Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 155 of 318
Found at i:48614165 original size:17 final size:17
Alignment explanation
Indices: 48614118--48614166 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
48614108 AGAAAAGAGC
* *
48614118 GAAAATACAAAAGAAAA
1 GAAAATTCAAAAAAAAA
* *
48614135 GAAAAATGATAAAAAAAA
1 GAAAATTCA-AAAAAAAA
48614153 GAAAATTCAAAAAA
1 GAAAATTCAAAAAA
48614167 GAGAATGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.76, C:0.04, G:0.10, T:0.10
Consensus pattern (17 bp):
GAAAATTCAAAAAAAAA
Found at i:48618462 original size:21 final size:21
Alignment explanation
Indices: 48618413--48618479 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
48618403 CCTCTTTGAA
* * *
48618413 CCATAACCAATTCGTACCAAATA
1 CCAT-ACCATTTCATACC-AATT
*
48618436 CCATACTATTTCATACCAATT
1 CCATACCATTTCATACCAATT
*
48618457 CCATACCATTTCGTACCAATT
1 CCATACCATTTCATACCAATT
48618478 CC
1 CC
48618480 CAAATACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 24 0.63
22 10 0.26
23 4 0.11
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:48619361 original size:15 final size:17
Alignment explanation
Indices: 48619341--48619372 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
48619331 ATGAAAGAAT
48619341 CTTGAG-CTT-CAAAGA
1 CTTGAGACTTGCAAAGA
48619356 CTTGAGACTTGCAAAGA
1 CTTGAGACTTGCAAAGA
48619373 GAATACAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (17 bp):
CTTGAGACTTGCAAAGA
Found at i:48621250 original size:15 final size:15
Alignment explanation
Indices: 48621230--48621261 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48621220 GTCAACTCCA
48621230 ACAAATAATCCAAAG
1 ACAAATAATCCAAAG
48621245 ACAAATAATCCAAAG
1 ACAAATAATCCAAAG
48621260 AC
1 AC
48621262 CTCCATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.22, G:0.06, T:0.12
Consensus pattern (15 bp):
ACAAATAATCCAAAG
Found at i:48622322 original size:9 final size:9
Alignment explanation
Indices: 48622308--48622375 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
48622298 ATAAGTATAA
48622308 AATTAACCG
1 AATTAACCG
48622317 AATTAACCG
1 AATTAACCG
* *
48622326 AATTACCCA
1 AATTAACCG
48622335 AATT-ACCTG
1 AATTAACC-G
* *
48622344 AATTATCCA
1 AATTAACCG
*
48622353 AATTAACAG
1 AATTAACCG
*
48622362 AATTAACTG
1 AATTAACCG
48622371 AATTA
1 AATTA
48622376 TCTGTATAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
8 2 0.04
9 43 0.91
10 2 0.04
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:48622376 original size:27 final size:27
Alignment explanation
Indices: 48622307--48622377 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
48622297 AATAAGTATA
* * * *
48622307 AAATTAACCGAATTAACCGAATTACCC
1 AAATTAACTGAATTATCCAAATTACAC
*
48622334 AAATTACCTGAATTATCCAAATTA-AC
1 AAATTAACTGAATTATCCAAATTACAC
48622360 AGAATTAACTGAATTATC
1 A-AATTAACTGAATTATC
48622378 TGTATAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTAACTGAATTATCCAAATTACAC
Found at i:48622450 original size:13 final size:13
Alignment explanation
Indices: 48622434--48622458 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48622424 AATTTTTATG
48622434 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
48622447 ATTGGGTTGGGT
1 ATTGGGTTGGGT
48622459 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:48622458 original size:18 final size:18
Alignment explanation
Indices: 48622435--48622472 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
48622425 ATTTTTATGA
48622435 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
48622453 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
48622471 TT
1 TT
48622473 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:48622589 original size:19 final size:19
Alignment explanation
Indices: 48622565--48622611 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
48622555 TATTAATTTT
*
48622565 TTCGGTTAAACCGAAAAAA
1 TTCGGTTAAACCAAAAAAA
*
48622584 TTCGGTTAAATCAAAAAAA
1 TTCGGTTAAACCAAAAAAA
*
48622603 TTCTGTTAA
1 TTCGGTTAA
48622612 CTGACTGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (19 bp):
TTCGGTTAAACCAAAAAAA
Found at i:48623948 original size:11 final size:11
Alignment explanation
Indices: 48623932--48623971 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
48623922 GGGGAGAAAG
48623932 TTAAAATTTTT
1 TTAAAATTTTT
48623943 TTAAAATATTTT
1 TTAAAAT-TTTT
*
48623955 TT-AAATATTT
1 TTAAAATTTTT
48623965 TTAAAAT
1 TTAAAAT
48623972 GATGATGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 5 0.19
11 15 0.58
12 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTAAAATTTTT
Found at i:48630869 original size:22 final size:22
Alignment explanation
Indices: 48630844--48630891 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
48630834 GTATTGTTAG
**
48630844 TTAAGGGTGGTAAATAACTTAA
1 TTAAGGGTAATAAATAACTTAA
* *
48630866 TTAAGGGTAATAATTAGCTTAA
1 TTAAGGGTAATAAATAACTTAA
48630888 TTAA
1 TTAA
48630892 TAATTAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (22 bp):
TTAAGGGTAATAAATAACTTAA
Found at i:48659092 original size:21 final size:21
Alignment explanation
Indices: 48659066--48659109 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
48659056 TGTAAGGTAA
48659066 AACTCCTAATTGTTTTTGTAC
1 AACTCCTAATTGTTTTTGTAC
48659087 AACTCCTAATTGTTTTTGTAC
1 AACTCCTAATTGTTTTTGTAC
48659108 AA
1 AA
48659110 TTTATAGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (21 bp):
AACTCCTAATTGTTTTTGTAC
Found at i:48663225 original size:29 final size:27
Alignment explanation
Indices: 48663187--48663251 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
48663177 AAAAGAGCCC
*
48663187 AAAATGAATAGTGTGTAAAAAAGAAATTT
1 AAAATAAATAGTGT-TAAAAAA-AAATTT
* * *
48663216 AAAATAAATATTGTTCAAAAATAATTT
1 AAAATAAATAGTGTTAAAAAAAAATTT
48663243 -AAATAAATA
1 AAAATAAATA
48663252 AATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 5 0.16
28 6 0.19
29 12 0.38
