Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 87 of 173
Found at i:27170189 original size:18 final size:18
Alignment explanation
Indices: 27170152--27170187 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
27170142 TTATTATTTT
*
27170152 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
27170170 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
27170188 TATTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:27174406 original size:40 final size:40
Alignment explanation
Indices: 27174362--27174558 Score: 250
Period size: 40 Copynumber: 4.9 Consensus size: 40
27174352 GCCTTCAAGA
* * *
27174362 GTACCAAAGTACTAATAGGGGCACGTATGTGGATTCAGGG
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGG
* * *
27174402 GTACCGAAGTACAAACAGGGGCATGTATGTGCATTCATGG
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGG
* * * ** *
27174442 GTACCAAAGTACAAACAAGGGCACACATGTGCATTTAGGG
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGG
*
27174482 GTACCGAAGTACAAATAGGGGCACGTATATGCATTCAGGG
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGG
** *
27174522 GTATTGAAGTACAAATAGGGGCACATATGTGCATTCA
1 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTCA
27174559 AAAAATAATT
Statistics
Matches: 133, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 133 1.00
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (40 bp):
GTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGG
Found at i:27185143 original size:26 final size:28
Alignment explanation
Indices: 27185100--27185156 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
27185090 AAATACCTAA
*
27185100 TTTTCTATTTAAAATCTAATT-GTTTTC
1 TTTTCTATTTAAAATCTAATTCATTTTC
* *
27185127 TTTT-TATTTGAATTCTAATTCATTTTC
1 TTTTCTATTTAAAATCTAATTCATTTTC
27185154 TTT
1 TTT
27185157 CGTAATTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.23, C:0.11, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTTCTATTTAAAATCTAATTCATTTTC
Found at i:27188994 original size:21 final size:21
Alignment explanation
Indices: 27188955--27188994 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27188945 GAATAGTTAT
* *
27188955 TTTAGGGATTATATTAATTAC
1 TTTAGGGATAATATAAATTAC
*
27188976 TTTAGGGATAATGTAAATT
1 TTTAGGGATAATATAAATT
27188995 TATTTCTAGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (21 bp):
TTTAGGGATAATATAAATTAC
Found at i:27200347 original size:27 final size:27
Alignment explanation
Indices: 27200317--27200474 Score: 108
Period size: 27 Copynumber: 5.9 Consensus size: 27
27200307 AAAGTGACCC
*
27200317 ATACAAAGTATGCCACAAAGGCTATCT
1 ATACAAAGTACGCCACAAAGGCTATCT
* *
27200344 ATACAGAGTATGCCACAAAGG-TGAT-T
1 ATACAAAGTACGCCACAAAGGCT-ATCT
* ** **
27200370 CATTCAGGGTACGCCATGAAGGCTATCT
1 -ATACAAAGTACGCCACAAAGGCTATCT
* *
27200398 ATACAAAGTATGCCACAAAAG-TGAT-T
1 ATACAAAGTACGCCACAAAGGCT-ATCT
* * *
27200424 CATTCAAGGTACGCCACAAAGGCTATCA
1 -ATACAAAGTACGCCACAAAGGCTATCT
* * *
27200452 ATGCAGAGTACGGCACAAAGGCT
1 ATACAAAGTACGCCACAAAGGCT
27200475 GACAGGATGC
Statistics
Matches: 101, Mismatches: 22, Indels: 16
0.73 0.16 0.12
Matches are distributed among these distances:
26 4 0.04
27 94 0.93
28 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (27 bp):
ATACAAAGTACGCCACAAAGGCTATCT
Found at i:27200353 original size:54 final size:54
Alignment explanation
Indices: 27200293--27200470 Score: 212
Period size: 54 Copynumber: 3.3 Consensus size: 54
27200283 TCAATCTAAT
* ** * * *
27200293 CAGAGTACGCCAAAAAAGTGACCCATACAAAGTATGCCACAAAGGCTATCTATA
1 CAGAGTACGCCACAAAAGTGATTCATTCAAGGTACGCCACAAAGGCTATCTATA
* * * **
27200347 CAGAGTATGCCACAAAGGTGATTCATTCAGGGTACGCCATGAAGGCTATCTATA
1 CAGAGTACGCCACAAAAGTGATTCATTCAAGGTACGCCACAAAGGCTATCTATA
* * * *
27200401 CAAAGTATGCCACAAAAGTGATTCATTCAAGGTACGCCACAAAGGCTATCAATG
1 CAGAGTACGCCACAAAAGTGATTCATTCAAGGTACGCCACAAAGGCTATCTATA
*
27200455 CAGAGTACGGCACAAA
1 CAGAGTACGCCACAAA
27200471 GGCTGACAGG
Statistics
Matches: 103, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (54 bp):
CAGAGTACGCCACAAAAGTGATTCATTCAAGGTACGCCACAAAGGCTATCTATA
Found at i:27203412 original size:138 final size:138
Alignment explanation
Indices: 27203164--27203431 Score: 353
Period size: 138 Copynumber: 1.9 Consensus size: 138
27203154 ATGTCATTAG
* * *
27203164 GGTTACAGTGTTTTGGGTGTTGGTCCTGAACGTCCTACCGGTGGCTGAGTTTTCGGCATGTGTTA
1 GGTTACAGTGTTTTGGGTGTTGGTCCTGAACGTCCTACCGATGGCTGAGGTCTCGGCATGTGTTA
* *
27203229 CGGTTACTTAACAGCTTGTGTGAGCAGCACCATCTAGCTACATTTCGACCGAAAGCTTGTGTGAG
66 CGGATACTTAACAGCTTGTGTGAACAGCACCATCTAGCTACATTTCGACCGAAAGCTTGTGTGAG
27203294 CATATCTA
131 CATATCTA
* * *
27203302 GGTTACCA-TGTTTTGGGTGTTGGTCTTGAATGTCCTACCGATGGCTGAGGTCT-GTCAT-TAGT
1 GGTTA-CAGTGTTTTGGGTGTTGGTCCTGAACGTCCTACCGATGGCTGAGGTCTCGGCATGT-GT
* * * * * * *
27203364 TGCGGATACTTGACAGCTTGTGTGAACAGCATCGTGTAGCTTACATTTCGACTGACAGCTTGTGT
64 TACGGATACTTAACAGCTTGTGTGAACAGCACCATCTAGC-TACATTTCGACCGAAAGCTTGTGT
27203429 GAG
128 GAG
27203432 TAAACCCATT
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
136 1 0.01
137 39 0.35
138 70 0.62
139 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (138 bp):
GGTTACAGTGTTTTGGGTGTTGGTCCTGAACGTCCTACCGATGGCTGAGGTCTCGGCATGTGTTA
CGGATACTTAACAGCTTGTGTGAACAGCACCATCTAGCTACATTTCGACCGAAAGCTTGTGTGAG
CATATCTA
Found at i:27208838 original size:17 final size:17
Alignment explanation
Indices: 27208816--27208855 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
27208806 TAAAAAATTG
27208816 TTAAAATTTTTAT-TTAA
1 TTAAAATTTTTATATT-A
27208833 TTAAAA-TTTTATATTA
1 TTAAAATTTTTATATTA
27208849 TTAAAAT
1 TTAAAAT
27208856 AACTTAGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAAAATTTTTATATTA
Found at i:27208844 original size:16 final size:16
Alignment explanation
Indices: 27208816--27208855 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
27208806 TAAAAAATTG
27208816 TTAAAATTTT-TATTTAA
1 TTAAAATTTTATA-TT-A
27208833 TTAAAATTTTATATTA
1 TTAAAATTTTATATTA
27208849 TTAAAAT
1 TTAAAAT
27208856 AACTTAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 12 0.55
18 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAAATTTTATATTA
Found at i:27214088 original size:12 final size:12
Alignment explanation
Indices: 27214071--27214101 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
27214061 GAGTTAAGAG
27214071 TTTGGGAAAGTA
1 TTTGGGAAAGTA
27214083 TTTGGGAAAGTA
1 TTTGGGAAAGTA
27214095 TTTGGGA
1 TTTGGGA
27214102 GTTCCTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (12 bp):
TTTGGGAAAGTA
Found at i:27224174 original size:23 final size:23
Alignment explanation
Indices: 27224148--27224199 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
27224138 CTGTAATTCC
* *
27224148 TTTGTGCCATATTTTGCAATGCT
1 TTTGTGCCATATTCTACAATGCT
***
27224171 TTTGTGGTGTATTCTACAATGCT
1 TTTGTGCCATATTCTACAATGCT
27224194 TTTGTG
1 TTTGTG
27224200 GTGTATTCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.21, T:0.50
Consensus pattern (23 bp):
TTTGTGCCATATTCTACAATGCT
Found at i:27224200 original size:23 final size:23
Alignment explanation
Indices: 27224164--27224208 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
27224154 CCATATTTTG
27224164 CAATGCTTTTGTGGTGTATTCTA
1 CAATGCTTTTGTGGTGTATTCTA
27224187 CAATGCTTTTGTGGTGTATTCT
1 CAATGCTTTTGTGGTGTATTCT
27224209 TGTAATATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.16, C:0.13, G:0.22, T:0.49
Consensus pattern (23 bp):
CAATGCTTTTGTGGTGTATTCTA
Found at i:27224259 original size:23 final size:23
Alignment explanation
Indices: 27224210--27224259 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
27224200 GTGTATTCTT
* * *
27224210 GTAATATCCCGAAAATTAGTACT
1 GTAATACCCCGAAAATTACTACC
* *
27224233 GTAATACCCCGAAAGTTACTGCC
1 GTAATACCCCGAAAATTACTACC
27224256 GTAA
1 GTAA
27224260 GAAAGTAGGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACTACC
Found at i:27226617 original size:23 final size:23
Alignment explanation
Indices: 27226561--27226617 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
27226551 GGGTGTTACA
* *
27226561 ATTCTGCCATGCCTTTGTGGTGT
1 ATTCTGCAATGCCTTTGTGCTGT
*
27226584 ATTCTGTAATGCCTTTGTAGCT-T
1 ATTCTGCAATGCCTTTGT-GCTGT
*
27226607 ATTTTGCAATG
1 ATTCTGCAATG
27226618 TTTTTGTGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.16, C:0.18, G:0.21, T:0.46
Consensus pattern (23 bp):
ATTCTGCAATGCCTTTGTGCTGT
Found at i:27230055 original size:20 final size:20
Alignment explanation
Indices: 27230027--27230066 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
27230017 TATTATTACT
*
27230027 ATTTTCTTCTCTATTTTTCC
1 ATTTCCTTCTCTATTTTTCC
* *
27230047 ATTTCCTTCTTTCTTTTTCC
1 ATTTCCTTCTCTATTTTTCC
27230067 TTGTTTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTCCTTCTCTATTTTTCC
Found at i:27236721 original size:37 final size:37
Alignment explanation
Indices: 27236673--27236757 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
27236663 TTTAAATAAG
* * *
27236673 AAGTATTTGGTTGTTTGATAAGTGAAGGGAAATGAAT
1 AAGTATATGGTTGTTTGATAAGTGAACGAAAATGAAT
* *
27236710 AAGTATATGGTTGTTTGATATGTGTACGAAAATGAAT
1 AAGTATATGGTTGTTTGATAAGTGAACGAAAATGAAT
27236747 AAGTATATGGT
1 AAGTATATGGT
27236758 GAAACACTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.35, C:0.01, G:0.27, T:0.36
Consensus pattern (37 bp):
AAGTATATGGTTGTTTGATAAGTGAACGAAAATGAAT
Found at i:27242903 original size:42 final size:42
Alignment explanation
Indices: 27242838--27242955 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
27242828 ATGTGGCACA
* *
27242838 GCCGTATGACCCTACTCAGTAAGTTACACGGGCAGGGACACG
1 GCCGTGTGACCCTATTCAGTAAGTTACACGGGCAGGGACACG
* * *
