Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 154 of 210
Found at i:51616984 original size:15 final size:15
Alignment explanation
Indices: 51616960--51616990 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
51616950 AACCCCTAAT
51616960 CCATAATCCCTAAAC
1 CCATAATCCCTAAAC
*
51616975 CCATACTCCCTAAAC
1 CCATAATCCCTAAAC
51616990 C
1 C
51616991 TTAAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (15 bp):
CCATAATCCCTAAAC
Found at i:51617609 original size:113 final size:114
Alignment explanation
Indices: 51617237--51617679 Score: 626
Period size: 114 Copynumber: 3.9 Consensus size: 114
51617227 TAAAATATTT
* * *
51617237 TTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCCGAAACCTCAGAAAACGGCGTCGTTGGAC
1 TTAGCGGCGCTTTCT-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
* * *
51617301 TTAGGTTTTTTTGTGGCGCTTTTCCAAAAATGTCGCTAAATCCCTGAGCA
65 TTAGGTTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAGCA
* * * * ** *
51617351 TTAGCGACGCTTTCTTATAAATGCCGCTAAATCCCCGAAAGCTCAGAAAATGGTTTCGTTGGTCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
*
51617416 TAGGTTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTAAGCA
66 TAGGTTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAGCA
* *
51617465 TTAGCGGCGCTTTCTTATAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
*
51617530 TAGG-TTTTTTGCGGCGC-TTTCCGAAAAACGCCGCTAAAGCCCTGAGCA
66 TAGGTTTTTTTGCGGCGCTTTTCC-AAAAACGCCGCTAAATCCCTGAGCA
* * * *
51617578 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGACATCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
*
51617643 TAGG-TTTTTTGCAGCGC-TTTCTCAAAAACGCCGCTAA
66 TAGGTTTTTTTGCGGCGCTTTTC-CAAAAACGCCGCTAA
51617680 TGCTTATTTT
Statistics
Matches: 299, Mismatches: 27, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
112 5 0.02
113 129 0.43
114 164 0.55
115 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
TAGGTTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCTGAGCA
Found at i:51617639 original size:227 final size:227
Alignment explanation
Indices: 51617237--51617679 Score: 642
Period size: 227 Copynumber: 2.0 Consensus size: 227
51617227 TAAAATATTT
51617237 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAAACCTCAGAAAACGGCGTCGTTGGACT
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAAACCTCAGAAAACGGCGTCGTTGGACT
* * * *
51617302 TAGGTTTTTTTGTGGCGCTTTTCCAAAAATGTCGCTAAATCCCTGAGCATTAGCGACGCTTTCTT
66 TAGGTTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTT
* * * *** * *
51617367 ATAAATGCCGCTAAATCCCCGAAAGCTCAGAAAATGGTTTCGTTGGTCTTAGGTTTTTTTGCGGC
131 AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGTTGGGCTTAGG-TTTTTTGCAGC
51617432 GCTTT-TCCAAAAACGCCGCTAAATCCCTAAGCA
195 GCTTTCT-CAAAAACGCCGCTAAATCCCTAAGCA
* * * * *
51617465 TTAGCGGCGC-TTTCTTATAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTTC-CAAAAACGCCGCTAAATCCCCGAAACCTCAGAAAACGGCGTCGTTGGAC
*
51617529 TTAGG-TTTTTTGCGGCGC-TTTCCGAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTC
65 TTAGGTTTTTTTGCGGCGCTTTTCC-AAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTC
* *
51617592 TTAAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGACATCGTTGGGCTTAGGTTTTTTGCAG
129 TTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGTTGGGCTTAGGTTTTTTGCAG
51617657 CGCTTTCTCAAAAACGCCGCTAA
194 CGCTTTCTCAAAAACGCCGCTAA
51617680 TGCTTATTTT
Statistics
Matches: 192, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
226 35 0.18
227 98 0.51
228 59 0.31
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (227 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAAACCTCAGAAAACGGCGTCGTTGGACT
TAGGTTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTT
AAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACATCGTTGGGCTTAGGTTTTTTGCAGCG
CTTTCTCAAAAACGCCGCTAAATCCCTAAGCA
Found at i:51618007 original size:15 final size:15
Alignment explanation
Indices: 51617987--51618016 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51617977 TCAAAAGCCT
51617987 TAGCTTCATGAGTGA
1 TAGCTTCATGAGTGA
51618002 TAGCTTCATGAGTGA
1 TAGCTTCATGAGTGA
51618017 ATTACATTCA
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:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (15 bp):
TAGCTTCATGAGTGA
Found at i:51623712 original size:49 final size:49
Alignment explanation
Indices: 51623640--51623770 Score: 172
Period size: 49 Copynumber: 2.7 Consensus size: 49
51623630 TTCTCGATGC
** *
51623640 CATAGTCCAATTATGGTCTTACACGTAATCACATAACACATACCAATGA
1 CATAGTCCAGCTATGGTCTTACACGGAATCACATAACACATACCAATGA
* * * ** *
51623689 CATAGTCCAGCTATGGTCTTACACGGAATCACGTATCACTTACTGATGC
1 CATAGTCCAGCTATGGTCTTACACGGAATCACATAACACATACCAATGA
*
51623738 CATAGCCCAGCTATGGTCTTACACGGAATCACA
1 CATAGTCCAGCTATGGTCTTACACGGAATCACA
51623771 CTGATGCCAT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (49 bp):
CATAGTCCAGCTATGGTCTTACACGGAATCACATAACACATACCAATGA
Found at i:51623863 original size:47 final size:48
Alignment explanation
Indices: 51623765--51623926 Score: 141
Period size: 47 Copynumber: 3.3 Consensus size: 48
51623755 CTTACACGGA
* * * * *
51623765 ATCACACTGATGCCATATCCCAGATATGGTCTTACACAGTAGCACAT--
1 ATCACACCGATGCCATATCCCAGATATGGTCTTATAC-GGAACTCATAC
*
51623812 ATCACACCGATGCCATATCCCAGATATGGTTTTATACGGAACTCATAATCAC
1 ATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAACTC---AT-AC
* ** * * *
51623864 ATCACACCGATGCCATAGCCCACCTATGGTCTTATACGGAAATCACAT
1 ATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAACTCATAC
*
51623912 ATCACA-TGATGCCAT
1 ATCACACCGATGCCAT
51623927 GGTCTAACCA
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
46 4 0.04
47 42 0.44
48 7 0.07
49 3 0.03
52 39 0.41
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.25
Consensus pattern (48 bp):
ATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAACTCATAC
Found at i:51623892 original size:52 final size:53
Alignment explanation
Indices: 51623812--51623918 Score: 153
Period size: 52 Copynumber: 2.0 Consensus size: 53
51623802 AGTAGCACAT
* * * * *
51623812 ATCACACCGATGCCATATCCCAGATATGGTTTTATACGGAACTCATA-ATCAC
1 ATCACACCGATGCCATAGCCCACATATGGTCTTATACGGAAATCACATATCAC
*
51623864 ATCACACCGATGCCATAGCCCACCTATGGTCTTATACGGAAATCACATATCAC
1 ATCACACCGATGCCATAGCCCACATATGGTCTTATACGGAAATCACATATCAC
51623917 AT
1 AT
51623919 GATGCCATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
52 41 0.85
53 7 0.15
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (53 bp):
ATCACACCGATGCCATAGCCCACATATGGTCTTATACGGAAATCACATATCAC
Found at i:51628059 original size:23 final size:23
Alignment explanation
Indices: 51628033--51628083 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
51628023 ACCTACTTTC
* *
51628033 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
51628056 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
51628079 TTACA
1 TTACA
51628084 TTTCTCTCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:51629419 original size:13 final size:13
Alignment explanation
Indices: 51629401--51629426 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51629391 TACTTGCTTG
51629401 CTTAAACAACTCT
1 CTTAAACAACTCT
51629414 CTTAAACAACTCT
1 CTTAAACAACTCT
51629427 TGATTATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (13 bp):
CTTAAACAACTCT
Found at i:51629743 original size:50 final size:50
Alignment explanation
Indices: 51629619--51630052 Score: 451
Period size: 50 Copynumber: 8.6 Consensus size: 50
51629609 ATAATAACAA
* * ** * * *
51629619 GCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGTAC--T
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGT
* * * * ** *
51629668 GTCAATGCCATATCCCAGATATGGTCTTACATGGGAGATCTCATATCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * ** * * *
51629718 GCCCATGCTATGTCCCAGACATGGTCTTACGGGGGACCTGTCATCCCAGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
51629768 GCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTAGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * *
51629818 GCCAACGCCATGTCCAAGAGATGGTCTTACGTGGGACCTCTCATCTTGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * *
51629868 GCCAATGCCATGTCCCAGAGATGGTCTTACATGGGACCTCTCATCTCGAT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
*
51629918 GCCAACGCCATGTCCCA-AGCATGGTCTTACATGGGACCTCTCATCTCTGT
1 GCCAACGCCATGTCCCAGA-CATGGTCTTACATGGGACCTCTCATCTCGGT
* * *
51629968 GCCAACGCCATGTCCCAGACATGGTCGTACATGGTACCTCTCATAATCTCAATGAT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGT
*
51630024 GCCAATGCCATGTCCCAGACATGGTCTTA
1 GCCAACGCCATGTCCCAGACATGGTCTTA
51630053 TATGAGATGG
Statistics
Matches: 326, Mismatches: 49, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
48 1 0.00
49 37 0.11
50 254 0.78
51 1 0.00
53 5 0.02
56 28 0.09
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:51632407 original size:23 final size:23
Alignment explanation
Indices: 51632358--51632408 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
51632348 ACCTACTTTT
* * *
51632358 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
51632381 TTACAGTAGTAATTTTCGGGATG
1 TTACAGTAGTAATTTTCGGGATA
51632404 TTACA
1 TTACA
51632409 TAGATTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.24, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:51647274 original size:22 final size:23
Alignment explanation
Indices: 51647249--51647298 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
51647239 GAACAGCAGC
51647249 AGTA-CGCGGCCTGGGTGTGAGT
1 AGTAGCGCGGCCTGGGTGTGAGT
*
51647271 AGTAGTGCGCGGCCTTGGTGTGAGT
1 AGTA--GCGCGGCCTGGGTGTGAGT
51647296 AGT
1 AGT
51647299 TACGTCAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
25 20 0.83
ACGTcount: A:0.14, C:0.16, G:0.44, T:0.26
Consensus pattern (23 bp):
AGTAGCGCGGCCTGGGTGTGAGT
Found at i:51647957 original size:30 final size:30
Alignment explanation
Indices: 51647900--51647958 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
51647890 TGCCTTTGAA
* *
51647900 AATATTTACAAAAAGGGACACCTAATTTTT
1 AATATTTACAAAAAGGAACACCAAATTTTT
51647930 AATATTTACAAAAA-GAACAACCAAATTTT
1 AATATTTACAAAAAGGAAC-ACCAAATTTT
51647959 GCAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGGAACACCAAATTTTT
Found at i:51650793 original size:6 final size:6
Alignment explanation
Indices: 51650782--51650818 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
51650772 GTCGAAACCA
* *
51650782 TTCCTT TTCCTT TTCCTT TTTCTT TTCATT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT T
51650819 ACATCATCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.70
Consensus pattern (6 bp):
TTCCTT
Found at i:51654262 original size:27 final size:27
Alignment explanation
Indices: 51654232--51654331 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
51654222 GTCCCGACAG
* * * *
51654232 ACTACCTCGTGTTTTCTGTCTTAGTGA
1 ACTACCCCGTGTTTACTGTATCAGTGA
*
51654259 ACTACCCCATGTTTACTGTATCAGTGA
1 ACTACCCCGTGTTTACTGTATCAGTGA
* *
51654286 ATTACCCCGTGTTTATTGTATC-GATGA
1 ACTACCCCGTGTTTACTGTATCAG-TGA
* *
51654313 GCTACCCCATGTTTACTGT
1 ACTACCCCGTGTTTACTGT
51654332 CCTAGTGGAC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.02
27 59 0.98
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (27 bp):
ACTACCCCGTGTTTACTGTATCAGTGA
Found at i:51654344 original size:27 final size:27
Alignment explanation
Indices: 51654231--51654359 Score: 93
Period size: 27 Copynumber: 4.8 Consensus size: 27
51654221 TGTCCCGACA
* * * *
51654231 GACTACCTCGTGTTTTCTGTCTTAGTG