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATAAATAGTGTTAAAAAAAAATTT
Found at i:48665544 original size:133 final size:133
Alignment explanation
Indices: 48665358--48665861 Score: 735
Period size: 133 Copynumber: 3.8 Consensus size: 133
48665348 AGATTTGCTA
* * *
48665358 TGCTCCACTGCAACATC-AGAGAGATAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAG
1 TGCTCCACTGCAACTTCAAG-GAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAG
* * **
48665422 GGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAGACTAGATTCACCATCTTC
65 GGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTTGCCATCTTC
48665487 GATC
130 GATC
* * *
48665491 TGTTCCACTGCAACTTCAAGGAAACAAGATCTACCATCTTCAGCCTACTCCACTACAACTTTGGG
1 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
* * * * * *
48665556 GAGCTAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAA-AATAATATTTGCCATCTTC
66 GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACT-AGATTTGCCATCTTC
48665620 GATC
130 GATC
* *
48665624 TGCTCCACTGCAACTT-TAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAAATTTAGG
1 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
* *
48665688 GAGCTAGGATGGTGGCTTAAATCTGCTTCATTGCATCTTCAGGAAGACTAGATTTGCCATCTTCG
66 GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTTGCCATCTTCG
48665753 ATC
131 ATC
* *
48665756 TGCTCCACTGGAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAG
1 TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
* * * *
48665821 GAGATAGGATGGTGGTTTAAATCTGTTTTACTGCAACTTCA
66 GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCA
48665862 TAGAGACAAG
Statistics
Matches: 330, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
132 120 0.36
133 208 0.63
134 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (133 bp):
TGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGG
GAGATAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTTGCCATCTTCG
ATC
Found at i:48665773 original size:265 final size:266
Alignment explanation
Indices: 48665284--48665861 Score: 845
Period size: 265 Copynumber: 2.2 Consensus size: 266
48665274 CCACTACAAC
* * * * * * *
48665284 CCACTACAA-TATATGGAGATAAGATGGTGGCTTAAATCTGCTTCATTGCAACTTCAGGAAAACA
1 CCACTACAACTTTAAGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAATA
* * *
48665348 AGATTTG----C-T--A--TGCTCCACTGCAACATCAGAGAGATAAGATCTACAATCTTCAGCCT
66 ATATTTGCCATCTTCGATCTGCTCCACTGCAACATCAGAGAAACAAGATCTACAATCTTCAGCCT
*
48665404 ACTCCACTACAACTTTAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAG
131 ACTCCACTACAAATTTAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAG
* *
48665469 ACTAGATTCACCATCTTCGATCTGTTCCACTGCAACTTCAAGGAAACAAGATCTACCATCTTCAG
196 ACTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAG
48665534 CCTACT
261 CCTACT
** *
48665540 CCACTACAACTTTGGGGAGCTAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAATA
1 CCACTACAACTTTAAGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAATA
* *
48665605 ATATTTGCCATCTTCGATCTGCTCCACTGCAACTTTAG-GAAACAAGATCTACAATCTTCAGCCT
66 ATATTTGCCATCTTCGATCTGCTCCACTGCAACATCAGAGAAACAAGATCTACAATCTTCAGCCT
* * * *
48665669 ACTCCACTACAAATTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCATTGCATCTTCAGGAAG
131 ACTCCACTACAAATTTAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAG
** *
48665734 ACTAGATTTGCCATCTTCGATCTGCTCCACTGGAACTTCAAGGAAACAAGATCTACAATCTTCAG
196 ACTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAG
48665799 CCTACT
261 CCTACT
*
48665805 CCACTACAACTTTAAGGAGATAGGATGGTGGTTTAAATCTGTTTTACTGCAACTTCA
1 CCACTACAACTTTAAGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCA
48665862 TAGAGACAAG
Statistics
Matches: 284, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
256 9 0.03
257 52 0.18
261 1 0.00
262 1 0.00
264 1 0.00
265 203 0.71
266 17 0.06
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (266 bp):
CCACTACAACTTTAAGGAGATAGGATGGTGGCTTAAATCTGTTTTACTGCAACTTCAGGAAAATA
ATATTTGCCATCTTCGATCTGCTCCACTGCAACATCAGAGAAACAAGATCTACAATCTTCAGCCT
ACTCCACTACAAATTTAGGGAGATAGGATGGTGGCTTAAATCTACTTCACTGCATCTTCAAGAAG
ACTAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAG
CCTACT
Found at i:48665904 original size:88 final size:88
Alignment explanation
Indices: 48665753--48665953 Score: 280
Period size: 88 Copynumber: 2.3 Consensus size: 88
48665743 GCCATCTTCG
* * * *
48665753 ATCTGCTCCACTGGAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTT
1 ATCTGCTTCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTT
*
48665818 AAGGAGATAGGATGGTGGTTTAA
66 AAGGAGATAGGATGGTGGGTTAA
* * *
48665841 ATCTGTTTTACTGCAACTTCATA-GAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTT
1 ATCTGCTTCACTGCAACTTCA-AGGAAACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTT
* *
48665905 TAGGGAGCTAGGATGGTGGGTTAA
65 TAAGGAGATAGGATGGTGGGTTAA
*
48665929 ATCTGCTTCACTGCATCTTC-AGGAA
1 ATCTGCTTCACTGCAACTTCAAGGAA
48665954 GACTAGATTC
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 2 0.02
88 93 0.96
89 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (88 bp):
ATCTGCTTCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTT
AAGGAGATAGGATGGTGGGTTAA
Found at i:48665913 original size:221 final size:220
Alignment explanation
Indices: 48665630--48666069 Score: 740
Period size: 221 Copynumber: 2.0 Consensus size: 220
48665620 GATCTGCTCC
*
48665630 ACTGCAACTTTAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAAATTTAGGGAGCTAG
1 ACTGCAACTTTAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAAATTTAGGGAGCTAG
* *
48665695 GATGGTGGCTTAAATCTGCTTCATTGCATCTTCAGGAAGACTAGATTTGCCATCTTCGATCTGCT
66 GATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGCT
*
48665760 CCACTGGAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAGGAGA
131 CCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAGGAGA
*
48665825 TAGGATGGTGGTTTAAATCTGTTTT
196 TAGGATGGTGGCTTAAATCTGTTTT