27242880 GTCGTGTGACCCTATTCAGTAAGTTACATGGGCCGGGACACG
1 GCCGTGTGACCCTATTCAGTAAGTTACACGGGCAGGGACACG
* *
27242922 GCCGTGTGTCTCTAGTTCA--AATGTTACACGGGCA
1 GCCGTGTGACCCTA-TTCAGTAA-GTTACACGGGCA
27242956 TCAGCACGGA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.03
42 58 0.91
43 4 0.06
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (42 bp):
GCCGTGTGACCCTATTCAGTAAGTTACACGGGCAGGGACACG
Found at i:27249224 original size:12 final size:12
Alignment explanation
Indices: 27249209--27249234 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27249199 GTCCTGGGAT
27249209 ACGGGCTATCAC
1 ACGGGCTATCAC
27249221 ACGGGCTATCAC
1 ACGGGCTATCAC
27249233 AC
1 AC
27249235 AACCAGGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.35, G:0.23, T:0.15
Consensus pattern (12 bp):
ACGGGCTATCAC
Found at i:27249283 original size:24 final size:24
Alignment explanation
Indices: 27249219--27249287 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
27249209 ACGGGCTATC
* **
27249219 ACACGGGCTATCACACAACCAGGG
1 ACACTGGCTATCACACGGCCAGGG
* *
27249243 ACACTGGCTATTACACGGCCTGGG
1 ACACTGGCTATCACACGGCCAGGG
27249267 ACACTGGCTATCACACGGCCA
1 ACACTGGCTATCACACGGCCA
27249288 CCCCAAATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.28, C:0.33, G:0.25, T:0.14
Consensus pattern (24 bp):
ACACTGGCTATCACACGGCCAGGG
Found at i:27249428 original size:52 final size:53
Alignment explanation
Indices: 27249328--27249431 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 53
27249318 ATGTGCAGGA
* * * * *
27249328 TGAACCACTTGGTCTCATAGAGTTACATGACCTAGTGACACGGTCATGTGACT
1 TGAACCACATGGTCACATAGAGTTACATGACCTAGCGACAAGGCCATGTGACT
* * *
27249381 TGAACCACATGGTCACA-ATAGTTACATGGCCTGGCGACAAGGCCATGTGAC
1 TGAACCACATGGTCACATAGAGTTACATGACCTAGCGACAAGGCCATGTGAC
27249432 CAAACTTCGA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
52 28 0.65
53 15 0.35
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (53 bp):
TGAACCACATGGTCACATAGAGTTACATGACCTAGCGACAAGGCCATGTGACT
Found at i:27256799 original size:24 final size:23
Alignment explanation
Indices: 27256772--27256816 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
27256762 TGTGGTTGAA
27256772 TGGTATGCTATGGATA-AGGTTTCT
1 TGGTATG-TAT-GATATAGGTTTCT
*
27256796 TGGTTTGTATGATATAGGTTT
1 TGGTATGTATGATATAGGTTT
27256817 AAGGAATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 9 0.47
24 6 0.32
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.47
Consensus pattern (23 bp):
TGGTATGTATGATATAGGTTTCT
Found at i:27262938 original size:32 final size:32
Alignment explanation
Indices: 27262897--27262961 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
27262887 GAGCCTAAAA
27262897 TTATGCCACATGCCATATCAAAATTTTTGAGG
1 TTATGCCACATGCCATATCAAAATTTTTGAGG
27262929 TTATGCCACATGCCATATCAAAATTTTTGAGG
1 TTATGCCACATGCCATATCAAAATTTTTGAGG
27262961 T
1 T
27262962 GTTATAGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (32 bp):
TTATGCCACATGCCATATCAAAATTTTTGAGG
Found at i:27266152 original size:20 final size:19
Alignment explanation
Indices: 27266116--27266154 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
27266106 GGCAATAGAT
*
27266116 AACAAAACAATCGATTGAA
1 AACAAAACAATCAATTGAA
27266135 AACAAAAGCAATCAATTGAA
1 AACAAAA-CAATCAATTGAA
27266155 CAAGAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.15
Consensus pattern (19 bp):
AACAAAACAATCAATTGAA
Found at i:27267970 original size:33 final size:28
Alignment explanation
Indices: 27267900--27267956 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
27267890 ATTCAGTAAC
*
27267900 AGTACAGTGTGGGCCTTAGCCCAATACA
1 AGTACAATGTGGGCCTTAGCCCAATACA
*
27267928 AGAACAATGTGGGCCTTAGCCCAATACA
1 AGTACAATGTGGGCCTTAGCCCAATACA
27267956 A
1 A
27267957 TATCGGTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (28 bp):
AGTACAATGTGGGCCTTAGCCCAATACA
Found at i:27268342 original size:27 final size:27
Alignment explanation
Indices: 27268321--27268410 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
27268311 AGGGGTATAA
*
27268321 CAGTTATTTTACCCTATGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* *
27268348 CGGTCATTTTACCCTATAGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
* *
27268375 CAGTCATTTTATCCTTTGGGGGTAATT
1 CAGTCATTTTACCCTATGGGGGTAATT
**
27268402 TGGTCATTT
1 CAGTCATTT
27268411 ACTGACCTCT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTAATT
Found at i:27270579 original size:25 final size:27
Alignment explanation
Indices: 27270550--27270608 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
27270540 CATATCTATC
27270550 CATATAAACATTT-CATATAAC-AAAT
1 CATATAAACATTTCCATATAACTAAAT
** *
27270575 CATATAATTATTTCCATATAACTAATT
1 CATATAAACATTTCCATATAACTAAAT
27270602 CATATAA
1 CATATAA
27270609 TTATTTCGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.38
26 8 0.28
27 10 0.34
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.37
Consensus pattern (27 bp):
CATATAAACATTTCCATATAACTAAAT
Found at i:27270594 original size:14 final size:14
Alignment explanation
Indices: 27270575--27270615 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
27270565 TATAACAAAT
27270575 CATATAATTATTTC
1 CATATAATTATTTC
* *
27270589 CATATAACTAATT-
1 CATATAATTATTTC
27270602 CATATAATTATTTC
1 CATATAATTATTTC
27270616 GTTTACCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (14 bp):
CATATAATTATTTC
Found at i:27270635 original size:27 final size:27
Alignment explanation
Indices: 27270550--27270615 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
27270540 CATATCTATC
** *
27270550 CATATAAACATTT-CATATAAC-AAAT
1 CATATAATTATTTCCATATAACTAATT
27270575 CATATAATTATTTCCATATAACTAATT
1 CATATAATTATTTCCATATAACTAATT
27270602 CATATAATTATTTC
1 CATATAATTATTTC
27270616 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 11 0.31
26 8 0.22
27 17 0.47
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (27 bp):
CATATAATTATTTCCATATAACTAATT
Found at i:27270705 original size:13 final size:13
Alignment explanation
Indices: 27270674--27270752 Score: 86
Period size: 13 Copynumber: 6.1 Consensus size: 13
27270664 ATCTATTTAT
*
27270674 ATATAACCAATTC
1 ATATAACCATTTC
* *
27270687 TTATAATCATTTC
1 ATATAACCATTTC
*
27270700 ACATAACCATTTC
1 ATATAACCATTTC
*
27270713 ATATAACCAATTC
1 ATATAACCATTTC
*
27270726 ATATAACCATTTT
1 ATATAACCATTTC
* *
27270739 GTATAGCCATTTC
1 ATATAACCATTTC
27270752 A
1 A
27270753 AAGTGTTAAC
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATAACCATTTC
Found at i:27274103 original size:27 final size:27
Alignment explanation
Indices: 27274073--27274126 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
27274063 CCGACCCCCG
* *
27274073 ACCGAATTAATTCGGTTAACCGAATTA
1 ACCGAATTAAGTCGGTTAACCAAATTA
**
27274100 ACCGAATTCGGTCGGTTAACCAAATTA
1 ACCGAATTAAGTCGGTTAACCAAATTA
27274127 CTTCGATTTT
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:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (27 bp):
ACCGAATTAAGTCGGTTAACCAAATTA
Found at i:27274525 original size:43 final size:42
Alignment explanation
Indices: 27274464--27274845 Score: 473
Period size: 43 Copynumber: 8.9 Consensus size: 42
27274454 GTTTTTAGAA
* *
27274464 ACAAAAGCTGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTT-CC
* *
27274507 ACAAACGCCGCTAAAGACCATGACCTTTAGTGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-C
* *
27274550 ACAAAACGCCACTAAAGACCAAGACCTTTAGCGGCGCATTTCTC
1 AC-AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-C
*
27274594 ACAAACGCCGCTAAAGACCAACACCTTTAGCGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-C
* *
27274637 ACAAACGCCGCTAAAGACCAAGACCTTTAGTGGCACTTTTCTC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-C
* *
27274680 ACAAACGCCGCTAAAAACCACGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTT-CC
* *
27274723 ACAAACGCCGCTAAAGACCACGACCTTTAGCGGCTCTTCTAT-C
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT-T-TCC
* * *
27274766 ACAAACGCCGCTATAA-ACCATGACCTTTAACGGCGCTTTTATC
1 ACAAACGCCGCTA-AAGACCAAGACCTTTAGCGGCGCTTTT-CC
* * *
27274809 ACAAACGCCGCGAAAGAACAA-ACCTTTAGCGACGCTT
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT
27274846 CTAGCAAAAT
Statistics
Matches: 302, Mismatches: 28, Indels: 19
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.00
42 18 0.06
43 239 0.79
44 43 0.14
45 1 0.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (42 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
Found at i:27276914 original size:27 final size:28
Alignment explanation
Indices: 27276884--27276978 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 28
27276874 ACTTTCAAGT
27276884 TTTTTA-TTATTTTATAATTTTTATATA
1 TTTTTATTTATTTTATAATTTTTATATA
* ** *
27276911 -TTTTATTTCTTTTATAAAATTTATGTA
1 TTTTTATTTATTTTATAATTTTTATATA
*
27276938 TTTTTAATTTGTTTTA-AACTTTTT-TA-A
1 TTTTT-ATTTATTTTATAA-TTTTTATATA
*
27276965 GTTTTA-TTATTTTA
1 TTTTTATTTATTTTA
27276979 AATACAAGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
25 7 0.13
26 6 0.11
27 22 0.41
28 7 0.13
29 12 0.22
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.67
Consensus pattern (28 bp):
TTTTTATTTATTTTATAATTTTTATATA
Found at i:27279201 original size:116 final size:120
Alignment explanation
Indices: 27278968--27279211 Score: 300
Period size: 116 Copynumber: 2.0 Consensus size: 120
27278958 CAGGGGGGAA
* * *
27278968 ATTTTAGGGTAAAATGGCGCCATTTTTTAAAGTCAAATGATTTTTGTGGCGTTTTTTATAAAAAA
1 ATTTTAGGGTAAAATGGCACCATTTTTTAAAGTCAAATGAATTTGGTGGCGTTTTTTAT--AAAA
** * ** *
27279033 AAAGCCGCTATTGCTTATTTTTTGCGGTATTTTTTGTAAAAACGCCA-TAAAAAATC
64 AAAGCCGCTATTGCTTACCTTTTGCGGCATTTTTCATAAAAACGCCACAAAAAAATC
