Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 156 of 196
Found at i:45844875 original size:32 final size:31
Alignment explanation
Indices: 45844839--45844911 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 31
45844829 GAGTATATTG
45844839 AATGGTTATGAGACATGTCTATATAAATGAC
1 AATGGTTATGAGACATGTCTATATAAATGAC
45844870 AAATGGTTATGAGACATGTCTATATAAATGAC
1 -AATGGTTATGAGACATGTCTATATAAATGAC
45844902 AATGTGTTAT
1 AATG-GTTAT
45844912 TATTCATGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 4 0.10
32 36 0.90
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.34
Consensus pattern (31 bp):
AATGGTTATGAGACATGTCTATATAAATGAC
Found at i:45848067 original size:27 final size:27
Alignment explanation
Indices: 45848011--45848071 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
45848001 ACATCATACA
* * * *
45848011 TAGTCTGTTGGGACATTAAATATGGAG
1 TAGTTTGTCGGGACATTAAACAAGGAG
45848038 TAGTTTGTCGGGACATTAAACACAGG-G
1 TAGTTTGTCGGGACATTAAACA-AGGAG
45848065 TAGTTTG
1 TAGTTTG
45848072 CTAGGACGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.33
Consensus pattern (27 bp):
TAGTTTGTCGGGACATTAAACAAGGAG
Found at i:45851916 original size:13 final size:13
Alignment explanation
Indices: 45851898--45851922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45851888 TCAAATTATT
45851898 TTTTTATTTTTTA
1 TTTTTATTTTTTA
45851911 TTTTTATTTTTT
1 TTTTTATTTTTT
45851923 GCGCAATGAG
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:45857501 original size:19 final size:19
Alignment explanation
Indices: 45857474--45857511 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45857464 AGTTTATTAA
45857474 TTAAACTTAATTAATTATT
1 TTAAACTTAATTAATTATT
* *
45857493 TTAATCTTAGTTAATTATT
1 TTAAACTTAATTAATTATT
45857512 CATTTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (19 bp):
TTAAACTTAATTAATTATT
Found at i:45858205 original size:31 final size:31
Alignment explanation
Indices: 45858148--45858206 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
45858138 CGTCTAAGTT
* **
45858148 AGGACTAAAATTTCAAAATTTGAAAAATACA
1 AGGACTAAAATTACAAAATTAAAAAAATACA
45858179 AGGACTAAAATTAACAAAA-TAAAAAAAT
1 AGGACTAAAATT-ACAAAATTAAAAAAAT
45858207 TATAAGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.79
32 5 0.21
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.22
Consensus pattern (31 bp):
AGGACTAAAATTACAAAATTAAAAAAATACA
Found at i:45875232 original size:18 final size:17
Alignment explanation
Indices: 45875199--45875237 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
45875189 TTTTATAAAT
45875199 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
45875217 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
45875234 TGTG
1 TGTG
45875238 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:45875492 original size:23 final size:23
Alignment explanation
Indices: 45875465--45875561 Score: 140
Period size: 23 Copynumber: 4.2 Consensus size: 23
45875455 TGTTATTGAT
* **
45875465 CAGTGGTAGCTTCGGCTACGTTT
1 CAGTGGTAGCTTCGGCTACATAA
*
45875488 TAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
45875511 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
* *
45875534 CAGTGGTAGCTTCGGATACATAT
1 CAGTGGTAGCTTCGGCTACATAA
45875557 CAGTG
1 CAGTG
45875562 TTGCACTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:45877046 original size:51 final size:51
Alignment explanation
Indices: 45876970--45877072 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
45876960 TTTAGTCAAC
*
45876970 ATACATGTATTACATTTTTCAATATTATTATTAAATAT-GGAAATTAAATCT
1 ATACATGTATTACATTTTTCAATATTATTATTAAAAATAGG-AATTAAATCT
* *
45877021 ATACATGTATTGCATTTTTTAATATTATTATTAAAAATAGGAATTAAATCT
1 ATACATGTATTACATTTTTCAATATTATTATTAAAAATAGGAATTAAATCT
45877072 A
1 A
45877073 ACTTATGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 46 0.96
52 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (51 bp):
ATACATGTATTACATTTTTCAATATTATTATTAAAAATAGGAATTAAATCT
Found at i:45878732 original size:21 final size:21
Alignment explanation
Indices: 45878707--45878746 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45878697 TGTACTAAAA
45878707 ATAATAAACAACATTATATAT
1 ATAATAAACAACATTATATAT
* * *
45878728 ATAATCAACATCTTTATAT
1 ATAATAAACAACATTATAT
45878747 CGCTTATAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAAACAACATTATATAT
Found at i:45882955 original size:34 final size:34
Alignment explanation
Indices: 45882871--45882939 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
45882861 CTGCAATTTG
*
45882871 AAACACGAGGTCATTTTGAACTTTAGATGGAATC
1 AAACACGAGGTCATTTTGAACTGTAGATGGAATC
45882905 AAACACGAGGTCATTTTGAACTGTAGATGGAATC
1 AAACACGAGGTCATTTTGAACTGTAGATGGAATC
45882939 A
1 A
45882940 GTAAATTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (34 bp):
AAACACGAGGTCATTTTGAACTGTAGATGGAATC
Found at i:45886752 original size:45 final size:44
Alignment explanation
Indices: 45886637--45886753 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 44
45886627 TATACGCCTA
*
45886637 AAATGAGTAAGACCATAGTTGAAAGACACTATGACATCATGATT
1 AAATGAGTAAGACCATAGCTGAAAGACACTATGACATCATGATT
* * ** *
45886681 AAGATAAGTAAGACCATAGCTAAAAGATGCTATGACATCGTGATAT
1 AA-ATGAGTAAGACCATAGCTGAAAGACACTATGACATCATGAT-T
* * *
45886727 AAATGAGTAAAATCATGGCTGAAAGAC
1 AAATGAGTAAGACCATAGCTGAAAGAC
45886754 GCTTTAACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
44 2 0.03
45 54 0.92
46 3 0.05
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.23
Consensus pattern (44 bp):
AAATGAGTAAGACCATAGCTGAAAGACACTATGACATCATGATT
Found at i:45886945 original size:27 final size:27
Alignment explanation
Indices: 45886857--45886954 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
45886847 CAACGGAACA
* * * * *
45886857 TTAAACAGGAAGTAGTCCGACAAGACG
1 TTAAACACGAGGTAGTCCAATAGGACG
* ** *
45886884 TTAAACATGAGGTAGTCTGATAGGATG
1 TTAAACACGAGGTAGTCCAATAGGACG
*
45886911 TTAAACACAAGGTAGTCCAATAGGACG
1 TTAAACACGAGGTAGTCCAATAGGACG
*
45886938 TTAAACACGAGATAGTC
1 TTAAACACGAGGTAGTC
45886955 TGACGAGACA
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (27 bp):
TTAAACACGAGGTAGTCCAATAGGACG
Found at i:45886969 original size:54 final size:54
Alignment explanation
Indices: 45886854--45886969 Score: 119
Period size: 54 Copynumber: 2.1 Consensus size: 54
45886844 GTCCAACGGA
* * * * *
45886854 ACATTAAACAGGAAGTAGTCCGACAAGACGTTAAACATGAGGTAGTCTGATAGG
1 ACATTAAACAGCAAGTAGTCCAACAAGACGTTAAACACGAGATAGTCTGAGAGG
** * *
45886908 ATGTTAAACA-CAAGGTAGTCCAATAGGACGTTAAACACGAGATAGTCTGACGA-G
1 ACATTAAACAGCAA-GTAGTCCAACAAGACGTTAAACACGAGATAGTCTGA-GAGG
45886962 ACATTAAA
1 ACATTAAA
45886970 TAAGGAGTAC
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
53 2 0.04
54 46 0.94
55 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.21
Consensus pattern (54 bp):
ACATTAAACAGCAAGTAGTCCAACAAGACGTTAAACACGAGATAGTCTGAGAGG
Found at i:45890268 original size:30 final size:32
Alignment explanation
Indices: 45890139--45890258 Score: 136
Period size: 32 Copynumber: 3.8 Consensus size: 32
45890129 GTATGTGTTT
* *
45890139 TATAAATTGCCGAATTGATTTGTATATGGAAATA
1 TATACATTGCCGAATTGATTTGTATAT--AGATA
* * *
45890173 TATACATTGCCAAATTGATTTATATATAGATG
1 TATACATTGCCGAATTGATTTGTATATAGATA
* *
45890205 TATATATAGCCGAATTGATTTGTATATAG--A
1 TATACATTGCCGAATTGATTTGTATATAGATA
*
45890235 TATACGTTGCCGAATTGATTTGTA
1 TATACATTGCCGAATTGATTTGTA
45890259 CATGTATATA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
30 21 0.29
32 28 0.38
34 24 0.33
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (32 bp):
TATACATTGCCGAATTGATTTGTATATAGATA
Found at i:45892913 original size:30 final size:30
Alignment explanation
Indices: 45892845--45893021 Score: 210
Period size: 30 Copynumber: 5.8 Consensus size: 30
45892835 TATTACATAT
* * *
45892845 ATTGCCGAAATGATTTGTATATGTTCACATATAT
1 ATTGCCGAATTGATTTGTATATG----GATATAC
* *
45892879 ATTGCAGAATTGATTTGTATATAGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
*
45892909 ATTGCCGAATTGATTTGGATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
*
45892939 ATTGCTGAATTGATTTGTATATGGATATAC
1 ATTGCCGAATTGATTTGTATATGGATATAC
* * *
45892969 ATTGCCGAATTGATTTGTACATGTATATAT
1 ATTGCCGAATTGATTTGTATATGGATATAC
* *
45892999 ATTGCCGAAATGATTAGTATATG
1 ATTGCCGAATTGATTTGTATATG
45893022 TTTACATATA
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
30 106 0.84
34 20 0.16
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (30 bp):
ATTGCCGAATTGATTTGTATATGGATATAC
Found at i:45899666 original size:30 final size:30
Alignment explanation
Indices: 45899553--45899830 Score: 304
Period size: 30 Copynumber: 8.9 Consensus size: 30
45899543 GTATGTGTTT
* *
45899553 TATATATTGTCGAATTGATTTGTATATGGAAA
1 TATACATTGCCGAATTGATTTGTATATGG--A
* * *
45899585 TACATACATTGCCGAATTTATTTATATATAGA
1 T--ATACATTGCCGAATTGATTTGTATATGGA
* *
45899617 TGTATATATAGCCGAATTGATTTGTATATGGA
1 --TATACATTGCCGAATTGATTTGTATATGGA
*
45899649 TATACATTGCTGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
45899679 TAGACATTGCCGAATTGATTTGTACATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
45899709 TATACATTGCCGAATTGATTTGTATATGTTCACA
1 TATACATTGCCGAATTGATTTGTATATG----GA
*
45899743 TATATATTGCCGAATTGATTTGTATATGGA
1 TATACATTGCCGAATTGATTTGTATATGGA
* *
45899773 TATACATTGCCGAATTGATTTGTACATGTA
1 TATACATTGCCGAATTGATTTGTATATGGA
* * *
45899803 TATATATTGCTGAAATGATTTGTATATG
1 TATACATTGCCGAATTGATTTGTATATG
45899831 TTTACATATA
Statistics
Matches: 209, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
30 131 0.63
32 26 0.12
34 52 0.25
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:45899767 original size:94 final size:93
Alignment explanation
Indices: 45899553--45899858 Score: 384
Period size: 94 Copynumber: 3.2 Consensus size: 93
45899543 GTATGTGTTT
* * * *
45899553 TATATATTGTCGAATTGATTTGTATATGGAAATACATACATTGCCGAATTTATTTATATATAGAT
1 TATATATTGCCGAATTGATTTGTATATGG--AT--ATACATTGCCGAATTGATTTGTACAT-G-T
* * *
45899618 GTATATATAGCCGAATTGATTTGTATATG---GA
60 ATATATATTGCCGAATTGATTTGTATATGTTACA
* * * *