*
48665850 ACTGCAACTTCATA-GAGACAAGATCTACAATCTTCAGCCTACTCCACCA-AAACTTTAGGGAGC
1 ACTGCAACTT--TAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAAA-TTTAGGGAGC
*
48665913 TAGGATGGTGGGTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCT
63 TAGGATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCT
* * *
48665978 GCTCCACTGCAACTTCATGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGG
128 GCTCCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAGG
*
48666043 AGCTAGGATGGTGGCTTAAATCTGTTT
193 AGATAGGATGGTGGCTTAAATCTGTTT
48666070 CACTACATCT
Statistics
Matches: 206, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
220 13 0.06
221 191 0.93
222 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (220 bp):
ACTGCAACTTTAGGAAACAAGATCTACAATCTTCAGCCTACTCCACCACAAATTTAGGGAGCTAG
GATGGTGGCTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGCT
CCACTGCAACTTCAAGGAAACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAAGGAGA
TAGGATGGTGGCTTAAATCTGTTTT
Found at i:48665994 original size:45 final size:44
Alignment explanation
Indices: 48665929--48666125 Score: 114
Period size: 45 Copynumber: 4.4 Consensus size: 44
48665919 GGTGGGTTAA
* * *
48665929 ATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCACCATCTTCG
* *
48665974 ATCTGCTCCACTGCAACTTCATGG-AGACAAGATCTACAATCTTC-
1 ATCTGCTCCACTGCAACTTCA-GGAAGACTAGATC-ACCATCTTCG
* * * * * ***** **
48666018 AGCCTACTCCACTACAACTTTAGGGAG-CTAGGAT-GGTGGCTTAA
1 A-TCTGCTCCACTGCAACTTCAGGAAGACTA-GATCACCATCTTCG
* * * * *
48666062 ATCTGTTTCACTACATCTTCAGGAAGACTAGATTCACCGTCTTCG
1 ATCTGCTCCACTGCAACTTCAGGAAGACTAGA-TCACCATCTTCG
48666107 ATCTGCTCCACTGCAACTT
1 ATCTGCTCCACTGCAACTT
48666126 GAAAGAAACA
Statistics
Matches: 110, Mismatches: 33, Indels: 18
0.68 0.20 0.11
Matches are distributed among these distances:
43 23 0.21
44 12 0.11
45 73 0.66
46 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGAAGACTAGATCACCATCTTCG
Found at i:48666006 original size:133 final size:133
Alignment explanation
Indices: 48665850--48666141 Score: 485
Period size: 133 Copynumber: 2.2 Consensus size: 133
48665840 AATCTGTTTT
48665850 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTTAGGGAGCTA
1 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTTAGGGAGCTA
* * *
48665915 GGATGGTGGGTTAAATCTGCTTCACTGCATCTTCAGGAAGACTAGATTCGCCATCTTCGATCTGC
66 GGATGGTGGCTTAAATCTGCTTCACTACATCTTCAGGAAGACTAGATTCACCATCTTCGATCTGC
48665980 TCC
131 TCC
* * *
48665983 ACTGCAACTTCATGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGCTA
1 ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTTAGGGAGCTA
* *
48666048 GGATGGTGGCTTAAATCTGTTTCACTACATCTTCAGGAAGACTAGATTCACCGTCTTCGATCTGC
66 GGATGGTGGCTTAAATCTGCTTCACTACATCTTCAGGAAGACTAGATTCACCATCTTCGATCTGC
48666113 TCC
131 TCC
* * *
48666116 ACTGCAACTTGAAAGAAACAAGATCT
1 ACTGCAACTTCATAGAGACAAGATCT
48666142 GTAGAATTGG
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
133 147 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (133 bp):
ACTGCAACTTCATAGAGACAAGATCTACAATCTTCAGCCTACTCCACCAAAACTTTAGGGAGCTA
GGATGGTGGCTTAAATCTGCTTCACTACATCTTCAGGAAGACTAGATTCACCATCTTCGATCTGC
TCC
Found at i:48671707 original size:30 final size:30
Alignment explanation
Indices: 48671673--48671734 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
48671663 CCCGTAAGTT
48671673 AGGACACAATACCATGAACTCCCGAACACA
1 AGGACACAATACCATGAACTCCCGAACACA
**
48671703 AGGACATGATACCATGAACTCCCGAACACA
1 AGGACACAATACCATGAACTCCCGAACACA
48671733 AG
1 AG
48671735 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.42, C:0.31, G:0.16, T:0.11
Consensus pattern (30 bp):
AGGACACAATACCATGAACTCCCGAACACA
Found at i:48672494 original size:19 final size:18
Alignment explanation
Indices: 48672454--48672490 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48672444 AAAAGGGGAC
48672454 ATAAAACAATTTAAAATA
1 ATAAAACAATTTAAAATA
* *
48672472 ATAAAACATTTTTAAATA
1 ATAAAACAATTTAAAATA
48672490 A
1 A
48672491 ATAATACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAACAATTTAAAATA
Found at i:48672728 original size:29 final size:27
Alignment explanation
Indices: 48672690--48672754 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
48672680 AAAAGAGCTC
*
48672690 AAAATGAATAGTGTGTAAAAAAGAAATTT
1 AAAATAAATAGTGT-TAAAAAA-AAATTT
* * *
48672719 AAAATAAATATTGTTCAAAAATAATTT
1 AAAATAAATAGTGTTAAAAAAAAATTT
48672746 -AAATAAATA
1 AAAATAAATA
48672755 AATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.28
27 5 0.16
28 6 0.19
29 12 0.38
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATAAATAGTGTTAAAAAAAAATTT
Found at i:48674048 original size:18 final size:17
Alignment explanation
Indices: 48674013--48674049 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
48674003 AGGAAAATAA
*
48674013 AAAAATAAAGAGACGAG
1 AAAAATAAAGAAACGAG
48674030 AAAAATAAAGAAACAGAG
1 AAAAATAAAGAAAC-GAG
48674048 AA
1 AA
48674050 TGAAACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.05
Consensus pattern (17 bp):
AAAAATAAAGAAACGAG
Found at i:48674561 original size:9 final size:9
Alignment explanation
Indices: 48674547--48674594 Score: 87
Period size: 9 Copynumber: 5.3 Consensus size: 9
48674537 ATGTGGGCCT
48674547 CTACAGTCC
1 CTACAGTCC
48674556 CTACAGTCC
1 CTACAGTCC
48674565 CTACAGTCC
1 CTACAGTCC
*
48674574 TTACAGTCC
1 CTACAGTCC
48674583 CTACAGTCC
1 CTACAGTCC
48674592 CTA
1 CTA
48674595 TAGGATGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.23, C:0.42, G:0.10, T:0.25
Consensus pattern (9 bp):
CTACAGTCC
Found at i:48680512 original size:42 final size:42
Alignment explanation
Indices: 48680352--48680504 Score: 157
Period size: 42 Copynumber: 3.6 Consensus size: 42
48680342 ACCATACCAT
* * * *
48680352 TGCCATATCCCA-AATATGGTCGTACATGTAATCTCGTATCAA
1 TGCCATATCCCAGAA-ATGGTCTTACACGAAATCTCATATCAA
* ** *
48680394 TGCCAATAGCCCAGTTATGGTCTTACACGAAATCTCATATCGA