27279089 ATTTT-GGGTAAAATGGCACCATTTTTTAAAGTCAAAT-AATTTGGTGGCGTTTTTTAT-AAAAA
1 ATTTTAGGGTAAAATGGCACCATTTTTTAAAGTCAAATGAATTTGGTGGCGTTTTTTATAAAAAA
* * * *
27279151 TGCCGTTATTGCTTGCCTTTTGCGGCGTTTTTCATAAAAACGCTGCA-AAAAAAATC
66 AGCCGCTATTGCTTACCTTTTGCGGCATTTTTCATAAAAACGC--CACAAAAAAATC
27279207 ATTTT
1 ATTTT
27279212 CTTTTGAACA
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
116 39 0.36
118 15 0.14
119 18 0.17
120 31 0.29
121 5 0.05
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (120 bp):
ATTTTAGGGTAAAATGGCACCATTTTTTAAAGTCAAATGAATTTGGTGGCGTTTTTTATAAAAAA
AGCCGCTATTGCTTACCTTTTGCGGCATTTTTCATAAAAACGCCACAAAAAAATC
Found at i:27279306 original size:35 final size:33
Alignment explanation
Indices: 27279223--27279311 Score: 117
Period size: 35 Copynumber: 2.6 Consensus size: 33
27279213 TTTTGAACAA
27279223 AAAT-TATTTTATTTAAACTAATATTTAAATAT
1 AAATATATTTTATTTAAACTAATATTTAAATAT
* *
27279255 AATTATTAATTCTATTTAAACTAATATTTAAATATTT
1 AAATA-T-ATTTTATTTAAACTAATATTTAAATA--T
27279292 AAATATATTTTATTTAAACT
1 AAATATATTTTATTTAAACT
27279312 TATTTATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
32 3 0.06
34 1 0.02
35 38 0.79
36 1 0.02
37 5 0.10
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
AAATATATTTTATTTAAACTAATATTTAAATAT
Found at i:27279309 original size:23 final size:23
Alignment explanation
Indices: 27279279--27279359 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 23
27279269 TTTAAACTAA
27279279 TATTTAAATATTTAAATATATTT
1 TATTTAAATATTTAAATATATTT
*
27279302 TATTTAAACTTATTTATTAATTCTATTT
1 TATTTAAA--TATTTA--AA-TATATTT
* *
27279330 AAATT-AATATTTAAATATATTT
1 TATTTAAATATTTAAATATATTT
*
27279352 TCTTTAAA
1 TATTTAAA
27279360 CTTATTCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
22 8 0.18
23 12 0.27
25 12 0.27
27 4 0.09
28 9 0.20
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTTAAATATTTAAATATATTT
Found at i:27279319 original size:58 final size:58
Alignment explanation
Indices: 27279244--27279397 Score: 209
Period size: 50 Copynumber: 2.8 Consensus size: 58
27279234 TTTAAACTAA
*
27279244 TATTTAAA-TATAATTATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
1 TATTTAAACT-TATTTATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
27279302 TATTTAAACTTATTTATTAATTCTA-TT----TAA-A-TT-AATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
* *
27279352 TCTTTAAACTTATTCATTAATTCTATTTAAACTAATATTTAAATAT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATAT
27279398 ATCAAATGGT
Statistics
Matches: 84, Mismatches: 3, Indels: 18
0.80 0.03 0.17
Matches are distributed among these distances:
50 40 0.48
51 4 0.05
52 1 0.01
53 3 0.04
55 3 0.04
56 1 0.01
57 4 0.05
58 27 0.32
59 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (58 bp):
TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATTTAAATATATTT
Found at i:27279328 original size:28 final size:28
Alignment explanation
Indices: 27279297--27279379 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 28
27279287 TATTTAAATA
27279297 TATTTTATTTAAACTTATTTATTAATTC
1 TATTTTATTTAAACTTATTTATTAATTC
* * *
27279325 TATTTAAATT-AA--TATTTA--AA-TA
1 TATTTTATTTAAACTTATTTATTAATTC
* *
27279347 TATTTTCTTTAAACTTATTCATTAATTC
1 TATTTTATTTAAACTTATTTATTAATTC
27279375 TATTT
1 TATTT
27279380 AAACTAATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
22 8 0.20
23 4 0.10
25 11 0.27
27 4 0.10
28 14 0.34
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTTTATTTAAACTTATTTATTAATTC
Found at i:27279380 original size:23 final size:23
Alignment explanation
Indices: 27279302--27279384 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
27279292 AAATATATTT
*
27279302 TATTTAAACTTATTTATTAATTC
1 TATTTAAACTTATTAATTAATTC
* * *
27279325 TATTTAAATTAATATTTAAATATATTT
1 TATTTAAACT--TA-TTAATTA-ATTC
* *
27279352 TCTTTAAACTTATTCATTAATTC
1 TATTTAAACTTATTAATTAATTC
27279375 TATTTAAACT
1 TATTTAAACT
27279385 AATATTTAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
23 21 0.46
24 5 0.11
25 4 0.09
26 5 0.11
27 11 0.24
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTAAACTTATTAATTAATTC
Found at i:27279393 original size:35 final size:35
Alignment explanation
Indices: 27279232--27279395 Score: 119
Period size: 35 Copynumber: 4.6 Consensus size: 35
27279222 AAAATTATTT
27279232 TATTTAAACTAATATTTAAATATAATT-ATTAATTC
1 TATTTAAACTAATATTTAAAT-TAATTCATTAATTC
* * * *
27279267 TATTTAAACTAATATTTAAA-TATTTAAATATATTT
1 TATTTAAACTAATATTTAAATTAATTCATTA-ATTC
*
27279302 TATTTAAACT--TATTT--ATTAATTCTATTTAAATTAA
1 TATTTAAACTAATATTTAAATTAATTC-A-TT-AATT-C
*
27279337 TATTTAAA-TATATTTTCTTTAAACTT-ATTCATTAATTC
1 TATTTAAACTA-A---TATTTAAA-TTAATTCATTAATTC
27279375 TATTTAAACTAATATTTAAAT
1 TATTTAAACTAATATTTAAAT
27279396 ATATCAAATG
Statistics
Matches: 102, Mismatches: 10, Indels: 35
0.69 0.07 0.24
Matches are distributed among these distances:
31 1 0.01
32 4 0.04
33 10 0.10
34 9 0.09
35 49 0.48
38 9 0.09
39 6 0.06
40 6 0.06
41 1 0.01
42 5 0.05
43 2 0.02
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (35 bp):
TATTTAAACTAATATTTAAATTAATTCATTAATTC
Found at i:27280006 original size:22 final size:22
Alignment explanation
Indices: 27279961--27280006 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27279951 CTTAACTTTT
*
27279961 AACCCCTAACGTCTAACCCCTA
1 AACCCCTAACGTCTAAACCCTA
*
27279983 AACCCCTAAC-TCATAAACCTTA
1 AACCCCTAACGTC-TAAACCCTA
27280005 AA
1 AA
27280007 TCCCAACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.39, C:0.39, G:0.02, T:0.20
Consensus pattern (22 bp):
AACCCCTAACGTCTAAACCCTA
Found at i:27280050 original size:15 final size:15
Alignment explanation
Indices: 27280017--27280061 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
27280007 TCCCAACCCT
27280017 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
27280031 T-AATCCATAATCCC
1 TAAATCCATAATCCC
*
27280045 TAAATCCATACTCCC
1 TAAATCCATAATCCC
27280060 TA
1 TA
27280062 TACCTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 2 0.07
14 12 0.43
15 14 0.50
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:27280524 original size:41 final size:41
Alignment explanation
Indices: 27280417--27280650 Score: 339
Period size: 41 Copynumber: 5.7 Consensus size: 41
27280407 TAAAATATTT
27280417 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCAAGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCAAGAGCA
* * *
27280458 TTAGCAGCG-TTTCTCAAAAATGCCGCTAAAGCCAAGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCAAGAGCA
*
27280498 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCAAGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCAAGAGCA
* *
27280539 TTAGTGGCGCTTTTTCAAAAACGCCGCTAAAGACC-CGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCAAGAGCA
* **
27280580 TTAGCGACAG-TTTTTCAAAAACGCCGCTAAAGCCCTGAGCA
1 TTAGCGGC-GCTTTTTCAAAAACGCCGCTAAAGCCAAGAGCA
*
27280621 TTAGCGGCGCTTTTTCAGAAACGCCGCTAA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAA
27280651 CACCCCAAAA
Statistics
Matches: 175, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
40 40 0.23
41 132 0.75
42 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCAAGAGCA
Found at i:27280773 original size:40 final size:40
Alignment explanation
Indices: 27280700--27280775 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 40
27280690 TTTTTTGCGG
* * *
27280700 CGTTTTTTAGAAAAATGCCGTTAATGCTCATTTTTAGTGA
1 CGTTTTTTAGAAAAACGCCGCTAATACTCATTTTTAGTGA
*
27280740 CGTTTTTT-GAAAAACGTCGCTAATACTCTATTTTTA
1 CGTTTTTTAGAAAAACGCCGCTAATACTC-ATTTTTA
27280776 CCGGCGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 16 0.52
40 15 0.48
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.43
Consensus pattern (40 bp):
CGTTTTTTAGAAAAACGCCGCTAATACTCATTTTTAGTGA
Found at i:27280784 original size:40 final size:40
Alignment explanation
Indices: 27280697--27280786 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
27280687 AGGTTTTTTG
* * * *
27280697 CGGCGTTTTTTAGAAAAATGCCGTTAATGCTCATTTTTAG
1 CGGCGTTTTTTAGAAAAACGCCGCTAATACTCATTTTTAC
* * *
27280737 TGACGTTTTTT-GAAAAACGTCGCTAATACTCTATTTTTAC
1 CGGCGTTTTTTAGAAAAACGCCGCTAATACTC-ATTTTTAC
27280777 CGGCGTTTTT
1 CGGCGTTTTT
27280787 GGTCCAAACG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
39 16 0.40
40 24 0.60
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (40 bp):
CGGCGTTTTTTAGAAAAACGCCGCTAATACTCATTTTTAC
Found at i:27285742 original size:27 final size:28
Alignment explanation
Indices: 27285712--27285770 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
27285702 TTTTTTTGTC
27285712 ATAACTT-TAAAAAGTTATTTTTTATAA
1 ATAACTTATAAAAAGTTATTTTTTATAA
* * * * *
27285739 ATAAGTTATGATAATTTTTTTTTTATAA
1 ATAACTTATAAAAAGTTATTTTTTATAA
27285767 ATAA
1 ATAA
27285771 ATATACTACA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (28 bp):
ATAACTTATAAAAAGTTATTTTTTATAA
Found at i:27286018 original size:15 final size:15
Alignment explanation
Indices: 27285982--27286010 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27285972 TGCTTATAAT
27285982 ATAATTTTTATAAAA
1 ATAATTTTTATAAAA
27285997 ATAATTTTT-TAAAA
1 ATAATTTTTATAAAA
27286011 TTGAATTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAATTTTTATAAAA
Found at i:27286802 original size:21 final size:21
Alignment explanation
Indices: 27286763--27286802 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27286753 TAATGATATA
* **
27286763 TCAGTATTTTTATTTTAAATT
1 TCAGTATTTTCATCATAAATT
27286784 TCAGTATTTTCATCATAAA
1 TCAGTATTTTCATCATAAA
27286803 AAAATAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (21 bp):
TCAGTATTTTCATCATAAATT
Found at i:27291973 original size:17 final size:18