1 GACTACCCCATGTTTACTGTCATAGTG
*
51654258 AACTACCCCATGTTTACTGT-ATCAGTG
1 GACTACCCCATGTTTACTGTCAT-AGTG
* * * * *
51654285 AATTACCCCGTGTTTATTGT-ATCGAT-
1 GACTACCCCATGTTTACTGTCATAG-TG
*
51654311 GAGCTACCCCATGTTTACTGTCCTAGTG
1 GA-CTACCCCATGTTTACTGTCATAGTG
**
51654339 GACTACCCCACATTTACTGTC
1 GACTACCCCATGTTTACTGTC
51654360 CCAATGGATT
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
26 3 0.04
27 73 0.91
28 4 0.05
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.36
Consensus pattern (27 bp):
GACTACCCCATGTTTACTGTCATAGTG
Found at i:51654367 original size:27 final size:27
Alignment explanation
Indices: 51654314--51654367 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
51654304 TATCGATGAG
** * *
51654314 CTACCCCATGTTTACTGTCCTAGTGGA
1 CTACCCCACATTTACTGTCCCAATGGA
51654341 CTACCCCACATTTACTGTCCCAATGGA
1 CTACCCCACATTTACTGTCCCAATGGA
51654368 TTGTATTGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (27 bp):
CTACCCCACATTTACTGTCCCAATGGA
Found at i:51659694 original size:16 final size:16
Alignment explanation
Indices: 51659673--51659704 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51659663 TCAATTAATC
*
51659673 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
51659689 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
51659705 CAACCAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:51664787 original size:20 final size:21
Alignment explanation
Indices: 51664745--51664794 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
51664735 ATATTTTTAT
* * *
51664745 AATTTTTAAAAAATTAAATAA
1 AATTTTTATAAAATGAAAAAA
51664766 AATTTTTATAAAA-GAAAAAA
1 AATTTTTATAAAATGAAAAAA
*
51664786 AAGTTTTAT
1 AATTTTTAT
51664795 TTTAGCGGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (21 bp):
AATTTTTATAAAATGAAAAAA
Found at i:51668397 original size:14 final size:14
Alignment explanation
Indices: 51668378--51668415 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
51668368 TGTTTGACCG
51668378 AAAATGGTTTTTGA
1 AAAATGGTTTTTGA
* *
51668392 AAAATGATTTTTGG
1 AAAATGGTTTTTGA
51668406 AAAATGGTTT
1 AAAATGGTTT
51668416 CTTTTTCTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (14 bp):
AAAATGGTTTTTGA
Found at i:51668491 original size:99 final size:100
Alignment explanation
Indices: 51668379--51668578 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 100
51668369 GTTTGACCGA
51668379 AAATGGTTTTTGAAAAATGATTTTTGGAAAATGGTTTCTTTTTCTAGAAAATCTAATATTTTTTG
1 AAATGGTTTTTGAAAAATGATTTTTGGAAAATGGTTTCTTTTTCTAGAAAATCTAATATTTTTTG
51668444 GTGTTTGAATGAATCTGTGTAAAAT-TTTTCTGTT
66 GTGTTTGAATGAATCTGTGTAAAATATTTTCTGTT
51668478 AAATGGTTTTTGAAAAATGATTTTTGGAAAATGGTTTCTTTTTCTAGAAAATCTAATATTTTTTG
1 AAATGGTTTTTGAAAAATGATTTTTGGAAAATGGTTTCTTTTTCTAGAAAATCTAATATTTTTTG
51668543 GTGTTTGAATGAATCTGTGTAAAATATTTTCTGTT
66 GTGTTTGAATGAATCTGTGTAAAATATTTTCTGTT
51668578 A
1 A
51668579 TTTGGCAGAT
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 90 0.90
100 10 0.10
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (100 bp):
AAATGGTTTTTGAAAAATGATTTTTGGAAAATGGTTTCTTTTTCTAGAAAATCTAATATTTTTTG
GTGTTTGAATGAATCTGTGTAAAATATTTTCTGTT
Found at i:51668495 original size:14 final size:14
Alignment explanation
Indices: 51668478--51668514 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
51668468 TTTTTCTGTT
51668478 AAATGGTTTTTGAA
1 AAATGGTTTTTGAA
* *
51668492 AAATGATTTTTGGA
1 AAATGGTTTTTGAA
51668506 AAATGGTTT
1 AAATGGTTT
51668515 CTTTTTCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (14 bp):
AAATGGTTTTTGAA
Found at i:51673141 original size:26 final size:26
Alignment explanation
Indices: 51673074--51673185 Score: 104
Period size: 27 Copynumber: 4.2 Consensus size: 26
51673064 GGCATTATGG
* *
51673074 TCATTTTACCTTACTGGGGTATTACGA
1 TCATTTTACCCTAC-AGGGTATTACGA
51673101 TCATTTTACCCTACAAGGGTATTACGA
1 TCATTTTACCCTAC-AGGGTATTACGA
*
51673128 TCA-TTTACCCTACAGGAGTATTTC-A
1 TCATTTTACCCTACAGG-GTATTACGA
* **
51673153 GTCATTTTACCTTATGGGGTATTACTG-
1 -TCATTTTACCCTACAGGGTATTAC-GA
51673180 TCATTT
1 TCATTT
51673186 AACAACCTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.06
26 31 0.43
27 37 0.51
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGTATTACGA
Found at i:51685334 original size:21 final size:21
Alignment explanation
Indices: 51685308--51685375 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
51685298 CACAGAAGCA
*
51685308 CATAAGTGCTAAACGAAAACC
1 CATAAGTGCTAAACGGAAACC
* * * *
51685329 CATAAGGGTTAAACGGAAGCT
1 CATAAGTGCTAAACGGAAACC
*
51685350 CATAAGTGCTAAATGGAAACC
1 CATAAGTGCTAAACGGAAACC
51685371 CATAA
1 CATAA
51685376 AGGTTAAACT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (21 bp):
CATAAGTGCTAAACGGAAACC
Found at i:51685354 original size:42 final size:41
Alignment explanation
Indices: 51685302--51685437 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 41
51685292 AGGCTGCACA
* *
51685302 GAAGCACATAAGTGCTAAACGAAAACCCATAAGGGTTAAACG
1 GAAGCTCATAAGTGCTAAACG-AAACCCATAAGGGTTAAACT
* *
51685344 GAAGCTCATAAGTGCTAAATGGAAACCCATAAAGGTTAAACT
1 GAAGCTCATAAGTGCTAAA-CGAAACCCATAAGGGTTAAACT
* * * * *
51685386 AAAGCTCAAAAGAGCTGAACTGAAACCCAGAAGGGTTAAACT
1 GAAGCTCATAAGTGCTAAAC-GAAACCCATAAGGGTTAAACT
*
51685428 GAAACTCATA
1 GAAGCTCATA
51685438 TGAGTTAAGT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
42 77 0.99
43 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (41 bp):
GAAGCTCATAAGTGCTAAACGAAACCCATAAGGGTTAAACT
Found at i:51685383 original size:21 final size:21
Alignment explanation
Indices: 51685317--51685384 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
51685307 ACATAAGTGC
* *
51685317 TAAACGAAAACCCATAAGGGT
1 TAAACGGAAACCCATAAAGGT
* * *
51685338 TAAACGGAAGCTCAT-AAGTGC
1 TAAACGGAAACCCATAAAG-GT
*
51685359 TAAATGGAAACCCATAAAGGT
1 TAAACGGAAACCCATAAAGGT
51685380 TAAAC
1 TAAAC
51685385 TAAAGCTCAA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.86
22 3 0.09
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.18
Consensus pattern (21 bp):
TAAACGGAAACCCATAAAGGT
Found at i:51685429 original size:21 final size:21
Alignment explanation
Indices: 51685324--51685437 Score: 79
Period size: 21 Copynumber: 5.4 Consensus size: 21
51685314 TGCTAAACGA
*
51685324 AAACCCATAAGGGTTAAACGG
1 AAACCCATAAGGGTTAAACTG
* * * *
51685345 AAGCTCATAAGTGCTAAA-TGG
1 AAACCCATAAGGGTTAAACT-G
*
51685366 AAACCCATAAAGGTTAAACT-
1 AAACCCATAAGGGTTAAACTG
* * * * *
51685386 AAAGCTCAAAAGAGCTGAACTG
1 AAA-CCCATAAGGGTTAAACTG
*
51685408 AAACCCAGAAGGGTTAAACTG
1 AAACCCATAAGGGTTAAACTG
*
51685429 AAACTCATA
1 AAACCCATA
51685438 TGAGTTAAGT
Statistics
Matches: 66, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
20 3 0.05
21 59 0.89
22 4 0.06
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (21 bp):
AAACCCATAAGGGTTAAACTG
Found at i:51714098 original size:16 final size:17
Alignment explanation
Indices: 51714077--51714109 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
51714067 TTGTTTTGTT
51714077 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
51714093 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
51714110 CTAGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:51720440 original size:42 final size:43
Alignment explanation
Indices: 51720380--51720495 Score: 114
Period size: 42 Copynumber: 2.7 Consensus size: 43
51720370 AGACATACAT
* *
51720380 GTAAGATCA-TGTCTGGGACATTGGCATTGTATATGATTTCCTA
1 GTAAGACCACTGTCTGGGACATTGGCATTGTATATG-TTTCCAA
** * *
51720423 -TAAGACC-CTGTCTGGGACAGCGGCATCGATATTTGTTTCCAA
1 GTAAGACCACTGTCTGGGACATTGGCATTG-TATATGTTTCCAA
* *
51720465 GTAAGACCAC-GTCTGGGACGTTGGCCTTGTA
1 GTAAGACCACTGTCTGGGACATTGGCATTGTA
51720496 CGAGCTTTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
42 31 0.53
43 26 0.45
44 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (43 bp):
GTAAGACCACTGTCTGGGACATTGGCATTGTATATGTTTCCAA
Found at i:51721913 original size:16 final size:17
Alignment explanation
Indices: 51721892--51721924 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
51721882 TTGTTTTGTT
51721892 ATATGTTCTG-TATATG
1 ATATGTTCTGATATATG
*
51721908 ATATGTTTTGATATATG
1 ATATGTTCTGATATATG
51721925 CTAGAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (17 bp):
ATATGTTCTGATATATG
Found at i:51723652 original size:25 final size:24
Alignment explanation
Indices: 51723622--51723679 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
51723612 ATTTTTCTCC
* *
51723622 TAAATTTTCAAATTTATTTAATTAT
1 TAAATTTTCAAA-TTACTGAATTAT
*
51723647 TTAATTTATCAAATTACTGAATTAT
1 TAAATTT-TCAAATTACTGAATTAT
51723672 TAAATTTT
1 TAAATTTT
51723680 TGAGAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.04
25 22 0.79
26 5 0.18
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (24 bp):
TAAATTTTCAAATTACTGAATTAT
Found at i:51725538 original size:24 final size:24
Alignment explanation
Indices: 51725506--51725555 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
51725496 AAGATAGAAC
* *
51725506 TTACAATGTATATTAATATATTTT
1 TTACAATGTATACTAAAATATTTT
51725530 TTACAATGTATACTAAAATATTTT
1 TTACAATGTATACTAAAATATTTT
51725554 TT
1 TT
51725556 CTTTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (24 bp):
TTACAATGTATACTAAAATATTTT
Found at i:51748736 original size:30 final size:30
Alignment explanation
Indices: 51748686--51748774 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
51748676 ATTTATTATG
* *
51748686 CCAATATCTCGATACGCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
51748717 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
51748746 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
51748772 CCA
1 CCA
51748775 TAAATATAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
25 23 0.44
26 2 0.04
29 2 0.04
30 18 0.35
31 7 0.13
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:51753163 original size:30 final size:30
Alignment explanation
Indices: 51753117--51753205 Score: 109
Period size: 25 Copynumber: 3.1 Consensus size: 30
51753107 ATTTCTTATG
*
51753117 CCAATATCTCGATACCCATATCTTT-AGCTTT
1 CCAATAT-TTGATACCCATATCTTTGA-CTTT
51753148 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
51753177 ----TATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
51753203 CCA
1 CCA
51753206 TAAATATGGA
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
25 23 0.44
26 2 0.04
29 2 0.04
30 17 0.33
31 8 0.15
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:51754074 original size:12 final size:12
Alignment explanation
Indices: 51754057--51754081 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51754047 CTTATTTTAC
51754057 TTTAATTCTTTT
1 TTTAATTCTTTT
51754069 TTTAATTCTTTT
1 TTTAATTCTTTT
51754081 T
1 T
51754082 CTTTCTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTAATTCTTTT
Found at i:51755119 original size:59 final size:58
Alignment explanation
Indices: 51755056--51755270 Score: 209
Period size: 59 Copynumber: 3.4 Consensus size: 58
51755046 ATCATTTTCA
*
51755056 TATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATCTAATATTAAATCT
1 TATTAAATTAATAGAATATTTATCAAGAAAAATATTAGATTAAAT-TAATATTAAATCT
* * *
51755115 TATTAAAATAATAGAATGTTTATTTACAAGATAAAA-A-TAAATTAATATTAATATTAAGATAAT
1 TATTAAATTAATAGAATATTTA--T-CAAGA-AAAATATTAGATTAA-ATTAATATT---A-AAT
51755178 CACTTT
57 --C--T
*
51755184 AATATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATTTAATATTAAATCT
1 --TATTAAATTAATAGAATATTTATCAAGAAAAATATTAGATTAAA-TTAATATTAAATCT
*
51755245 TATTTAATTAATAGAATATTTATCAA