1 TGCC-ATATCCCAGAAATGGTCTTACACGAAATCTCATATCAA
* * *
48680437 TGCCATATCCCAGATATGCTCTTACACGAAGTCTCATA-CTAA
1 TGCCATATCCCAGAAATGGTCTTACACGAAATCTCATATC-AA
*
48680479 TGCCATATCCCAGAAACGGTCTTACA
1 TGCCATATCCCAGAAATGGTCTTACA
48680505 TGTAGTCTTA
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 58 0.63
43 33 0.36
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (42 bp):
TGCCATATCCCAGAAATGGTCTTACACGAAATCTCATATCAA
Found at i:48687486 original size:46 final size:46
Alignment explanation
Indices: 48687322--48687494 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
48687312 TGTAACCCAC
* * * *
48687322 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCACAT
* * *
48687368 CCATAGGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-A-TTCACAT
* * * *
48687418 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCACAT
48687461 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
48687495 GGATGCTCAA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 57 0.56
47 25 0.25
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCACAT
Found at i:48687489 original size:93 final size:93
Alignment explanation
Indices: 48687330--48687500 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
48687320 ACCCATAAGT
* * * *
48687330 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAGGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
48687395 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
48687423 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
48687488 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48687501 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:48687516 original size:46 final size:44
Alignment explanation
Indices: 48687327--48687516 Score: 127
Period size: 46 Copynumber: 4.1 Consensus size: 44
48687317 CCCACCCATA
* ** *
48687327 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-ACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT-C-T
* *
48687372 AGGTGAACTCGAACTCAACTCAACGAGTTCGGATGC-CTAGTTACATTT
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACATCT
* * * * * *
48687420 CA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCTCA-ACATCT
48687466 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT-CT
48687512 AGTGA
1 AGTGA
48687517 CATGTCACTT
Statistics
Matches: 113, Mismatches: 18, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
44 8 0.07
45 4 0.04
46 60 0.53
47 29 0.26
48 2 0.02
49 5 0.04
50 5 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACATCT
Found at i:48694355 original size:10 final size:9
Alignment explanation
Indices: 48694319--48694358 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
48694309 AGGAAAAAGT
48694319 AAATTAAT-
1 AAATTAATA
48694327 AAA-TAATA
1 AAATTAATA
48694335 AAATTAATA
1 AAATTAATA
48694344 AAATTAAATA
1 AAATT-AATA
48694354 AAATT
1 AAATT
48694359 GCAAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 4 0.14
8 6 0.21
9 10 0.34
10 9 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATTAATA
Found at i:48700381 original size:53 final size:53
Alignment explanation
Indices: 48700189--48700393 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 53
48700179 TAGGGTTTAT
* * * * * *
48700189 GGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGCAA
* * * * * * * * *
48700243 GGAAATCATGTAAGACCATGTCAAGATATGGCATTGATAAACTACTATATGGAAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAA
* * * * *
48700298 AGATCCCATGTAAGACCATGGCAAGGCATGGCAATGGTGAGTTCATAAGGCAA
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
*
48700351 GGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
48700394 TAAAAAGGAA
Statistics
Matches: 116, Mismatches: 33, Indels: 5
0.75 0.21 0.03
Matches are distributed among these distances:
53 44 0.38
54 35 0.30
55 37 0.32
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
GGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGCAA
Found at i:48707590 original size:40 final size:40
Alignment explanation
Indices: 48707546--48707771 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
48707536 ACTACTCGTT
* *
48707546 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
48707586 CAAATGCCTTCGGGACTTAACCAGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48707626 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
48707666 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
48707706 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
48707747 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
48707772 CATCATTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.91
41 12 0.07
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48715660 original size:40 final size:40
Alignment explanation
Indices: 48715623--48715808 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
48715613 GCTACTCGTT
* *
48715623 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
48715663 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48715703 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
48715743 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
48715784 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
48715809 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48721967 original size:53 final size:53
Alignment explanation
Indices: 48721785--48721991 Score: 175
Period size: 53 Copynumber: 3.8 Consensus size: 53
48721775 ATTAGCGTTT
* * * * * * *
48721785 AAGGATACCA-AGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTAACAAGAC
1 AAGGATACCATA-TAAGACCATGTCAAGACATGGCAATAGTAAG-TTCATAAGGC
* * * * * *
48721839 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAACTACTATAAGGC
1 AAGGATACCATATAAGACCATGTCAAGACATGGCAATAG-T-AAGTTC-ATAAGGC
* * * * * *
48721894 AAAGATCCCATGTAAGACCATGGCAAGGCATGGCAATAGTGAGTTCATAAGGC
1 AAGGATACCATATAAGACCATGTCAAGACATGGCAATAGTAAGTTCATAAGGC
*