45899649 TATACATTGCTGAATTGATTTGTATATGGATAGACATTGCCGAATTGATTTGTACATGTATATAC
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
45899714 ATTGCCGAATTGATTTGTATATGTTCACA
66 ATTGCCGAATTGATTTGTATATGTT-ACA
45899743 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
* *
45899808 ATTGCTGAAATGATTTGTATATGTTTACA
66 ATTGCCGAATTGATTTGTATATG-TTACA
* *
45899837 TATATTTTGTCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
45899859 AGCACAGGAT
Statistics
Matches: 186, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
90 27 0.15
91 1 0.01
92 22 0.12
94 108 0.58
95 2 0.01
96 26 0.14
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (93 bp):
TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATGTATATAT
ATTGCCGAATTGATTTGTATATGTTACA
Found at i:45899840 original size:64 final size:61
Alignment explanation
Indices: 45899553--45899830 Score: 335
Period size: 60 Copynumber: 4.5 Consensus size: 61
45899543 GTATGTGTTT
* * *
45899553 TATATATTGTCGAATTGATTTGTATATGGAAATACATACATTGCCGAATTTATTTATATATAGAT
1 TATATATTGCCGAATTGATTTGTATATGG--AT--ATACATTGCCGAATTGATTTGTATAT-GAT
*
45899618 G
61 A
* * *
45899619 TATATATAGCCGAATTGATTTGTATATGGATATACATTGCTGAATTGATTTGTATATG-GA
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGATA
* * * * *
45899679 TAGACATTGCCGAATTGATTTGTACATGTATATACATTGCCGAATTGATTTGTATATGTTCACA
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATG---ATA
*
45899743 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTACATG-TA
1 TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGATA
* *
45899803 TATATATTGCTGAAATGATTTGTATATG
1 TATATATTGCCGAATTGATTTGTATATG
45899831 TTTACATATA
Statistics
Matches: 186, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
60 79 0.42
61 1 0.01
62 23 0.12
64 56 0.30
66 27 0.15
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (61 bp):
TATATATTGCCGAATTGATTTGTATATGGATATACATTGCCGAATTGATTTGTATATGATA
Found at i:45902939 original size:11 final size:11
Alignment explanation
Indices: 45902923--45902966 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
45902913 TCATTAATAA
45902923 ATAAACGAGTC
1 ATAAACGAGTC
45902934 ATAAACGAGTC
1 ATAAACGAGTC
* *
45902945 AATAAACAAGCTT
1 -ATAAACGAG-TC
45902958 ATAAACGAG
1 ATAAACGAG
45902967 CTTGTTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 11 0.39
12 16 0.57
13 1 0.04
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (11 bp):
ATAAACGAGTC
Found at i:45902951 original size:12 final size:12
Alignment explanation
Indices: 45902922--45902951 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
45902912 ATCATTAATA
45902922 AATAAACGAGTC
1 AATAAACGAGTC
45902934 -ATAAACGAGTC
1 AATAAACGAGTC
45902945 AATAAAC
1 AATAAAC
45902952 AAGCTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:45906770 original size:16 final size:16
Alignment explanation
Indices: 45906718--45906772 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
45906708 GTTTGGTTCC
45906718 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
* *
45906734 CTATAATTGAATAGAG
1 CTGTAATGGAATAGAG
45906750 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
45906766 TTGTAAT
1 CTGTAAT
45906773 AAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:45907055 original size:58 final size:58
Alignment explanation
Indices: 45906925--45907061 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 58
45906915 TATTGTTATT
* *
45906925 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAGCC
1 AAATTTTAATATA-ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACA
* * * * *
45906983 ATATTTTAACATAATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACA
45907040 AAATTCTTAATATAATTATTAT
1 AAATT-TTAATATAATTATTAT
45907062 ATGAATTGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 21 0.31
58 46 0.68
59 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (58 bp):
AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACA
Found at i:45911721 original size:12 final size:12
Alignment explanation
Indices: 45911692--45911729 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
45911682 AATTATTATC
45911692 ATATA-ATAATA
1 ATATATATAATA
* *
45911703 ATTTATATAAAA
1 ATATATATAATA
45911715 ATATATATAATA
1 ATATATATAATA
45911727 ATA
1 ATA
45911730 ATGTATGAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATATAATA
Found at i:45911936 original size:22 final size:22
Alignment explanation
Indices: 45911899--45911977 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
45911889 TAAATAATGA
*
45911899 TATGATAAGTTT-AAATAGTACT
1 TATGATAA-TTTAAAATAATACT
*
45911921 TATGATAATTTAAAATAAT-CG
1 TATGATAATTTAAAATAATACT
*
45911942 TATGAT-A-TTAAAATAAAACT
1 TATGATAATTTAAAATAATACT
*
45911962 AATGATAAATTTAAAA
1 TATGAT-AATTTAAAA
45911978 CAATGTTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 9 0.19
20 7 0.15
21 10 0.21
22 15 0.32
23 6 0.13
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.37
Consensus pattern (22 bp):
TATGATAATTTAAAATAATACT
Found at i:45911945 original size:21 final size:21
Alignment explanation
Indices: 45911890--45911957 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
45911880 TGATAAATCT
45911890 AAATAAT-GATATGATAAGTTT-
1 AAATAATCG-TATGATAA-TTTA
* *
45911911 AAATAGTACTTATGATAATTTA
1 AAATAAT-CGTATGATAATTTA
45911933 AAATAATCGTATGAT-A-TTA
1 AAATAATCGTATGATAATTTA
45911952 AAATAA
1 AAATAA
45911958 AACTAATGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 9 0.22
20 1 0.03
21 16 0.40
22 14 0.35
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (21 bp):
AAATAATCGTATGATAATTTA
Found at i:45911956 original size:41 final size:43
Alignment explanation
Indices: 45911869--45911982 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 43
45911859 ACACACTAAA
*
45911869 AAAATAGTAC-ATGATAAATCT-AAATAATGATATGATAAGTT
1 AAAATAGTACTATGATAAATTTAAAATAATGATATGATAAGTT
*
45911910 TAAATAGTACTTATGAT-AATTTAAAATAATCG-TATGAT-A-TT
1 AAAATAGTAC-TATGATAAATTTAAAATAAT-GATATGATAAGTT
** *
45911951 AAAATAAAACTAATGATAAATTTAAAACAATG
1 AAAATAGTACT-ATGATAAATTTAAAATAATG
45911983 TTAAGATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
40 1 0.02
41 24 0.39
42 17 0.28
43 18 0.30
44 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (43 bp):
AAAATAGTACTATGATAAATTTAAAATAATGATATGATAAGTT
Found at i:45913215 original size:17 final size:17
Alignment explanation
Indices: 45913193--45913246 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
45913183 GCTGGGGATA
45913193 TGTATTTAGGTTTGGTT
1 TGTATTTAGGTTTGGTT
*
45913210 TGTA-TT-GG---GGATA
1 TGTATTTAGGTTTGG-TT
45913223 TGTATTTAGGTTTGGTT
1 TGTATTTAGGTTTGGTT
45913240 TGTATTT
1 TGTATTT
45913247 TGGGTCTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
12 2 0.07
13 5 0.17
14 2 0.07
15 4 0.14
16 2 0.07
17 12 0.41
18 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.56
Consensus pattern (17 bp):
TGTATTTAGGTTTGGTT
Found at i:45913221 original size:30 final size:30
Alignment explanation
Indices: 45913185--45913245 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
45913175 CTTAATGGGC
45913185 TGGGGATATGTATTTAGGTTTGGTTTGTAT
1 TGGGGATATGTATTTAGGTTTGGTTTGTAT
45913215 TGGGGATATGTATTTAGGTTTGGTTTGTAT
1 TGGGGATATGTATTTAGGTTTGGTTTGTAT
45913245 T
1 T
45913246 TTGGGTCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (30 bp):
TGGGGATATGTATTTAGGTTTGGTTTGTAT
Found at i:45915801 original size:19 final size:18
Alignment explanation
Indices: 45915773--45915809 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
45915763 AGATAAAGTG
*
45915773 GGCTATGTCTCGAGACAT
1 GGCTATGTCTCGAAACAT
45915791 GGCTCATGTCTCGAAACAT
1 GGCT-ATGTCTCGAAACAT
45915810 TCAAAGTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (18 bp):
GGCTATGTCTCGAAACAT
Found at i:45916197 original size:24 final size:24
Alignment explanation
Indices: 45916162--45916211 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
45916152 TAAACTACAT
*
45916162 AGCATTACTAGACAAGATCCAAAG
1 AGCATTAATAGACAAGATCCAAAG
45916186 AGCATTAATAGACAAGATCCAAAG
1 AGCATTAATAGACAAGATCCAAAG
45916210 AG
1 AG
45916212 AAGCTCAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (24 bp):
AGCATTAATAGACAAGATCCAAAG
Found at i:45924719 original size:29 final size:30
Alignment explanation
Indices: 45924660--45924717 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
45924650 TCCGAGCCTT
*
45924660 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
45924690 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
45924718 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:45924947 original size:13 final size:13
Alignment explanation
Indices: 45924929--45924960 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45924919 TTTCCAGCAA
45924929 TTATGAATTTATT
1 TTATGAATTTATT
45924942 TTATGAATTTATT
1 TTATGAATTTATT
*
45924955 TGATGA
1 TTATGA
45924961 TGATCCGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:45925212 original size:50 final size:51
Alignment explanation
Indices: 45925054--45925301 Score: 288
Period size: 50 Copynumber: 4.8 Consensus size: 51
45925044 ATTTGGGTAA
*
45925054 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GATCACG
* * * *
45925110 AGAGGTCCCCTGTAAGACCATGTCT-GGACATGGCATGGGCACCGA-GACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
* * * *
45925159 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
* * *
45925209 AGAGATCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
* *
45925259 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
45925302 TGTTATTATC
Statistics
Matches: 168, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
49 27 0.16
50 66 0.39
51 35 0.21
54 2 0.01
55 15 0.09
56 23 0.14
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (51 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
Found at i:45925247 original size:105 final size:102
Alignment explanation
Indices: 45925054--45925302 Score: 344
Period size: 105 Copynumber: 2.4 Consensus size: 102
45925044 ATTTGGGTAA
*
45925054 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGATCCC
* *
45925119 CTGTAAGACCATGTCTGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGACATGGCATGGGCACC-ATCACG
* * *
45925159 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGATCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGATCCCCTA
45925221 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCT-GGACATGGCATGGGCACCATCACG
* *
45925259 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
45925303 GTTATTATCA
Statistics
Matches: 131, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
99 27 0.21
100 25 0.19
101 37 0.28
104 2 0.02
105 40 0.31
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGATCCCCTA
TAAGACCATGTCTGGACATGGCATGGGCACCATCACG
Found at i:45927568 original size:197 final size:199
Alignment explanation
Indices: 45927230--45927628 Score: 766
Period size: 197 Copynumber: 2.0 Consensus size: 199
45927220 ACCGAGTGAG
45927230 AGGGTTACTTGGGATTTCTTTCAGGACGAGTTTCGAAAGAAGTACACCAGCCAGAGATTTACAGA
1 AGGGTTACTTGGGATTTCTTTCAGGACGAGTTTCGAAAGAAGTA-ACCAGCCAGAGATTTACAGA
45927295 GCAGAAAAGGAAGGAGTTTCTTGAGCTAAAACAAGGTAAGATGTCCGTGACTGAATATGAACGCG
65 GCAGAAAAGGAAGGAGTTTCTTGAGCTAAAACAAGGTAAGATGTCCGTGACTGAATATGAACGCG
45927360 AATTTGTCAGACTTAGTAAGTATGCTCGGGAATTTGTATCCACCGAAGCCAACATGTGCAAGAGA
130 AATTTGTCAGACTTAGTAAGTATGCTCGGGAATTTGTATCCACCGAAGCCAACATGTGCAAGAGA
*
45927425 TTTGA
195 TCTGA
45927430 AGGGTTACTTGGGATTTCTTTCAGGACGAGTTTCGAAAGAAGT-A-CAGCCAGAGATTTACAGAG
1 AGGGTTACTTGGGATTTCTTTCAGGACGAGTTTCGAAAGAAGTAACCAGCCAGAGATTTACAGAG
45927493 CAGAAAAGGAAGGAGTTTCTTGAGCTAAAACAAGGTAAGATGTCCGTGACTGAATATGAACGCGA
66 CAGAAAAGGAAGGAGTTTCTTGAGCTAAAACAAGGTAAGATGTCCGTGACTGAATATGAACGCGA
45927558 ATTTGTCAGACTTAGTAAGTATGCTCGGGAATTTGTATCCACCGAAGCCAACATGTGCAAGAGAT
131 ATTTGTCAGACTTAGTAAGTATGCTCGGGAATTTGTATCCACCGAAGCCAACATGTGCAAGAGAT
45927623 CTGA
196 CTGA
45927627 AG
1 AG
45927629 ATGGGCTTAA
Statistics
Matches: 198, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
197 154 0.78
198 1 0.01
200 43 0.22
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (199 bp):
AGGGTTACTTGGGATTTCTTTCAGGACGAGTTTCGAAAGAAGTAACCAGCCAGAGATTTACAGAG
CAGAAAAGGAAGGAGTTTCTTGAGCTAAAACAAGGTAAGATGTCCGTGACTGAATATGAACGCGA
ATTTGTCAGACTTAGTAAGTATGCTCGGGAATTTGTATCCACCGAAGCCAACATGTGCAAGAGAT
CTGA
Found at i:45932477 original size:28 final size:29
Alignment explanation
Indices: 45932425--45932479 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
45932415 TCCGAGCCTT
*
45932425 GGGGCAAAAATGTAATTATGTAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAGTTTA
* *
45932454 GGGGC-AAATTGTAATTTTGAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAGTT
45932480 AGAGTCGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (29 bp):
GGGGCAAAAATGTAATTATGAAAAGTTTA
Found at i:45932708 original size:13 final size:13
Alignment explanation
Indices: 45932690--45932721 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
45932680 TTTCCATCAA
45932690 TTATGAATTTATT
1 TTATGAATTTATT
45932703 TTATGAATTTATT
1 TTATGAATTTATT
*
45932716 TGATGA
1 TTATGA
45932722 TGATCCGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:45932938 original size:50 final size:50
Alignment explanation
Indices: 45932816--45933057 Score: 290
Period size: 50 Copynumber: 4.7 Consensus size: 50
45932806 ATTTGGGTAA
* *
45932816 AGAGATCCCATGTAAGACCATGTCTGGGGACATGGCATTGGCATCCTTAAGATC-
1 AGAGATCCCATGTAAGACCATGTCT-GGGACATGGCATGGGCA-CC--GAGA-CG
*
45932870 ATGAGAGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 A-GAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
45932922 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
45932972 AGAGATCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
*
45933022 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGC
45933058 TTTGGCATGT
Statistics
Matches: 165, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
49 1 0.01
50 84 0.51
51 34 0.21
52 4 0.02
54 3 0.02
55 20 0.12
56 19 0.12
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:45933000 original size:100 final size:104
Alignment explanation
Indices: 45932816--45933065 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
45932806 ATTTGGGTAA
45932816 AGAGATCCCATGTAAGACCATGTCTGGGGACATGGCATTGGCATCCTTAAGATCATGAGAGTCCC
1 AGAGATCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCATCC-TAAGATCATGAGAGTCCC
* *
45932881 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
64 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * * *
45932922 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGATGA-GAGA-TCCCCT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCATGAGAGTCCCCT
45932983 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
45933022 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
45933066 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 43 0.33
101 41 0.31
102 5 0.04
104 2 0.02
105 16 0.12
106 24 0.18
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (104 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCATGAGAGTCCCCT
ATAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:45934057 original size:33 final size:33
Alignment explanation
Indices: 45934020--45934088 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
45934010 AGAATTCATA
45934020 TGAAAATCCTACAGTGAGAAAACTTCA-TTTTAG
1 TGAAAATCCTACAGTGAGAAAACTT-ATTTTTAG
45934053 TGAAAATCCTACAGTGAGAAAACTTATTTTTAG
1 TGAAAATCCTACAGTGAGAAAACTTATTTTTAG
45934086 TGA
1 TGA
45934089 CTAGAGGTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 1 0.03
33 34 0.97
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (33 bp):
TGAAAATCCTACAGTGAGAAAACTTATTTTTAG
Found at i:45956341 original size:94 final size:99
Alignment explanation
Indices: 45956206--45956479 Score: 288
Period size: 110 Copynumber: 2.7 Consensus size: 99
45956196 ACGAAAAAGA
* * * * *
45956206 GAAAAAAGAAAAAAAAAATTTGGATGTTGGCTTGTCAATGGCCGGCACCCAATACAATTTAAAAA
1 GAAAAAA-AATAAAAAAATTTTG-TGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAA
*
45956271 AAATTTTGTGTC-A-GAG-TC-AGATATCAATATAC
64 AAATTTTGTGTCGATGAGAACTAGATATCAATATAC
45956303 G-AAAAAAATAAAAAAATTTTGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAA
1 GAAAAAAAATAAAAAAATTTTGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTT-AAAAAA
* * * *
45956367 AATTCTTTTTTTCGTATTAGAACTAGATATCAGTATAC
65 AA-T-TTTGTGTCG-ATGAGAACTAGATATCAATATAC
* *
45956405 GAAAAAAAATTTAAAAAAAAAATTTTGGGTGCTGTCCTATCAATGGCCGGCACCCAGTACAATTT
1 GAAAAAAAA--T---AAAAAAATTTT--GTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTT
45956470 AAAAAAAATT
59 AAAAAAAATT
45956480 CCTTTTTTTT
Statistics
Matches: 149, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
94 33 0.22
95 21 0.14
96 6 0.04
97 7 0.05
99 1 0.01
100 2 0.01
101 1 0.01
102 14 0.09
103 7 0.05
105 1 0.01
107 1 0.01
108 12 0.08
109 8 0.05
110 35 0.23
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (99 bp):
GAAAAAAAATAAAAAAATTTTGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAA
ATTTTGTGTCGATGAGAACTAGATATCAATATAC
Found at i:45956559 original size:111 final size:111
Alignment explanation
Indices: 45956307--45956564 Score: 382
Period size: 111 Copynumber: 2.3 Consensus size: 111
45956297 ATATACGAAA
45956307 AAAATAAAAAAATTTT--GTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAAT
1 AAAA-AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAAT
* * *
45956370 TCTTTTTTTCGTATTAGAACTAGATATCAGTATACGAAAAAAAATTT
65 TCTTTTTTTCATATCAAAACTAGATATCAGTATACGAAAAAAAATTT
* *
45956417 -AAAAAAAAAATTTTGGGTGCTGTCCTATCAATGGCCGGCACCCAGTACAATTT-AAAAAAAATT
1 AAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATT
* * *
45956480 CCTTTTTTTTCATGTCAAAATTAGATATTAGTATACG-AAAAAAATTT
66 -C-TTTTTTTCATATCAAAACTAGATATCAGTATACGAAAAAAAATTT
45956527 AAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCG
1 AAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCG
45956565 AGGTAAAGAC
Statistics
Matches: 133, Mismatches: 10, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
108 11 0.08
109 13 0.10
110 46 0.35
111 63 0.47
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (111 bp):
AAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAATT
CTTTTTTTCATATCAAAACTAGATATCAGTATACGAAAAAAAATTT
Found at i:45961735 original size:12 final size:13
Alignment explanation
Indices: 45961718--45961754 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
45961708 ACTATCAAGA
45961718 TAAATTTTAA-AT
1 TAAATTTTAATAT
45961730 TAAA-TTTAATAT
1 TAAATTTTAATAT
45961742 TAAATTTATAATA
1 TAAATTT-TAATA
45961755 ATATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.23
12 10 0.45
13 2 0.09
14 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAAATTTTAATAT
Found at i:45962322 original size:20 final size:22
Alignment explanation
Indices: 45962274--45962322 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
45962264 ATTTTCTAGT
*
45962274 TAAA-CAATTCTCACGATTGAC
1 TAAATCAATTCTCACGATTGAA
*
45962295 TAATTCAATTC-CAC-ATTGAA
1 TAAATCAATTCTCACGATTGAA
45962315 TAAATCAA
1 TAAATCAA
45962323 CTCAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 6 0.25
22 6 0.25
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (22 bp):
TAAATCAATTCTCACGATTGAA
Found at i:45964787 original size:22 final size:23
Alignment explanation
Indices: 45964760--45964804 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45964750 AGGTATCTAC
45964760 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
45964782 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
45964805 TATCATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:45964809 original size:22 final size:21
Alignment explanation
Indices: 45964757--45964812 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
45964747 GAAAGGTATC
*
45964757 TACAAATCAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
45964778 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
45964801 TACATATCATAT
1 TACAAATCATAT
45964813 TTACGATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 3 0.10
22 17 0.55
23 11 0.35
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:45969918 original size:22 final size:21