1 TATTAAATTAATAGAATATTTATCAA
51755271 CATGATAAAC
Statistics
Matches: 128, Mismatches: 10, Indels: 36
0.74 0.06 0.21
Matches are distributed among these distances:
59 43 0.34
61 16 0.12
62 8 0.06
63 5 0.04
64 1 0.01
65 6 0.05
66 1 0.01
67 5 0.04
68 7 0.05
69 17 0.13
71 19 0.15
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAGAATATTTATCAAGAAAAATATTAGATTAAATTAATATTAAATCT
Found at i:51755191 original size:130 final size:131
Alignment explanation
Indices: 51755044--51755384 Score: 474
Period size: 130 Copynumber: 2.6 Consensus size: 131
51755034 TGATTAATCT
* *
51755044 TAATCATTTTCATATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATCTAATATT
1 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATCTAATATT
* **
51755109 AAATCTTATTAAAATAATAGAATGTTTATTTACAAGATAAAAAT-AAATT-AATATTAATATTAA
66 AAATCTTATTAAAATAATAGAATATTTATCAACAAGATAAAAATGAAATTAAAT-TTAATATTAA
51755172 GA
130 GA
*
51755174 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATCTAATATT
* * * *
51755239 AAATCTTATTTAATTAATAGAATATTTATCAACATGATAAACATGAAATTAAATTTAATATTAAG
66 AAATCTTATTAAAATAATAGAATATTTATCAACAAGATAAAAATGAAATTAAATTTAATATTAAG
51755304 A
131 A
* * * * * * * *
51755305 TACTCACTTTAATATTAAATTAATAAAATA-ATATTAGGATAAATATTAAATTAAATGTAATATT
1 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATCTAATATT
*
51755369 GAATC-TATTAAAATAA
66 AAATCTTATTAAAATAA
51755385 AATTATTTTT
Statistics
Matches: 188, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
129 9 0.05
130 131 0.70
131 45 0.24
132 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (131 bp):
TAATCACTTTAATATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATCTAATATT
AAATCTTATTAAAATAATAGAATATTTATCAACAAGATAAAAATGAAATTAAATTTAATATTAAG
A
Found at i:51755295 original size:62 final size:59
Alignment explanation
Indices: 51755186--51755302 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
51755176 ATCACTTTAA
* * * *
51755186 TATTAAATTAATATAATATTTATCAAGAAAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATATTTATCAAGAAAAACATGAAATTAAATTTAATATTAAATCT
* *
51755245 TATTTAATTAATAGAATATTTATCAACATGATAAACATGAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTATC-A-A-GAAAAACATGAAATTAAATTTAATATTAA
51755303 GATACTCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 1 0.02
62 25 0.51
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (59 bp):
TATTAAATTAATAGAATATTTATCAAGAAAAACATGAAATTAAATTTAATATTAAATCT
Found at i:51755798 original size:13 final size:15
Alignment explanation
Indices: 51755780--51755812 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
51755770 CATATTAATT
51755780 TTAATT-AATTTTA-
1 TTAATTAAATTTTAC
51755793 TTAATTAAATTTTAC
1 TTAATTAAATTTTAC
51755808 TTAAT
1 TTAAT
51755813 CAAAATCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 7 0.39
15 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATTAAATTTTAC
Found at i:51757204 original size:15 final size:15
Alignment explanation
Indices: 51757180--51757211 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51757170 TATGCATGCA
*
51757180 AAATATAAAAGACAT
1 AAATACAAAAGACAT
51757195 AAATACAAAAGACAT
1 AAATACAAAAGACAT
51757210 AA
1 AA
51757212 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:51761285 original size:12 final size:12
Alignment explanation
Indices: 51761268--51761320 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
51761258 TATCTACAAG
51761268 TTAAATATTAAA
1 TTAAATATTAAA
51761280 TTAAAT-TTAATA
1 TTAAATATTAA-A
* *
51761292 TTAAAATAATCAA
1 TT-AAATATTAAA
*
51761305 TTTAATATTAAA
1 TTAAATATTAAA
51761317 TTAA
1 TTAA
51761321 TAAAATACTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
11 4 0.12
12 19 0.59
13 7 0.22
14 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAAATATTAAA
Found at i:51761308 original size:20 final size:20
Alignment explanation
Indices: 51761283--51761321 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
51761273 TATTAAATTA
51761283 AATTTAATATTAAAATAATC
1 AATTTAATATTAAAATAATC
*
51761303 AATTTAATATTAAATTAAT
1 AATTTAATATTAAAATAAT
51761322 AAAATACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAATATTAAAATAATC
Found at i:51763491 original size:21 final size:21
Alignment explanation
Indices: 51763437--51763493 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
51763427 CACGGTTTGA
51763437 TCACATGGCCATGTGACCCAT
1 TCACATGGCCATGTGACCCAT
* * *
51763458 CCATAGGGCCATGTGACCCAT
1 TCACATGGCCATGTGACCCAT
*
51763479 TCACATGGTCATGTG
1 TCACATGGCCATGTG
51763494 GCATATCTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (21 bp):
TCACATGGCCATGTGACCCAT
Found at i:51764745 original size:39 final size:39
Alignment explanation
Indices: 51764691--51764769 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
51764681 CAACCGGCTA
51764691 AGGGGTGTTACATCTATCACATATTCCATTCTAGTTAGC
1 AGGGGTGTTACATCTATCACATATTCCATTCTAGTTAGC
*
51764730 AGGGGTGTTACATCTATCACATCTTCCATTCTAGTTAGC
1 AGGGGTGTTACATCTATCACATATTCCATTCTAGTTAGC
51764769 A
1 A
51764770 ACTAACATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (39 bp):
AGGGGTGTTACATCTATCACATATTCCATTCTAGTTAGC
Found at i:51770285 original size:50 final size:50
Alignment explanation
Indices: 51770206--51770387 Score: 181
Period size: 50 Copynumber: 3.7 Consensus size: 50
51770196 AATGTCATAA
* ** * * * *
51770206 CCCAGAAATGGTCTTACATGGGAGTTCTCATATTGATGCACATTTCATGT
1 CCCAGACATGGTCTTACATGGGACCTCTCATCTAGATGCACACTCCATGT
* * *
51770256 CCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTTCCA-ACTCCATGT
1 CCCAGACATGGTCTTACATGGGACCTCTCATCT-AGATGCACACTCCATGT
* * * * * *
51770306 GCTAGACATGGTCTTACAT-GAACCTCTCATCTCGGTGC-CAACGCCATGT
1 CCCAGACATGGTCTTACATGGGACCTCTCATCTAGATGCAC-ACTCCATGT
51770355 CCCAGACATGGTCTTACATGGGACCTCTCATCT
1 CCCAGACATGGTCTTACATGGGACCTCTCATCT
51770388 CGTGTTGACA
Statistics
Matches: 107, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.03
49 37 0.35
50 63 0.59
51 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (50 bp):
CCCAGACATGGTCTTACATGGGACCTCTCATCTAGATGCACACTCCATGT
Found at i:51770353 original size:49 final size:49
Alignment explanation
Indices: 51770251--51770389 Score: 197
Period size: 49 Copynumber: 2.8 Consensus size: 49
51770241 ATGCACATTT
* * * *
51770251 CATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAGTTCCAACTC
1 CATGTCCCAGACATGGTCTTACA-TGGACCTCTCATCTCGGTGCCAACGC
* * *
51770301 CATGTGCTAGACATGGTCTTACATGAACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGACCTCTCATCTCGGTGCCAACGC
51770350 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 CATGTCCCAGACATGGTCTTACAT-GGACCTCTCATCTCG
51770390 TGTTGACATG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 43 0.55
50 35 0.45
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (49 bp):
CATGTCCCAGACATGGTCTTACATGGACCTCTCATCTCGGTGCCAACGC
Found at i:51770488 original size:44 final size:44
Alignment explanation
Indices: 51770413--51770502 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 44
51770403 GAACCAAGGT
51770413 ACTTTTCCGTCAATTCCTTCTTAATTACCATGTTATAAACATGG
1 ACTTTTCCGTCAATTCCTTCTTAATTACCATGTTATAAACATGG
* *
51770457 ACTTTTCCGTCAATT-CTTCCTTCATTGCCATGTTATAAACATGG
1 ACTTTTCCGTCAATTCCTT-CTTAATTACCATGTTATAAACATGG
51770501 AC
1 AC
51770503 CTTGAGATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 3 0.07
44 40 0.93
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (44 bp):
ACTTTTCCGTCAATTCCTTCTTAATTACCATGTTATAAACATGG
Found at i:51776125 original size:50 final size:50
Alignment explanation
Indices: 51776063--51776298 Score: 319
Period size: 50 Copynumber: 4.7 Consensus size: 50
51776053 CAATGCAATA
* ** * * * *
51776063 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGATGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* **
51776113 TCCCAGGCATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * *
51776163 TCCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGCCAATGGCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * *
51776213 TCCAAGACATGGACTTACACGGGACCTCTCATCTCGGTGCCAACGCTATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
51776263 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
51776299 TGTTGACATG
Statistics
Matches: 160, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 160 1.00
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:51776389 original size:44 final size:44
Alignment explanation
Indices: 51776322--51776411 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
51776312 GAACCAAGGT
* *
51776322 ACTTTTCCGTCAATTCTTTCTTAATTGCCATGTTATAAACATGG
1 ACTTTCCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGG
51776366 ACTTTCCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGG
1 ACTTTCCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGG
51776410 AC
1 AC
51776412 CTTGAGATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (44 bp):
ACTTTCCCGTCAATTCTTCCTTAATTGCCATGTTATAAACATGG
Found at i:51781062 original size:10 final size:11
Alignment explanation
Indices: 51781027--51781064 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
51781017 TCTAATAATT
*
51781027 AAAAATTATTT
1 AAAAATTATTG
51781038 AAAAATTATTG
1 AAAAATTATTG
51781049 -AAAA-TATTG
1 AAAAATTATTG
51781058 AAAAATT
1 AAAAATT
51781065 TATTTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 5 0.21
10 8 0.33
11 11 0.46
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (11 bp):
AAAAATTATTG
Found at i:51784442 original size:43 final size:41
Alignment explanation
Indices: 51784316--51784448 Score: 180
Period size: 42 Copynumber: 3.2 Consensus size: 41
51784306 AAAACAGGTT
* *
51784316 TTTAGCGGCGCT--TAAAAAACGCAGCTAAAGATCATGTTT
1 TTTAGCGGCGCTAGTAAAAAACGCCGCTAAAGATCATGTTC
*
51784355 TTTAGCGGCGCTAGAAGAAAAACGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGCTAGTA-AAAAACGCCGCTAAAGATCATGTTC
* *
51784397 TTTAGCGGCGCTTGAGTAAAAAACGCCGCTAAAGAACATGATC
1 TTTAGCGGCGC-T-AGTAAAAAACGCCGCTAAAGATCATGTTC
51784440 TTTAGCGGC
1 TTTAGCGGC
51784449 ACTTTCTTCA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
39 12 0.14
41 1 0.01
42 34 0.41
43 33 0.40
44 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
TTTAGCGGCGCTAGTAAAAAACGCCGCTAAAGATCATGTTC
Found at i:51784465 original size:43 final size:43
Alignment explanation
Indices: 51784328--51784490 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
51784318 TAGCGGCGCT
* * * *
51784328 TAAAAAACGCAGCTAAAGATCATGTTTTTTAGCGGCGC-T-AG
1 TAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCACTTGAG
* * *
51784369 AAGAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGAG
1 TA-AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCACTTGAG
* ***
51784413 TAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTCT
1 TAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCACTTGAG
* **
51784456 TCACGAACGCCGCTAAAAGAA-ATGTTCTTTAGCGG
1 TAAAAAACGCCGCT-AAAGAACATGTTCTTTAGCGG
51784491 TGCCTTTTAG
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 34 0.33
43 60 0.58
44 9 0.09
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (43 bp):
TAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCACTTGAG
Found at i:51784923 original size:21 final size:21
Alignment explanation
Indices: 51784899--51784949 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
51784889 TTCTTTTGAA
51784899 CCTCTGCTTCTCTCGCTG-CAG
1 CCTCTGCTTCTCTCGCTGTC-G
*
51784920 CCTCTGCTTCTCTCGTTGTCG
1 CCTCTGCTTCTCTCGCTGTCG
51784941 CCTCTGCTT
1 CCTCTGCTT