Alignment explanation
Indices: 27291951--27291991 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
27291941 CGATTAATTC
27291951 TAGTTTAATTTAA-TTAT
1 TAGTTTAATTTAATTTAT
*
27291968 TAGTTT-GTTTAATTTAT
1 TAGTTTAATTTAATTTAT
27291985 TA-TTTAA
1 TAGTTTAA
27291992 ATAAGGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (18 bp):
TAGTTTAATTTAATTTAT
Found at i:27294367 original size:14 final size:15
Alignment explanation
Indices: 27294350--27294380 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
27294340 AAATATATGG
27294350 ATGAAATA-ATAGAA
1 ATGAAATACATAGAA
27294364 ATGAAATACATAGAA
1 ATGAAATACATAGAA
27294379 AT
1 AT
27294381 TTGATATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (15 bp):
ATGAAATACATAGAA
Found at i:27295656 original size:19 final size:19
Alignment explanation
Indices: 27295632--27295683 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
27295622 AACATGCCCT
27295632 TAATCTGATCGAAAATGAG
1 TAATCTGATCGAAAATGAG
*
27295651 TAATCTAATCGAAAATGAG
1 TAATCTGATCGAAAATGAG
* *
27295670 TAAACTGATTGAAA
1 TAATCTGATCGAAA
27295684 GACTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (19 bp):
TAATCTGATCGAAAATGAG
Found at i:27296792 original size:26 final size:25
Alignment explanation
Indices: 27296756--27296804 Score: 89
Period size: 26 Copynumber: 1.9 Consensus size: 25
27296746 ACATATTTTT
27296756 TTAAAATTTTACTAAGGATAAAATCG
1 TTAAAATTTTACTAAGG-TAAAATCG
27296782 TTAAAATTTTACTAAGGTAAAAT
1 TTAAAATTTTACTAAGGTAAAAT
27296805 TGGAATGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (25 bp):
TTAAAATTTTACTAAGGTAAAATCG
Found at i:27298848 original size:39 final size:40
Alignment explanation
Indices: 27298748--27298932 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
27298738 TTGAATGATG
* * *
27298748 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
27298787 ATCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
27298828 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27298867 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27298906 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27298933 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.30
40 76 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27298889 original size:79 final size:81
Alignment explanation
Indices: 27298748--27298932 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
27298738 TTGAATGATG
*
27298748 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATT
27298812 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
27298827 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATC-CGAAGGCA
*
27298889 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
27298907 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27298933 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 56 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCAGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:27298954 original size:79 final size:79
Alignment explanation
Indices: 27298802--27298955 Score: 206
Period size: 79 Copynumber: 1.9 Consensus size: 79
27298792 GACTAAGATC
* **
27298802 CGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
27298867 TCCGGGTTAAGTCT
66 TCCGGGTTAAGTCT
* *
27298881 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
*
27298944 ATATCC-GGTTAA
63 AAATCCGGGTTAA
27298956 ATTCCGAAGG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGGTTAAGTCT
Found at i:27304379 original size:18 final size:17
Alignment explanation
Indices: 27304343--27304384 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
27304333 TTCTGGTTAA
*
27304343 TTCTTTTTTCTTTGGTT
1 TTCTTTTTTCTTTCGTT
27304360 TTCTTTCTTTCTTTC-TT
1 TTCTTT-TTTCTTTCGTT
27304377 TT-TTTTTT
1 TTCTTTTTT
27304385 GTGCTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 3 0.13
17 10 0.43
18 7 0.30
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (17 bp):
TTCTTTTTTCTTTCGTT
Found at i:27310629 original size:257 final size:257
Alignment explanation
Indices: 27310173--27310690 Score: 1027
Period size: 257 Copynumber: 2.0 Consensus size: 257
27310163 TCACATTCGA
27310173 TAGATTCAATCAACACTTGGGATGAGCTAGCAGCAAACTTTTGGAAAAATATTTTCCACAAAGCA
1 TAGATTCAATCAACACTTGGGATGAGCTAGCAGCAAACTTTTGGAAAAATATTTTCCACAAAGCA
*
27310238 AGACGATGAAACTTCAGATGGAATTATGAATTTTAAACAATTGGAAGGAGAGTCATTACACGAGG
66 AGACGATGAAACTTCAGATGGAATTATGAATTTTAAAAAATTGGAAGGAGAGTCATTACACGAGG
27310303 CTTGGGAGCACTTCAAATTGATGTTACGCAAGTGTCCGTACATTGGTTTACAAGATTGGCTGCAA
131 CTTGGGAGCACTTCAAATTGATGTTACGCAAGTGTCCGTACATTGGTTTACAAGATTGGCTGCAA
27310368 CTTCAAGTCTTCTGCAATGGACTTGATGGGAATTTACGCTCTAGTATTGATGGAGCATCCGC
196 CTTCAAGTCTTCTGCAATGGACTTGATGGGAATTTACGCTCTAGTATTGATGGAGCATCCGC
27310430 TAGATTCAATCAACACTTGGGATGAGCTAGCAGCAAACTTTTGGAAAAATATTTTCCACAAAGCA
1 TAGATTCAATCAACACTTGGGATGAGCTAGCAGCAAACTTTTGGAAAAATATTTTCCACAAAGCA
27310495 AGACGATGAAACTTCAGATGGAATTATGAATTTTAAAAAATTGGAAGGAGAGTCATTACACGAGG
66 AGACGATGAAACTTCAGATGGAATTATGAATTTTAAAAAATTGGAAGGAGAGTCATTACACGAGG
27310560 CTTGGGAGCACTTCAAATTGATGTTACGCAAGTGTCCGTACATTGGTTTACAAGATTGGCTGCAA
131 CTTGGGAGCACTTCAAATTGATGTTACGCAAGTGTCCGTACATTGGTTTACAAGATTGGCTGCAA
27310625 CTTCAAGTCTTCTGCAATGGACTTGATGGGAATTTACGCTCTAGTATTGATGGAGCATCCGC
196 CTTCAAGTCTTCTGCAATGGACTTGATGGGAATTTACGCTCTAGTATTGATGGAGCATCCGC
27310687 TAGA
1 TAGA
27310691 GCATTCATGT
Statistics
Matches: 260, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
257 260 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (257 bp):
TAGATTCAATCAACACTTGGGATGAGCTAGCAGCAAACTTTTGGAAAAATATTTTCCACAAAGCA
AGACGATGAAACTTCAGATGGAATTATGAATTTTAAAAAATTGGAAGGAGAGTCATTACACGAGG
CTTGGGAGCACTTCAAATTGATGTTACGCAAGTGTCCGTACATTGGTTTACAAGATTGGCTGCAA
CTTCAAGTCTTCTGCAATGGACTTGATGGGAATTTACGCTCTAGTATTGATGGAGCATCCGC
Found at i:27313943 original size:185 final size:185
Alignment explanation
Indices: 27313624--27313991 Score: 603
Period size: 185 Copynumber: 2.0 Consensus size: 185
27313614 GTGGATTGGA
* ** *
27313624 CAAGTGAATGTTTTCTTCCCGATGTTTTTCCAATATTCTTAATTTGTTCCTTCATGAATTACAGT
1 CAAGTGAATGTTGTCTTCCCGACATTTTTCCAATATTCCTAATTTGTTCCTTCATGAATTACAGT
* * *
27313689 GATGAAAACGATGTTTGAGTAGAATTTTTTTTGCCAGCCTATGAGTTAAATCTCATAGGGTTGGG
66 GATGAAAACGATGTTTGAGTAGAATTTTTTTTGCCAACCTATAAGTTAAATCTCATAGGGTTAGG
* *
27313754 ATTACTTTGATGAACTTTAACTGTCTTTAATGGTTGCAGCACTAATCAGAGTTGT
131 ATTACTTTGATGAACTTTAACTGTCTTTAATGGCTGCAGCAATAATCAGAGTTGT
* *
27313809 CAAGTGAATGTTGTCTTTCTGACATTTTTCCAATATTCCTAATTTGTTCCTTCATGAATTACAGT
1 CAAGTGAATGTTGTCTTCCCGACATTTTTCCAATATTCCTAATTTGTTCCTTCATGAATTACAGT
*
27313874 GATGAAAACGATGTTTGAGTTGAATTTTATTTT-CCAACCTATAAGTTAAATCTCATAGGGTTAG
66 GATGAAAACGATGTTTGAGTAGAATTTT-TTTTGCCAACCTATAAGTTAAATCTCATAGGGTTAG
*
27313938 GATTACTTTGATGAACTTTAACTGTCTTTAATGGCTGCAGTAATAATCAGAGTT
130 GATTACTTTGATGAACTTTAACTGTCTTTAATGGCTGCAGCAATAATCAGAGTT
27313992 ATTTTACAGT
Statistics
Matches: 169, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
185 165 0.98
186 4 0.02
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.40
Consensus pattern (185 bp):
CAAGTGAATGTTGTCTTCCCGACATTTTTCCAATATTCCTAATTTGTTCCTTCATGAATTACAGT
GATGAAAACGATGTTTGAGTAGAATTTTTTTTGCCAACCTATAAGTTAAATCTCATAGGGTTAGG
ATTACTTTGATGAACTTTAACTGTCTTTAATGGCTGCAGCAATAATCAGAGTTGT
Found at i:27317697 original size:34 final size:35
Alignment explanation
Indices: 27317654--27317720 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
27317644 GACTCTAGAC
*
27317654 ATAGAGCATCTTTCATACAAAAGG-AAACAATGGT
1 ATAGAGCATCGTTCATACAAAAGGAAAACAATGGT
*
27317688 ATAGAGCATCGTTCATACAGAAGGAAAACAATG
1 ATAGAGCATCGTTCATACAAAAGGAAAACAATG
27317721 CAGGGTACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (35 bp):
ATAGAGCATCGTTCATACAAAAGGAAAACAATGGT
Found at i:27320084 original size:45 final size:45
Alignment explanation
Indices: 27320021--27320237 Score: 249
Period size: 45 Copynumber: 4.9 Consensus size: 45
27320011 ACTGAGTATC
** *
27320021 ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTACC
1 ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACA
* * *
27320066 ATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCAACGAGTACA
1 ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACA
* * * * **
27320111 AGTGATTATAAAGGTGGTTGCTATGTGCTGACTCCACCAAAAATT
1 ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACA
* ** * *
27320156 TTTGAAAATAAAGGTGGTTGCTATATGCTGATTCCACCGAATATA
1 ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACA
* *
27320201 ATTGATTATAAGGGTGG-TGCTACGTGCTGA-TCCACCG
1 ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
27320238 TGTAACGGTT
Statistics
Matches: 144, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
43 7 0.05
44 11 0.08
45 126 0.88
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (45 bp):
ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATACA
Found at i:27325259 original size:45 final size:45
Alignment explanation
Indices: 27325192--27325367 Score: 239
Period size: 45 Copynumber: 4.0 Consensus size: 45
27325182 ATGTTCTGAG
*
27325192 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGG
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGA
* *
27325237 TACCATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCACCGGA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGA
* ** * * *
27325282 AATCATTGAAAATAAAGGTGGTTGCTATATGATGATTCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGA
* *
27325327 TATAATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCCACCG
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
27325368 TGTAACGATT
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