48721947 AAGGATACCATATAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATATAAGACCATGTCAAGACATGGCAATAGTAAGTT
48721992 TAAAAAGAAA
Statistics
Matches: 119, Mismatches: 29, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
53 47 0.39
54 33 0.28
55 36 0.30
56 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.20
Consensus pattern (53 bp):
AAGGATACCATATAAGACCATGTCAAGACATGGCAATAGTAAGTTCATAAGGC
Found at i:48723704 original size:81 final size:81
Alignment explanation
Indices: 48723569--48723731 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
48723559 ATGTTTCATT
* *
48723569 TTAGCGGAAGCTTAGGAAAATCGTCGTGTTTAAGGAAAACAGTTCGCATTTTTTTAGAAAATCAT
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
48723634 GTTTCAGGTAAAACCC
66 GTTTCAGGTAAAACCC
48723650 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
1 TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
48723715 GTTTCAGGTAAAACCC
66 GTTTCAGGTAAAACCC
48723731 T
1 T
48723732 CATAGTAATA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (81 bp):
TTAGCGGAAGCTTAGGAAAATCGTCATGTTTAAGGAAAACAGTTCACATTTTTTTAGAAAATCAT
GTTTCAGGTAAAACCC
Found at i:48723717 original size:38 final size:39
Alignment explanation
Indices: 48723595--48723728 Score: 103
Period size: 38 Copynumber: 3.4 Consensus size: 39
48723585 AAAATCGTCG
*
48723595 TGTTTAAGG-AAAACAGTTCGCATTTTTTTAGAAAATCA
1 TGTTTAAGGTAAAACAGTTCACATTTTTTTAGAAAATCA
* ** ******
48723633 TGTTTCAGGTAAAACCCTT-AGCGGAAGCTTAGGAAAATCGTCA
1 TGTTTAAGGTAAAACAGTTCA-CATTTTTTTA-GAAAA---TCA
48723676 TGTTTAAGG-AAAACAGTTCACATTTTTTTAGAAAATCA
1 TGTTTAAGGTAAAACAGTTCACATTTTTTTAGAAAATCA
*
48723714 TGTTTCAGGTAAAAC
1 TGTTTAAGGTAAAAC
48723729 CCTCATAGTA
Statistics
Matches: 68, Mismatches: 20, Indels: 15
0.66 0.19 0.15
Matches are distributed among these distances:
38 19 0.28
39 16 0.24
40 5 0.07
41 5 0.07
42 11 0.16
43 12 0.18
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (39 bp):
TGTTTAAGGTAAAACAGTTCACATTTTTTTAGAAAATCA
Found at i:48729882 original size:15 final size:15
Alignment explanation
Indices: 48729862--48729909 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
48729852 TCAAAGATGG
48729862 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
48729877 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
48729892 -TTTATGGATATAAA
1 GTTTATGGATATGAA
48729906 GTTT
1 GTTT
48729910 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:48729889 original size:29 final size:29
Alignment explanation
Indices: 48729856--48729915 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
48729846 AAGGATTCAA
* *
48729856 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
48729885 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
48729914 AG
1 AG
48729916 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:48734231 original size:12 final size:12
Alignment explanation
Indices: 48734205--48734241 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
48734195 GATTTTGTTT
*
48734205 TTTTTTCTTTCAA
1 TTTTTT-TTTGAA
48734218 TTTTTTTTTGAA
1 TTTTTTTTTGAA
48734230 TTTTTTTTTGAA
1 TTTTTTTTTGAA
48734242 ACTTACTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:48736126 original size:40 final size:40
Alignment explanation
Indices: 48735933--48736158 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
48735923 TTGAATGATG
* * * *
48735933 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
48735973 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48736013 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48736053 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
48736093 TCCGCGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
48736134 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48736159 AATGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 158 0.93
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48736176 original size:80 final size:79
Alignment explanation
Indices: 48735940--48736191 Score: 280
Period size: 80 Copynumber: 3.2 Consensus size: 79
48735930 ATGTCCGGGC
* * * * *
48735940 TAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTACG
1 TAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTACG
*
48736003 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGG-T
* *
48736020 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTACG
48736083 AGTTACTAAATCCGCGT
64 AGTTACTAAATCCG-GT
* * *
48736100 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAG
*
48736165 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
48736179 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
48736192 TACGTGATTT
Statistics
Matches: 148, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
79 18 0.12
80 118 0.80
81 12 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAG
TTACTAAATCCGGT
Found at i:48736176 original size:120 final size:120
Alignment explanation
Indices: 48735933--48736191 Score: 280
Period size: 120 Copynumber: 2.2 Consensus size: 120
48735923 TTGAATGATG
* * *
48735933 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
48735998 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
* * *
48736053 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGCG-TTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCG-GACTAAGAT-CCGAAGGCA
* * * * *
48736115 TTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAATGAG-TAGCTATA
63 TTTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTTA-CTAAA
* *
48736173 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
48736192 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
119 18 0.15
120 89 0.75
121 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTTACTAAA
Found at i:48758277 original size:46 final size:46
Alignment explanation
Indices: 48758227--48758398 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
48758217 TGAGCATCCA
48758227 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