51784950 TAAGTTGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.02, C:0.41, G:0.18, T:0.39
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGTCG
Found at i:51785002 original size:87 final size:87
Alignment explanation
Indices: 51784834--51784993 Score: 212
Period size: 87 Copynumber: 1.8 Consensus size: 87
51784824 TTCTGCTCTG
* * *
51784834 CTCTGCTTCTTTCGATGCCGCATCAGCTTTAAGTCATAGCTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCTCTCGATGCCGCATCAGCTTTAAGTCATAGCTGAAGTTCTTCATATTTCCTTTGAA
** *
51784899 CCTCTGCTTCTCTCGCTGCAGC
66 CCTCAACTTCGCTCGCTGCAGC
* * * * **
51784921 CTCTGCTTCTCTCGTTGTCGCCTCTGCTTTAAGTTGTAGCTGAAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCTCTCGATGCCGCATCAGCTTTAAGTCATAGCTGAAGTTCTTCATATTTCCTTTGAA
51784986 CCTCAACT
66 CCTCAACT
51784994 GTGGTCGCTT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 62 1.00
ACGTcount: A:0.15, C:0.28, G:0.16, T:0.41
Consensus pattern (87 bp):
CTCTGCTTCTCTCGATGCCGCATCAGCTTTAAGTCATAGCTGAAGTTCTTCATATTTCCTTTGAA
CCTCAACTTCGCTCGCTGCAGC
Found at i:51786614 original size:16 final size:16
Alignment explanation
Indices: 51786593--51786942 Score: 191
Period size: 16 Copynumber: 21.9 Consensus size: 16
51786583 ATTTTTCTCA
51786593 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATT
*
51786609 ATGTAAGTTA--TATA
1 ATGTAAGTTATGTATT
* *
51786623 ATATATGTTGAT-TATGT
1 ATGTAAGTT-ATGTAT-T
*
51786640 AT-TAAG-TA--AATT
1 ATGTAAGTTATGTATT
51786652 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATT
*
51786668 ATGTAAGTTATATAAGTT
1 ATGTAAGTTATGT-A-TT
* *
51786686 ATGTAAGTTATATAAGCT
1 ATGTAAGTTATGT-A-TT
51786704 ATGTAAGTTAT-TATGT
1 ATGTAAGTTATGTAT-T
* * *
51786720 AAGTTAAGATAT-AATAT
1 ATG-TAAGTTATGTAT-T
51786737 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATT
* *
51786753 AAGTAAATTATGTAAGTT
1 ATGTAAGTTATGT-A-TT
*
51786771 ATG-CA--TA--TATT
1 ATGTAAGTTATGTATT
** *
51786782 ATAAAAGATATGTAAGTT
1 ATGTAAGTTATGT-A-TT
* *
51786800 ATGTAAGTTATATAAGCT
1 ATGTAAGTTATGT-A-TT
51786818 ATGTAAG---T-TATT
1 ATGTAAGTTATGTATT
51786830 ATGTAAGTTATGTATT
1 ATGTAAGTTATGTATT
*
51786846 ATATAAGTTATGTATT
1 ATGTAAGTTATGTATT
51786862 ATGTAAGTTATGTATTT
1 ATGTAAGTTATGTA-TT
*
51786879 ATTTAAGTTATGTATT
1 ATGTAAGTTATGTATT
51786895 ATGTAAGTTATGTAGGTT
1 ATGTAAGTTATGTA--TT
*
51786913 ATGT-A-TTATATAGGTT
1 ATGTAAGTTATGTA--TT
51786929 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
51786943 ATGTGTCAAT
Statistics
Matches: 269, Mismatches: 35, Indels: 58
0.74 0.10 0.16
Matches are distributed among these distances:
11 4 0.01
12 13 0.05
13 8 0.03
14 16 0.06
15 6 0.02
16 116 0.43
17 38 0.14
18 68 0.25
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.46
Consensus pattern (16 bp):
ATGTAAGTTATGTATT
Found at i:51786619 original size:9 final size:9
Alignment explanation
Indices: 51786593--51786943 Score: 238
Period size: 9 Copynumber: 39.7 Consensus size: 9
51786583 ATTTTTCTCA
51786593 ATGTAAGTT
1 ATGTAAGTT
51786602 ATGT-A-TT
1 ATGTAAGTT
51786609 ATGTAAGTT
1 ATGTAAGTT
*
51786618 ATATAA-TAT
1 ATGTAAGT-T
*
51786627 ATGT-TGATT
1 ATGTAAG-TT
51786636 ATGT-A-TT
1 ATGTAAGTT
* *
51786643 AAGTAAATT
1 ATGTAAGTT
51786652 ATGTAAGTT
1 ATGTAAGTT
51786661 ATGT-A-TT
1 ATGTAAGTT
51786668 ATGTAAGTT
1 ATGTAAGTT
*
51786677 ATATAAGTT
1 ATGTAAGTT
51786686 ATGTAAGTT
1 ATGTAAGTT
* *
51786695 ATATAAGCT
1 ATGTAAGTT
51786704 ATGTAAGTTATT
1 ATGTAAG---TT
51786716 ATGTAAGTT
1 ATGTAAGTT
* *
51786725 AAGATATAATAT
1 ATG-TA-AGT-T
51786737 ATGTAAGTT
1 ATGTAAGTT
51786746 ATGT-A-TT
1 ATGTAAGTT
* *
51786753 AAGTAAATT
1 ATGTAAGTT
51786762 ATGTAAGTT
1 ATGTAAGTT
51786771 ATGCATATA-TT
1 ATG--TA-AGTT
** *
51786782 ATAAAAGAT
1 ATGTAAGTT
51786791 ATGTAAGTT
1 ATGTAAGTT
51786800 ATGTAAGTT
1 ATGTAAGTT
* *
51786809 ATATAAGCT
1 ATGTAAGTT
51786818 ATGTAAGTTATT
1 ATGTAAG---TT
51786830 ATGTAAGTT
1 ATGTAAGTT
51786839 ATGT-A-TT
1 ATGTAAGTT
*
51786846 ATATAAGTT
1 ATGTAAGTT
51786855 ATGT-A-TT
1 ATGTAAGTT
51786862 ATGTAAGTT
1 ATGTAAGTT
*
51786871 ATGT-ATTT
1 ATGTAAGTT
*
51786879 ATTTAAGTT
1 ATGTAAGTT
51786888 ATGT-A-TT
1 ATGTAAGTT
51786895 ATGTAAGTT
1 ATGTAAGTT
*
51786904 ATGTAGGTT
1 ATGTAAGTT
51786913 ATGT-A-TT
1 ATGTAAGTT
* *
51786920 ATATAGGTT
1 ATGTAAGTT
51786929 ATGTAAGTT
1 ATGTAAGTT
51786938 ATGTAA
1 ATGTAA
51786944 TGTGTCAATA
Statistics
Matches: 267, Mismatches: 42, Indels: 66
0.71 0.11 0.18
Matches are distributed among these distances:
7 44 0.16
8 21 0.08
9 167 0.63
10 5 0.02
11 10 0.04
12 20 0.07
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:51786654 original size:25 final size:25
Alignment explanation
Indices: 51786634--51786942 Score: 90
Period size: 25 Copynumber: 12.3 Consensus size: 25
51786624 TATATGTTGA
51786634 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
* * *
51786659 TTATGTATTATGTAAGTTATATAAG
1 TTATGTATTAAGTAAATTATGTAAG
**
51786684 TTATGTAAGTTATA-TAAGCTATGTAAG
1 TTATGT-A-TTA-AGTAAATTATGTAAG
* * *
51786711 TTAT-TATGTAAGTTAA-GATATAA-
1 TTATGTAT-TAAGTAAATTATGTAAG
* * *
51786734 TATATGTAAGTTATGT--ATTAAGTAAA
1 T-TATGT-A-TTAAGTAAATTATGTAAG
* * **
51786760 TTATGTAAGTTATGCATATATTATAAAAG
1 TTATGT-A-TTAAG--TAAATTATGTAAG
* * * *
51786789 ATATGTAAGTTATGTAAGTTATATAAG
1 TTATGT-A-TTAAGTAAATTATGTAAG
* *
51786816 CTATG---TAAGT-TATTATGTAAG
1 TTATGTATTAAGTAAATTATGTAAG
*
51786837 TTATGTATTATA-TAAGTTATGT-A-
1 TTATGTATTA-AGTAAATTATGTAAG
* * *
51786860 TTATGTAAGTTATGT-ATTTATTTAAG
1 TTATGT-A-TTAAGTAAATTATGTAAG
* * *
51786886 TTATGTATTATGTAAGTTATGTAGG
1 TTATGTATTAAGTAAATTATGTAAG
**
51786911 TTATGTATTATA-TAGGTTATGTAAG
1 TTATGTATTA-AGTAAATTATGTAAG
51786936 TTATGTA
1 TTATGTA
51786943 ATGTGTCAAT
Statistics
Matches: 218, Mismatches: 39, Indels: 54
0.70 0.13 0.17
Matches are distributed among these distances:
21 12 0.06
22 4 0.02
23 7 0.03
24 28 0.13
25 100 0.46
26 14 0.06
27 34 0.16
29 19 0.09
ACGTcount: A:0.37, C:0.01, G:0.17, T:0.46
Consensus pattern (25 bp):
TTATGTATTAAGTAAATTATGTAAG
Found at i:51786720 original size:12 final size:12
Alignment explanation
Indices: 51786703--51786772 Score: 58
Period size: 12 Copynumber: 6.0 Consensus size: 12
51786693 TTATATAAGC
51786703 TATGTAAGTTAT
1 TATGTAAGTTAT
*
51786715 TATGTAAGTTAA
1 TATGTAAGTTAT
* *
51786727 GATATAA--TA-
1 TATGTAAGTTAT
51786736 TATGTAAGTTAT
1 TATGTAAGTTAT
*
51786748 GTAT-TAAGTAAAT
1 -TATGTAAGT-TAT
51786761 TATGTAAGTTAT
1 TATGTAAGTTAT
51786773 GCATATATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
9 5 0.11
10 2 0.04
11 2 0.04
12 26 0.58
13 10 0.22
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TATGTAAGTTAT
Found at i:51786823 original size:114 final size:109
Alignment explanation
Indices: 51786605--51786875 Score: 360
Period size: 114 Copynumber: 2.5 Consensus size: 109
51786595 GTAAGTTATG
*
51786605 TATTATGTAAGTT--ATATAATATATGT-TGATTATGTATTAAGTAAATTATGTAAGTTATGTAT
1 TATTATGTAAGTTAGATATAATATATGTAAG-TTATGTATTAAGTAAATTATGTAAGTTATGTAT
** *
51786667 TATGTAAGTTATATAAGTTATGTAAGTTATATAAGCTATGTAAGT
65 TATAAAAGATATATAAGTTATGTAAGTTATATAAGCTATGTAAGT
51786712 TATTATGTAAGTTAAGATATAATATATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGCAT
1 TATTATGTAAGTT-AGATATAATATATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATG---
*
51786777 ATATTATAAAAGATATGTAAGTTATGTAAGTTATATAAGCTATGTAAGT
62 -TATTATAAAAGATATATAAGTTATGTAAGTTATATAAGCTATGTAAGT
* *
51786826 TATTATGTAAGTTATG-TAT--TATA--TAAGTTATGTATTATGTAAGTTATGTA
1 TATTATGTAAGTTA-GATATAATATATGTAAGTTATGTATTAAGTAAATTATGTA
51786876 TTTATTTAAG
Statistics
Matches: 148, Mismatches: 7, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
107 13 0.09
109 25 0.17
110 43 0.29
111 5 0.03
113 4 0.03
114 58 0.39
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (109 bp):
TATTATGTAAGTTAGATATAATATATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATT
ATAAAAGATATATAAGTTATGTAAGTTATATAAGCTATGTAAGT
Found at i:51786986 original size:17 final size:18
Alignment explanation
Indices: 51786966--51787016 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
51786956 AAAAACATTA
51786966 ATATATAAATTTTAAA-T
1 ATATATAAATTTTAAACT
* * *
51786983 ATATACATATATTAAAACT
1 ATATATAAAT-TTTAAACT
*
51787002 ATATATAAATATTAA
1 ATATATAAATTTTAA
51787017 TAAGTTATGT
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
17 8 0.32
18 8 0.32
19 9 0.36
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATATAAATTTTAAACT
Found at i:51787111 original size:9 final size:9
Alignment explanation
Indices: 51787056--51787114 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
51787046 TATGTACCAT
51787056 TTAT-TAAG
1 TTATGTAAG
*
51787064 TTATGTATG
1 TTATGTAAG
* *
51787073 -TATGTGAC
1 TTATGTAAG
*
51787081 TTTTGTAAG
1 TTATGTAAG
*
51787090 TTATGTGAG
1 TTATGTAAG
*
51787099 TTATGTAAA
1 TTATGTAAG
51787108 TTATGTA
1 TTATGTA
51787115 TTAAATTAAG
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
8 9 0.24
9 29 0.76
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:51788452 original size:173 final size:175
Alignment explanation
Indices: 51788159--51788507 Score: 594
Period size: 173 Copynumber: 2.0 Consensus size: 175
51788149 CGATTGTTAC
*
51788159 GGCAGAGGAGACCGACGGATGGAGACGGTGATGCGCCAGAGGAAACGGCAACGTTGCAAGAGGTC
1 GGCAGAGGAGACCGACGGACGGAGACGGTGATGCGCCAGAGGAAACGGCAACGTTGCAAGAGGTC
*
51788224 GGGTTTGGGGAAATATGGATTAGGGGAAATTTTAGGGACTTGGGGGAGAATGGGATTTTGGGGGA
66 GGGTTTGGGGAAATATGGATTAGAGGAAATTTTAGGGACTTGGGGGAGAATGGGATTTTGGGGGA
*
51788289 TAAGTCACG-AT-AGTTGGGGTTTAAGTTTCGGTAAAATGTATGG
131 TAAGTCACGTATAAGTTGGCGTTTAAGTTTCGGTAAAATGTATGG
* *
51788332 GGCAGAGGAGACCGACGGACGGAGACGGTGATGCTCCAGAGGAAACGGCAACGTTGCAAGGGGTC
1 GGCAGAGGAGACCGACGGACGGAGACGGTGATGCGCCAGAGGAAACGGCAACGTTGCAAGAGGTC
* * *
51788397 GGGTTTGGGGAAATGTGGATTAGAGGAAATTTTAGGGATTTGGGGGAGGATGGGATTTTGGGGGA
66 GGGTTTGGGGAAATATGGATTAGAGGAAATTTTAGGGACTTGGGGGAGAATGGGATTTTGGGGGA
* *
51788462 TAAGTCACGTTTAAGTTGGCGTTTAAGTTTCGGTATAATGTATGG
131 TAAGTCACGTATAAGTTGGCGTTTAAGTTTCGGTAAAATGTATGG
51788507 G
1 G
51788508 AAAAAAACGA
Statistics
Matches: 164, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
173 132 0.80
174 1 0.01
175 31 0.19
ACGTcount: A:0.26, C:0.10, G:0.40, T:0.23
Consensus pattern (175 bp):
GGCAGAGGAGACCGACGGACGGAGACGGTGATGCGCCAGAGGAAACGGCAACGTTGCAAGAGGTC
GGGTTTGGGGAAATATGGATTAGAGGAAATTTTAGGGACTTGGGGGAGAATGGGATTTTGGGGGA
TAAGTCACGTATAAGTTGGCGTTTAAGTTTCGGTAAAATGTATGG
Found at i:51788802 original size:97 final size:97
Alignment explanation
Indices: 51788695--51788883 Score: 306
Period size: 97 Copynumber: 1.9 Consensus size: 97
51788685 ATAAATATTT
* * * *
51788695 GCGGCGTTTTTTAAATGCACCACTAAAAGAAAACAAAAAAATGTCACCGTCTTTGTTACACTTAA
1 GCGGCGTTTTTAAAATGCACCACTAAAAGAAAACAAAAAAACGGCACCGTCTCTGTTACACTTAA
*
51788760 AGGAAATTTGCGGCGCTTCTTCGTAAAACGCA
66 AGGAAATTTGCGGCGCTTCTTCATAAAACGCA
* *
51788792 GCGGCGTTTTTAAAATGCGCCACTAAAAGAAAACATAAAAACGGCACCGTCTCTGTTACACTTAA
1 GCGGCGTTTTTAAAATGCACCACTAAAAGAAAACAAAAAAACGGCACCGTCTCTGTTACACTTAA
*
51788857 AGGAAATTTGCGGCGTTTCTTCATAAA
66 AGGAAATTTGCGGCGCTTCTTCATAAA
51788884 GCGCTGGTAA
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (97 bp):
GCGGCGTTTTTAAAATGCACCACTAAAAGAAAACAAAAAAACGGCACCGTCTCTGTTACACTTAA
AGGAAATTTGCGGCGCTTCTTCATAAAACGCA
Found at i:51789235 original size:113 final size:114
Alignment explanation
Indices: 51788791--51789258 Score: 812
Period size: 114 Copynumber: 4.1 Consensus size: 114
51788781 CGTAAAACGC
51788791 AGCGGCGTTTTTAAAATGCGCCACTAAAAGAAAACATAAAAACGGCACCGTCTCTGTTACACTTA