43 7 0.06
44 11 0.10
45 95 0.84
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (45 bp):
TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGA
Found at i:27339736 original size:23 final size:23
Alignment explanation
Indices: 27339706--27339752 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
27339696 ATGAGGTAAG
27339706 TATGTTTAGATTTAAATATGAAC
1 TATGTTTAGATTTAAATATGAAC
27339729 TATGTTTAGATTTAAATATGAAC
1 TATGTTTAGATTTAAATATGAAC
27339752 T
1 T
27339753 TACTAAGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (23 bp):
TATGTTTAGATTTAAATATGAAC
Found at i:27349246 original size:11 final size:11
Alignment explanation
Indices: 27349232--27349257 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
27349222 GAAATAGACA
27349232 ATTTTCAAGCC
1 ATTTTCAAGCC
27349243 ATTTTCAAGCC
1 ATTTTCAAGCC
27349254 ATTT
1 ATTT
27349258 CTTTCACCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (11 bp):
ATTTTCAAGCC
Found at i:27352260 original size:16 final size:17
Alignment explanation
Indices: 27352227--27352260 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27352217 GGGGATGGCA
*
27352227 TTTGTTTGGTTTTTATT
1 TTTGTTTGGTTTTCATT
27352244 TTTGTTT-GTTTTCATT
1 TTTGTTTGGTTTTCATT
27352260 T
1 T
27352261 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.06, C:0.03, G:0.15, T:0.76
Consensus pattern (17 bp):
TTTGTTTGGTTTTCATT
Found at i:27365645 original size:28 final size:28
Alignment explanation
Indices: 27365614--27365695 Score: 83
Period size: 33 Copynumber: 2.8 Consensus size: 28
27365604 CCCTTTCCAG
27365614 TATCAGTGTGGGCCTTAGCCCAATACAA
1 TATCAGTGTGGGCCTTAGCCCAATACAA
*
27365642 TATCAGAATAGTGTGGGCCTTAGCCCAATATAA
1 TATC-----AGTGTGGGCCTTAGCCCAATACAA
* * *
27365675 TAACAATGTGGGCCTAAGCCC
1 TATCAGTGTGGGCCTTAGCCC
27365696 GTTACAGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
28 19 0.42
33 26 0.58
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (28 bp):
TATCAGTGTGGGCCTTAGCCCAATACAA
Found at i:27366113 original size:27 final size:27
Alignment explanation
Indices: 27366078--27366149 Score: 135
Period size: 27 Copynumber: 2.7 Consensus size: 27
27366068 TACCCTTCTG
*
27366078 GGGGTATTTCAGTAATTTTTCCCCACA
1 GGGGTATTTCAGTAATTTTGCCCCACA
27366105 GGGGTATTTCAGTAATTTTGCCCCACA
1 GGGGTATTTCAGTAATTTTGCCCCACA
27366132 GGGGTATTTCAGTAATTT
1 GGGGTATTTCAGTAATTT
27366150 ACCCATCGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGGTATTTCAGTAATTTTGCCCCACA
Found at i:27366171 original size:26 final size:26
Alignment explanation
Indices: 27366079--27366348 Score: 305
Period size: 26 Copynumber: 10.3 Consensus size: 26
27366069 ACCCTTCTGG
* *
27366079 GGGTATTTCAGTAATTTTTCCCCA-CAG
1 GGGTATTTCAGTAA--TTTACCCATCAA
* *
27366106 GGGTATTTCAGTAATTTTGCCCCA-CAG
1 GGGTATTTCAGTAA-TTT-ACCCATCAA
*
27366133 GGGTATTTCAGTAATTTACCCATCGA
1 GGGTATTTCAGTAATTTACCCATCAA
* *
27366159 GAGTATTTCAGTAATTTACCCATCGA
1 GGGTATTTCAGTAATTTACCCATCAA
* *
27366185 TGGTATTTC-GATAATTTCCCCATCAA
1 GGGTATTTCAG-TAATTTACCCATCAA
**
27366211 GGGTATTTTGGTAATTTACCCATCAA
1 GGGTATTTCAGTAATTTACCCATCAA
27366237 GGGTATTTCAGTAATTTACCCATCAA
1 GGGTATTTCAGTAATTTACCCATCAA
*
27366263 GGGTATTTCAGTAATATACCCATCAA
1 GGGTATTTCAGTAATTTACCCATCAA
** * *
27366289 GGGTATTTTGGTAATTTACCTATCGA
1 GGGTATTTCAGTAATTTACCCATCAA
* *
27366315 GGGTATTTCAATAATTTACCCATCGA
1 GGGTATTTCAGTAATTTACCCATCAA
27366341 -GGTATTTC
1 GGGTATTTC
27366349 GGTCAACACC
Statistics
Matches: 216, Mismatches: 23, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
25 13 0.06
26 166 0.77
27 37 0.17
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTACCCATCAA
Found at i:27366227 original size:78 final size:77
Alignment explanation
Indices: 27366079--27366348 Score: 339
Period size: 78 Copynumber: 3.4 Consensus size: 77
27366069 ACCCTTCTGG
* * * *
27366079 GGGTATTTCAGTAATTTTTCCCCA-CAGGGGTATTTCAGTAATTTTGCCCCA-CAGGGGTATTTC
1 GGGTATTTCAGTAA--TTTACCCATC-GAGGTATTTCAGTAA-TTT-CCCCATCAAGGGTATTTT
*
27366142 AGTAATTTACCCATCGA
61 GGTAATTTACCCATCGA
*
27366159 GAGTATTTCAGTAATTTACCCATCGATGGTATTTC-GATAATTTCCCCATCAAGGGTATTTTGGT
1 GGGTATTTCAGTAATTTACCCATCGA-GGTATTTCAG-TAATTTCCCCATCAAGGGTATTTTGGT
*
27366223 AATTTACCCATCAA
64 AATTTACCCATCGA
* * *
27366237 GGGTATTTCAGTAATTTACCCATCAAGGGTATTTCAGTAATATACCCATCAAGGGTATTTTGGTA
1 GGGTATTTCAGTAATTTACCCATCGA-GGTATTTCAGTAATTTCCCCATCAAGGGTATTTTGGTA
*
27366302 ATTTACCTATCGA
65 ATTTACCCATCGA
*
27366315 GGGTATTTCAATAATTTACCCATCGAGGTATTTC
1 GGGTATTTCAGTAATTTACCCATCGAGGTATTTC
27366349 GGTCAACACC
Statistics
Matches: 169, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
77 13 0.08
78 130 0.77
79 13 0.08
80 13 0.08
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (77 bp):
GGGTATTTCAGTAATTTACCCATCGAGGTATTTCAGTAATTTCCCCATCAAGGGTATTTTGGTAA
TTTACCCATCGA
Found at i:27369025 original size:35 final size:36
Alignment explanation
Indices: 27368962--27369031 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
27368952 TTCGAAAGAG
* * *
27368962 AATATGTGGGTATGTTATTCATGCCATGTGACAGTA
1 AATATGTGAGTATGCTATTCATACCATGTGACAGTA
*
27368998 AATATGTGAGTATGCT-TTCATATCATGTGACAGT
1 AATATGTGAGTATGCTATTCATACCATGTGACAGT
27369032 GATTATAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (36 bp):
AATATGTGAGTATGCTATTCATACCATGTGACAGTA
Found at i:27380356 original size:43 final size:42
Alignment explanation
Indices: 27380240--27380385 Score: 113
Period size: 43 Copynumber: 3.5 Consensus size: 42
27380230 GTTACTCAGT
* * * * *
27380240 GGAATCAACACTTAGCAATCAAC-TTATATTC-AGTGATACGG
1 GGAATCAACACTTAGCAACCACCTTTACAATCAAG-GATATGG
* *
27380281 GGAATCAACACATAGCAAGC-CCTTTCACAATCAAGGATATGG
1 GGAATCAACACTTAGCAACCACCTTT-ACAATCAAGGATATGG
* * **
27380323 TGGAATCAGCACTTAGCAACCACCTTTAGAATCAATCAT-TCGG
1 -GGAATCAACACTTAGCAACCACCTTTACAATCAAGGATAT-GG
27380366 GGAATCAGA-ACTTAGCAACC
1 GGAATCA-ACACTTAGCAACC
27380386 CCTCGGGGAA
Statistics
Matches: 85, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
40 1 0.01
41 20 0.24
42 29 0.34
43 30 0.35
44 5 0.06
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (42 bp):
GGAATCAACACTTAGCAACCACCTTTACAATCAAGGATATGG
Found at i:27380391 original size:26 final size:26
Alignment explanation
Indices: 27380362--27380414 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
27380352 AATCAATCAT
27380362 TCGGGGAATCAGAACTTAGCAACCCC
1 TCGGGGAATCAGAACTTAGCAACCCC
* * *
27380388 TCGGGGAATCTGCACTTGGCAACCCC
1 TCGGGGAATCAGAACTTAGCAACCCC
27380414 T
1 T
27380415 TTTTGATCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAGAACTTAGCAACCCC
Found at i:27385256 original size:103 final size:103
Alignment explanation
Indices: 27385077--27385282 Score: 412
Period size: 103 Copynumber: 2.0 Consensus size: 103
27385067 TCTTACAGAA
27385077 TTGAGTACTTCTTTTTTCTCTATGCCATAATCCAACTATGGTCTTACACATATTTACATATTGAT
1 TTGAGTACTTCTTTTTTCTCTATGCCATAATCCAACTATGGTCTTACACATATTTACATATTGAT
27385142 GCCGTAGCCCAGCTATGGTCTTACACAGTAGCACATAT
66 GCCGTAGCCCAGCTATGGTCTTACACAGTAGCACATAT
27385180 TTGAGTACTTCTTTTTTCTCTATGCCATAATCCAACTATGGTCTTACACATATTTACATATTGAT
1 TTGAGTACTTCTTTTTTCTCTATGCCATAATCCAACTATGGTCTTACACATATTTACATATTGAT
27385245 GCCGTAGCCCAGCTATGGTCTTACACAGTAGCACATAT
66 GCCGTAGCCCAGCTATGGTCTTACACAGTAGCACATAT
27385283 CACACCGATG
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (103 bp):
TTGAGTACTTCTTTTTTCTCTATGCCATAATCCAACTATGGTCTTACACATATTTACATATTGAT
GCCGTAGCCCAGCTATGGTCTTACACAGTAGCACATAT
Found at i:27387947 original size:45 final size:45
Alignment explanation
Indices: 27387883--27387971 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
27387873 AACAGATACT
* * *
27387883 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
*
27387928 CGGTGGAATCAACACATAGCAACCACTTTACTAATCAATGATGT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
27387972 TCGATTCACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:27388037 original size:51 final size:50
Alignment explanation
Indices: 27387982--27388160 Score: 200
Period size: 51 Copynumber: 3.5 Consensus size: 50
27387972 TCGATTCACA
* **
27387982 TAGTAGCCTGCACATAGTACCACACATGTGATCATTACCATTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACATGATCA-TACCATTCGGTACACG
* * * *
27388033 TAGTAGCCTGCACATAGTACTACACACATGATCGAAACTA-TCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACATGATC-ATACCATTC-GGTACACG
* * * *
27388084 TAGTAGCCTGCACATAGTACTACACATACGA-CCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACATGATCATACCATT-CGGTACACG
*
27388134 TAGTAGCCTGCACATAATACTACACAC
1 TAGTAGCCTGCACATAGTACTACACAC
27388161 GTGACCATCA
Statistics
Matches: 107, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 35 0.33
51 69 0.64
52 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACATGATCATACCATTCGGTACACG
Found at i:27388188 original size:101 final size:100
Alignment explanation
Indices: 27387979--27388160 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 100
27387969 TGTTCGATTC
** *
27387979 ACATAGTAGCCTGCACATAGTACCACACATGTGATCATTACCATTCGGTACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACCACACATACGATCACTACCATTCGGTACACGTAGTAGCCTGC
* *
27388044 ACATAGTACTACACACATGATCGAAACTATCTGGT
66 ACATAATACTACACACATGATCCAAACTATCTGGT
* *
27388079 ACGCATAGTAGCCTGCACATAGTACTACACATACGA-C-CTATCATTCCGGTACACGTAGTAGCC
1 A--CATAGTAGCCTGCACATAGTACCACACATACGATCACTACCATT-CGGTACACGTAGTAGCC
27388142 TGCACATAATACTACACAC
63 TGCACATAATACTACACAC
27388161 GTGACCATCA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 7 0.10
101 36 0.49
102 30 0.41
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (100 bp):
ACATAGTAGCCTGCACATAGTACCACACATACGATCACTACCATTCGGTACACGTAGTAGCCTGC