48758273 AACTCGTTGAGTAGAGTCCGAGTTCA-TGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * *
48758320 AACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-G
* *
48758366 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48758399 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.54
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:48758383 original size:93 final size:93
Alignment explanation
Indices: 48758220--48758390 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
48758210 GGATGATTGA
* *
48758220 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
48758285 AGAGTCCGAGTTCATGAGATGTAACTAG
66 AGAGTCCGAGTTCATGAGATGTAACTAG
* * *
48758313 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTGAGCTCGTTGAG
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCGTTGAG
*
48758377 TTGAGTCCGAGTTC
65 TAGAGTCCGAGTTC
48758391 GCTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
AGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:48778521 original size:40 final size:40
Alignment explanation
Indices: 48778477--48778680 Score: 268
Period size: 40 Copynumber: 5.1 Consensus size: 40
48778467 AGGTTTAGAA
* *
48778477 CGGATATATTACTAGCACGAATGCTCTTCGGAACTTAGCC
1 CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* * *
48778517 CGGATACATCACTAGCACGAATGCTCCTCGGGACTTAGCT
1 CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* *
48778557 CGGATATATCACTAGCATGAATGCTCCTCGGGACTTAGCC
1 CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* * *
48778597 CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC
1 CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* *
48778637 CGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCC
1 CGGATAT-ATCAC-TAGCACGAATGCTCTTCGGGACTTAGCC
48778677 CGGA
1 CGGA
48778681 CATCATTCAA
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 130 0.90
41 8 0.06
42 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
Found at i:48779030 original size:29 final size:29
Alignment explanation
Indices: 48778988--48779066 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
48778978 CTTAATAATC
*
48778988 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
48779018 AACTCGGACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
48779047 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48779067 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:48779109 original size:43 final size:43
Alignment explanation
Indices: 48779048--48779150 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
48779038 TGCATTTCAA
48779048 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
48779091 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
48779134 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
48779151 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:48783296 original size:40 final size:40
Alignment explanation
Indices: 48783252--48783455 Score: 268
Period size: 40 Copynumber: 5.1 Consensus size: 40
48783242 AGGTTTAGAA
* *
48783252 CGGATATATTACTAGCACGAATGCTCTTCGGAACTTAGCC
1 CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* * *
48783292 CGGATACATCACTAGCACGAATGCTCCTCGGGACTTAGCT
1 CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* *
48783332 CGGATATATCACTAGCATGAATGCTCCTCGGGACTTAGCC
1 CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* * *
48783372 CGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC
1 CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
* *
48783412 CGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCC
1 CGGATAT-ATCAC-TAGCACGAATGCTCTTCGGGACTTAGCC
48783452 CGGA
1 CGGA
48783456 CATCATTCAA
Statistics
Matches: 144, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 130 0.90
41 8 0.06
42 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCC
Found at i:48783805 original size:29 final size:29
Alignment explanation
Indices: 48783763--48783841 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
48783753 CTTAATAATC
*
48783763 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
48783793 AACTCGGACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
48783822 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48783842 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:48783884 original size:43 final size:43
Alignment explanation
Indices: 48783823--48783925 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
48783813 TGCATTTCAA
48783823 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
48783866 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
48783909 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
48783926 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:48795415 original size:68 final size:64
Alignment explanation
Indices: 48795328--48795549 Score: 232
Period size: 67 Copynumber: 3.4 Consensus size: 64
48795318 TAATACGGGA
* *
48795328 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTTGCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTTGCATGGGTGATACT
48795393 ATG
62 ATG
* * * * *
48795396 TGTACACCATGTAG-ACAAGAGAGCTATGAGATAGACGTAGCTAGGTTGCATGTGTGGTTCTAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTTGCATGGGTGATACTA--
48795460 TG
63 TG
* * ** * **
48795462 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTTGCATGGGTGATACTATG
48795526 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
48795550 CAAAATTATG
Statistics
Matches: 128, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
63 20 0.16
64 27 0.21
65 2 0.02
66 24 0.19
67 28 0.22
68 26 0.20
69 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTTGCATGGGTGATACTATG
Found at i:48798994 original size:27 final size:27
Alignment explanation
Indices: 48798954--48799089 Score: 168
Period size: 27 Copynumber: 5.1 Consensus size: 27
48798944 ACATCACATA
*
48798954 GGCAAAACAGTCATCTTACCATATAAG
1 GGCAAAACAGTCATCTTACCACATAAG
