCAAT
Found at i:51872349 original size:87 final size:89
Alignment explanation
Indices: 51872251--51872411 Score: 220
Period size: 89 Copynumber: 1.8 Consensus size: 89
51872241 TAGTACAGAT
* *
51872251 ATGCCAAATCATCTTAGATCTGCTTC-A-GCGTAAACA-CGTGAAAGCCAAATCTGCTATGTCTT
1 ATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACATC-TGAAAGCCAAATCTGCTATGTCTT
51872313 CGATCTGCTCCTTGTCAATACAAGG
65 CGATCTGCTCCTTGTCAATACAAGG
* * * ** *
51872338 ATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCTGAAGGTTAGATCTGCTATGTCTTC
1 ATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACATCTGAAAGCCAAATCTGCTATGTCTTC
51872403 GATCTGCTC
66 GATCTGCTC
51872412 TCCGTCGAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 24 0.38
88 1 0.02
89 37 0.59
90 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
ATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACATCTGAAAGCCAAATCTGCTATGTCTTC
GATCTGCTCCTTGTCAATACAAGG
Found at i:51872384 original size:454 final size:457
Alignment explanation
Indices: 51871385--51872437 Score: 1131
Period size: 454 Copynumber: 2.3 Consensus size: 457
51871375 ATACAGAGAT
* * * * *
51871385 GCCAAATCTG-T-TATCTTCGATTTGCTCTCCGTCTAATACAGAGATGCCAACTTTTTCATCTTG
1 GCCAAATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA----ATCATCTTG
* *
51871448 GATCTGCCTCGATGTAAACACATGGAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAA
62 GATCTGCTTCGATGTAAACAC-TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAA
* * *
51871513 TACAGAGATGCCAAATCATCTTTGATCTGCTTCAATGAAGGTCATATCTGCTGTGTCTTCGATCT
126 TACAGAGATGCCAAATCACCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCT
*
51871578 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTTAATGAAGGTCAGATCTGCT
191 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTGCT
* ** * * * **
51871643 ATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTGTTCTCTA
256 ATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATCCCAAATC--TATCTTCGATCTGTTCAATA
51871708 ACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACATGTGAAAGCCAAATCTGC
319 ACAGTACA-AGATGCCAAATCA-CTTAGATCTGCTTCA-CGTAAACATGTGAAAGCCAAATCTGC
** * *
51871773 TATGTCTTCGATCTACTCCTTTTCAACGTAAGGATGCCAAATCATCTTGGATCTACTTCGATGTG
381 TATGTCTTCGATCTACTCCTGAT-AACGTAAGGATGCCAAATCATCTTAGATCTACTTCGATGCG
* *
51871838 AAAACATTCGAAG
445 AAAACAGTCGAAA
** * *
51871851 GTTAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATTATCTTGGATC
1 GCCAAATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATC
*
51871916 TGCTTC-------A-A-TGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACA
66 TGCTTCGATGTAAACACTGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACA
*
51871971 GAGATGCCAAATCACCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGTTC
130 GAGATGCCAAATCACCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTC
* * *
51872036 CCCGTCTAATACAGAGATGCCAAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTGCTGTGT
195 CCCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTGCTATGT
* *
51872101 CTTCGATCTGCTCCCCGTCTAATACAGAGATCCCAAATC-ATCTTGGATCTGCTTCAATAA-AGG
260 CTTCGATCTGCTCCCCGTCGAATACAGAGATCCCAAATCTATCTTCGATCTG-TTCAATAACA-G
* * * * * *
51872164 T-C-AGAT-CTACTATGC-CTTCGATCTGCTCTC-CGTCGAATATG-GAGATGCCAAATCTG-T-
323 TACAAGATGCCA-AAT-CACTTAGATCTGCT-TCACGT-AAACATGTGA-AAGCCAAATCTGCTA
* * ** * *
51872221 T-TTTTCGATTTGTTCTCTGAT-A-GTACAGATATGCCAAATCATCTTAGATCTGCTTC-A-GCG
383 TGTCTTCGATCTACTC-CTGATAACGTA-AG-GATGCCAAATCATCTTAGATCTACTTCGATGCG
*
51872281 TAAACACGT-GAAA
445 AAAACA-GTCGAAA
***
51872294 GCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTC-AATACA-AGGATGCCAAATCATCTTGGAT
1 GCCAAATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGA-GATGCCAAATCATCTTGGAT
* * * *
51872357 CTACTTCGATGTGAAAACATCTGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAAT
65 CTGCTTCGATGT--AAACA-CTGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAAT
**
51872422 ATGGAGATGCCAAATC
127 ACAGAGATGCCAAATC
51872438 TGTTTCTTTG
Statistics
Matches: 496, Mismatches: 63, Indels: 68
0.79 0.10 0.11
Matches are distributed among these distances:
441 1 0.00
442 31 0.06
443 42 0.08
444 5 0.01
445 34 0.07
446 4 0.01
447 6 0.01
448 29 0.06
449 8 0.02
450 1 0.00
451 12 0.02
452 9 0.02
453 1 0.00
454 250 0.50
455 2 0.00
456 1 0.00
457 1 0.00
464 16 0.03
466 7 0.01
467 1 0.00
468 35 0.07
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (457 bp):
GCCAAATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATC
TGCTTCGATGTAAACACTGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAG
AGATGCCAAATCACCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCC
CCGTCTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGAAGGTCAGATCTGCTATGTC
TTCGATCTGCTCCCCGTCGAATACAGAGATCCCAAATCTATCTTCGATCTGTTCAATAACAGTAC
AAGATGCCAAATCACTTAGATCTGCTTCACGTAAACATGTGAAAGCCAAATCTGCTATGTCTTCG
ATCTACTCCTGATAACGTAAGGATGCCAAATCATCTTAGATCTACTTCGATGCGAAAACAGTCGA
AA
Found at i:51881013 original size:22 final size:22
Alignment explanation