ACATAATACTACACACATGATCCAAACTATCTGGT
Found at i:27396831 original size:71 final size:71
Alignment explanation
Indices: 27396710--27396858 Score: 289
Period size: 71 Copynumber: 2.1 Consensus size: 71
27396700 AGGGTCGCAC
*
27396710 ATTAAGAATGAACAAGAATGGTTTAGTTTATCGCTCCCTTTAAGTAATTTAAAATGATAATATTA
1 ATTAGGAATGAACAAGAATGGTTTAGTTTATCGCTCCCTTTAAGTAATTTAAAATGATAATATTA
27396775 TTTTAA
66 TTTTAA
27396781 ATTAGGAATGAACAAGAATGGTTTAGTTTATCGCTCCCTTTAAGTAATTTAAAATGATAATATTA
1 ATTAGGAATGAACAAGAATGGTTTAGTTTATCGCTCCCTTTAAGTAATTTAAAATGATAATATTA
27396846 TTTTAA
66 TTTTAA
27396852 ATTAGGA
1 ATTAGGA
27396859 GTAATAATCA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 77 1.00
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (71 bp):
ATTAGGAATGAACAAGAATGGTTTAGTTTATCGCTCCCTTTAAGTAATTTAAAATGATAATATTA
TTTTAA
Found at i:27398604 original size:94 final size:94
Alignment explanation
Indices: 27398492--27398665 Score: 269
Period size: 94 Copynumber: 1.9 Consensus size: 94
27398482 TAAAAAGGGA
* * * *
27398492 ATTTGATATATTCCTTATTAGATAAGGAAATAGAATTTAATTATTATTTAAAATA-TTTTAATAT
1 ATTTGATATATTCATTATTAGATAAGGAAATAAAATTTAATTATTATTTAAAAGAGTTTT-AGAT
27398556 AAATAACAATTAAAATTCAAAATCAAAAGG
65 AAATAACAATTAAAATTCAAAATCAAAAGG
* *
27398586 ATTTGATATATTCATTATTAGATAAGGAAATAAAATTTAATTTTTATTTCAAAGAGTTTTAGATA
1 ATTTGATATATTCATTATTAGATAAGGAAATAAAATTTAATTATTATTTAAAAGAGTTTTAGATA
*
27398651 AATAATAATTAAAAT
66 AATAACAATTAAAAT
27398666 AGAATTTAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 68 0.94
95 4 0.06
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (94 bp):
ATTTGATATATTCATTATTAGATAAGGAAATAAAATTTAATTATTATTTAAAAGAGTTTTAGATA
AATAACAATTAAAATTCAAAATCAAAAGG
Found at i:27398683 original size:49 final size:48
Alignment explanation
Indices: 27398613--27398743 Score: 190
Period size: 49 Copynumber: 2.7 Consensus size: 48
27398603 TTAGATAAGG
* * * * *
27398613 AAATAAAATTTAATTTTTATTTCAAAGAGTTTTAGATAAATAATAATT
1 AAATAGAATTTAATTATTATTTAAAAGAGTTTTAAATAAAGAATAATT
*
27398661 AAAATAGAATTTAATTATTATTTAAAAGAGTTTTAAATAAAGGATAATT
1 -AAATAGAATTTAATTATTATTTAAAAGAGTTTTAAATAAAGAATAATT
27398710 AAATAGAATTTAGATTATTATTTAAAAGAGTTTT
1 AAATAGAATTTA-ATTATTATTTAAAAGAGTTTT
27398744 TAAAATTCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
48 12 0.16
49 63 0.84
ACGTcount: A:0.48, C:0.01, G:0.09, T:0.42
Consensus pattern (48 bp):
AAATAGAATTTAATTATTATTTAAAAGAGTTTTAAATAAAGAATAATT
Found at i:27398795 original size:31 final size:31
Alignment explanation
Indices: 27398760--27398870 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 31
27398750 TCAAGATAAA
27398760 ATTTTATATTCCTTATATGATAAGGAAATTG
1 ATTTTATATTCCTTATATGATAAGGAAATTG
** * * * **
27398791 ATTTTATATTTTTTAAAAGAATTTTAAGTATATATAAAA
1 ATTTTATATTCCTTATATG-A---TAAGGA-A-AT--TG
27398830 ATTTTATATTCCTTATATGATAAGGAAATTG
1 ATTTTATATTCCTTATATGATAAGGAAATTG
27398861 ATTTTATATT
1 ATTTTATATT
27398871 TTTTAAAAGA
Statistics
Matches: 58, Mismatches: 14, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
31 25 0.43
32 1 0.02
33 2 0.03
34 1 0.02
35 10 0.17
36 1 0.02
37 2 0.03
38 1 0.02
39 15 0.26
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (31 bp):
ATTTTATATTCCTTATATGATAAGGAAATTG
Found at i:27398832 original size:70 final size:70
Alignment explanation
Indices: 27398757--27398896 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
27398747 AATTCAAGAT
27398757 AAAATTTTATATTCCTTATATGATAAGGAAATTGATTTTATATTTTTTAAAAGAATTTTAAGTAT
1 AAAATTTTATATTCCTTATATGATAAGGAAATTGATTTTATATTTTTTAAAAGAATTTTAAGTAT
27398822 ATATA
66 ATATA
27398827 AAAATTTTATATTCCTTATATGATAAGGAAATTGATTTTATATTTTTTAAAAGAATTTTAAGTAT
1 AAAATTTTATATTCCTTATATGATAAGGAAATTGATTTTATATTTTTTAAAAGAATTTTAAGTAT
27398892 ATATA
66 ATATA
27398897 TAACCTCAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (70 bp):
AAAATTTTATATTCCTTATATGATAAGGAAATTGATTTTATATTTTTTAAAAGAATTTTAAGTAT
ATATA
Found at i:27400450 original size:41 final size:41
Alignment explanation
Indices: 27400389--27400480 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
27400379 ACTGGCACTT
* * *
27400389 AGCCTACTAGACATATAGTCTGAAATGTTTCACCAACATTA
1 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCAACAATA
* ***
27400430 AGCCTGCTAGACATAAAGTCTGAATTGTTTCACTGGCAATA
1 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCAACAATA
27400471 AGCCTGCTAG
1 AGCCTGCTAG
27400481 GTGCTAAGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCAACAATA
Found at i:27400996 original size:79 final size:80
Alignment explanation
Indices: 27400846--27401003 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
27400836 ACAAATACAA
* ** *
27400846 TATACATACCTTTAATCAAACCCAAAATTTTATTCATGTATATTTATATATATATTCGAGCCTTA
1 TATACATACCTTTAATCAAACCCAAAATTTTATACATGTATATACATATATATATTCGAACCTTA
*
27400911 TGTATACATATATAT
66 TATATACATATATAT
* * * *
27400926 TATACATACCTTTGATTAAA-CCAAGAA-TTTATACATGTATATACATATATGTATTCGAATCTT
1 TATACATACCTTTAATCAAACCCAA-AATTTTATACATGTATATACATATATATATTCGAACCTT
*
27400989 GTATATACATATATA
65 ATATATACATATATA
27401004 ACCCTCATAC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 47 0.70
80 20 0.30
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (80 bp):
TATACATACCTTTAATCAAACCCAAAATTTTATACATGTATATACATATATATATTCGAACCTTA
TATATACATATATAT
Found at i:27409034 original size:12 final size:12
Alignment explanation
Indices: 27409017--27409058 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
27409007 GGACACATGA
27409017 CCGTGTCCCAGC
1 CCGTGTCCCAGC
27409029 CCGTGTCCTCA-C
1 CCGTGTCC-CAGC
* *
27409041 CCGTGTACCAGG
1 CCGTGTCCCAGC
27409053 CCGTGT
1 CCGTGT
27409059 AACTCTCTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.10, C:0.43, G:0.26, T:0.21
Consensus pattern (12 bp):
CCGTGTCCCAGC
Found at i:27411613 original size:20 final size:20
Alignment explanation
Indices: 27411588--27411636 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27411578 TGAGCTATTT
27411588 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
27411608 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
27411628 AA-TAAGCAA
1 AAGTAAGCAA
27411637 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.57, C:0.06, G:0.22, T:0.14
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:27418962 original size:19 final size:20
Alignment explanation
Indices: 27418929--27418969 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
27418919 GGTCAGAAGT
*
27418929 AAAAGTTTAGGGGGAAAATA
1 AAAAGTTTAGAGGGAAAATA
*
27418949 AAAAGTTT-GAGGGAAAGTA
1 AAAAGTTTAGAGGGAAAATA
27418968 AA
1 AA
27418970 TAGGGAGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (20 bp):
AAAAGTTTAGAGGGAAAATA
Found at i:27419086 original size:30 final size:31
Alignment explanation
Indices: 27419047--27419106 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
27419037 AGAGGTGGGA
*
27419047 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
27419078 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
27419107 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:27419548 original size:50 final size:50
Alignment explanation
Indices: 27419465--27419646 Score: 163
Period size: 50 Copynumber: 3.7 Consensus size: 50
27419455 TCTCACCCCT
* ** **
27419465 ACGTAAGACCATGTCTAGGACATGGTGTTGGCACCAAGATGAGAGGTCCC
1 ACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAACTCCC
* * * * *
27419515 CCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCC
1 ACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAACTCCC
* * * **
27419565 ATGTAAGACCATATCTGGGATATGGCATTGGCAGTATAG--GA-AACATCCC
1 ACGTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATGAGAAC-TCCC
* * *
27419614 ATGTAAGACCATGTCTGGGACATGTCTTTGGCA
1 ACGTAAGACCATGTCTGGGACATGGCATTGGCA
27419647 TGTTATTATC
Statistics
Matches: 106, Mismatches: 24, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
48 3 0.03
49 35 0.33
50 67 0.63
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
ACGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAACTCCC
Found at i:27419631 original size:49 final size:49
Alignment explanation
Indices: 27419517--27419637 Score: 156
Period size: 49 Copynumber: 2.4 Consensus size: 49
27419507 GAGGTCCCCC
* *
27419517 GTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCA-CGATAGGAGAACTCCCAT
* * *
27419567 GTAAGACCATATCTGGGATATGGCATTGGCA-GTATAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCACG-ATAGGAGAAC-TCCCAT
27419616 GTAAGACCATGTCTGGGACATG
1 GTAAGACCATGTCTGGGACATG
27419638 TCTTTGGCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 4 0.06
49 31 0.50
50 27 0.44
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACGATAGGAGAACTCCCAT
Found at i:27419871 original size:20 final size:20
Alignment explanation
Indices: 27419846--27419884 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27419836 ATGAGATATT
* *
27419846 AAGTAAGCAATTAAGTAAAC
1 AAGTAAGAAAGTAAGTAAAC
27419866 AAGTAAGAAAGTAAGTAAA
1 AAGTAAGAAAGTAAGTAAA
27419885 GAAGAAGCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.05, G:0.18, T:0.18
Consensus pattern (20 bp):
AAGTAAGAAAGTAAGTAAAC
Found at i:27421710 original size:118 final size:119
Alignment explanation
Indices: 27421529--27421750 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
27421519 TCCTCGTTCA
*
27421529 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
27421594 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
27421648 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
27421710 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
27421751 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:27421750 original size:40 final size:40