Alignment explanation
Indices: 45969883--45969940 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
45969873 GAAAGGTATC
* *
45969883 TACAAATCAAATCTCAAAGAT
1 TACAAATTATATCTCAAAGAT
*
45969904 TACAAAATTATATCTTCTAAGAT
1 TAC-AAATTATATC-TCAAAGAT
*
45969927 TACACATTATATCT
1 TACAAATTATATCT
45969941 ACGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.55
23 10 0.32
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.34
Consensus pattern (21 bp):
TACAAATTATATCTCAAAGAT
Found at i:45973255 original size:18 final size:18
Alignment explanation
Indices: 45973202--45973255 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
45973192 CAATAAAAAA
*
45973202 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAAATGAAT
* *
45973220 AACGATTTGTAAATGAAT
1 AACGTTTTGAAAATGAAT
* *
45973238 AATGTTTTGAAAACGAAT
1 AACGTTTTGAAAATGAAT
45973256 GACACGATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.35
Consensus pattern (18 bp):
AACGTTTTGAAAATGAAT
Found at i:45978147 original size:16 final size:18
Alignment explanation
Indices: 45978113--45978150 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45978103 TTTAATATTT
45978113 AAAAATGAATATTACAAA
1 AAAAATGAATATTACAAA
*
45978131 AAAAATGTATA-TA-AAA
1 AAAAATGAATATTACAAA
45978147 AAAA
1 AAAA
45978151 GTCTATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAATGAATATTACAAA
Found at i:45983014 original size:220 final size:218
Alignment explanation
Indices: 45982647--45983235 Score: 896
Period size: 220 Copynumber: 2.7 Consensus size: 218
45982637 CCTTCATTTG
* * * * *
45982647 TTAGCATTTTTTTTATCATCATCGATCCAAGATTGCTGCTCAACCAACCATCTATTTTGCAGGGG
1 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAA-CATC-AATTTGCAGGGA
*
45982712 CCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAA
64 TCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAA
45982777 TTATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTC
129 TTATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTC
45982842 AAAATTGTTGTTTTCCCATCAATCC
194 AAAATTGTTGTTTTCCCATCAATCC
* *
45982867 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACTAACTATCAAATTTGCAGGGT
1 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAAC-ATC-AATTTGCAGGGA
*
45982932 TCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGCTTTGAA
64 TCTAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAA
* *
45982997 TTGTTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGGTC
129 TTATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTC
*
45983062 AAGATTGTTGTTTTCCCATCAATCC
194 AAAATTGTTGTTTTCCCATCAATCC
* *
45983087 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGTTGCTCAACCAAC--C-A---GTA---ATC
1 TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAACATCAATTTGCAGGGATC
** *
45983143 T--TGCGCTTAGGATTTGAAAGATTCAAATATATTTGTTATCATCTTTTATCCTAGTTTTGAATT
66 TAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAATT
*
45983206 ATTGTTTTATC-TATCTTTATTTTAAATGTA
131 ATTGTTTTATCTTATCTTTATTCTAAATGTA
45983236 TTATCTTTAC
Statistics
Matches: 346, Mismatches: 22, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
206 18 0.05
207 68 0.20
209 3 0.01
212 2 0.01
215 1 0.00
217 1 0.00
219 1 0.00
220 252 0.73
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (218 bp):
TTAGCATTTTTCTTGTCATCATTGATCCAAGATTGCTGCTCAACCAACATCAATTTGCAGGGATC
TAATGATCTTAGGATTTGAAAGATTCAAATATATTTGTTATTATCTTTTATCCTAGTTTTGAATT
ATTGTTTTATCTTATCTTTATTCTAAATGTAATCATTTAGAATTTTTCCCAAGATTGTTGCTCAA
AATTGTTGTTTTCCCATCAATCC
Found at i:45992700 original size:15 final size:15
Alignment explanation
Indices: 45992680--45992709 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45992670 TGAAAACAAT
45992680 TTTTTTTTAAAAGTA
1 TTTTTTTTAAAAGTA
45992695 TTTTTTTTAAAAGTA
1 TTTTTTTTAAAAGTA
45992710 CTTGATGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TTTTTTTTAAAAGTA
Found at i:46005071 original size:31 final size:29
Alignment explanation
Indices: 46005006--46005074 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
46004996 ACGATAACGT
* *
46005006 AAGTGACTAAAATGTAATATTTCAAACAT
1 AAGTGACTAAAATGTAATATTGCAAACAA
*
46005035 TAGTGACTAAAATGTAAT-TTGAAGCAAACAA
1 AAGTGACTAAAATGTAATATT---GCAAACAA
46005066 AAGTGACTA
1 AAGTGACTA
46005075 CTTTTGTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 17 0.52
31 14 0.42
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (29 bp):
AAGTGACTAAAATGTAATATTGCAAACAA
Found at i:46006098 original size:22 final size:20
Alignment explanation
Indices: 46006072--46006128 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
46006062 AAAATATATT
46006072 AAATATTAAATATTATT-TAAA
1 AAATA-TAAATATT-TTATAAA
46006093 ACAATATAAATATTTTATAAA
1 A-AATATAAATATTTTATAAA
*
46006114 AAATA-AAAAATTTTA
1 AAATATAAATATTTTA
46006129 ATACGGGCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 9 0.27
20 6 0.18
21 14 0.42
22 4 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATAAATATTTTATAAA
Found at i:46006126 original size:19 final size:21
Alignment explanation
Indices: 46006089--46006128 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
46006079 AAATATTATT
*
46006089 TAAAACAATATAAATATTTTA
1 TAAAACAATATAAAAATTTTA
46006110 TAAAA-AATA-AAAAATTTTA
1 TAAAACAATATAAAAATTTTA
46006129 ATACGGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAACAATATAAAAATTTTA
Found at i:46006346 original size:26 final size:28
Alignment explanation
Indices: 46006299--46006352 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
46006289 GCCCATTTTT
*
46006299 TAATAAACATTAAAAATTTATTTTAAAAA
1 TAATAAACAATAAAAA-TTATTTTAAAAA
46006328 TAATAAA-AATAAAAA-TATTTTAAAA
1 TAATAAACAATAAAAATTATTTTAAAA
46006353 GTATTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
28 7 0.29
29 7 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
TAATAAACAATAAAAATTATTTTAAAAA
Found at i:46007273 original size:16 final size:16
Alignment explanation
Indices: 46007239--46007291 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
46007229 ATGGCATCAC
46007239 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
46007255 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
46007271 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
46007287 TCATG
1 TCATG
46007292 AGTATAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:46008482 original size:17 final size:17
Alignment explanation
Indices: 46008462--46008506 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
46008452 CTTTCTTTCC
46008462 CTTTTTTCTTTTTCTTT
1 CTTTTTTCTTTTTCTTT
* *
46008479 CTTTCTTCTTTTTGTTT
1 CTTTTTTCTTTTTCTTT
* *
46008496 CGTTTTACTTT
1 CTTTTTTCTTT
46008507 GTTTCTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (17 bp):
CTTTTTTCTTTTTCTTT
Found at i:46010498 original size:33 final size:33
Alignment explanation
Indices: 46010429--46010525 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
46010419 CTATACCCAT
* * *
46010429 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
46010466 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
46010499 CTATGCCGAATGCA-ACATATATATATA
1 CTATGCCGAATGCATACACATAAATATA
46010526 CATATCTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 22 0.40
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:46010784 original size:41 final size:41
Alignment explanation
Indices: 46010739--46010894 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
46010729 ACCGGCTCTT
*
46010739 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
46010780 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
46010821 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
46010862 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
46010895 TAACGATAAA
Statistics
Matches: 106, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 97 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:46018132 original size:33 final size:33
Alignment explanation
Indices: 46018063--46018160 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
46018053 CTATACCCAT
* * *
46018063 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
46018100 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
46018133 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
46018161 ACATATCTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:46018420 original size:41 final size:41
Alignment explanation
Indices: 46018375--46018530 Score: 226
Period size: 41 Copynumber: 3.8 Consensus size: 41
46018365 ACCGGCTCTT
*
46018375 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
46018416 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
46018457 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCGTTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
46018498 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
46018531 TAACGATAAA
Statistics
Matches: 106, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 97 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:46025119 original size:19 final size:19
Alignment explanation
Indices: 46025097--46025135 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
46025087 TCAAATCAAT
*
46025097 AATA-TTTTTAATTATTTCA
1 AATAGTTTTT-ATTATCTCA
46025116 AATAGTTTTTATTATCTCA
1 AATAGTTTTTATTATCTCA
46025135 A
1 A
46025136 GACAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (19 bp):
AATAGTTTTTATTATCTCA
Found at i:46027621 original size:16 final size:17
Alignment explanation
Indices: 46027600--46027641 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
46027590 TTTTATGTGT
46027600 TATAAAATATATA-AT-A
1 TATAAAATATA-ACATAA
46027616 TATAAAA-ATAACATAA
1 TATAAAATATAACATAA
46027632 TATAAAATAT
1 TATAAAATAT
46027642 TAAAAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 5 0.22
16 15 0.65
17 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAAATATAACATAA
Found at i:46028383 original size:27 final size:26
Alignment explanation
Indices: 46028347--46028398 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
46028337 TTTCTTAAGT
* *
46028347 TGGTATCTAAACTTTTTCTGTCATTAG