Indices: 51880978--51881035 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
51880968 AAAAGGTATC
* *
51880978 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
51880999 TACAGAATCATATCTTCTAAGAT
1 TACA-AATCATATCTTCTAAGAT
* *
51881022 TGCATATCATATCT
1 TACAAATCATATCT
51881036 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 4 0.13
22 18 0.58
23 9 0.29
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:51881020 original size:23 final size:21
Alignment explanation
Indices: 51880978--51881104 Score: 69
Period size: 19 Copynumber: 6.5 Consensus size: 21
51880968 AAAAGGTATC
* *
51880978 TACAAATTAAATCTTTAAGAT
1 TACAAATCATATCTTTAAGAT
51880999 TACAGAATCATATCTTCTAAGAT
1 TACA-AATCATATCTT-TAAGAT
* *
51881022 TGCATATCATATC--TAAGAT
1 TACAAATCATATCTTTAAGAT
*
51881041 TGC-AATCATATC--TAAGAT
1 TACAAATCATATCTTTAAGAT
**
51881059 T--GTATCATATC--TAAGAT
1 TACAAATCATATCTTTAAGAT
* *
51881076 TGCATATCATATC--TAAGAT
1 TACAAATCATATCTTTAAGAT
*
51881095 TGCAAATCAT
1 TACAAATCAT
51881105 TGAAAATTAT
Statistics
Matches: 93, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
17 15 0.16
18 15 0.16
19 33 0.35
21 4 0.04
22 17 0.18
23 9 0.10
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTTTAAGAT
Found at i:51881038 original size:19 final size:19
Alignment explanation
Indices: 51881014--51881104 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
51881004 AATCATATCT
51881014 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
51881033 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
51881051 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
51881068 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
51881087 TCTAAGATTGCAAATCAT
1 TCTAAGATTGCATATCAT
51881105 TGAAAATTAT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:51881070 original size:35 final size:37
Alignment explanation
Indices: 51881007--51881096 Score: 143
Period size: 35 Copynumber: 2.5 Consensus size: 37
51880997 ATTACAGAAT
51881007 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
51881043 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
51881078 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
51881097 CAAATCATTG
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
35 22 0.43
36 19 0.37
37 10 0.20
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:51881083 original size:14 final size:15
Alignment explanation
Indices: 51881028--51881083 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
51881018 AGATTGCATA
51881028 TCATATCTAAGATTG
1 TCATATCTAAGATTG
51881043 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
51881061 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
51881078 -CATATC
1 TCATATC
51881084 ATATCTAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:51881260 original size:21 final size:20
Alignment explanation
Indices: 51881223--51881261 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
51881213 TTGGACTTCG
**
51881223 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
51881243 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
51881262 TCTGGGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:51887063 original size:22 final size:22
Alignment explanation
Indices: 51887038--51887102 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
51887028 TAACTTATAT
* * *
51887038 ATTATGATTAACTTATTAATTA
1 ATTATAATTAAATCATTAATTA
*
51887060 ATTATAATTAAATCATTAATTC
1 ATTATAATTAAATCATTAATTA
51887082 ATTA-ACATT-AATC-TTAATTA
1 ATTATA-ATTAAATCATTAATTA
51887102 A
1 A
51887103 CACTTTTGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.19
21 5 0.14
22 25 0.68
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTATAATTAAATCATTAATTA
Found at i:51890680 original size:49 final size:49
Alignment explanation
Indices: 51890617--51890749 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
51890607 ACACATCAAA
* * * *
51890617 GTCGATGTCATGTCCCAGACAGGTCTTAGACTGACTTTCATATATC-GAG
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCTG-G
* * * * *
51890666 GTCGATGCCGTGTCCTAGACAAGTCTTACACTGGCTCTCATCTATCTGT
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCTGG
*
51890715 GTCGATGCCATGTCCTAGACAGGTTTTACACTGAC
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGAC
51890750 ACACAACAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 69 0.99
50 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (49 bp):
GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATCTGG
Found at i:51890748 original size:98 final size:97
Alignment explanation
Indices: 51890571--51890749 Score: 234
Period size: 98 Copynumber: 1.8 Consensus size: 97
51890561 GATAAGATGC
* *
51890571 CGATGCCATGTCCTAGACATCGTCTTACACTGGCTAACACATCAAAGTCGATGTCATGTCCCAGA
1 CGATGCCATGTCCTAGACATAGTCTTACACTGGCTAACACATCAAAGTCGATGCCATGTCCCAGA
*
51890636 CAGGTCTTAGACTGACTTTCATATATCGAGGT
66 CAGGTCTTACACTGACTTTCATATATCGAGGT
* ** *** *
51890668 CGATGCCGTGTCCTAGACA-AGTCTTACACTGGCTCTCATCTATCTGTGTCGATGCCATGTCCTA
1 CGATGCCATGTCCTAGACATAGTCTTACACTGGCTAACA-C-ATCAAAGTCGATGCCATGTCCCA