1 AGCGGCGTTTTTAAAATGCGCCACTAAAAGAAAACA-AAAAACGGCACCGTCTCTGTTACACTTA
* *
51788856 AAGGAAATTTGCGGCGTTTCTTCATAAAGCGCTGGTAATACATCACCTTT
65 AAGGAAATTTGCGGCGTTTCTTCATAAAACGCCGGTAATACATCACCTTT
* *
51788906 AGCGGCATTTTTAAAATGCGCCACTAAAAGAAAACAAAAAACGGCACCGTTTCTGTTACACTTAA
1 AGCGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAAAAAACGGCACCGTCTCTGTTACACTTAA
51788971 AGGAAATTTGCGGCGTTTCTTCATAAAACGCCGGTAATACATCACCTTT
66 AGGAAATTTGCGGCGTTTCTTCATAAAACGCCGGTAATACATCACCTTT
* * * *
51789020 AACGGCATTTTTAAAATACGCCACTAAAAGAAAACAAAAAACGACACCGTCTCTGTTACACTTAA
1 AGCGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAAAAAACGGCACCGTCTCTGTTACACTTAA
* *
51789085 AGGAAATTTACGGCGTTTCTTCATAAAACACCGGTAATACATCACCTTT
66 AGGAAATTTGCGGCGTTTCTTCATAAAACGCCGGTAATACATCACCTTT
*
51789134 AGCGGCGTTTTTAAAATGCACCACTAAAAGAAAACAAAAAA-GGCACCGTCTCTGTTACACTTAA
1 AGCGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAAAAAACGGCACCGTCTCTGTTACACTTAA
*
51789198 AGGAAATTTGCGGCGTTTCTTCATAAAACGCCAGTAATACATCACCTTT
66 AGGAAATTTGCGGCGTTTCTTCATAAAACGCCGGTAATACATCACCTTT
51789247 AGCGGCGTTTTT
1 AGCGGCGTTTTT
51789259 GCTGAAGCGC
Statistics
Matches: 335, Mismatches: 18, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
113 80 0.24
114 220 0.66
115 35 0.10
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (114 bp):
AGCGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAAAAAACGGCACCGTCTCTGTTACACTTAA
AGGAAATTTGCGGCGTTTCTTCATAAAACGCCGGTAATACATCACCTTT
Found at i:51789616 original size:15 final size:16
Alignment explanation
Indices: 51789588--51789620 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
51789578 ATTTAACCCA
*
51789588 TTTTGATATAAATATT
1 TTTTGAAATAAATATT
51789604 TTTTGAAAT-AATATT
1 TTTTGAAATAAATATT
51789619 TT
1 TT
51789621 ATATTTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTTGAAATAAATATT
Found at i:51789720 original size:8 final size:7
Alignment explanation
Indices: 51789658--51789718 Score: 77
Period size: 7 Copynumber: 8.3 Consensus size: 7
51789648 TAAAAAATCT
51789658 AACCCTA
1 AACCCTA
51789665 AACCCTAA
1 AACCCT-A
*
51789673 AATCCTA
1 AACCCTA
*
51789680 AGCCACTA
1 AACC-CTA
51789688 AACCCTTA
1 AACCC-TA
51789696 AACCCTA
1 AACCCTA
51789703 AACCCTA
1 AACCCTA
51789710 AACCCTA
1 AACCCTA
51789717 AA
1 AA
51789719 ACCAACAACC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
7 28 0.60
8 19 0.40
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:51789721 original size:15 final size:14
Alignment explanation
Indices: 51789658--51789718 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 14
51789648 TAAAAAATCT
51789658 AACCCTAAACCCTAA
1 AACCCTAAACCCT-A
* *
51789673 AATCCTAAGCCACTA
1 AACCCTAAACC-CTA
51789688 AACCCTTAAACCCTA
1 AACCC-TAAACCCTA
51789703 AACCCTAAACCCTA
1 AACCCTAAACCCTA
51789717 AA
1 AA
51789719 ACCAACAACC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
14 11 0.28
15 22 0.55
16 7 0.17
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (14 bp):
AACCCTAAACCCTA
Found at i:51790079 original size:7 final size:7
Alignment explanation
Indices: 51790067--51790091 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51790057 CATTATACCA
51790067 TAAACCC
1 TAAACCC
51790074 TAAACCC
1 TAAACCC
51790081 TAAACCC
1 TAAACCC
51790088 TAAA
1 TAAA
51790092 TCATAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:51790098 original size:14 final size:14
Alignment explanation
Indices: 51790063--51790099 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
51790053 TAAACATTAT
51790063 ACCATAAACCCTAA
1 ACCATAAACCCTAA
*
51790077 ACCCTAAACCCTAA
1 ACCATAAACCCTAA
*
51790091 ATCATAAAC
1 ACCATAAAC
51790100 ATTAAATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (14 bp):
ACCATAAACCCTAA
Found at i:51790098 original size:21 final size:21
Alignment explanation
Indices: 51790074--51790133 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
51790064 CCATAAACCC
*
51790074 TAAACCCTAAACCCTAAATCA
1 TAAACCCTAAAACCTAAATCA
** * * **
51790095 TAAACATTAAATCTTAAATTT
1 TAAACCCTAAAACCTAAATCA
51790116 TAAACCCTAAAACCTAAA
1 TAAACCCTAAAACCTAAA
51790134 ATAAAACAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAACCCTAAAACCTAAATCA
Found at i:51790831 original size:113 final size:113
Alignment explanation
Indices: 51790586--51790926 Score: 427
Period size: 113 Copynumber: 3.0 Consensus size: 113
51790576 GTTTTTTTTA
* * * * *
51790586 CGGCGCTTTCATAAAAACGCCGCTAAATCCCCAAAAGCTTAGAAAACGGTGCCGTTGAGATTAGG
1 CGGCGCTTT-TTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTGGGCTTAGG
** *
51790651 TTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAGCATTAG
65 TTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTAG
* * ***
51790700 CGGTGCTTTATTAAAAACGCCGCTTAATCCCCGAAAGCTCAGAAAACGACACCGTTGGGCTTA-G
1 CGGCGCTTT-TTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTGGGCTTAGG
* ** *
51790764 TTTTTTTGTGGCGCTTTTCCACGAACGCCGCTAAAGACCTGAGCATTAG
65 TTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTAG
* *
51790813 CGGCGCTTTTGTACAAACGCCAG-TAAATCCCCGAAAGCTCAGAAAACGGTGCCATTGGGCTTAG
1 CGGCGCTTTT-TAAAAACGCC-GCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTGGGCTTAG
* *
51790877 GTTTTTTTGCGGTGC-TTTCTCAAAAACGCCGCTAAAGCCCTGAACATTAG
64 GTTTTTTTGCGGCGCTTTTC-CAAAAACGCCGCTAAAGCCCTGAGCATTAG
51790927 AAAGCGCCGC
Statistics
Matches: 192, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
112 1 0.01
113 99 0.52
114 92 0.48
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (113 bp):
CGGCGCTTTTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGTGCCGTTGGGCTTAGGT
TTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTAG
Found at i:51791148 original size:73 final size:72
Alignment explanation
Indices: 51791023--51791198 Score: 246
Period size: 73 Copynumber: 2.4 Consensus size: 72
51791013 ATCCCTGAGC
* *
51791023 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGGAAACGGCGTCGTTGGGC
1 TTTAGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGGAAACGGCGTCGTTGGGC
*
51791088 TTAGGTTT
66 TAAGG-TT
* *
51791096 TTTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCTCAAAAGCTC-GGTAAACGGCGTCGTTGGG
1 TTTAGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGG-AAACGGCGTCGTTGGG
51791160 CTAAGGTT
65 CTAAGGTT
* * **
51791168 CTTCGCGGCGCTTTCTGGAAAACGCCGCTAA
1 TTTAGCGGCGCTTTCTCAAAAACGCCGCTAA
51791199 TTCTTATTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
72 30 0.33
73 62 0.67
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (72 bp):
TTTAGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCAAAAGCTCAGGAAACGGCGTCGTTGGGC
TAAGGTT
Found at i:51792669 original size:62 final size:57
Alignment explanation
Indices: 51792554--51792679 Score: 144
Period size: 62 Copynumber: 2.1 Consensus size: 57
51792544 ATCACTTTAA
* * * ***
51792554 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTCTTATTAAATC
1 TATTAAATTAATAGAATACTTATCAAGATAAACATTAAATTAAATTAAATATT-AATC
*
51792612 TTATTAAATTAATAGAATATTTATCTATAAGATAAACATTAAATTAAATTAAATATTAATC
1 -TATTAAATTAATAGAATACTTATC---AAGATAAACATTAAATTAAATTAAATATTAATC
51792673 TATTAAA
1 TATTAAA
51792680 ATAAAATTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
59 22 0.39
60 7 0.12
61 4 0.07
62 24 0.42
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (57 bp):
TATTAAATTAATAGAATACTTATCAAGATAAACATTAAATTAAATTAAATATTAATC
Found at i:51792674 original size:36 final size:35
Alignment explanation
Indices: 51792614--51792688 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 35
51792604 ATTAAATCTT
* *
51792614 ATTAAATTAATAGAATATTTATCTA-TAAGATAAA
1 ATTAAATTAATAGAATATTAATCTATTAAAATAAA
51792648 CATTAAATTAAATTA-AATATTAATCTATTAAAATAAA
1 -ATTAAATT-AA-TAGAATATTAATCTATTAAAATAAA
51792685 ATTA
1 ATTA
51792689 TTTTTTGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
35 8 0.23
36 17 0.49
37 10 0.29
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.39
Consensus pattern (35 bp):
ATTAAATTAATAGAATATTAATCTATTAAAATAAA
Found at i:51795390 original size:18 final size:18
Alignment explanation
Indices: 51795347--51795392 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
51795337 AGCAGCACAC
51795347 AAAGGAAGA-AAAAAAGA
1 AAAGGAAGAGAAAAAAGA
* *
51795364 AAATTGAAGAGAAAAAAGG
1 AAA-GGAAGAGAAAAAAGA
51795383 AAAGGAAGAG
1 AAAGGAAGAG
51795393 GGTGAACGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (18 bp):
AAAGGAAGAGAAAAAAGA
Found at i:51801024 original size:17 final size:18
Alignment explanation
Indices: 51801002--51801036 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
51800992 AATTAGCTCA
51801002 TGTGGG-CCACACGGGCG
1 TGTGGGTCCACACGGGCG
51801019 TGTGGGTCCACACGGGCG
1 TGTGGGTCCACACGGGCG
51801037 AACATCATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.11, C:0.29, G:0.46, T:0.14
Consensus pattern (18 bp):
TGTGGGTCCACACGGGCG
Found at i:51802019 original size:18 final size:18
Alignment explanation
Indices: 51801979--51802022 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
51801969 TAAGAAAACA
51801979 TTTTGAAATTGAATAACG
1 TTTTGAAATTGAATAACG
* *
51801997 ATTTGTAAA-TGAATAATG
1 TTTTG-AAATTGAATAACG
51802015 TTTTGAAA
1 TTTTGAAA
51802023 ACGAACGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (18 bp):
TTTTGAAATTGAATAACG
Found at i:51802401 original size:25 final size:25
Alignment explanation
Indices: 51802353--51802419 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
51802343 AATTGTCTTT
* *
51802353 GATAGTATATCCTGAAACTGCTATA
1 GATAGTATATACTGAAACTACTATA
* **
51802378 GCTAGTATATACTGGGACTACTATA
1 GATAGTATATACTGAAACTACTATA
*
51802403 GATAGTCTATACTGAAA
1 GATAGTATATACTGAAA
51802420 ACACTTAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (25 bp):
GATAGTATATACTGAAACTACTATA
Found at i:51803955 original size:18 final size:18
Alignment explanation
Indices: 51803915--51803958 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
51803905 TAAGAAAACA
51803915 TTTTGAAATTGAATAACG
1 TTTTGAAATTGAATAACG
* *
51803933 ATTTGTAAA-TGAATAATG
1 TTTTG-AAATTGAATAACG
51803951 TTTTGAAA
1 TTTTGAAA
51803959 ACGAACGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (18 bp):
TTTTGAAATTGAATAACG
Found at i:51804329 original size:25 final size:25
Alignment explanation
Indices: 51804290--51804356 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
51804280 AATTGTCTTT
*
51804290 GATAGTATATCTTGAAACTGT-TATA
1 GATAGTATATATTGAAACT-TCTATA
* *
51804315 GGTAGTATATATTGAGACTTCTATA
1 GATAGTATATATTGAAACTTCTATA
* *
51804340 GATAGTTTATACTGAAA
1 GATAGTATATATTGAAA
51804357 ACACTTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (25 bp):
GATAGTATATATTGAAACTTCTATA
Found at i:51813412 original size:25 final size:25
Alignment explanation
Indices: 51813373--51813430 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
51813363 AAACATTAAA
*
51813373 TTTAAT-TTAATATTAAGATAATCAC
1 TTTAATATTAATATTAAGAAAAT-AC
*
51813398 TTTAATATTAA-ATTAATAAAATAC
1 TTTAATATTAATATTAAGAAAATAC
51813422 TATTAATAT
1 T-TTAATAT
51813431 AAGTATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 3 0.10
25 22 0.76
26 4 0.14
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (25 bp):
TTTAATATTAATATTAAGAAAATAC
Found at i:51815105 original size:16 final size:16
Alignment explanation
Indices: 51815084--51815114 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51815074 CTATGCATAC
*
51815084 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
51815100 AAAATACAAAAGACA