*
48798981 GGCAAAACAATCATCTTACCACATAAG
1 GGCAAAACAGTCATCTTACCACATAAG
*
48799008 GGCAAAACAATCAT-TTCACCACATAAG
1 GGCAAAACAGTCATCTT-ACCACATAAG
* * *
48799035 GGAAAAATAGTCATTTTACCACATAAG
1 GGCAAAACAGTCATCTTACCACATAAG
* * *
48799062 GGAAAAATAGTCATTTTACCA-ATAAG
1 GGCAAAACAGTCATCTTACCACATAAG
48799088 GG
1 GG
48799090 GTCCAGGCAT
Statistics
Matches: 102, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
26 9 0.09
27 91 0.89
28 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (27 bp):
GGCAAAACAGTCATCTTACCACATAAG
Found at i:48812355 original size:56 final size:56
Alignment explanation
Indices: 48812293--48812427 Score: 202
Period size: 54 Copynumber: 2.4 Consensus size: 56
48812283 GACCATGGCA
* * *
48812293 TCGATATATGTGTGCGAGTAAGACTACATTTAATACGTTGGCATCGGTATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATT
* * *
48812349 TTGATATA--TGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGGTT
1 TCGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATT
48812403 TCGATATATGTGTGCGAGTAAGACC
1 TCGATATATGTGTGCGAGTAAGACC
48812428 CTATCTGGGA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
54 48 0.69
56 22 0.31
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.34
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATT
Found at i:48813617 original size:55 final size:55
Alignment explanation
Indices: 48813556--48813667 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
48813546 TGTGTAAGAT
*
48813556 TTGTGTTTTGGGTATATATCTATATTTAGTTAATGACATGAATATTATAAATAGC
1 TTGTGTTGTGGGTATATATCTATATTTAGTTAATGACATGAATATTATAAATAGC
* *
48813611 TTGTGTTGTGGGTATATATCTATATTTGGTTAATGACATGAATATTATAAGTAGC
1 TTGTGTTGTGGGTATATATCTATATTTAGTTAATGACATGAATATTATAAATAGC
48813666 TT
1 TT
48813668 TAAGTAAGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (55 bp):
TTGTGTTGTGGGTATATATCTATATTTAGTTAATGACATGAATATTATAAATAGC
Found at i:48816024 original size:27 final size:26
Alignment explanation
Indices: 48815985--48816114 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 26
48815975 ACGAAACATA
48815985 AGGGCATTACGGTCATTTTACCCTAT
1 AGGGCATTACGGTCATTTTACCCTAT
48816011 AGGGACATTACGGTCATTTTACCCTAT
1 AGGG-CATTACGGTCATTTTACCCTAT
* * *
48816038 AGGGGTATTACAGTCATTTTACCCTAC
1 A-GGGCATTACGGTCATTTTACCCTAT
* *
48816065 AGGGGCATTACGATCATTTTACCCTACA
1 A-GGGCATTACGGTCATTTTACCCTA-T
* *
48816093 AAGGCATTACAGTCATTTTACC
1 AGGGCATTACGGTCATTTTACC
48816115 AATTTTGGGG
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.04
27 83 0.91
28 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (26 bp):
AGGGCATTACGGTCATTTTACCCTAT
Found at i:48816055 original size:54 final size:54
Alignment explanation
Indices: 48815987--48816114 Score: 184
Period size: 54 Copynumber: 2.4 Consensus size: 54
48815977 GAAACATAAG
* * * * **
48815987 GGCATTACGGTCATTTTACCCTATAGGGACATTACGGTCATTTTACCCTATAGG
1 GGCATTACAGTCATTTTACCCTACAGGGACATTACGATCATTTTACCCTACAAA
* *
48816041 GGTATTACAGTCATTTTACCCTACAGGGGCATTACGATCATTTTACCCTACAAA
1 GGCATTACAGTCATTTTACCCTACAGGGACATTACGATCATTTTACCCTACAAA
48816095 GGCATTACAGTCATTTTACC
1 GGCATTACAGTCATTTTACC
48816115 AATTTTGGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (54 bp):
GGCATTACAGTCATTTTACCCTACAGGGACATTACGATCATTTTACCCTACAAA
Found at i:48818476 original size:20 final size:19
Alignment explanation
Indices: 48818449--48818487 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
48818439 CAAATCAAAT
48818449 ACATTACA-AATATATCATA
1 ACATTACATAA-ATATCATA
48818468 ACATATACATAAATATCATA
1 ACAT-TACATAAATATCATA
48818488 TCAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 12 0.67
21 2 0.11
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
ACATTACATAAATATCATA
Found at i:48819806 original size:41 final size:45
Alignment explanation
Indices: 48819745--48819879 Score: 138
Period size: 45 Copynumber: 3.1 Consensus size: 45
48819735 GTGCTATCTC
* * *
48819745 ATATCGATGGCACTGTCCCAGACAAGGTCTTACAC-GAATCA-A-
1 ATATCGATGCCAATGTCCCAGACAAGGTCTTACACAGAACCACAT
* *
48819787 ATA-CGATGTCAATGTCCCAGACATA-GTCTTACACATAACCACAT
1 ATATCGATGCCAATGTCCCAGACA-AGGTCTTACACAGAACCACAT
* * *
48819831 ATATCGATGCCAACGTCCCAGATAAGGTCTTACATGAGAA-CACAT
1 ATATCGATGCCAATGTCCCAGACAAGGTCTTACA-CAGAACCACAT
48819876 ATAT
1 ATAT
48819880 GAAATCCTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
41 27 0.35
42 8 0.10
43 1 0.01
44 4 0.05
45 34 0.44
46 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.24
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACAAGGTCTTACACAGAACCACAT
Found at i:48819850 original size:45 final size:42
Alignment explanation
Indices: 48819745--48819864 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 42
48819735 GTGCTATCTC
* *
48819745 ATATCGATGGC-ACTGTCCCAGACAAGGTCTTACACGAATCAA
1 ATATCGATGCCAAC-GTCCCAGACAAGGTCTTACACGAACCAA
* * *
48819787 ATA-CGATGTCAATGTCCCAGACATA-GTCTTACACATAACCACA
1 ATATCGATGCCAACGTCCCAGACA-AGGTCTTACAC-GAACCA-A
*
48819830 TATATCGATGCCAACGTCCCAGATAAGGTCTTACA
1 -ATATCGATGCCAACGTCCCAGACAAGGTCTTACA
48819865 TGAGAACACA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
41 25 0.39
42 9 0.14
43 1 0.02
44 4 0.06
45 25 0.39
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (42 bp):
ATATCGATGCCAACGTCCCAGACAAGGTCTTACACGAACCAA
Found at i:48823679 original size:13 final size:13
Alignment explanation
Indices: 48823661--48823685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48823651 CCGAAACTAG
48823661 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
48823674 AAAGAAAAAAAA
1 AAAGAAAAAAAA
48823686 TGCTCATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:48824856 original size:39 final size:40
Alignment explanation
Indices: 48824761--48824983 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
48824751 TTGAATGATG
*
48824761 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
48824799 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