*
51890732 GACAGGTTTTACACTGAC
64 GACAGGTCTTACACTGAC
51890750 ACACAACAAG
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
96 16 0.23
97 19 0.28
98 34 0.49
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (97 bp):
CGATGCCATGTCCTAGACATAGTCTTACACTGGCTAACACATCAAAGTCGATGCCATGTCCCAGA
CAGGTCTTACACTGACTTTCATATATCGAGGT
Found at i:51890908 original size:46 final size:45
Alignment explanation
Indices: 51890812--51890933 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
51890802 CTCGAGGCTG
* *
51890812 ATGCATGTCCCAAATATGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCATGTCCCAAATATGTCTTACACTAGCTCTCG-ATCAATGCCA
*
51890858 ATGCATGT-CCAATATATGTCTTACACTGGCTCTC-AT-AATGTGGCCA
1 ATGCATGTCCCAA-ATATGTCTTACACTAGCTCTCGATCAA--T-GCCA
*
51890904 ATGCATGTCCCAAACATGTCTTACACTAGC
1 ATGCATGTCCCAAATATGTCTTACACTAGC
51890934 ACACATATCA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
43 2 0.03
44 1 0.02
45 5 0.08
46 54 0.82
47 4 0.06
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (45 bp):
ATGCATGTCCCAAATATGTCTTACACTAGCTCTCGATCAATGCCA
Found at i:51893430 original size:47 final size:47
Alignment explanation
Indices: 51893331--51893458 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
51893321 AATCGATAAG
* * ** *
51893331 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCGGAG
1 TACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAA
* * * * *
51893378 CACCTATATCACGGCCCGTAGCCGAATCAAGGTAACTCCTTTCAAAA
1 TACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAA
**
51893425 TACCTATATCATGGCCCGTAGAAAAATCAAGGTA
1 TACCTATATCATGGCCCGTAGCCAAATCAAGGTA
51893459 TTATTCATAC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (47 bp):
TACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTCATCTCAAAA
Found at i:51897890 original size:8 final size:8
Alignment explanation
Indices: 51897877--51897902 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
51897867 TGTTACTACC
51897877 CACTTTTA
1 CACTTTTA
51897885 CACTTTTA
1 CACTTTTA
51897893 CACTTTTA
1 CACTTTTA
51897901 CA
1 CA
51897903 AACAAGTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (8 bp):
CACTTTTA
Found at i:51913708 original size:46 final size:46
Alignment explanation
Indices: 51913636--51913753 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 46
51913626 GACATGACAG
* *
51913636 GACAGAAATGAGCCATGTAAGTCCATATCAGT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATCA-TATATATGGCATTGGA
*
51913682 GACAGGAATGAGCCATGTAA-TCCCATATTATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGT-CCATATCATATATATGGCATTGGA
* **
51913728 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
51913754 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
45 2 0.03
46 60 0.95
47 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
GACAGGAATGAGCCATGTAAGTCCATATCATATATATGGCATTGGA
Found at i:51915248 original size:46 final size:46
Alignment explanation
Indices: 51915152--51915322 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 46
51915142 TTAATATTCT
** ** * ** *
51915152 TGTATTCTCGAGTCTACAACAAATTTAGGAACTTGGAACCTATTTC-
1 TGTATTCTCGAGTCTACAACGTATGCAGGAGCTCAGAACCTA-ATCG
* * *
51915198 TGTATTCTCGAGTCCACAACGTATGTAGGAGCTC-GAAACTTAATCG
1 TGTATTCTCGAGTCTACAACGTATGCAGGAGCTCAG-AACCTAATCG
* * * * *
51915244 TGTATTCTCGAGTCTGCAATGTATACAAGAGCTCAGAACCTAATCT
1 TGTATTCTCGAGTCTACAACGTATGCAGGAGCTCAGAACCTAATCG
* *
51915290 TGTATTCTCAAGTCTACAACATATGCAGGAGCT
1 TGTATTCTCGAGTCTACAACGTATGCAGGAGCT
51915323 TGGAGCCTAT
Statistics
Matches: 100, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
45 3 0.03
46 96 0.96
47 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (46 bp):
TGTATTCTCGAGTCTACAACGTATGCAGGAGCTCAGAACCTAATCG
Found at i:51920382 original size:120 final size:120
Alignment explanation
Indices: 51920216--51920683 Score: 893
Period size: 120 Copynumber: 3.9 Consensus size: 120
51920206 ACTAGCATCA
*
51920216 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAACATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
51920281 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
51920336 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
51920401 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
51920456 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
51920521 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
51920576 ACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
51920641 AATTATATA-TTGTAATTAAAATATATTTAATAATAATTATGTT
66 AATTATATAGTT-TAATTAAAATATATTTAATAATAATTATGTT
51920684 TAAATATGAT
Statistics
Matches: 344, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
119 2 0.01
120 342 0.99
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (120 bp):
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
Found at i:51920880 original size:44 final size:45
Alignment explanation
Indices: 51920831--51920921 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
51920821 ACCTCTATTC
* * *
51920831 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