1 AAAATACAAAAGACA
51815115 TAACAGTGAA
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:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:51820702 original size:16 final size:16
Alignment explanation
Indices: 51820678--51820716 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
51820668 TTTGGTTCAC
*
51820678 TGTATTTGAATAAAGA
1 TGTAATTGAATAAAGA
*
51820694 TGTAATTGAATAAAGT
1 TGTAATTGAATAAAGA
51820710 TGTAATT
1 TGTAATT
51820717 AGTAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (16 bp):
TGTAATTGAATAAAGA
Found at i:51825564 original size:17 final size:17
Alignment explanation
Indices: 51825542--51825574 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51825532 ACCCTTTACC
51825542 TCCAAATAAAA-AAATCA
1 TCCAAA-AAAAGAAATCA
51825559 TCCAAAAAAAGAAATC
1 TCCAAAAAAAGAAATC
51825575 TAAATAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.64, C:0.18, G:0.03, T:0.15
Consensus pattern (17 bp):
TCCAAAAAAAGAAATCA
Found at i:51830491 original size:40 final size:44
Alignment explanation
Indices: 51830447--51831028 Score: 140
Period size: 44 Copynumber: 13.5 Consensus size: 44
51830437 TACTCCATTA
* * *
51830447 CAACTTCAGGGAGATAAGA-CT-AG-TTGCGATCTGCT-CTCTG
1 CAACTTCAGGGAGATAAGATCTGAGATTGCAATCCGCTCCACTG
** *
51830487 CAACTTCAGAAAGATAAGATCTGAGATTTCAATCCGCTCCACTG
1 CAACTTCAGGGAGATAAGATCTGAGATTGCAATCCGCTCCACTG
* * * * * *
51830531 CAACTTCAGGGAGAT-AGAAT-TGTCGGCTT-TAATCTGCTCCGCTA
1 CAACTTCAGGGAGATAAG-ATCTG--AGATTGCAATCCGCTCCACTG
* ** ** * * *
51830575 CAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGC-CTCACTA
1 CAACTTCAGGGAGATAAGATCTGAGAT-TGCAATCCGCTC-CACTG
* * * * * *
51830620 CAACTTCA-GGAGGATAAGACCT--GCTTACTTAGTCTGCTCCACTA
1 CAACTTCAGGGA-GATAAGATCTGAGATTGC--AATCCGCTCCACTG
* * * * *
51830664 CAACTTTAGGGAGATAAGA-CT-AGA-TGCGATCTGCT-CTCTA
1 CAACTTCAGGGAGATAAGATCTGAGATTGCAATCCGCTCCACTG
* * * * *
51830704 CAACTTCAGAGAGATAAGATCTGAGGTTTCAATTCGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTGAGATTGCAATCCGCTCCACTG
* * * * * * *
51830748 CAACTTAAGGGAGATAAAAT-TGTCGGCTT-TAATCTGCTCCGCTG
1 CAACTTCAGGGAGATAAGATCTG--AGATTGCAATCCGCTCCACTG
* * ** ** * * *
51830792 GAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGC-CTCACTA
1 CAACTTCAGGGAGATAAGATCTGAGAT-TGCAATCCGCTC-CACTG
* * * * * * *
51830837 CAACTTCA-GGAGGATAAGACCT--GCTTACTTAGTCTGCTCTACTA
1 CAACTTCAGGGA-GATAAGATCTGAGATTGC--AATCCGCTCCACTG
* * * *
51830881 CAACTTTAGGGAGATAAGA-CT-AGATGTG--ATCTGCT-CTCTA
1 CAACTTCAGGGAGATAAGATCTGAGAT-TGCAATCCGCTCCACTG
* * ** *
51830921 CAACTTCAGTGAGATAAGATCTGAGGTTTTAATCCACTCCACTG
1 CAACTTCAGGGAGATAAGATCTGAGATTGCAATCCGCTCCACTG
* * * ** *
51830965 CAACTTCAGGGAGATAGGAT-TGTCGACTT-TAATCTACTCCGCTG
1 CAACTTCAGGGAGATAAGATCTG-AGA-TTGCAATCCGCTCCACTG
51831009 CAACTTCAGGGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
51831029 TTGCCATCTT
Statistics
Matches: 413, Mismatches: 87, Indels: 80
0.71 0.15 0.14
Matches are distributed among these distances:
40 58 0.14
41 19 0.05
42 9 0.02
43 39 0.09
44 213 0.52
45 75 0.18
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTGAGATTGCAATCCGCTCCACTG
Found at i:51830570 original size:44 final size:45
Alignment explanation
Indices: 51830517--51831072 Score: 256
Period size: 44 Copynumber: 12.7 Consensus size: 45
51830507 CTGAGATTTC
* *
51830517 AATCCGCTCCACTGCAACTTCAGGGAGAT-AGAATTGTCGGCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTCGGCTTT
* * * **
51830561 AATCTGCTCCGCTACAACTTCAGGGAGATAAGATTTGCCATCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTCGGCTTT
* ** **
51830606 AGTCTGC-CTCACTACAACTTCA-GGAGGATAAGACCTG-CTTAC-TT
1 AATCTGCTC-CACTACAACTTCAGGGA-GATAAGAATTGTC-GGCTTT
* * * *
51830650 AGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGAT--GC---
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAATTG-TCGGCTTT
* * * *
51830691 GATCTGCT-CTCTACAACTTCAGAGAGATAAG-ATCTG-AGG-TTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAAT-TGTCGGCTTT
*
51830733 CAAT-TCGCTCCACTACAACTTAAGGGAGATAA-AATTGTCGGCTTT
1 -AATCT-GCTCCACTACAACTTCAGGGAGATAAGAATTGTCGGCTTT
* ** * * **
51830778 AATCTGCTCCGCTGGAACTTCAGGGAGATAAGATTTGCCATCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTCGGCTTT
* ** **
51830823 AGTCTGC-CTCACTACAACTTCA-GGAGGATAAGACCTG-CTTAC-TT
1 AATCTGCTC-CACTACAACTTCAGGGA-GATAAGAATTGTC-GGCTTT
* * * * *
51830867 AGTCTGCTCTACTACAACTTTAGGGAGATAAGACTAGAT--G---T
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAATTG-TCGGCTTT
* * * * *
51830908 GATCTGCT-CTCTACAACTTCAGTGAGATAAG-ATCTG-AGGTTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAAT-TGTCGGCTTT
** * * *
51830951 AATCCACTCCACTGCAACTTCAGGGAGAT-AGGATTGTCGACTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTCGGCTTT
* * * * * **
51830995 AATCTACTCCGCTGCAACTTCAGGGAGATAAGATTTGCCATCTTT
1 AATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTCGGCTTT
* *
51831040 AGTCTG-TCTCACTGCAACTTCA-GGAGGATAAGA
1 AATCTGCTC-CACTACAACTTCAGGGA-GATAAGA
51831073 CTCGATCTGT
Statistics
Matches: 394, Mismatches: 77, Indels: 81
0.71 0.14 0.15
Matches are distributed among these distances:
39 2 0.01
40 43 0.11
41 13 0.03
42 1 0.00
43 18 0.05
44 198 0.50
45 119 0.30
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCACTACAACTTCAGGGAGATAAGAATTGTCGGCTTT
Found at i:51830668 original size:217 final size:217
Alignment explanation
Indices: 51830414--51831073 Score: 1086
Period size: 217 Copynumber: 3.0 Consensus size: 217
51830404 TGCTTAGAGA
* * * * * *
51830414 GATAAGATCTGCTTAGTTAGTCTTACTCCATTACAACTTCAGGGAGATAAGACTAGTTGCGATCT
1 GATAAGACCTGCTTACTTAGTC-TGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATCT
* * *
51830479 GCTCTCTGCAACTTCAGAAAGATAAGATCTGAGATTTCAATCCGCTCCACTGCAACTTCAGGGAG
65 GCTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTCAATCCGCTCCACTGCAACTTCAGGGAG
*
51830544 ATAGAATTGTCGGCTTTAATCTGCTCCGCTACAACTTCAGGGAGATAAGATTTGCCATCTTTAGT
130 ATAGAATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGT
51830609 CTGCCTCACTACAACTTCAGGAG
195 CTGCCTCACTACAACTTCAGGAG
51830632 GATAAGACCTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTG
1 GATAAGACCTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTG
* * *
51830697 CTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTCAATTCGCTCCACTACAACTTAAGGGAGA
66 CTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTCAATCCGCTCCACTGCAACTTCAGGGAGA
* *
51830762 TAAAATTGTCGGCTTTAATCTGCTCCGCTGGAACTTCAGGGAGATAAGATTTGCCATCTTTAGTC
131 TAGAATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTC
51830827 TGCCTCACTACAACTTCAGGAG
196 TGCCTCACTACAACTTCAGGAG
* *
51830849 GATAAGACCTGCTTACTTAGTCTGCTCTACTACAACTTTAGGGAGATAAGACTAGATGTGATCTG
1 GATAAGACCTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTG
* * *
51830914 CTCTCTACAACTTCAGTGAGATAAGATCTGAGGTTTTAATCCACTCCACTGCAACTTCAGGGAGA
66 CTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTCAATCCGCTCCACTGCAACTTCAGGGAGA
* * *
51830979 TAGGATTGTCGACTTTAATCTACTCCGCTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTC
131 TAGAATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTC
* *
51831044 TGTCTCACTGCAACTTCAGGAG
196 TGCCTCACTACAACTTCAGGAG
51831066 GATAAGAC
1 GATAAGAC
51831074 TCGATCTGTC
Statistics
Matches: 412, Mismatches: 30, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
217 392 0.95
218 20 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (217 bp):
GATAAGACCTGCTTACTTAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTAGATGCGATCTG
CTCTCTACAACTTCAGAGAGATAAGATCTGAGGTTTCAATCCGCTCCACTGCAACTTCAGGGAGA
TAGAATTGTCGGCTTTAATCTGCTCCGCTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTC
TGCCTCACTACAACTTCAGGAG
Found at i:51840008 original size:20 final size:20
Alignment explanation
Indices: 51839983--51840021 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
51839973 TCGTCTCTCC
51839983 TGGGCGTAGCGACTATTTCT
1 TGGGCGTAGCGACTATTTCT
*
51840003 TGGGCGTAGCGTCTATTTC
1 TGGGCGTAGCGACTATTTC
51840022 CTTTAGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.21, G:0.31, T:0.36
Consensus pattern (20 bp):
TGGGCGTAGCGACTATTTCT
Found at i:51846128 original size:10 final size:10
Alignment explanation
Indices: 51846113--51846200 Score: 52
Period size: 10 Copynumber: 8.5 Consensus size: 10
51846103 ATTTTTGTAC
*
51846113 AAAAATTAGT
1 AAAAATTATT
51846123 AAAAATTATT
1 AAAAATTATT
* *
51846133 TAAAATTTTT
1 AAAAATTATT
*
51846143 AAAAATTCTTT
1 AAAAATT-ATT
* **
51846154 AAAATTGTAAG
1 AAAAAT-TATT
51846165 AAAAATGT-TT
1 AAAAAT-TATT
*
51846175 AATAATTATT
1 AAAAATTATT
*
51846185 AAAAATATTTT
1 AAAAAT-TATT
51846196 AAAAA
1 AAAAA
51846201 ATAATACTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
9 1 0.02
10 35 0.58
11 23 0.38
12 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.40
Consensus pattern (10 bp):
AAAAATTATT
Found at i:51846139 original size:20 final size:20
Alignment explanation
Indices: 51846114--51846199 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 20
51846104 TTTTTGTACA
51846114 AAAATTAGTAAAAATTATTT
1 AAAATTAGTAAAAATTATTT
** *
51846134 AAAATTTTTAAAAATTCTTT
1 AAAATTAGTAAAAATTATTT
* *
51846154 AAAATT-GTAAGAAAAATGTTT
1 AAAATTAGT-A-AAAATTATTT
*
51846175 AATAATTATTAAAAA-TATTTT
1 AA-AATTAGTAAAAATTA-TTT
51846196 AAAA
1 AAAA
51846200 AATAATACTT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.02
20 27 0.51
21 19 0.36
22 5 0.09
23 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAATTAGTAAAAATTATTT
Found at i:51846309 original size:32 final size:32
Alignment explanation
Indices: 51846232--51846309 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
51846222 GTATAAATTA
* *
51846232 TAATAATTTTAAAAATAAAATTTTAACAATTTT
1 TAATAATTTT-TAAATAAAATATTAACAATTTT
51846265 TAATATATTTTTAAAT-AAATATTAA-AATTTT
1 TAATA-ATTTTTAAATAAAATATTAACAATTTT
51846296 CTAAATAATTTTTA
1 -T-AATAATTTTTA
51846310 CTAAATTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 6 0.15
32 16 0.40
33 13 0.32
34 5 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TAATAATTTTTAAATAAAATATTAACAATTTT
Found at i:51851557 original size:12 final size:12
Alignment explanation
Indices: 51851540--51851564 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51851530 TAATATGCAA
51851540 ATTATAAAATAT
1 ATTATAAAATAT
51851552 ATTATAAAATAT
1 ATTATAAAATAT
51851564 A
1 A
51851565 ATATGCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTATAAAATAT
Found at i:51857192 original size:44 final size:45
Alignment explanation
Indices: 51857142--51857236 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
51857132 TTACACCTCT
*
51857142 ATTACATTCAACCAAACACAGGA-TTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTTACTATTACACCTCTATTCC
*** *
51857186 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTTACTATTACACCTCTATTCC
51857231 ATTACA
1 ATTACA
51857237 CTTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (45 bp):
ATTACATTCAACCAAACACAGGATTTACTATTACACCTCTATTCC
Found at i:51860217 original size:20 final size:20
Alignment explanation
Indices: 51860186--51860241 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
51860176 AGACGATGAA
51860186 CCATTCCATTTACTTACATT
1 CCATTCCATTTACTTACATT
* *
51860206 CCACTT-CATTTATTTACTTT
1 CCA-TTCCATTTACTTACATT
*
51860226 TCATTCCATTTACTTA
1 CCATTCCATTTACTTA
51860242 GCATAAGCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (20 bp):
CCATTCCATTTACTTACATT
Found at i:51862155 original size:109 final size:108
Alignment explanation