1 TGGTACCTAAACTATTTCT-TCATTAG
46028374 TGGTACCTAAACTATTTCTTCATTA
1 TGGTACCTAAACTATTTCTTCATTA
46028399 CCATTTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.46
Consensus pattern (26 bp):
TGGTACCTAAACTATTTCTTCATTAG
Found at i:46028670 original size:224 final size:223
Alignment explanation
Indices: 46028270--46028674 Score: 616
Period size: 224 Copynumber: 1.8 Consensus size: 223
46028260 CAAACATCAA
*****
46028270 TCAAACCGTTACGTCAATTTTTTTTTAAAAAGGCTTAACCCACAAATTAGTTCCTAAACTATATC
1 TCAAACCGTTACGTCAATTTTAAAAAAAAAAGGCTTAACCCACAAATTAGTTCCTAAACTATATC
* * **
46028335 ATTTTCTTAAGTTGGTATCTAAACTTTTTCTGTCATTAGTGGTACCTAAACTATTTCTTCATTAC
66 ATTTTCTTAAGTTGATACCTAAACTTTTTCTGTCACAAGTGGTACCTAAACTATTTCTTCATTAC
*
46028400 CATTTTTACATCAAAATATTATATTGATTAAAAAAATTCCAGCTAATAATAGTACCTAAACTATA
131 CAATTTTACATCAAAATATTATATTGATTAAAAAAATTCCAGCTAATAATAGTACCTAAACTATA
46028465 TTATACTATATTGATTAAAAAATTCCAG
196 TTATACTATATTGATTAAAAAATTCCAG
* *
46028493 TCAAACCGTTAACGTCAATTTTAAAAAAAAAATGCTTAACCCACAAATTAGTAT-CTAAATTATA
1 TCAAACCGTT-ACGTCAATTTTAAAAAAAAAAGGCTTAACCCACAAATTAGT-TCCTAAACTATA
* *
46028557 TCATTTTTCTTAAGTTGATACCTAAACTTTTTTTGTCACAAGTGGTA-CTAAACTATTTTTTCAT
64 TCA-TTTTCTTAAGTTGATACCTAAACTTTTTCTGTCACAAGTGGTACCTAAACTATTTCTTCAT
* * *
46028621 TACTAATTTTACATCAAAATATTATATTGATTAAAGAAATTTCAGCTAATAATA
128 TACCAATTTTACATCAAAATATTATATTGATTAAAAAAATTCCAGCTAATAATA
46028675 AACTGTTACA
Statistics
Matches: 162, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
223 10 0.06
224 113 0.70
225 39 0.24
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (223 bp):
TCAAACCGTTACGTCAATTTTAAAAAAAAAAGGCTTAACCCACAAATTAGTTCCTAAACTATATC
ATTTTCTTAAGTTGATACCTAAACTTTTTCTGTCACAAGTGGTACCTAAACTATTTCTTCATTAC
CAATTTTACATCAAAATATTATATTGATTAAAAAAATTCCAGCTAATAATAGTACCTAAACTATA
TTATACTATATTGATTAAAAAATTCCAG
Found at i:46033749 original size:24 final size:25
Alignment explanation
Indices: 46033708--46033777 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 25
46033698 TAATAATAAT
*
46033708 AATACTAATACA-ACATAACTTCTA-
1 AATAATAATACACA-ATAACTTCTAG
* * * *
46033732 AGTAATAATGCATAATAA-TTTTAG
1 AATAATAATACACAATAACTTCTAG
46033756 AATAATAATACACAATAACTTC
1 AATAATAATACACAATAACTTC
46033778 AAAGATATGA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
23 4 0.11
24 28 0.80
25 3 0.09
ACGTcount: A:0.50, C:0.14, G:0.04, T:0.31
Consensus pattern (25 bp):
AATAATAATACACAATAACTTCTAG
Found at i:46034597 original size:23 final size:22
Alignment explanation
Indices: 46034567--46034622 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
46034557 TTTAGTATGG
46034567 AAAATAGAAAGAA-GCAAAGAAA
1 AAAATAGAAA-AATGCAAAGAAA
*
46034589 AATAATAGAGAAAATGCAGAGAAA
1 AA-AATAGA-AAAATGCAAAGAAA
*
46034613 AAAAAAGAAA
1 AAAATAGAAA
46034623 TAAATAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 4 0.14
23 13 0.45
24 12 0.41
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (22 bp):
AAAATAGAAAAATGCAAAGAAA
Found at i:46039249 original size:35 final size:35
Alignment explanation
Indices: 46039208--46039280 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
46039198 TACGTTTTAG
46039208 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
1 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
46039243 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
1 TGACTTACATTAACATGTTGTAATATTTTAGTAAC
46039278 TGA
1 TGA
46039281 GTCGTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (35 bp):
TGACTTACATTAACATGTTGTAATATTTTAGTAAC
Found at i:46040394 original size:2 final size:2
Alignment explanation
Indices: 46040387--46040411 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46040377 AACTTGGGTT
46040387 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
46040412 GCGGTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46041110 original size:29 final size:30
Alignment explanation
Indices: 46041073--46041131 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
46041063 TATGGTTTAA
*
46041073 TGTGTAATTGTATACATG-AACTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
* *
46041102 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAACTTTGATTT
46041132 GATCTAACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAACTTTGATTT
Found at i:46041609 original size:58 final size:58
Alignment explanation
Indices: 46041519--46041633 Score: 230
Period size: 58 Copynumber: 2.0 Consensus size: 58
46041509 ATACATTTTC
46041519 AATGTTGTTACATAAATTGTTTGTTTAACTATACTATTAAATTTGTACGTGTTAGGAA
1 AATGTTGTTACATAAATTGTTTGTTTAACTATACTATTAAATTTGTACGTGTTAGGAA
46041577 AATGTTGTTACATAAATTGTTTGTTTAACTATACTATTAAATTTGTACGTGTTAGGA
1 AATGTTGTTACATAAATTGTTTGTTTAACTATACTATTAAATTTGTACGTGTTAGGA
46041634 TTTGAACTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (58 bp):
AATGTTGTTACATAAATTGTTTGTTTAACTATACTATTAAATTTGTACGTGTTAGGAA
Found at i:46041684 original size:13 final size:13
Alignment explanation
Indices: 46041666--46041690 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46041656 CTATAAAATC
46041666 CTTTTCTTTTTTT
1 CTTTTCTTTTTTT
46041679 CTTTTCTTTTTT
1 CTTTTCTTTTTT
46041691 AAATTTCATC
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
CTTTTCTTTTTTT
Found at i:46042491 original size:21 final size:22
Alignment explanation
Indices: 46042457--46042497 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
46042447 TCATGTCAAC
*
46042457 AAATAATTTAAAATTTATAAAA
1 AAATAATTCAAAATTTATAAAA
46042479 AAAT-ATTCAAAATTTATAA
1 AAATAATTCAAAATTTATAA
46042498 CTATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATAATTCAAAATTTATAAAA
Found at i:46045263 original size:41 final size:42
Alignment explanation
Indices: 46045147--46045263 Score: 143
Period size: 41 Copynumber: 2.8 Consensus size: 42
46045137 TTGTATAAAA
* *
46045147 CACCGGCATAAAGCCTGCTAGGCACAAAGCCTG-ATACATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAATACATTT
* *
46045188 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGAATTA-A-TT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAA-TACATTT
*
46045229 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAA
46045264 AATCTCAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 60 0.92
42 3 0.05
43 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (42 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAATACATTT
Found at i:46045441 original size:64 final size:67
Alignment explanation
Indices: 46045302--46045460 Score: 191
Period size: 64 Copynumber: 2.4 Consensus size: 67
46045292 ATAATTTACA
* * * *
46045302 ACATTAAAATTCAGTTCAAAGAA-TTTGTAACCTATATTCGAACCATACACATATGTATGTAAAA
1 ACATT-AAATTCAGCTC-AAGAACTTTATAACCTATATTCGAA-CATACACATATATATATAAAA
46045366 TTCAT
63 TTCAT
* *
46045371 AAATTAAATTCAGCTCAAGAACTTTATAACCTATATTTG-A-AT-CACATATATATATAAAATTC
1 ACATTAAATTCAGCTCAAGAACTTTATAACCTATATTCGAACATACACATATATATATAAAATTC
*
46045433 GT
66 AT
*
46045435 ACATTAATTTCAGCTCAAGAACTTTA
1 ACATTAAATTCAGCTCAAGAACTTTA
46045461 AAATATATAT
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
64 43 0.54
65 2 0.03
67 6 0.08
68 25 0.31
69 4 0.05
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.35
Consensus pattern (67 bp):
ACATTAAATTCAGCTCAAGAACTTTATAACCTATATTCGAACATACACATATATATATAAAATTC
AT
Found at i:46045604 original size:58 final size:58
Alignment explanation
Indices: 46045487--46045609 Score: 142
Period size: 58 Copynumber: 2.1 Consensus size: 58
46045477 GAACCGTATG
* * * **
46045487 TATATATATATTTCATAATATTAAGTTCAACTCAAAGAACTTGTATCATACATTCAAC
1 TATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAAC
* *
46045545 TATATATATAATTCATAACT-TTAAATTCAACTC-ATGAAATTAAATCTTACATTCGAAC
1 TATATATATAATTCATAA-TATTAAATTCAACTCAAAGAAATTAAATCATACATTC-AAC
*
46045603 TACATAT
1 TATATAT
46045610 CCATGTAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
57 16 0.29
58 38 0.69
59 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (58 bp):
TATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAAC
Found at i:46049608 original size:10 final size:10
Alignment explanation
Indices: 46049593--46049620 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
46049583 TATATGCATA
46049593 ATATATATCT
1 ATATATATCT
46049603 ATATATATCT
1 ATATATATCT
46049613 ATATATAT
1 ATATATAT
46049621 ATTCATCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATATATCT
Found at i:46053247 original size:41 final size:45
Alignment explanation
Indices: 46053189--46053310 Score: 146
Period size: 41 Copynumber: 2.8 Consensus size: 45
46053179 ATGCTATCTC
* *
46053189 ATATCGATGCCACTGTCCTAGACAAGGTCTTATACG-AATCA-A-
1 ATATCGATGCCAATGTCCTAGACAAGGTCTTACACGTAATCACAT
*
46053231 ATA-CGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCCAATGTCCTAGACAAGGTCTTACACGTAATCACAT
* **
46053275 ATATCGATGCC-ATCGTCCCAGACGTGGTCTTACACG
1 ATATCGATGCCAAT-GTCCTAGACAAGGTCTTACACG
46053311 AGAACACATA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
41 29 0.41
42 8 0.11
43 1 0.01
44 5 0.07
45 27 0.39
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCTAGACAAGGTCTTACACGTAATCACAT
Found at i:46053303 original size:45 final size:44
Alignment explanation
Indices: 46053162--46053310 Score: 141
Period size: 41 Copynumber: 3.5 Consensus size: 44
46053152 ATGCCAATGC
* * *
46053162 CCCAGACGTGGTCTTACATGCT-ATCTC-ATATCGATGCCA-CTGT
1 CCCAGACATGGTCTTACACG-TAATCACAATATCGATGCCATC-GT
* * *
46053205 CCTAGACAAGGTCTTATACG-AATCA-AATA-CGATGCCAAT-GT
1 CCCAGACATGGTCTTACACGTAATCACAATATCGATGCC-ATCGT
*
46053246 CCTAGACATGGTCTTACACGTAATCACATATATCGATGCCATCGT
1 CCCAGACATGGTCTTACACGTAATCACA-ATATCGATGCCATCGT
*
46053291 CCCAGACGTGGTCTTACACG
1 CCCAGACATGGTCTTACACG
46053311 AGAACACATA
Statistics
Matches: 87, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
41 27 0.31
42 12 0.14
43 16 0.18
44 5 0.06
45 27 0.31
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (44 bp):
CCCAGACATGGTCTTACACGTAATCACAATATCGATGCCATCGT
Found at i:46053319 original size:45 final size:44
Alignment explanation
Indices: 46053189--46053321 Score: 150
Period size: 45 Copynumber: 3.0 Consensus size: 44
46053179 ATGCTATCTC