51920875 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
51920920 CA
1 CA
51920922 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:51920923 original size:16 final size:16
Alignment explanation
Indices: 51920902--51920970 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
51920892 GATTAGCTAT
51920902 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51920918 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
51920935 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
51920951 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
51920967 TACA
1 TACA
51920971 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:51920944 original size:33 final size:32
Alignment explanation
Indices: 51920902--51920970 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
51920892 GATTAGCTAT
51920902 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
51920935 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
51920967 TACA
1 TACA
51920971 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:51921622 original size:27 final size:27
Alignment explanation
Indices: 51921606--51921870 Score: 320
Period size: 27 Copynumber: 9.8 Consensus size: 27
51921596 CAATTTGTAG
* *
51921606 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAA
* *
51921633 AATTACCGTTTCACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
* * *
51921660 AATTA-TAGTTTTACCCTCGATTTATAG
1 AATTACCA-TTTTACCCTCGATTTACAA
*
51921687 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAA
*
51921714 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
* *
51921741 AATTACTATTTTACCCT-TAGTTTACAA
1 AATTACCATTTTACCCTCGA-TTTACAA
* *
51921768 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAA
* *
51921795 AATTACCGTTTTACCTTCGATTTACAA
1 AATTACCATTTTACCCTCGATTTACAA
* *
51921822 AATTACTATTTTACCCT-TAGTTTACAA
1 AATTACCATTTTACCCTCGA-TTTACAA
*
51921849 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
51921871 GTGAAATTAC
Statistics
Matches: 203, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 198 0.98
28 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAA
Found at i:51921707 original size:81 final size:81
Alignment explanation
Indices: 51921606--51921870 Score: 426
Period size: 81 Copynumber: 3.3 Consensus size: 81
51921596 CAATTTGTAG
* *
51921606 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTACAAAATTA-TAGTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTA-TT
* * *
51921670 TTACCC-TCGATTTATAG
65 TTACCCTTAG-TTTACAA
51921687 AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
51921752 TACCCTTAGTTTACAA
66 TACCCTTAGTTTACAA
* *
51921768 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCTTCGATTTACAAAATTACTATTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
51921833 TACCCTTAGTTTACAA
66 TACCCTTAGTTTACAA
*
51921849 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
51921871 GTGAAATTAC
Statistics
Matches: 175, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
81 171 0.98
82 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
TACCCTTAGTTTACAA
Found at i:51921932 original size:27 final size:27
Alignment explanation
Indices: 51921902--51921998 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
51921892 TGTAAGATAG
51921902 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* ** * *
51921929 AATTACCGAAATACCAATGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
51921956 AATTATCGAAATA-CCCTCAATTTATAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
51921983 AATTACCAAAATACCC
1 AATTACCAAAATACCC
51921999 TTGATTTACA
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.04
27 50 0.93
28 2 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:51921999 original size:27 final size:27
Alignment explanation
Indices: 51921902--51922026 Score: 85
Period size: 27 Copynumber: 4.6 Consensus size: 27
51921892 TGTAAGATAG
* *
51921902 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTC-AATTTATAA
* * ** * *
51921929 AATTACCGAAATACCAAT-GGTTTGTGA
1 AATTACCAAAATACC-CTCAATTTATAA
* *
51921956 AATTATCGAAATACCCTCAATTTATAA
1 AATTACCAAAATACCCTCAATTTATAA
** *
51921983 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTCAATTTATAA
51922010 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
51922027 TGACTTTCTA
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.04
27 76 0.96
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTATAA
Found at i:51922027 original size:27 final size:27
Alignment explanation
Indices: 51921955--51922084 Score: 122
Period size: 27 Copynumber: 4.7 Consensus size: 27
51921945 ATGGTTTGTG
** *
51921955 AAATTATC-GAAATACCCTCAATTTATA
1 AAATTA-CAGAAATACCCTTGATTTACA
51921982 AAATTACCA-AAATACCCTTGATTTACA
1 AAATTA-CAGAAATACCCTTGATTTACA
51922009 AAATTACAGAAATACCCTTGACTTT-CTAA
1 AAATTACAGAAATACCCTTGA-TTTAC--A
* * * *
51922038 AAATTATAAAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCTTGATTTACA
*
51922065 AAATTACTGAAATACCCTTG
1 AAATTACAGAAATACCCTTG