Indices: 51861895--51862216 Score: 443
Period size: 109 Copynumber: 3.0 Consensus size: 108
51861885 TGGATTAAAA
* * * *
51861895 TTTAAGAGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGTAC-A
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * *
51861957 TTTCCTCGAATTTCCAAATGCAAAATATTGTCTTATTTCGAAAT
66 TTTCC-CGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
* *
51862001 TTTAAAAGGATATTTGGCTATTTGATCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * *
51862066 TTTCCCGAATTCCCAAACGCAAAACATTACCTTATTTTGAAATT
66 TTTCCCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA-T
* *
51862110 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATTGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* * * *
51862175 TTTCTCGAATTTTCAAACACAAAATATTGCCTTACTTTGAAA
66 TTTCCCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA
51862217 AATTTTCCTT
Statistics
Matches: 189, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
106 30 0.16
108 57 0.30
109 102 0.54
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (108 bp):
TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCCCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
Found at i:51862297 original size:15 final size:16
Alignment explanation
Indices: 51862277--51862307 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
51862267 TATGACAATG
51862277 TGAACAAAAAT-AATA
1 TGAACAAAAATGAATA
51862292 TGAACAAAAATGAATA
1 TGAACAAAAATGAATA
51862308 ATAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (16 bp):
TGAACAAAAATGAATA
Found at i:51862364 original size:4 final size:4
Alignment explanation
Indices: 51862357--51862388 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
51862347 ACAAACAAAC
51862357 AAAT AAAT AAAT AAAT AAAT AAAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAA
51862389 ACATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:51863109 original size:12 final size:12
Alignment explanation
Indices: 51863086--51863121 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
51863076 NNATGAGGAA
51863086 AAAAATAA--AT
1 AAAAATAATCAT
51863096 AAAAATAATCAT
1 AAAAATAATCAT
51863108 AAAAATAATCAT
1 AAAAATAATCAT
51863120 AA
1 AA
51863122 TAGATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.33
12 16 0.67
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATAATCAT
Found at i:51864863 original size:44 final size:44
Alignment explanation
Indices: 51864800--51864996 Score: 131
Period size: 44 Copynumber: 4.5 Consensus size: 44
51864790 CTTCGATCTG
51864800 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTACAACCTA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTACAACCTA
* * *
51864844 CTCCACTACTGCTTAGGGAGATAGGA-CT--AATGACTTA-AATCTGCTT
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAAT--C-TACAA-C--CTA
* * * *** * *
51864890 CTCCACTA-T-CTT-GGGAAGATAAGATTC-GCCATCTTTGATCTG
1 CTCCACTACTGCTTAGGG-AGA-CAGAATCTGCAATCTACAACCTA
* *
51864932 CTCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTACAACCTA
* *
51864976 CTCCACTATTACTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGA
51864997 TAAGACTAAT
Statistics
Matches: 115, Mismatches: 22, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
41 3 0.03
42 10 0.09
43 14 0.12
44 67 0.58
45 8 0.07
46 11 0.10
47 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTACAACCTA
Found at i:51865241 original size:132 final size:132
Alignment explanation
Indices: 51864534--51865233 Score: 974
Period size: 132 Copynumber: 5.3 Consensus size: 132
51864524 GTTGTTGATT
* * * * * *
51864534 TGCTCTACTACTGCTTAGAGAGACAAGATTC-ACAATCTTTAACCTACTCCACT-GTTGCTTAGG
1 TGCTCCACTACTGCTTAGGGAGAC-AGAATCTGCAATCTTCAACCTACTCCACTACTT-CTTAGG
* * * * * *
51864597 GGGATAGGACTAATGGCTTAAATCAGCTTCTCCACTATCTTGGGAAGATAAGATTCATCGTTTTT
64 GAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTC
*
51864662 TATC
129 GATC
* * * ** * * *
51864666 TGCTCCACTATTGCTTAGGGATACAGAATCTACAATCTTTGACCTACTCCGCTACTGCTTAGGAA
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTTCTTAGGGA
* * *
51864731 GATAGGACTAATGGATTAAATCTGCTTCTTCACTATCCTGGGAAGATAAGATTCACCATCTTCGA
66 GATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGA
51864796 TC
131 TC
* *
51864798 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTACAACCTACTCCACTACTGCTTAGGGA
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTTCTTAGGGA
* * *
51864863 GATAGGACTAATGACTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCATCTTTGA
66 GATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGA
51864928 TC
131 TC
*
51864930 TGCTCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTCAACCTACTCCACTA-TTACTTAGGG
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTT-CTTAGGG
* * *
51864994 AGATAAGACTAATGGTTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCATCTTCG
65 AGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCG
51865059 ATC
130 ATC
* * * *
51865062 TTCTCCACTACTGCTTAGGGGGACAGAATCTTCCATCTTCAACCTACTCCACTACTTCTTAGGGA
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTTCTTAGGGA
* *
51865127 GATAGGACTAATGGCTTAAATCTGCTTCTCTATTATCTTGGGAAGATAAGATTCACCATCTTCGA
66 GATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGA
51865192 TC
131 TC
* * *
51865194 TGCGCCACTACTACTTAGGGAGACAGAATCTGTAATCTTC
1 TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTC
51865234 GATCTACTTC
Statistics
Matches: 508, Mismatches: 56, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
131 6 0.01
132 499 0.98
133 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
TGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTTCTTAGGGA
GATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGA
TC
Found at i:51865325 original size:46 final size:46
Alignment explanation
Indices: 51865228--51866829 Score: 1312
Period size: 46 Copynumber: 35.2 Consensus size: 46
51865218 AGAATCTGTA
* *
51865228 ATCTTCGATCTACTTCGCTACCAAATACA-G-AGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
51865272 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATATGTT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
51865318 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
51865364 ATCTTTGATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTTCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
51865410 TTCTTCGATGTACTCCGCTACCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
51865456 ATATTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
51865502 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
**
51865548 A-GATCGAAGTCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCG-A-TCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
51865595 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGTCAAGATCTGTT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
51865641 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGTTCCGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
51865687 ATCTTCGATCTACTCCGCT-CCAAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCC-AAATACAGGAAGACAAGATCTGCT
* *
51865733 ATCTTAGATCTACTCCGCTACCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
51865779 ATCTTCGATCTACTCCGCTGCTAAATACAGGAAGACAAGATCTGGT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * *** * * * * *
51865825 ATCTTCAACCTACTCCACT-ACTGCT-TAGGGAGATAGGA-CTAAC-
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCT-GCT
** ** * * * * * * *
51865868 GGCTTAAATCTGCTTC-C--CC-ACTATCTGGGGAAGATAAGATTTGCC
1 ATCTTCGATCTACTCCGCTGCCAAATA-C--AGGAAGACAAGATCTGCT
* * ** * *
51865913 ATCTTTGATCTGCTCAACTAG-TGCC---T--AGGGGGACAAAATCTGCA
1 ATCTTCGATCTACTC--C--GCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * * * ** * * **
51865957 ATCTTCAACCTACTCCACT-ACTACT-TGGGGAGATAAGA-CTAAT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
** ** * * * * * * *
51866000 GGCTTAAATTTACT--TCT-CC-ACTATCTTGGGAAGATACGAT-TCGCC
1 ATCTTCGATCTACTCCGCTGCCAAATA-C--AGGAAGACAAGATCT-GCT
* * * * *** * ** *
51866045 ATGTTCGATCTTCTCCACT-ACTGCT-TAGGGGGAC-AGAATCTGCC
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG-ATCTGCT
* * * * * * * * * **
51866089 ATCTT-GAACCTACTCCACT-ACTACT-TAGGGAGATAGGA-CTAAT
1 ATCTTCG-ATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
** ** * * * * *
51866132 GGCTTAAATCTACT--TCT-CC-ATTATCTTGGGAAGATAAGAT-TCGCC
1 ATCTTCGATCTACTCCGCTGCCAAATA-C--AGGAAGACAAGATCT-GCT
* * *** * *
51866177 ATCTTCGATCTACTCCACT-ACTGCT-TAGGGAGAC-AGAATCTG-T
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAG-ATCTGCT
* * *
51866220 AATCTTCGATCTACTTCGCTACCAAATACAGGAAGAGAAGATCTGCT
1 -ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * **
51866267 ATCTTCGATCTACTCCACTGCCGAATACCA-TTAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATA-CAGGAAGACAAGATCTGCT
*
51866313 ATCTTCGATCTACTCCGCTGCCAAACACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
51866359 ATCTTCGATCTACTTCGCTGCGAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
51866405 TTCTTCGATCTACTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
51866451 ATCTTCGATCTACTCCGCTGCCAAATATAAGAAGACAAGATCTACT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * *
51866497 TTCTTCGATCTACTTCGCTACCAAATACTGGAAGAGAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* ** **
51866543 ATCTTCGATCTACTCCGCTGCCGAATACCA-TCAGGGAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATA-CAGGAAGACAAGATCTGCT
* ** * * *
51866589 ATATTCGATCTACTCTACTGCCAAACACAGGAAAACAAGATCTTCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
51866635 ATCTTCGATCTACTCCGTTGCAAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * * *
51866681 TTCTTCGATCTACTCTGCTACCAAGTATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
51866727 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
51866773 ATCTTCGATCTACTCCGCTGCCAAATACAGAAAGACAAGATCTACT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
51866819 ATCTTCGATCT
1 ATCTTCGATCT
51866830 GTTCTCTGGG
Statistics
Matches: 1262, Mismatches: 236, Indels: 118
0.78 0.15 0.07
Matches are distributed among these distances:
40 8 0.01
41 8 0.01
42 2 0.00
43 39 0.03
44 158 0.13
45 44 0.03
46 939 0.74
47 55 0.04
48 6 0.00
49 1 0.00
51 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (46 bp):
ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:51866234 original size:132 final size:132
Alignment explanation
Indices: 51865825--51866226 Score: 597
Period size: 132 Copynumber: 3.0 Consensus size: 132
51865815 AAGATCTGGT
* * * *
51865825 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAACGGCTTAAATCTGCTTCCCCACT
1 ATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACT
* * * * * * * *
51865890 ATCTGGGGAAGATAAGATTTGCCATCTTTGATCTGCTCAACTAGTGCCTAGGGGGACAAAATCTG
66 ATCTTGGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGGGACAGAATCTG
51865955 CA
131 CA
* * *
51865957 ATCTTCAACCTACTCCACTACTACTTGGGGAGATAAGACTAATGGCTTAAATTTACTTCTCCACT
1 ATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACT
* * *
51866022 ATCTTGGGAAGATACGATTCGCCATGTTCGATCTTCTCCACTACTGCTTAGGGGGACAGAATCTG
66 ATCTTGGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGGGACAGAATCTG
*
51866087 CC
131 CA
* *
51866089 ATCTTGAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCATT
1 ATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACT
*
51866154 ATCTTGGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGACAGAATCTG
66 ATCTTGGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGGGACAGAATCTG
*