Alignment explanation
Indices: 27421527--27421750 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
27421517 GCTCCTCGTT
* *
27421527 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
27421567 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
27421607 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
27421647 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
27421685 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
27421726 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27421751 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.15
39 21 0.13
40 107 0.65
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:27429575 original size:119 final size:120
Alignment explanation
Indices: 27429393--27429613 Score: 306
Period size: 119 Copynumber: 1.9 Consensus size: 120
27429383 TCCTCGTTCA
*
27429393 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
27429458 TTAGTAACTT-GCACAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
* * **
27429513 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
27429575 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCG
27429614 GACATCATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.74
120 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCACC
Found at i:27429615 original size:40 final size:41
Alignment explanation
Indices: 27429391--27429615 Score: 259
Period size: 40 Copynumber: 5.6 Consensus size: 41
27429381 GCTCCTCGTT
* *
27429391 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
27429431 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
27429471 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
27429511 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * *
27429550 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
27429591 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27429616 CATCATTCAA
Statistics
Matches: 160, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 114 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:27434095 original size:16 final size:15
Alignment explanation
Indices: 27434063--27434101 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27434053 TGATAATAAG
27434063 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
27434079 TTATTATAATGTATAT
1 TAATTATAAT-TATAT
27434095 TAATTAT
1 TAATTAT
27434102 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:27445409 original size:13 final size:13
Alignment explanation
Indices: 27445393--27445422 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27445383 ATTTACCTTT
*
27445393 TTAATTTTCTTAG
1 TTAATTTACTTAG
27445406 TTAATTTACTTAG
1 TTAATTTACTTAG
27445419 TTAA
1 TTAA
27445423 AATATAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:27447963 original size:15 final size:15
Alignment explanation
Indices: 27447943--27447973 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27447933 CTTTCATTCT
*
27447943 TTGTATACTTCTTCA
1 TTGTATACTTCCTCA
27447958 TTGTATACTTCCTCA
1 TTGTATACTTCCTCA
27447973 T
1 T
27447974 GACTCCATTG
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:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (15 bp):
TTGTATACTTCCTCA
Found at i:27449890 original size:21 final size:20
Alignment explanation
Indices: 27449864--27449908 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
27449854 TCAAAAATAT
27449864 AAAATAATTAAAATTTATAAA
1 AAAATAATTAAAATTT-TAAA
* *
27449885 AAAATATTTTTAAATTTTAAA
1 AAAATA-ATTAAAATTTTAAA
27449906 AAA
1 AAA
27449909 TTTAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATAATTAAAATTTTAAA
Found at i:27457045 original size:3 final size:3
Alignment explanation
Indices: 27457037--27457067 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
27457027 AACACCAAAT
27457037 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27457068 ACTACTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27458463 original size:29 final size:29
Alignment explanation
Indices: 27458421--27458481 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
27458411 ATACACTTCA
27458421 TAATTTAATTTCTAT-TTTTTTCACAAATT
1 TAATTTAATTTCTATCTTTTTT-ACAAATT
27458450 TAATTTAATTTCTATCTTTTTTACAAATT
1 TAATTTAATTTCTATCTTTTTTACAAATT
27458479 TAA
1 TAA
27458482 AGAATACCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (29 bp):
TAATTTAATTTCTATCTTTTTTACAAATT
Found at i:27459169 original size:17 final size:16
Alignment explanation
Indices: 27459147--27459195 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
27459137 TTTACAAACT
27459147 TTTTTAAATTTTGTTAA
1 TTTTTAAATTTT-TTAA
*
27459164 TTTTTAAATATTTTTAT
1 TTTTTAAAT-TTTTTAA
*
27459181 TTTTTAAAATTTTTA
1 TTTTTAAATTTTTTA
27459196 TGATTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.21
17 20 0.69
18 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTAAATTTTTTAA
Found at i:27460913 original size:18 final size:17
Alignment explanation
Indices: 27460877--27460921 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
27460867 ATGAGTGGTG
27460877 AATTATACTAATATCATA
1 AATTATA-TAATATCATA
27460895 AATTATATAATAT-ATA
1 AATTATATAATATCATA
*
27460911 TAAATATATAA
1 -AATTATATAA
27460922 GCCAGTCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 3 0.12
17 15 0.60
18 7 0.28
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTATATAATATCATA
Found at i:27461465 original size:24 final size:24
Alignment explanation
Indices: 27461429--27461483 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
27461419 TTTTTCTAAA
27461429 ATATTTAGTATTTATTAGTATAAT
1 ATATTTAGTATTTATTAGTATAAT
27461453 ATATTTA-TCATTTATTAGTATAAT
1 ATATTTAGT-ATTTATTAGTATAAT
*
27461477 TTATTTA
1 ATATTTA
27461484 ACTTACGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (24 bp):
ATATTTAGTATTTATTAGTATAAT
Found at i:27461480 original size:13 final size:13
Alignment explanation
Indices: 27461438--27461481 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
27461428 AATATTTAGT
27461438 ATTTATTAGTATA
1 ATTTATTAGTATA
* *
27461451 ATATATT--TATC
1 ATTTATTAGTATA
27461462 ATTTATTAGTATA
1 ATTTATTAGTATA
27461475 ATTTATT
1 ATTTATT
27461482 TAACTTACGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 9 0.36
13 16 0.64
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (13 bp):
ATTTATTAGTATA
Found at i:27463433 original size:24 final size:24
Alignment explanation
Indices: 27463405--27463456 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
27463395 TTTGTAGAAG
* *
27463405 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
27463429 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
27463453 ATTT
1 ATTT
27463457 GACTTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:27464012 original size:23 final size:23
Alignment explanation
Indices: 27463986--27464029 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
27463976 TATGATTTAA
* *
27463986 ATTAAATGAATTTGTTCATATGT
1 ATTAAATGAATATGCTCATATGT
*
27464009 ATTAAATTAATATGCTCATAT
1 ATTAAATGAATATGCTCATAT
27464030 ATATGCATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (23 bp):
ATTAAATGAATATGCTCATATGT
Found at i:27469331 original size:39 final size:39
Alignment explanation
Indices: 27469205--27469338 Score: 189
Period size: 39 Copynumber: 3.4 Consensus size: 39
27469195 ATTATACATT
*
27469205 TGATTGCACTTACGTGCCCCTGTTGTACTTCGGTACCCC
1 TGATAGCACTTACGTGCCCCTGTTGTACTTCGGTACCCC
* *
27469244 TAATCA-CACTTACGTGCTCCTGTTGTACTTCGGTACCCC
1 TGAT-AGCACTTACGTGCCCCTGTTGTACTTCGGTACCCC
* * *
27469283 TGATGGCACTTACGTGCCCCTGTTGTACTTCGGTACTCT
1 TGATAGCACTTACGTGCCCCTGTTGTACTTCGGTACCCC
*
27469322 TGATAGCACTTTCGTGC
1 TGATAGCACTTACGTGC
27469339 TGTGGTTATG
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.15, C:0.31, G:0.20, T:0.34
Consensus pattern (39 bp):
TGATAGCACTTACGTGCCCCTGTTGTACTTCGGTACCCC
Found at i:27471209 original size:10 final size:10
Alignment explanation
Indices: 27471194--27471218 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27471184 ATGTTGCATC
27471194 AAATGAATAG
1 AAATGAATAG
27471204 AAATGAATAG
1 AAATGAATAG
27471214 AAATG
1 AAATG
27471219 GTAAAGTTGG
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:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
AAATGAATAG
Found at i:27478618 original size:26 final size:26
Alignment explanation
Indices: 27478580--27478631 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
27478570 TTGCCACATA
**
27478580 TACTGTTGTTGGCAGCTTTACTGCAT
1 TACTGTTACTGGCAGCTTTACTGCAT
*
27478606 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTACTGCAT
27478632 CATTATTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.40
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTACTGCAT
Found at i:27478640 original size:26 final size:26
Alignment explanation
Indices: 27478589--27478642 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
27478579 ATACTGTTGT
* *
27478589 TGGCAGCTTTACTGCATTACTGTTAC
1 TGGCAGCTTTACTGCATCACTATTAC
* *
27478615 TGGCAGCTTTGCTGCATCATTATTAC
1 TGGCAGCTTTACTGCATCACTATTAC
27478641 TG
1 TG
27478643 ACAACTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
TGGCAGCTTTACTGCATCACTATTAC
Found at i:27485667 original size:27 final size:27
Alignment explanation
Indices: 27485628--27485933 Score: 362
Period size: 27 Copynumber: 11.3 Consensus size: 27
27485618 GTAATGGGCC
* **
27485628 TAAAATGATCGAAATACCCTAAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
27485655 TAAAATGACCGAAATACTCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
27485682 TAAAATGACCAAAATACCCTCGAATGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