51922085 GTTTGTAGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.02
27 58 0.68
28 6 0.07
29 19 0.22
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTGATTTACA
Found at i:51922085 original size:27 final size:27
Alignment explanation
Indices: 51921927--51922088 Score: 105
Period size: 27 Copynumber: 5.9 Consensus size: 27
51921917 CCTAGTTTGT
* ** **
51921927 AAAATTACCGAAATACCAATGGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
* *** *
51921954 GAAATTA-TCGAAATACCCTCAATTTAT
1 AAAATTACT-GAAATACCCTTGGTTTAC
** *
51921981 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
51922008 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
* *
51922035 TAAAAATTA-TAAAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
51922064 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
51922089 GTAGATTTAC
Statistics
Matches: 104, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
27 79 0.76
28 7 0.07
29 18 0.17
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:51922172 original size:27 final size:27
Alignment explanation
Indices: 51922129--51922202 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
51922119 AAATGACTAA
*
51922129 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
51922156 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
51922183 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
51922203 TAACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:51922938 original size:20 final size:20
Alignment explanation
Indices: 51922913--51922999 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
51922903 GATATGATAT
*
51922913 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
51922933 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
51922953 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
51922973 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
51922993 ACATGAT
1 ACATGAT
51923000 GTATTCATAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 61 0.97
21 2 0.03
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:51923120 original size:25 final size:26
Alignment explanation
Indices: 51923049--51923145 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
51923039 GAGGAAGTGC
51923049 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
51923075 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
51923101 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
51923126 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
51923146 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 33 0.49
26 34 0.51
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:51923126 original size:51 final size:49
Alignment explanation
Indices: 51923049--51923153 Score: 176
Period size: 51 Copynumber: 2.1 Consensus size: 49
51923039 GAGGAAGTGC
51923049 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAG-TTATT
51923100 GAAAAGGGCTT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
51923149 AAAAG
1 AAAAG
51923154 AGGTTAGGCC
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
48 5 0.09
49 5 0.09
50 8 0.15
51 25 0.47
52 10 0.19
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (49 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATT
Found at i:51923356 original size:42 final size:42
Alignment explanation
Indices: 51923291--51923382 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
51923281 TAGTCTCCCC
* * ** *
51923291 AAATGGGCTTGCATATATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
51923333 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
51923375 AAATGGGC
1 AAATGGGC
51923383 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:51925378 original size:17 final size:17
Alignment explanation
Indices: 51925356--51925389 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
51925346 AGAGGTGTTG
51925356 GTGGAATGGGCAAACAC
1 GTGGAATGGGCAAACAC
51925373 GTGGAATGGGCAAACAC
1 GTGGAATGGGCAAACAC
51925390 CTTCCTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.35, T:0.12
Consensus pattern (17 bp):
GTGGAATGGGCAAACAC
Found at i:51934698 original size:26 final size:26
Alignment explanation
Indices: 51934658--51934707 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
51934648 AGTGGCCGGG
51934658 TTGACCAACTAGTTCTATTAACTAAT
1 TTGACCAACTAGTTCTATTAACTAAT
*
51934684 TTGACCAACTGGTTCTATTAACTA
1 TTGACCAACTAGTTCTATTAACTA
51934708 TTTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (26 bp):
TTGACCAACTAGTTCTATTAACTAAT
Found at i:51935624 original size:15 final size:16
Alignment explanation
Indices: 51935604--51935637 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
51935594 AATTTTTTAA
51935604 AAATTATAAAAAT-AT
1 AAATTATAAAAATGAT
*
51935619 AAATTATTAAAATGAT
1 AAATTATAAAAATGAT
51935635 AAA
1 AAA
51935638 ATTGTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATGAT
Found at i:51939693 original size:19 final size:18
Alignment explanation
Indices: 51939671--51939748 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 18
51939661 AAATTACAAA
*
51939671 AAAATTTAAAATAATTTTT