51866219 TA
131 CA
51866221 ATCTTC
1 ATCTTC
51866227 GATCTACTTC
Statistics
Matches: 240, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 240 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (132 bp):
ATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACT
ATCTTGGGAAGATAAGATTCGCCATCTTCGATCTACTCCACTACTGCTTAGGGGGACAGAATCTG
CA
Found at i:51867109 original size:24 final size:24
Alignment explanation
Indices: 51867059--51867116 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
51867049 CGGATTACCC
51867059 CCACTGTAATCTTCAAACTTCAAT
1 CCACTGTAATCTTCAAACTTCAAT
* **
51867083 CCATTGTAATCTTCAAGGTT-AAGT
1 CCACTGTAATCTTCAAACTTCAA-T
51867107 CCACTGTAAT
1 CCACTGTAAT
51867117 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAACTTCAAT
Found at i:51868062 original size:6 final size:6
Alignment explanation
Indices: 51868051--51868086 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
51868041 TTGGCCGCTC
*
51868051 CTTTTT CTTTTT CTTTTT C-TTTT CTTCTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
51868087 AAAATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:51868067 original size:11 final size:11
Alignment explanation
Indices: 51868051--51868084 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
51868041 TTGGCCGCTC
51868051 CTTTTTCTTTTT
1 CTTTTTC-TTTT
51868063 CTTTTTCTTTT
1 CTTTTTCTTTT
*
51868074 CTTCTTCTTTT
1 CTTTTTCTTTT
51868085 TCAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:51868075 original size:17 final size:17
Alignment explanation
Indices: 51868053--51868086 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51868043 GGCCGCTCCT
*
51868053 TTTTCTTTTTCTTTTTC
1 TTTTCTTCTTCTTTTTC
51868070 TTTTCTTCTTCTTTTTC
1 TTTTCTTCTTCTTTTTC
51868087 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTCTTCTTTTTC
Found at i:51868520 original size:28 final size:27
Alignment explanation
Indices: 51868460--51868521 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
51868450 CCTGCAGAGA
51868460 TTTTTTTGTTTTTTTAATTTTTATATTT
1 TTTTTTTGTTTTTTT-ATTTTTATATTT
* *
51868488 GTTTTTTGTTTTTTGT-TTTGTTTTATTT
1 TTTTTTTGTTTTTT-TATTT-TTATATTT
51868516 TTTTTT
1 TTTTTT
51868522 GCACCCCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 3 0.10
28 25 0.86
29 1 0.03
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (27 bp):
TTTTTTTGTTTTTTTATTTTTATATTT
Found at i:51871998 original size:109 final size:108
Alignment explanation
Indices: 51871734--51872065 Score: 472
Period size: 109 Copynumber: 3.1 Consensus size: 108
51871724 GACATGGATT
* * * ** *
51871734 AAAA-TTTAAGAGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTTGCTATTTGATCGAACGAGAAAAATCGAAACCTAGCACATTAGGG
* * * * * *
51871796 CACATTTCCTCGAATTTCCAAACGTAAAATATTGTCTTATTTC
66 CACGTTTTCTCGAATTTACAAACGCAAAATATTGCCTTATTTG
51871839 AAAATTTTAAAAGGATATTTTGCTATTTGATCGAACGAGAAAAATCGAAACCTAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTTGCTATTTGATCGAACGAGAAAAATCGAAACCTAGCACATTAGGG
*
51871904 CACGTTTTCTCGAATTTACAAACGCAAAACATTGCCTTATTTTG
66 CACGTTTTCTCGAATTTACAAACGCAAAATATTGCCTTA-TTTG
*
51871948 AAATTTTTAAAAGGATATTTTGCTATTTGATCGAACGAGAAAAATCGAAACCTAGCACATTAGGG
1 AAAATTTTAAAAGGATATTTTGCTATTTGATCGAACGAGAAAAATCGAAACCTAGCACATTAGGG
* *
51872013 CACGTTTTCTCGAATTTTCAAACACAAAATATTGCCTTACTTTG
66 CACGTTTTCTCGAATTTACAAACGCAAAATATTGCCTTA-TTTG
51872057 AAAAATTTT
1 -AAAATTTT
51872066 CCTTTTTTGA
Statistics
Matches: 203, Mismatches: 19, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
105 4 0.02
106 29 0.14
108 56 0.28
109 107 0.53
110 7 0.03
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (108 bp):
AAAATTTTAAAAGGATATTTTGCTATTTGATCGAACGAGAAAAATCGAAACCTAGCACATTAGGG
CACGTTTTCTCGAATTTACAAACGCAAAATATTGCCTTATTTG
Found at i:51872225 original size:16 final size:16
Alignment explanation
Indices: 51872187--51872218 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
51872177 ATACCATAAC
51872187 AAATAAATAAATAAAG
1 AAATAAATAAATAAAG
51872203 AAATAAATAAACTAAA
1 AAATAAATAAA-TAAA
51872219 ACATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
AAATAAATAAATAAAG
Found at i:51875322 original size:12 final size:12
Alignment explanation
Indices: 51875305--51875333 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
51875295 GACACACGGT
51875305 CGTGTCTCAACC
1 CGTGTCTCAACC
51875317 CGTGTCTCAACC
1 CGTGTCTCAACC
51875329 CGTGT
1 CGTGT
51875334 GGGAACTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.38, G:0.21, T:0.28
Consensus pattern (12 bp):
CGTGTCTCAACC
Found at i:51876998 original size:45 final size:45
Alignment explanation
Indices: 51876901--51877205 Score: 140
Period size: 45 Copynumber: 6.8 Consensus size: 45
51876891 GATCGAAGAG
* * * *
51876901 TGCCAT-GATGTCTTTCAACCCTGGTCTTATTTATTCTCGTCTTGA
1 TGCCATAG-TGTCTTTCAACCATGGTCTTATTCATTCTCATCGTGA
* * *
51876946 TGGCATAGTGTCTTTCAACCAT-GTCTTATTCATTTTCCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCT-CATCGTGA
* *
51876991 TGCCATAGTGTCTTTCAACTATGGTCTTACTTC-TT-TAATTCGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTA-TTCATTCTCA-TCGTGA
* * * * ***
51877036 TGCCATA-TCATCTTTCAGCTATGGTCTTACTCGA-TAGAATCGTGA
1 TGCCATAGT-GTCTTTCAACCATGGTCTTATTC-ATTCTCATCGTGA
*** * * * * ***
51877081 TGCCATAACATCTTTTAGCTATGGTCTTATTCAATAAAATCGTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCATCGTGA
** * * * * * * *
51877126 TGCCATAACGTCTTTCAGCTATGGTATTACTCGTT-T-ATGGTATGG
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCATCG--TGA
* * *
51877171 TGCAATAGTGTCTTTCAACTATGGTCTTAATCATT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATT
51877206 TCCTTCAAGC
Statistics
Matches: 212, Mismatches: 35, Indels: 26
0.78 0.13 0.10
Matches are distributed among these distances:
43 3 0.01
44 17 0.08
45 178 0.84
46 11 0.05
47 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.41
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTCATCGTGA
Found at i:51877078 original size:90 final size:90
Alignment explanation
Indices: 51876984--51877199 Score: 233
Period size: 90 Copynumber: 2.4 Consensus size: 90
51876974 TTCATTTTCC
* * * *
51876984 ATCGTGTTGCCATAGTGTCTTTCAACTATGGTCTTACTTC-TTTAATTCGTGATGCCATATCATC
1 ATCGTG-TGCCATAGTGTCTTTCAACTATGGTCTTA-TTCAATAAAATCGTGATGCCATAACATC
*
51877048 TTTCAGCTATGGTCTTACTCG-ATAGA
64 TTTCAGCTATGGTATTACTCGTATAGA
*** * * *
51877074 ATCGTGATGCCATAACATCTTTTAGCTATGGTCTTATTCAATAAAATCGTGATGCCATAACGTCT
1 ATCGTG-TGCCATAGTGTCTTTCAACTATGGTCTTATTCAATAAAATCGTGATGCCATAACATCT
* *
51877139 TTCAGCTATGGTATTACTCGTTTATGGT
65 TTCAGCTATGGTATTACTCG--TATAGA
*
51877167 AT-G-GTGCAATAGTGTCTTTCAACTATGGTCTTA
1 ATCGTGTGCCATAGTGTCTTTCAACTATGGTCTTA
51877200 ATCATTTCCT
Statistics
Matches: 102, Mismatches: 20, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
89 3 0.03
90 92 0.90
91 1 0.01
92 1 0.01
93 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (90 bp):
ATCGTGTGCCATAGTGTCTTTCAACTATGGTCTTATTCAATAAAATCGTGATGCCATAACATCTT
TCAGCTATGGTATTACTCGTATAGA
Found at i:51880705 original size:10 final size:10
Alignment explanation
Indices: 51880688--51880712 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51880678 AGGAAAAATA
51880688 AAAAAAATTC
1 AAAAAAATTC
51880698 AAAAAAATTC
1 AAAAAAATTC
51880708 AAAAA
1 AAAAA
51880713 TATAAAAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:51887364 original size:45 final size:45
Alignment explanation
Indices: 51887231--51887349 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 45
51887221 GCTACACGCC
* * * * * * * * *
51887231 TAAAGATTAGTAAGATCATGGCTGAAAGATGCCATGACATCATGC
1 TAAAGATGAGTAAGACCATAGTTGAAAGATACTAGGATATCATGA
*
51887276 TAAAGATGAGTAAGACCATAGTTGAAAGATACTAGGATGTCATGA
1 TAAAGATGAGTAAGACCATAGTTGAAAGATACTAGGATATCATGA
* *
51887321 TATAAG-TGAGTAAGGCCATGGTTGAAAGA
1 TA-AAGATGAGTAAGACCATAGTTGAAAGA
51887350 AGCTATGGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 58 0.95
46 3 0.05
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.24
Consensus pattern (45 bp):
TAAAGATGAGTAAGACCATAGTTGAAAGATACTAGGATATCATGA
Found at i:51888636 original size:51 final size:49
Alignment explanation
Indices: 51888471--51888655 Score: 167
Period size: 51 Copynumber: 3.7 Consensus size: 49
51888461 TGAGACTGAT
* * *
51888471 GGTCACGTGAGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATG-ATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CG-GATGTATA
* * * * * *
51888521 GGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACTGGATAGTTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-GGAT-GTATA
* * *
51888572 GATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCGGATCGTA-A
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGAT-GTATA
* *
51888622 TGGTCACATTTGTAGTACTATGTACAGGCTACTA
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTA
51888656 TGTGAACCGA
Statistics
Matches: 108, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 3 0.03
50 35 0.32
51 69 0.64
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGGATGTATA
Found at i:51888717 original size:45 final size:45
Alignment explanation
Indices: 51888661--51888751 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
51888651 TACTATGTGA
* *
51888661 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
51888706 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
51888751 A
1 A
51888752 TTCAATATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:51906065 original size:13 final size:13
Alignment explanation
Indices: 51906047--51906120 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 13
51906037 CATATCTATA
51906047 TTCATATAAATAT
1 TTCATATAAATAT
* *
51906060 TTCATATAAACAC
1 TTCATATAAATAT
* **
51906073 TTCATCTGACCT-T
1 TTCATAT-AAATAT
**
51906086 TTCATATATCTAT
1 TTCATATAAATAT
*
51906099 TTCCATATAAACAT
1 TT-CATATAAATAT
51906113 TTCATATA
1 TTCATATA
51906121 TCCATTTCCA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
12 3 0.07
13 32 0.70
14 11 0.24
ACGTcount: A:0.36, C:0.19, G:0.01, T:0.43
Consensus pattern (13 bp):
TTCATATAAATAT
Found at i:51906126 original size:13 final size:13
Alignment explanation
Indices: 51906085--51906128 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
51906075 CATCTGACCT
*
51906085 TTTCATATATCTA
1 TTTCATATATCCA
**
51906098 TTTCCATATAAACA
1 TTT-CATATATCCA
51906112 TTTCATATATCCA
1 TTTCATATATCCA
51906125 TTTC
1 TTTC
51906129 CATTTACTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTCATATATCCA
Found at i:51906232 original size:25 final size:25
Alignment explanation
Indices: 51906191--51906256 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
51906181 ATGAACAATT
* *
51906191 CTCACACAAGCTATGACGGTAAATG
1 CTCACACGAGCTGTGACGGTAAATG
* *
51906216 CTCTCACGAGCTGTGACTGTAAATG
1 CTCACACGAGCTGTGACGGTAAATG
*
51906241 CTCACATGAGCTGTGA
1 CTCACACGAGCTGTGA
51906257 AATGGGCCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
CTCACACGAGCTGTGACGGTAAATG
Found at i:51908982 original size:30 final size:30
Alignment explanation
Indices: 51908947--51909017 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 30
51908937 CATATTTAAC
*
51908947 AATAAGTTATTCTAGCAATTAATAAACTAA
1 AATAAGTTATTCCAGCAATTAATAAACTAA
* *
51908977 TATAAGCATTTATTCCAGCAATTAATTAACTAA
1 AATAAG---TTATTCCAGCAATTAATAAACTAA
51909010 AATAAGTT
1 AATAAGTT
51909018 TAATAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
30 7 0.21
33 27 0.79
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (30 bp):
AATAAGTTATTCCAGCAATTAATAAACTAA
Done.