* *
46053189 ATATCGATGCCA-CTGTCCTAGACAAGGTCTTATACGAATCA-A-
1 ATATCGATGCCATC-GTCCTAGACATGGTCTTACACGAATCACAT
46053231 ATA-CGATGCCAAT-GTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCC-ATCGTCCTAGACATGGTCTTACACG-AATCACAT
* * *
46053275 ATATCGATGCCATCGTCCCAGACGTGGTCTTACACGAGAACACAT
1 ATATCGATGCCATCGTCCTAGACATGGTCTTACACGA-ATCACAT
46053320 AT
1 AT
46053322 CGGAAATCCT
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
41 27 0.35
42 9 0.12
43 1 0.01
44 6 0.08
45 35 0.45
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (44 bp):
ATATCGATGCCATCGTCCTAGACATGGTCTTACACGAATCACAT
Found at i:46056071 original size:19 final size:21
Alignment explanation
Indices: 46056028--46056081 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 21
46056018 TGCCTCTTTT
46056028 TGCATT-CATTTCATACATCA
1 TGCATTACATTTCATACATCA
*
46056048 -ACATTACATTTCAT-CAT-A
1 TGCATTACATTTCATACATCA
* *
46056066 TGCATTAAATTCCATA
1 TGCATTACATTTCATA
46056082 AAAGACCCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (21 bp):
TGCATTACATTTCATACATCA
Found at i:46057124 original size:110 final size:109
Alignment explanation
Indices: 46056904--46057196 Score: 428
Period size: 110 Copynumber: 2.7 Consensus size: 109
46056894 GTCAATCGAG
* * * * *
46056904 AAATCGAAACTCAGCACATTAGGGCACG-TTTCTC-AGATTTCCAAATGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGA-ATTTCCAAACGCAAAACATTGCCTTAT
* * * *
46056967 TTTGAAATTTTTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
65 TTT-AAA--ATTTTTAAAAAGATATTAAGCCATTTGGTTGAACGAGAA
*
46057015 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTACCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
46057080 TTTAAAATTTTTAAAAAGATATTAAGCCATTTGGTTGAACGAGAA
65 TTTAAAATTTTTAAAAAGATATTAAGCCATTTGGTTGAACGAGAA
46057125 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAA-TTTCCAAACGCAAAACATTGCCTTAT
46057190 TTTAAAA
65 TTTAAAA
46057197 AAAATTTCCT
Statistics
Matches: 167, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
110 102 0.61
111 27 0.16
112 13 0.08
113 25 0.15
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (109 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAAATTTTTAAAAAGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:46057349 original size:18 final size:18
Alignment explanation
Indices: 46057326--46057365 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
46057316 GATAACAAAT
46057326 AAATAAA-TAAATAAATAA
1 AAATAAACTAAA-AAATAA
*
46057344 AAATAAACTAAAACATAA
1 AAATAAACTAAAAAATAA
46057362 AAAT
1 AAAT
46057366 GGACATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAACTAAAAAATAA
Found at i:46057706 original size:14 final size:15
Alignment explanation
Indices: 46057682--46057710 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46057672 AGTAAGATGA
46057682 AAAATATATACATAT
1 AAAATATATACATAT
46057697 AAAA-ATATACATAT
1 AAAATATATACATAT
46057711 TTTAATACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATATATACATAT
Found at i:46057949 original size:3 final size:3
Alignment explanation
Indices: 46057943--46058031 Score: 60
Period size: 3 Copynumber: 30.0 Consensus size: 3
46057933 ATAAAACTAC
* * *
46057943 TAA TAA TAC TTA TAA TAA TAG TAA -ATA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * *
46057988 TAA TAA AAGA TGA TAA T-A TAT TAA -AA TAA TGAA GAA -AA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
46058032 AAATGCTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
2 7 0.11
3 55 0.83
4 4 0.06
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:46058035 original size:21 final size:21
Alignment explanation
Indices: 46058010--46058074 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
46058000 ATAATATATT
46058010 AAAATAATGAAGAAAATAATA
1 AAAATAATGAAGAAAATAATA
** * *
46058031 AAAATGCTG-A-AATAT-ATT
1 AAAATAATGAAGAAAATAATA
46058049 AAAATAATGAAGAAAATAATA
1 AAAATAATGAAGAAAATAATA
46058070 AAAAT
1 AAAAT
46058075 GCTGAAAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 9 0.27
19 5 0.15
20 5 0.15
21 14 0.42
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (21 bp):
AAAATAATGAAGAAAATAATA
Found at i:46058042 original size:18 final size:18
Alignment explanation
Indices: 46058021--46058082 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
46058011 AAATAATGAA
46058021 GAAAATAATAAAAATGCT
1 GAAAATAATAAAAATGCT
* **
46058039 GAAATATATTAAAATAATGAA
1 GAAA-ATAAT-AAA-AATGCT
46058060 GAAAATAATAAAAATGCT
1 GAAAATAATAAAAATGCT
46058078 GAAAA
1 GAAAA
46058083 AGGGCTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 13 0.37
19 7 0.20
20 7 0.20
21 8 0.23
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (18 bp):
GAAAATAATAAAAATGCT
Found at i:46058055 original size:39 final size:39
Alignment explanation
Indices: 46057983--46058081 Score: 162
Period size: 39 Copynumber: 2.5 Consensus size: 39
46057973 TAATAATAAT
* *
46057983 AATAATAATAAAAGATGATAATATATTAAAATAATGAAGAA
1 AATAATAA-AAATGCTGA-AATATATTAAAATAATGAAGAA
46058024 AATAATAAAAATGCTGAAATATATTAAAATAATGAAGAA
1 AATAATAAAAATGCTGAAATATATTAAAATAATGAAGAA
46058063 AATAATAAAAATGCTGAAA
1 AATAATAAAAATGCTGAAA
46058082 AAGGGCTAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
39 41 0.73
40 7 0.12
41 8 0.14
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (39 bp):
AATAATAAAAATGCTGAAATATATTAAAATAATGAAGAA
Found at i:46067714 original size:45 final size:45
Alignment explanation
Indices: 46067564--46068147 Score: 539
Period size: 45 Copynumber: 12.8 Consensus size: 45
46067554 CATCGTGGTG
* *
46067564 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * * *
46067608 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATT-AAAACAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* *
46067652 AATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * * * *
46067697 AATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-----A-TAACA
* * * * *
46067748 AACCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAAATAGA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-ACA
* * *
46067793 AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * ***
46067838 AATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * * * *
46067883 AATTTTATCTCCTTAAAGTTACAGTGGAACAGATTAAAGCTATAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT-A---ACA
* * ***
46067934 AATCTTATCTCCCTGAAGTT-CTAGTAGAGCAGATTGAAGACAGTG
1 AATCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAGATAACA
* *
46067979 AATCTTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAG-TTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * *
46068023 AATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * * *
46068068 AATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGACATCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
* * *
46068113 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
46068148 AAAGCTACAA
Statistics
Matches: 431, Mismatches: 90, Indels: 37
0.77 0.16 0.07
Matches are distributed among these distances:
43 2 0.00
44 101 0.23
45 254 0.59
46 3 0.01
47 2 0.00
48 2 0.00
49 1 0.00
50 2 0.00
51 64 0.15
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAACA
Found at i:46067796 original size:96 final size:93
Alignment explanation
Indices: 46067564--46068107 Score: 499
Period size: 96 Copynumber: 5.9 Consensus size: 93
46067554 CATCGTGGTG
* * * * * * *
46067564 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA-AATCTTATCTCCCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGATAGAGAATCTTATCTCCCTGAAGTT
* * * *
46067628 GTAGTGGAGCAGATTAAA-ACA---ACC
66 GCAGTGGAACAGATTAAAGAAAGTTACA
* * * * *
46067652 AATCTTATCTCCCTGAAGTTGCAGT-GCAGTAGATTGAAGATA-ACAAATCTTATTTTCATGAAG
1 AATCTTATCTCCCTGAAGTTGTAGTAG-AGTAGATTGAAGATAGA-GAATCTTATCTCCCTGAAG
46067715 TTGCAGTGGAACAGATTAAAGCTACAAGTTACA
64 TTGCAGTGGAACAGATTAAAG--A-AAGTTACA
* * * *
46067748 AACCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAAATAGAAAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGATAGAGAATCTTATCTCCCTGAAGTT
* *
46067813 GCAGT-GAAGCAGATTGAAGATAG---CA
66 GCAGTGGAA-CAGATTAAAGAAAGTTACA
* * * * * * *
46067838 AATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAGTGAATTTTATCTCCTTAAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGATAGAGAATCTTATCTCCCTGAAGTT
*
46067903 ACAGTGGAACAGATTAAAGCTATAAGTTACA
66 GCAGTGGAACAGATTAAAG--A-AAGTTACA
* * * * *
46067934 AATCTTATCTCCCTGAAGTTCTAGTAGAGCAGATTGAAGACAGTGAATCTTATCTCCCTCAAGTT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGATAGAGAATCTTATCTCCCTGAAGTT
*
46067999 GCAGTGGAGCAGATT---G-AAGTTACA
66 GCAGTGGAACAGATTAAAGAAAGTTACA
* * * * *
46068023 AATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATA-ACGAATCTTATCACCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGATAGA-GAATCTTATCTCCCTGAAGT
* *
46068087 TGCAGTGGAGCAGATTGAAGA
65 TGCAGTGGAACAGATTAAAGA
46068108 CATCGAATCT
Statistics
Matches: 380, Mismatches: 51, Indels: 45
0.80 0.11 0.09
Matches are distributed among these distances:
87 2 0.01
88 37 0.10
89 109 0.29
90 69 0.18
91 3 0.01
92 3 0.01
93 6 0.02
94 1 0.00
95 3 0.01
96 145 0.38
97 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (93 bp):
AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAGATAGAGAATCTTATCTCCCTGAAGTT
GCAGTGGAACAGATTAAAGAAAGTTACA
Found at i:46067840 original size:141 final size:138
Alignment explanation
Indices: 46067564--46068201 Score: 588
Period size: 141 Copynumber: 4.6 Consensus size: 138
46067554 CATCGTGGTG
* *
46067564 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT----AAAGCTACAAATCTTATCTCCCTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
* * * * * *
46067625 GTTGTAGTGGAGCAGATT-AAAACAACCAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGA
66 GTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGA
* *
46067689 AGATAACA
131 AGACAGCA
* * * *
46067697 AATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAACCTTATCTCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAG--A-AAGTTACAAATCTTATCTCCCT
* * * *