1 AAAATTTAAAAT-ATTTAT
51939690 AAAATTTAAAATATTTAT
1 AAAATTTAAAATATTTAT
* *
51939708 AAAAATCAAAAT-TTTAT
1 AAAATTTAAAATATTTAT
** * *
51939725 -ATTTTTAAAAAAATTAT
1 AAAATTTAAAATATTTAT
51939742 AAAATTT
1 AAAATTT
51939749 TTCAAAAAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
16 6 0.13
17 9 0.20
18 19 0.41
19 12 0.26
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTTAAAATATTTAT
Found at i:51939750 original size:20 final size:20
Alignment explanation
Indices: 51939725--51939764 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51939715 AAAATTTTAT
51939725 ATTTTTAAAAAAATTATAAA
1 ATTTTTAAAAAAATTATAAA
* *
51939745 ATTTTTCAAAAAATTCTAAA
1 ATTTTTAAAAAAATTATAAA
51939765 GAATATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTTTAAAAAAATTATAAA
Found at i:51942398 original size:21 final size:21
Alignment explanation
Indices: 51942372--51942425 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
51942362 GTTTAAGCCT
51942372 CACACGTCCGTGGAGGCAATG
1 CACACGTCCGTGGAGGCAATG
51942393 CACACG-CCTGTGGAGGCAATG
1 CACACGTCC-GTGGAGGCAATG
51942414 CACACGTCCGTG
1 CACACGTCCGTG
51942426 TTCTTTGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.15
Consensus pattern (21 bp):
CACACGTCCGTGGAGGCAATG
Found at i:51951892 original size:20 final size:21
Alignment explanation
Indices: 51951852--51951900 Score: 91
Period size: 20 Copynumber: 2.4 Consensus size: 21
51951842 AGTCCATAAA
51951852 ATCACATTTCATAATCTCAAT
1 ATCACATTTCATAATCTCAAT
51951873 ATCACATTTCATAA-CTCAAT
1 ATCACATTTCATAATCTCAAT
51951893 ATCACATT
1 ATCACATT
51951901 CACTTCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (21 bp):
ATCACATTTCATAATCTCAAT
Found at i:51952924 original size:31 final size:31
Alignment explanation
Indices: 51952889--51952952 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
51952879 ATTTAACCCC
51952889 ATATTTTCAAAAATTTCCATAATAATCCTCA
1 ATATTTTCAAAAATTTCCATAATAATCCTCA
*
51952920 ATATTTTCAAAATTTTCCATAATAATCCTCA
1 ATATTTTCAAAAATTTCCATAATAATCCTCA
51952951 AT
1 AT
51952953 GTACAATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (31 bp):
ATATTTTCAAAAATTTCCATAATAATCCTCA
Found at i:51954505 original size:28 final size:28
Alignment explanation
Indices: 51954473--51954528 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
51954463 TATAGACTTA
51954473 ACCGTATTGAATCAACTAATAAACTATC
1 ACCGTATTGAATCAACTAATAAACTATC
*
51954501 ACCGTATTGAATCAACTAATAGACTATC
1 ACCGTATTGAATCAACTAATAAACTATC
51954529 TATGTGTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (28 bp):
ACCGTATTGAATCAACTAATAAACTATC
Found at i:51959491 original size:26 final size:26
Alignment explanation
Indices: 51959455--51959507 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
51959445 GAAATGTGAA
*
51959455 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
51959481 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
51959507 A
1 A
51959508 TTCATTGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:51959562 original size:102 final size:102
Alignment explanation
Indices: 51959379--51959641 Score: 404
Period size: 102 Copynumber: 2.6 Consensus size: 102
51959369 TGTATATAAA
** * * *
51959379 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGT-ATCCACCATATCTT
**
51959444 TGAAATGTGAAAGGGGTTGCTATGTGCTGATT-CCCCG
65 TGAAATGAAAAAGGGGTTGCTATGTGCTGATTCCCCCG
51959481 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCTT
51959546 TGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGAAAAA-GGGGTTGCTATGTGCTGATTCCCCCG
* *
51959584 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCA
51959642 ATAACGGCTA
Statistics
Matches: 149, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
101 3 0.02
102 92 0.62
103 54 0.36
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTTT
GAAATGAAAAAGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:51966969 original size:26 final size:26
Alignment explanation
Indices: 51966934--51966985 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
51966924 AATGTGAAAG
*
51966934 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
51966960 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
51966986 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:51966996 original size:103 final size:105
Alignment explanation
Indices: 51966856--51967122 Score: 459
Period size: 103 Copynumber: 2.6 Consensus size: 105
51966846 TGTATATAAA
** *
51966856 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
51966921 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
51966959 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
51967023 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
51967064 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
51967123 ATAACGGCTA
Statistics
Matches: 155, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
103 69 0.45
104 25 0.16
105 61 0.39
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:51969259 original size:47 final size:47
Alignment explanation
Indices: 51969190--51969286 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