27485709 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* ** *
27485736 TAACATGACTAAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * *
27485763 TAAAATGTCTGAAATACCCTTGAAGTG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * *
27485790 TAAAATGACTGATATACCATCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
27485817 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*** *
27485844 TAAAATGATTAAAATACCCCCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
27485871 TAAAATGACCAAAATATCCC-CGAAGGG
1 TAAAATGACCGAAATA-CCCTCGAAGGG
* *
27485898 TAAAATGACCGAAATACCCTAGAATGG
1 TAAAATGACCGAAATACCCTCGAAGGG
27485925 TAAAATGAC
1 TAAAATGAC
27485934 TATTGTACCC
Statistics
Matches: 243, Mismatches: 34, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
26 3 0.01
27 237 0.98
28 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:27486143 original size:26 final size:25
Alignment explanation
Indices: 27486111--27486182 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
27486101 CCACATATAT
*
27486111 TGTTACTGGCAGCTTTGCTATG-TTAC
1 TGTTACTGGCAGCTTTG-T-TGATCAC
27486137 TGTTACTGGCAGCTTTGTTGCATCAC
1 TGTTACTGGCAGCTTTGTTG-ATCAC
*
27486163 TATTACTGGCAGCTTTGTTG
1 TGTTACTGGCAGCTTTGTTG
27486183 CGATATTAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.05
25 1 0.02
26 39 0.93
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (25 bp):
TGTTACTGGCAGCTTTGTTGATCAC
Found at i:27486332 original size:30 final size:30
Alignment explanation
Indices: 27486296--27486353 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
27486286 TGCATTGCAT
*
27486296 TGTTACTATTTTGGGCTAAGGCCCACACAC
1 TGTTACTATATTGGGCTAAGGCCCACACAC
27486326 TGTTACTATATTGGGCTAAGGCCCACAC
1 TGTTACTATATTGGGCTAAGGCCCACAC
27486354 TATTGCTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (30 bp):
TGTTACTATATTGGGCTAAGGCCCACACAC
Found at i:27486369 original size:28 final size:28
Alignment explanation
Indices: 27486298--27486378 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 28
27486288 CATTGCATTG
* * *
27486298 TTACTATTTTGGGCTAAGGCCCACACACTG
1 TTACTATATAGGGCTAAGG-CC-CACACTA
*
27486328 TTACTATATTGGGCTAAGGCCCACACTA
1 TTACTATATAGGGCTAAGGCCCACACTA
* * **
27486356 TTGCTGTATAGGGCCCAGGCCCA
1 TTACTATATAGGGCTAAGGCCCA
27486379 AACTGCTACT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 24 0.55
29 2 0.05
30 18 0.41
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (28 bp):
TTACTATATAGGGCTAAGGCCCACACTA
Found at i:27487050 original size:15 final size:15
Alignment explanation
Indices: 27487030--27487061 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27487020 CAACTCTTTT
27487030 ATTTCCCAAGCTAAA
1 ATTTCCCAAGCTAAA
*
27487045 ATTTCCCGAGCTAAA
1 ATTTCCCAAGCTAAA
27487060 AT
1 AT
27487062 CTTAACAGGC
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:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (15 bp):
ATTTCCCAAGCTAAA
Found at i:27494414 original size:120 final size:120
Alignment explanation
Indices: 27494160--27494686 Score: 842
Period size: 120 Copynumber: 4.4 Consensus size: 120
27494150 AAAATATATA
* * * *
27494160 AAAT-ATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
1 AAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
* *
27494224 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* * * * *
27494279 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATACTATTA
1 AAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
*
27494344 TATATTTATAATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
66 TATA-TTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
27494400 AAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTTTATAGTATC
1 AAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATC
*
27494464 ATATATTATAATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 ATATATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
*
27494520 AAATCATATATTTTAATTAAAATATATTAAATAATAATTATGTTAAATTATATTTTATAGTATCA
1 AAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
* * * * *
27494585 TATATTATGATTTGAGTAAAATAATATAAGAATATTGATTATTAAGAATTTTATT
66 TATATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
*
27494640 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
27494687 ATATGATTAA
Statistics
Matches: 387, Mismatches: 17, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
119 4 0.01
120 270 0.70
121 113 0.29
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (120 bp):
AAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
TATATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:27494590 original size:241 final size:239
Alignment explanation
Indices: 27494160--27494680 Score: 844
Period size: 241 Copynumber: 2.2 Consensus size: 239
27494150 AAAATATATA
* * * *
27494160 AAATATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTAT
1 AAATATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCAT
* * *
27494225 ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 ATATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATAT
* * * *
27494290 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATACTATTATATATTTATAA
131 TTTAATTAAAATATATTAAATAATAATTATGTTAAATTATATTTTATACTATCATATA-TTATAA
* * * *
27494355 TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATT
195 TTTGAGTAAAATAATATAAGAATATTGAATATTAAGAATTTTATT
27494400 AAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCA
1 AAAT-ATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCA
*
27494465 TATATTATAATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATCATATA
65 TATATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATA
* *
27494530 TTTTAATTAAAATATATTAAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGA
130 TTTTAATTAAAATATATTAAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAA
*
27494595 TTTGAGTAAAATAATATAAGAATATTGATTATTAAGAATTTTATT
195 TTTGAGTAAAATAATATAAGAATATTGAATATTAAGAATTTTATT
27494640 AAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AAA-TATATATTTTAATTAAAATATATTTAATAATAATTAT
27494681 GTTAAAATAT
Statistics
Matches: 260, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
240 88 0.34
241 172 0.66
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (239 bp):
AAATATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGTATCAT
ATATTATAATTTTAGTAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAATCATATAT
TTTAATTAAAATATATTAAATAATAATTATGTTAAATTATATTTTATACTATCATATATTATAAT
TTGAGTAAAATAATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:27494660 original size:18 final size:17
Alignment explanation
Indices: 27494632--27494666 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27494622 ATTATTAAGA
*
27494632 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27494649 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27494667 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27494923 original size:16 final size:16
Alignment explanation
Indices: 27494899--27494947 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
27494889 TTGATTTGCT
27494899 ATTATGCCTCTATTCC
1 ATTATGCCTCTATTCC
*
27494915 ATTACGCCTCTATTCC
1 ATTATGCCTCTATTCC
27494931 ATTATGCCTCTATTCC
1 ATTATGCCTCTATTCC
27494947 A
1 A
27494948 ATACAACGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.20, C:0.33, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTATGCCTCTATTCC
Found at i:27495046 original size:32 final size:32
Alignment explanation
Indices: 27495009--27495072 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
27494999 AAAAAGAAGA
27495009 AAGAGAAATTTTAGCAAAAATTAAGCTATTTT
1 AAGAGAAATTTTAGCAAAAATTAAGCTATTTT
27495041 AAGAGAAATTTTAGCAAAAATTAAGCTATTTT
1 AAGAGAAATTTTAGCAAAAATTAAGCTATTTT
27495073 GCAAGGGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (32 bp):
AAGAGAAATTTTAGCAAAAATTAAGCTATTTT
Found at i:27500114 original size:101 final size:102
Alignment explanation
Indices: 27499997--27500181 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
27499987 AAAATGATGG
* *
27499997 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGGGCAAGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
27500060 ACTATGCGTAGGCTACTATGCGTACCGGATAGTTTCTA
65 ACTATGCGTAGGCTACTATGCGTACCGGATAGTTTCTA
* * * *
27500098 TCACGTGTGTAGTACTATGGGTAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGGGCAAGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
* *
27500163 CTATGTGTAGGGTACTATG
66 CTATGCGTAGGCTACTATG
27500182 TGAACCGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 32 0.43
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGGGCAAGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGCGTAGGCTACTATGCGTACCGGATAGTTTCTA
Found at i:27500122 original size:51 final size:51
Alignment explanation
Indices: 27499997--27500181 Score: 151
Period size: 51 Copynumber: 3.6 Consensus size: 51
27499987 AAAATGATGG
* * * * * * * *
27499997 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCGGA-A-TGATAGG
1 TCACATGTGTAGTACTATGCGTAGGCTACTATGCGTACCGGATAGTAAT-GA
* * *
27500047 TCGCATGTGTAGTACTATGCGTAGGCTACTATGCGTACCGGATAGT-TTCTA
1 TCACATGTGTAGTACTATGCGTAGGCTACTATGCGTACCGGATAGTAAT-GA
* * * * * * *
27500098 TCACGTGTGTAGTACTATGGGTAGGCTACTACGTGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGCGTAGGCTACTATGCGTACCGGATAGTAATGA
* *
27500149 TCACATGTGTAGTACTATGTGTAGGGTACTATG
1 TCACATGTGTAGTACTATGCGTAGGCTACTATG
27500182 TGAACCGAAC
Statistics
Matches: 107, Mismatches: 25, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
50 35 0.33
51 70 0.65
52 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGCGTAGGCTACTATGCGTACCGGATAGTAATGA
Done.