46067762 GAAGTTGTAGTAGAGTAGATTGAAAATAGA-AAATCTTATTTCCCTGAAGTTGCAGTGAAGCAGA
63 AAAGTTGCAGTGGAGTAGATTGAAAATA-ACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGA
*
46067826 TTGAAGATAGCA
127 TTGAAGACAGCA
* * * * * * * *
46067838 AATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAG-T--GAATTTTATCTCCTTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
* **
46067900 GTTACAGTGGAACAGATT-AAAGCTATAAGTTACAAATCTTATCTCCCTGAAGTT-CTAGT-AGA
66 GTTGCAGTGGAGTAGATTGAAA---AT-A---ACAAATCTTATCTCCCTGAAGTTGC-AGTGA-A
**
46067962 GCAGATTGAAGACAGTG
122 GCAGATTGAAGACAGCA
* * * *
46067979 AATCTTATCTCCCTCAAGTTGCAGTGGAGCAGATT---G-AAGTTACAAATCTCATCTCCCTGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
* * * * *
46068040 GTTGCAATGGAGTAGATTGAAGATAACGAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGA
66 GTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGA
* *
46068105 AGACATCG
131 AGACAGCA
* * * *
46068113 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACTAATCTTATCCCCCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAG--A-AAGTTACAAATCTTATCTCCCT
*
46068178 AAAGTTGCAGTGCAGTAGATTGAA
63 AAAGTTGCAGTGGAGTAGATTGAA
46068202 GCGACAAATC
Statistics
Matches: 408, Mismatches: 66, Indels: 54
0.77 0.12 0.10
Matches are distributed among these distances:
133 31 0.08
134 75 0.18
135 27 0.07
137 7 0.02
138 7 0.02
139 2 0.00
140 68 0.17
141 190 0.47
142 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (138 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGAAAGTTACAAATCTTATCTCCCTAAA
GTTGCAGTGGAGTAGATTGAAAATAACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGA
AGACAGCA
Found at i:46067855 original size:186 final size:185
Alignment explanation
Indices: 46067567--46068102 Score: 682
Period size: 186 Copynumber: 2.9 Consensus size: 185
46067557 CGTGGTGAAT
* * * * *
46067567 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA-CAAATCTTATCTCCCTAAAGTTGT
1 CTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAA-ATAGAAAATCTTATCTCCCTAAAGTTGC
* * * * *
46067630 AGTGGAGCAGATT-AAAACAACCAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGAAGATA
65 AGTGGAGCAGATTGAAGA-TACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATA
* * *
46067694 ACAAATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
129 ACGAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
* * *
46067751 CTTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAAATAGAAAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAAATAGAAAATCTTATCTCCCTAAAGTTGCA
* * * *
46067816 GTGAAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTTGTAATGGAGCAGATTGAAGATAG
66 GTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAA
* * * * * * *
46067881 TGAATTTTATCTCCTTAAAGTTACAGTGGAACAGATTAAAGCTATAAGTTACAAAT
130 CGAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
* * * ** *
46067937 CTTATCTCCCTGAAGTTCTAGTAGAGCAGATTGAAGACAGTGAATCTTATCTCCCTCAAGTTGCA
1 CTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAAATAGAAAATCTTATCTCCCTAAAGTTGCA
* *
46068002 GTGGAGCAGATTGAAGTTACAAATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAAC
66 GTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAAC
* * *
46068067 GAATCTTATCACCCTGAAGTTGCAGTGGAGCAGATT
131 GAATCTTATCTCCATGAAGTTGCAGTGGAACAGATT
46068103 GAAGACATCG
Statistics
Matches: 300, Mismatches: 48, Indels: 7
0.85 0.14 0.02
Matches are distributed among these distances:
184 31 0.10
185 107 0.36
186 162 0.54
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (185 bp):
CTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAAATAGAAAATCTTATCTCCCTAAAGTTGCA
GTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAAC
GAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAAC
Found at i:46068038 original size:230 final size:233
Alignment explanation
Indices: 46067564--46068188 Score: 691
Period size: 230 Copynumber: 2.7 Consensus size: 233
46067554 CATCGTGGTG
* * *
46067564 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
* ** * * ** *
46067629 TAGTGGAGCAGATT-AAAACAACCAATCTTATCTCCCTGAAGTTGCAGTGCAGTAGATTGAAG--
66 TAGTGGAGCAGATTGAAGAC-ATGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCT
* * * *
46067691 AT-A---ACAAATCTTATTTTCATGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAACC
130 ATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGC-ACAAGTTA-AAACC
* * *
46067752 TTATCTCCCTGAAGTTGTAGTAGAGTAGATTGAAAATAGAA
193 TTATCTCCCTCAAGTTGCAGTAGAGCAGATTGAAAATAGAA
* *
46067793 AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCCCTGAAGTT
* * * * *
46067858 GTAATGGAGCAGATTGAAGATAGTGAATTTTATCTCCTTAAAGTTACAGTGGAACAGATTAAAGC
65 GTAGTGGAGCAGATTGAAGACA-TGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
* * * *
46067923 TATAAGTTACAAATCTTATCTCCCTGAAGTT-CTAGTAGAGCAGATTGAAG-AC-AG-T-GAATC
129 TATAAGTTACAAATCTTATCTCCCTGAAGTTGC-AGTAGAACAGATTAAAGCACAAGTTAAAACC
* ** *
46067983 TTATCTCCCTCAAGTTGCAGTGGAGCAGATTGAAGTTA-CA
193 TTATCTCCCTCAAGTTGCAGTAGAGCAGATTGAAAATAGAA
* * * * *
46068023 AATCTCATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAACGAATCTTATCACCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAATCTTATCTCCCTGAAGTT
* *
46068088 GCAGTGGAGCAGATTGAAGACATCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
65 GTAGTGGAGCAGATTGAAGACAT-GAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
* * * *
46068153 TACAAGTTACTAATCTTATCCCCCTAAAGTTGCAGT
129 TATAAGTTACAAATCTTATCTCCCTGAAGTTGCAGT
46068189 GCAGTAGATT
Statistics
Matches: 332, Mismatches: 51, Indels: 25
0.81 0.12 0.06
Matches are distributed among these distances:
229 39 0.12
230 179 0.54
231 71 0.21
233 3 0.01
234 3 0.01
235 2 0.01
236 1 0.00
237 34 0.10
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (233 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCCCTGAAGTTG
TAGTGGAGCAGATTGAAGACATGAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTA
TAAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGCACAAGTTAAAACCTTA
TCTCCCTCAAGTTGCAGTAGAGCAGATTGAAAATAGAA
Found at i:46072064 original size:22 final size:22
Alignment explanation
Indices: 46072027--46072081 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 22
46072017 ACTTAATATT
46072027 TAAGTATATATATAAT-ATAAT-AA
1 TAAGTA-A-ATATAATCA-AATAAA
46072050 TAAAGTAAATATAATCAAATAAA
1 T-AAGTAAATATAATCAAATAAA
46072073 TAAGTAAAT
1 TAAGTAAAT
46072082 GAAATAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 18 0.62
23 6 0.21
24 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
TAAGTAAATATAATCAAATAAA
Found at i:46072179 original size:4 final size:4
Alignment explanation
Indices: 46072082--46072168 Score: 54
Period size: 4 Copynumber: 22.0 Consensus size: 4
46072072 ATAAGTAAAT
* * * *
46072082 GAAA TAAA GAAA GAAA GAAA GAAA AAAA GAATT GAAA G-AA CAAA GCAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA G-AAA
* * * * *
46072131 -AAC GAAA CAGA GAAG GAAA GAAA GAAA -AAG GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
46072169 AGGAGAAAGA
Statistics
Matches: 60, Mismatches: 18, Indels: 10
0.68 0.20 0.11
Matches are distributed among these distances:
3 6 0.10
4 48 0.80
5 6 0.10
ACGTcount: A:0.70, C:0.05, G:0.22, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:46072612 original size:41 final size:42
Alignment explanation
Indices: 46072531--46072614 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 42
46072521 GAGTTCAGAG
* * *
46072531 ATTACTTCGACTTCAAGTCGATGAGACACTTGGTGTCAATTT
1 ATTACTTCGACTTCAACTCGATGAGACACTAGGTGCCAATTT
*
46072573 ATTACTTCGGA-TT-AACTCGATGAGGCACTAGGTGCCAATTT
1 ATTACTTC-GACTTCAACTCGATGAGACACTAGGTGCCAATTT
46072614 A
1 A
46072615 CTTCGGTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 25 0.68
42 10 0.27
43 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (42 bp):
ATTACTTCGACTTCAACTCGATGAGACACTAGGTGCCAATTT
Found at i:46072892 original size:14 final size:15
Alignment explanation
Indices: 46072873--46072901 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46072863 GAATTGAATA
46072873 TGTTATGAA-TGATT
1 TGTTATGAACTGATT
46072887 TGTTATGAACTGATT
1 TGTTATGAACTGATT
46072902 AATTGAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (15 bp):
TGTTATGAACTGATT
Found at i:46084622 original size:3 final size:3
Alignment explanation
Indices: 46084614--46084640 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46084604 ATTTACATTG
46084614 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
46084641 TTTTTTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:46087079 original size:21 final size:21
Alignment explanation
Indices: 46087055--46087094 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
46087045 TGTGACTTGG
46087055 ATTGAATTGAATG-TAAATTGT
1 ATTGAATTG-ATGTTAAATTGT
46087076 ATTGAATTGATGTTAAATT
1 ATTGAATTGATGTTAAATT
46087095 TACTCGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (21 bp):
ATTGAATTGATGTTAAATTGT
Found at i:46092426 original size:15 final size:15
Alignment explanation
Indices: 46092390--46092440 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
46092380 GTGATTTCGT
46092390 ATTTTTATATAATTA
1 ATTTTTATATAATTA
46092405 ATATTTTA-ATAATTTA
1 AT-TTTTATATAA-TTA
*
46092421 ATTTTTGTAT-ATTAA
1 ATTTTTATATAATT-A
46092436 ATTTT
1 ATTTT
46092441 CATTCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 2 0.06
15 17 0.55
16 12 0.39
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
ATTTTTATATAATTA
Found at i:46104507 original size:6 final size:6
Alignment explanation
Indices: 46104500--46104531 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
46104490 GCGTAGTGGG
*
46104500 ACTGGG ACTGGT ACTGGT ACTGGT ACTGGT AC
1 ACTGGT ACTGGT ACTGGT ACTGGT ACTGGT AC
46104532 GGGGGACTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (6 bp):
ACTGGT
Found at i:46107618 original size:93 final size:93
Alignment explanation
Indices: 46107459--46107642 Score: 332
Period size: 93 Copynumber: 2.0 Consensus size: 93
46107449 TATCACTTGC
* *
46107459 ATCAGTCTGCAAGATTCTTTTGTCATTGAATGGGATTTGTAACGGTGGTAAGTACGCTGTTTTTT
1 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTACGCTGTTTTTT
*
46107524 CCTTGATTTGTTGAACAGCCTTTGTCCA
66 CCTTGATCTGTTGAACAGCCTTTGTCCA
*
46107552 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTGCGCTGTTTTTT
1 ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTACGCTGTTTTTT
46107617 CCTTGATCTGTTGAACAGCCTTTGTC
66 CCTTGATCTGTTGAACAGCCTTTGTC
46107643 TGTTTGGACT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (93 bp):
ATCAGTCTGCAAGATTCTTTTGTCACTGAATGGGATTTGTAACGGTGGCAAGTACGCTGTTTTTT
CCTTGATCTGTTGAACAGCCTTTGTCCA
Found at i:46109835 original size:13 final size:13
Alignment explanation
Indices: 46109817--46109843 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46109807 TCAGATCTTC
46109817 AGGATTACCAATA
1 AGGATTACCAATA
46109830 AGGATTACCAATA
1 AGGATTACCAATA
46109843 A
1 A
46109844 AGTAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (13 bp):
AGGATTACCAATA
Found at i:46112050 original size:18 final size:18
Alignment explanation
Indices: 46112027--46112064 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
46112017 AGGCATGATC
46112027 TTGGACCCTATACACTAT
1 TTGGACCCTATACACTAT
46112045 TTGGACCCTATACACTAT
1 TTGGACCCTATACACTAT
46112063 TT
1 TT
46112065 TAGTATCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (18 bp):
TTGGACCCTATACACTAT
Found at i:46115231 original size:14 final size:14
Alignment explanation
Indices: 46115201--46115242 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
46115191 ATTACCTTCT
46115201 AAAT-AATCA-TG-
1 AAATAAATCACTGA
46115212 AAATAAATCACTGA
1 AAATAAATCACTGA
*
46115226 AAATAAACCACTGA
1 AAATAAATCACTGA
46115240 AAA
1 AAA
46115243 AGTATCAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 2 0.07
14 16 0.59
ACGTcount: A:0.60, C:0.14, G:0.07, T:0.19
Consensus pattern (14 bp):
AAATAAATCACTGA
Found at i:46116300 original size:3 final size:3
Alignment explanation
Indices: 46116292--46116318 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46116282 TTAAAAAGGA
46116292 AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG
46116319 GTAGATGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:46119254 original size:3 final size:3
Alignment explanation
Indices: 46119246--46119291 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
46119236 GTTTGTTTGG
46119246 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46119292 ATAAAATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:46134479 original size:20 final size:21
Alignment explanation
Indices: 46134429--46134485 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 21
46134419 GAAAGAATGC
46134429 TCAAGATTTGCACCTAAAATA
1 TCAAGATTTGCACCTAAAATA
* *
46134450 TCTAATATTTGCACCTAATAT-
1 TC-AAGATTTGCACCTAAAATA
46134471 TCAAGATTT-CACCTA
1 TCAAGATTTGCACCTA
46134486 GTGGACTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.19
20 6 0.19
21 4 0.12
22 16 0.50
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (21 bp):
TCAAGATTTGCACCTAAAATA
Found at i:46145470 original size:38 final size:38
Alignment explanation
Indices: 46145406--46145573 Score: 212
Period size: 38 Copynumber: 4.4 Consensus size: 38
46145396 GATACAATTA
* * *
46145406 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATAT
1 CACCTGCACAAAGCCTGCTAGACACAAAGCCCGAATAT
*
46145444 CACCTGCATAAAGCCTGCTAGACACAAAGCCCTGAATAT
1 CACCTGCACAAAGCCTGCTAGACACAAAGCCC-GAATAT
*
46145483 CACCTGCACAAAGCCTGCTAGACACAAAGCTCGAATAT
1 CACCTGCACAAAGCCTGCTAGACACAAAGCCCGAATAT
* * * * *
46145521 CA-CTGGCACAAAGCCTGCTAGGCATAGAGTCCAAATAT
1 CACCT-GCACAAAGCCTGCTAGACACAAAGCCCGAATAT
*
46145559 CACCAGCACAAAGCC
1 CACCTGCACAAAGCC
46145574 CGAATTAACG
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
37 2 0.02
38 75 0.66
39 37 0.32
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.14
Consensus pattern (38 bp):
CACCTGCACAAAGCCTGCTAGACACAAAGCCCGAATAT
Found at i:46145512 original size:77 final size:76
Alignment explanation
Indices: 46145406--46145573 Score: 221
Period size: 77 Copynumber: 2.2 Consensus size: 76
46145396 GATACAATTA
* *
46145406 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATATCACCT-GCATAAAGCCTGCTAGACACA
1 CACCAGCACAAAGCCTACTAGACACAAAGCCCGAATATCA-CTGGCACAAAGCCTGCTAGACACA
*
46145470 AAGCCCTGAATAT
65 AAGCCC-AAATAT
* * * * * *
46145483 CACCTGCACAAAGCCTGCTAGACACAAAGCTCGAATATCACTGGCACAAAGCCTGCTAGGCATAG
1 CACCAGCACAAAGCCTACTAGACACAAAGCCCGAATATCACTGGCACAAAGCCTGCTAGACACAA
*
46145548 AGTCCAAATAT
66 AGCCCAAATAT
46145559 CACCAGCACAAAGCC
1 CACCAGCACAAAGCC
46145574 CGAATTAACG
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
76 21 0.27
77 58 0.73
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.14
Consensus pattern (76 bp):
CACCAGCACAAAGCCTACTAGACACAAAGCCCGAATATCACTGGCACAAAGCCTGCTAGACACAA
AGCCCAAATAT
Found at i:46146923 original size:20 final size:20
Alignment explanation
Indices: 46146898--46146937 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
46146888 AATATTTTCC
*
46146898 AGTAAATCATTTTCCCGAAA
1 AGTAAAACATTTTCCCGAAA
46146918 AGTAAAACATTTTCCCGAAA
1 AGTAAAACATTTTCCCGAAA
46146938 TCATTTTACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTCCCGAAA
Found at i:46146952 original size:34 final size:35
Alignment explanation
Indices: 46146886--46146952 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
46146876 CAAACACCAG
* *
46146886 AAAATATTTTCCAGTAAATCATTTTCCCGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACCGAAAAGT
* *
46146921 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACCGAAAA
46146953 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACCGAAAAGT
Found at i:46150946 original size:51 final size:51
Alignment explanation
Indices: 46150812--46150989 Score: 234
Period size: 51 Copynumber: 3.5 Consensus size: 51
46150802 GATGGTCAGG
* * *
46150812 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-ATTGGTCACA
* * * * *
46150862 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATTGGTCACA
* * *
46150913 TGTGTAGTACTATGTGCAGGCTTCTACGTGTACCGGATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATTGGTCACA
46150964 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
46150990 TGTGAACCAA
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
50 34 0.31
51 74 0.68
52 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTATTGGTCACA
Found at i:46151010 original size:102 final size:101
Alignment explanation
Indices: 46150811--46151010 Score: 269
Period size: 102 Copynumber: 2.0 Consensus size: 101
46150801 TGATGGTCAG
*
46150811 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTACTATG
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATG
* ** * *
46150876 TGCAGGCTACTATGCGTACCGGATAGTTTTGATCAC
66 TGCAGGCTACTATGCGAACCAAACAGTATTGATCAC
* * *
46150912 GTGTGTAGTACTATGTGCAGGCTTCTACGTGTACC-GGATGGTAATGGTCACATGTGTAGTACTA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAT-A-GGTCACATGTGTAGTACTA
*
46150976 TGTGCAGGCTACTATGTGAACCAAACA-TCATTGAT
64 TGTGCAGGCTACTATGCGAACCAAACAGT-ATTGAT
46151011 TAGTAAGGTG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
100 5 0.06
101 36 0.42
102 45 0.52
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATG
TGCAGGCTACTATGCGAACCAAACAGTATTGATCAC
Found at i:46151051 original size:45 final size:45
Alignment explanation
Indices: 46151000--46151088 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
46150990 TGTGAACCAA
* * *
46151000 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
*
46151045 ACATCATTGATTAATAAGGTGGTTGTTATGTGCTAAATCCACCG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCG
46151089 AGTATCTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCACCGG
Found at i:46159298 original size:15 final size:16
Alignment explanation
Indices: 46159268--46159302 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
46159258 ATTTATCAAT
*
46159268 TTTAATATTGATAGTA
1 TTTAATATTGAGAGTA
46159284 TTTAA-ATTGAGAGTA
1 TTTAATATTGAGAGTA
46159299 TTTA
1 TTTA
46159303 TAAATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTAATATTGAGAGTA
Found at i:46162637 original size:13 final size:13
Alignment explanation
Indices: 46162619--46162654 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
46162609 TATTGTTTTA
*
46162619 TTTTCTATATAAG
1 TTTTCTAAATAAG
*
46162632 TTTTCTAAATAAT
1 TTTTCTAAATAAG
46162645 TTTTCTAAAT
1 TTTTCTAAAT
46162655 TTATTAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (13 bp):
TTTTCTAAATAAG
Found at i:46162687 original size:15 final size:16
Alignment explanation
Indices: 46162650--46162688 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
46162640 ATAATTTTTC
*
46162650 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
46162666 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
46162681 TAAATTTA
1 TAAATTTA
46162689 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:46162699 original size:61 final size:61
Alignment explanation
Indices: 46162626--46162767 Score: 162
Period size: 61 Copynumber: 2.3 Consensus size: 61
46162616 TTATTTTCTA
* *
46162626 TATAAGTTTTCTAAATAATTTTTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTATTAAATT
1 TATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTGAT-AAAATTTA-TAAGTATCAAATT
* * * * *
46162687 TATAAGTTTTCTAAAAAAGTGTTCTAGATTTATTATTGATAAAATTTATAAGTATCAATTT
1 TATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTGATAAAATTTATAAGTATCAAATT
* * *
46162748 TACACGTTTTGTAAATAATT
1 TATAAGTTTTCTAAATAATT
46162768 ATATTTTTTA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 1 0.01
61 64 0.96
62 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (61 bp):
TATAAGTTTTCTAAATAATTGTTCTAAATTTATTAGTGATAAAATTTATAAGTATCAAATT
Found at i:46162787 original size:24 final size:24
Alignment explanation
Indices: 46162759--46162808 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
46162749 ACACGTTTTG
*
46162759 TAAATAATTATATTT-TTTAAAATT
1 TAAAT-ATTATATTTATATAAAATT
*
46162783 TAAATATTTTATTTATATAAAATT
1 TAAATATTATATTTATATAAAATT
46162807 TA
1 TA
46162809 TATTGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TAAATATTATATTTATATAAAATT
Done.