51969180 GATGACTAAG
51969190 TCACTTCCTATAACCAAGTTTGAGCATTGCTTAGACTTGGTTGGTGT
1 TCACTTCCTATAACCAAGTTTGAGCATTGCTTAGACTTGGTTGGTGT
*
51969237 TCACTTCCTATAACCAAGTTTGAGCATTGGTTAGACTTGGTTGGTGT
1 TCACTTCCTATAACCAAGTTTGAGCATTGCTTAGACTTGGTTGGTGT
51969284 TCA
1 TCA
51969287 TTGTTGAACT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (47 bp):
TCACTTCCTATAACCAAGTTTGAGCATTGCTTAGACTTGGTTGGTGT
Found at i:51975694 original size:12 final size:12
Alignment explanation
Indices: 51975677--51975709 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
51975667 CGAGATCCGA
*
51975677 AGCTAGAGCACT
1 AGCTAGAGCACC
51975689 AGCTAGAGCACC
1 AGCTAGAGCACC
51975701 AGCTAGAGC
1 AGCTAGAGC
51975710 TTGCGCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.27, G:0.27, T:0.12
Consensus pattern (12 bp):
AGCTAGAGCACC
Found at i:51996172 original size:29 final size:29
Alignment explanation
Indices: 51996130--51996188 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
51996120 CCATTTTTAC
51996130 TTAAATTCATGCAAATCCGGTTAAATTCT
1 TTAAATTCATGCAAATCCGGTTAAATTCT
51996159 TTAAATTCATGCAAATCCGGTTAAATTCT
1 TTAAATTCATGCAAATCCGGTTAAATTCT
51996188 T
1 T
51996189 GTCAAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (29 bp):
TTAAATTCATGCAAATCCGGTTAAATTCT
Found at i:52000952 original size:13 final size:13
Alignment explanation
Indices: 52000934--52000959 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52000924 AAGTAATCGA
52000934 ACACGGGCGTGTC
1 ACACGGGCGTGTC
52000947 ACACGGGCGTGTC
1 ACACGGGCGTGTC
52000960 CCTACCAAGC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:52013569 original size:22 final size:24
Alignment explanation
Indices: 52013524--52013569 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
52013514 TAATCTTTAA
52013524 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
52013548 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
52013570 AGCATAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 4 0.19
24 5 0.24
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:52021536 original size:6 final size:6
Alignment explanation
Indices: 52021521--52021550 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
52021511 TTTGAGTCCC
52021521 TTTA-T TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
52021551 AAAATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:52023837 original size:16 final size:17
Alignment explanation
Indices: 52023811--52023844 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
52023801 GATAACCTCT
52023811 TTGATTTATATGATAAA
1 TTGATTTATATGATAAA
52023828 TTGA-TTATATGATAAA
1 TTGATTTATATGATAAA
52023844 T
1 T
52023845 ATTTGTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
TTGATTTATATGATAAA
Found at i:52039382 original size:34 final size:33
Alignment explanation
Indices: 52039344--52039415 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
52039334 GCCCTTTTTC
52039344 CAGTAACAAT-CGCAGTCTAGGCCTAAGCCCATTT
1 CAGTAACAATGC-CAGT-TAGGCCTAAGCCCATTT
* * *
52039378 CAGTAATAGTGCCAGTTGGGCCTAAGCCCATTT
1 CAGTAACAATGCCAGTTAGGCCTAAGCCCATTT
52039411 CAGTA
1 CAGTA
52039416 CAGTATGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 21 0.62
34 12 0.35
35 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (33 bp):
CAGTAACAATGCCAGTTAGGCCTAAGCCCATTT
Found at i:52059867 original size:76 final size:76
Alignment explanation
Indices: 52059778--52060025 Score: 259
Period size: 76 Copynumber: 3.3 Consensus size: 76
52059768 GGTGTACCCT
* * *
52059778 GCACTAGTCGGATAAACTGACAATGTTTTGTACCCAACGCTAGTTAG-ATAACTTGACGATATCA
1 GCACTAGTCGGATAAACTGACAATGTTTTGCACCCAACGCTAGTCAGAAAAAC-TGACGATATCA
* *
52059842 AATGTGTGTCCA
65 AATGTATGCCCA
* * *
52059854 GCACTAG-CTGGATAAACCGACAATGTTTTGCGCCCAGCGCTAGTCAGAAAAACTGACGATATCA
1 GCACTAGTC-GGATAAACTGACAATGTTTTGCACCCAACGCTAGTCAGAAAAACTGACGATATCA
52059918 AATGTATGCCCA
65 AATGTATGCCCA
* * *** * * * * * *
52059930 ACACTAGTCAGATAAACTGACAATAAATTGCGCCTAGCACTAATC-GAATAAACCGACGATATCA
1 GCACTAGTCGGATAAACTGACAATGTTTTGCACCCAACGCTAGTCAGAA-AAACTGACGATATCA
*
52059994 AATGTGTGCCCA
65 AATGTATGCCCA
*
52060006 GCACTAGTCGAATAAACTGA
1 GCACTAGTCGGATAAACTGA
52060026 AAATACATAC
Statistics
Matches: 146, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
75 4 0.03
76 137 0.94
77 5 0.03
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
GCACTAGTCGGATAAACTGACAATGTTTTGCACCCAACGCTAGTCAGAAAAACTGACGATATCAA
ATGTATGCCCA
Found at i:52059937 original size:40 final size:40
Alignment explanation
Indices: 52059885--52060025 Score: 159
Period size: 40 Copynumber: 3.6 Consensus size: 40
52059875 AATGTTTTGC
* *
52059885 GCCCAGCGCTAGTCAGAA-AAACTGACGATATCAAATGTAT
1 GCCCAGCACTAGTC-GAATAAACTGACGATATCAAATGTGT
* *
52059925 GCCCAACACTAGTC-AGATAAACTGAC-A-AT-AAAT-TGC
1 GCCCAGCACTAGTCGA-ATAAACTGACGATATCAAATGTGT
* * *
52059961 GCCTAGCACTAATCGAATAAACCGACGATATCAAATGTGT
1 GCCCAGCACTAGTCGAATAAACTGACGATATCAAATGTGT
52060001 GCCCAGCACTAGTCGAATAAACTGA
1 GCCCAGCACTAGTCGAATAAACTGA
52060026 AAATACATAC
Statistics
Matches: 82, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
36 21 0.26
37 6 0.07
38 5 0.06
39 6 0.07
40 44 0.54
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (40 bp):
GCCCAGCACTAGTCGAATAAACTGACGATATCAAATGTGT
Found at i:52072873 original size:42 final size:42
Alignment explanation
Indices: 52072826--52072910 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
52072816 AAATAAGTAT
52072826 ATCTAACAATCAAGCTTCCAACAAAACCAATTAGCATCAAAG
1 ATCTAACAATCAAGCTTCCAACAAAACCAATTAGCATCAAAG
*
52072868 ATCTAACAATCAAGCTTCTAACAAAACCAATTAGCATCAAAG
1 ATCTAACAATCAAGCTTCCAACAAAACCAATTAGCATCAAAG
52072910 A
1 A
52072911 CATTCAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.25, G:0.07, T:0.20
Consensus pattern (42 bp):
ATCTAACAATCAAGCTTCCAACAAAACCAATTAGCATCAAAG
Found at i:52077115 original size:24 final size:24
Alignment explanation
Indices: 52077088--52077134 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
52077078 ATGAGATATC
* *
52077088 GACCTTTTCGTTGATATCTTTTTT
1 GACCTTTTCATTGATATCCTTTTT
*
52077112 GACCTTTTCATTTATATCCTTTT
1 GACCTTTTCATTGATATCCTTTT
52077135 CAATCTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.19, G:0.09, T:0.57
Consensus pattern (24 bp):
GACCTTTTCATTGATATCCTTTTT
Found at i:52077374 original size:76 final size:76
Alignment explanation
Indices: 52077208--52077412 Score: 198
Period size: 76 Copynumber: 2.7 Consensus size: 76
52077198 TGCCGGACGG
* * * * *
52077208 ATAAACCATAACAAAGTTTTGTGCCTAGCGCTAGTCGGATAAACCAATAATATCAAATGTGTGCC
1 ATAAACC--AACAATGTTTTGTGCCCAGCGCTAATAGGATAAACCAACAATATCAAATGTGTGCC
* ***
52077273 CAACATTAGTTGG
64 CAACACTAGTCAA
* * * *
52077286 ATAAACCGACAATGTTTTGCGCCCAGCGCTAATAGGATAAATCGACAATATCAAATGTGTG-CCA
1 ATAAACCAACAATGTTTTGTGCCCAGCGCTAATAGGATAAACCAACAATATCAAATGTGTGCCCA
52077350 AGCACTAGTCAA
66 A-CACTAGTCAA
* * * * *
52077362 ATTAACCAACAATGATTTTGTGCCCAGTGCTAGTTGAATAAACCAA-AATAT
1 ATAAACCAACAATG-TTTTGTGCCCAGCGCTAATAGGATAAACCAACAATAT
52077413 ACATACATAA
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
75 4 0.04
76 68 0.66
77 24 0.23
78 7 0.07
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (76 bp):
ATAAACCAACAATGTTTTGTGCCCAGCGCTAATAGGATAAACCAACAATATCAAATGTGTGCCCA
ACACTAGTCAA
Found at i:52083843 original size:3 final size:3
Alignment explanation
Indices: 52083831--52083860 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
52083821 AACACACTCC
52083831 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
52083861 TGGTTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:52085108 original size:76 final size:76
Alignment explanation
Indices: 52084990--52085272 Score: 320
Period size: 76 Copynumber: 3.7 Consensus size: 76
52084980 TATTTGTCGG
* * *
52084990 AATCCGACTAGTGTTGGGCATACATTTAACATCGTCGATTCATCCGACTAGCG-TAGGGCACACA
1 AATCTGACTAGTGTTGGGCACACATTTAACATCGTCGATTCATCCGACTAGCGCT-GGGCACAAA
52085054 TATTTGTCAATT
65 TATTTGTCAATT
* * * * * *
52085066 AATCTGACTAGTGCTGGGAACACATTTAACATTGTCGGTTCATCTGACTAGCACTGGGCACAAAT
1 AATCTGACTAGTGTTGGGCACACATTTAACATCGTCGATTCATCCGACTAGCGCTGGGCACAAAT
**
52085131 ATTTGTCGGTT
66 ATTTGTCAATT
* * * * **
52085142 AAT-TCAACTAGTGTTAGGCACACATTTAACATCGTCGGTTCATCCGACTAGTGCTGGATACAAA
1 AATCT-GACTAGTGTTGGGCACACATTTAACATCGTCGATTCATCCGACTAGCGCTGGGCACAAA
*
52085206 TCTTTGTCAATT
65 TATTTGTCAATT
* * * *
52085218 AATCTGACTAGTGTTGGGCACAC-TTTTACTATTGTCGATTTATCCAACTAGCGCT
1 AATCTGACTAGTGTTGGGCACACATTTAAC-ATCGTCGATTCATCCGACTAGCGCT
52085273 AGGTGCAAAA
Statistics
Matches: 171, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
75 6 0.04
76 163 0.95
77 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (76 bp):
AATCTGACTAGTGTTGGGCACACATTTAACATCGTCGATTCATCCGACTAGCGCTGGGCACAAAT
ATTTGTCAATT
Found at i:52085112 original size:40 final size:39
Alignment explanation
Indices: 52085067--52085198 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 39
52085057 TTGTCAATTA
52085067 ATCTGACTAGTGCTGGGAACACATTTAACATTGTCGGTTC
1 ATCTGACTAGTGCTGGG-ACACATTTAACATTGTCGGTTC
** * *
52085107 ATCTGACTAGCACTGGG-CACA---AATATTTGTCGGTTA
1 ATCTGACTAGTGCTGGGACACATTTAACA-TTGTCGGTTC
* * * *
52085143 AT-TCAACTAGTGTTAGGCACACATTTAACATCGTCGGTTC
1 ATCT-GACTAGTGCT-GGGACACATTTAACATTGTCGGTTC
*
52085183 ATCCGACTAGTGCTGG
1 ATCTGACTAGTGCTGG
52085199 ATACAAATCT
Statistics
Matches: 69, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
35 4 0.06
36 17 0.25
37 2 0.03
38 8 0.12
39 2 0.03
40 33 0.48
41 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (39 bp):
ATCTGACTAGTGCTGGGACACATTTAACATTGTCGGTTC
Found at i:52087124 original size:26 final size:26
Alignment explanation
Indices: 52087094--52087146 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
52087084 TTCCTGAGAG
*
52087094 AGTGTTAATTGTGTTGTTTTGTTATT
1 AGTGTTAATTGTGTTGTTTCGTTATT
52087120 AGTGTTAATTGTGTTGTTTCGTTATT
1 AGTGTTAATTGTGTTGTTTCGTTATT
52087146 A
1 A
52087147 CAAGGAGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.58
Consensus pattern (26 bp):
AGTGTTAATTGTGTTGTTTCGTTATT
Done.