48824840 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
48824879 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
48824918 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
48824957 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48824984 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:48824947 original size:79 final size:81
Alignment explanation
Indices: 48824761--48824983 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
48824751 TTGAATGATG
* * *
48824761 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
48824823 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
48824840 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
48824901 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
48824918 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
48824982 TG
66 TG
48824984 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:48825005 original size:79 final size:79
Alignment explanation
Indices: 48824761--48825016 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
48824751 TTGAATGATG
* * * *
48824761 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
48824822 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
48824840 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
48824904 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
48824918 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
48824981 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
48824998 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
48825017 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:48831498 original size:13 final size:13
Alignment explanation
Indices: 48831480--48831504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48831470 CCGAAACTAG
48831480 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
48831493 AAAGAAAAAAAA
1 AAAGAAAAAAAA
48831505 TGCTCATCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:48832803 original size:40 final size:40
Alignment explanation
Indices: 48832583--48832841 Score: 306
Period size: 39 Copynumber: 6.6 Consensus size: 40
48832573 TGAATGATTT
*
48832583 CGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA-ATC
* *
48832622 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAATC
* *
48832662 CGGGGTAA-TCCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATC
*
48832701 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATC
*
48832740 C-GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATC
*
48832778 CGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATAAT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AATC
*
48832818 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
48832842 AACGAGGAGC
Statistics
Matches: 197, Mismatches: 12, Indels: 21
0.86 0.05 0.09
Matches are distributed among these distances:
38 37 0.19
39 89 0.45
40 57 0.29
41 13 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATC
Found at i:48865441 original size:9 final size:9
Alignment explanation
Indices: 48865413--48865442 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
48865403 AATCCGAACA
48865413 CTCCACCTC
1 CTCCACCTC
*
48865422 CCCCACCTC
1 CTCCACCTC
48865431 CTCCACCTC
1 CTCCACCTC
48865440 CTC
1 CTC
48865443 TGATTCCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.70, G:0.00, T:0.20
Consensus pattern (9 bp):
CTCCACCTC
Found at i:48876392 original size:13 final size:13
Alignment explanation
Indices: 48876374--48876399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48876364 TTCAAACTAC
48876374 TTTTTATTTTTTA
1 TTTTTATTTTTTA
48876387 TTTTTATTTTTTA
1 TTTTTATTTTTTA
48876400 GCAGATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:48882181 original size:28 final size:28
Alignment explanation
Indices: 48882119--48882215 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
48882109 TATTAAGTCT
*
48882119 GCACACTCAGTGCTATATAATC-AACTC
1 GCACACTTAGTGCTATATAATCAAACTC
48882146 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * * *
48882174 GCACACTTAGTGCTGTACAATTTAAACCC
1 GCACACTTAGTGCTATATAA-TCAAACTC
48882203 GCACACTTAGTGC
1 GCACACTTAGTGC
48882216 CAATCTCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:48882679 original size:12 final size:12
Alignment explanation
Indices: 48882662--48882687 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48882652 TGGGCATACT
48882662 TATGTATATATA
1 TATGTATATATA
48882674 TATGTATATATA
1 TATGTATATATA
48882686 TA
1 TA
48882688 CTTCGGAATG
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:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:48892132 original size:20 final size:20
Alignment explanation
Indices: 48892107--48892145 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48892097 TCTAATTAAT
*
48892107 TTTGAAATTT-TTATTTTTAG
1 TTTG-AATTTCTTATGTTTAG
48892127 TTTGAATTTCTTATGTTTA
1 TTTGAATTTCTTATGTTTA
48892146 ATAAGGGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTGAATTTCTTATGTTTAG
Found at i:48894247 original size:43 final size:43
Alignment explanation
Indices: 48894167--48894248 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
48894157 TGTGATTACA
*
48894167 TGTAAGACCATGTCTGGGACATTGGCATTGTATTATGATAATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATAATG
*
48894210 TGTAAGACCATTTCTGGGACATTGGCATCGT-TATATGAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT-TATGAT
48894249 TTCGTATAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATAATG
Found at i:48894259 original size:43 final size:43
Alignment explanation
Indices: 48894169--48894280 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
48894159 TGATTACATG
* *
48894169 TAAGACCATGTCTGGGACATTGGCATTGTATTATGATAATGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATTATGATAATGTA
* *
48894212 TAAGACCATTTCTGGGACATTGGCATCGT-TATATGAT-TTCGTA
1 TAAGACCATGTCTGGGACATTGGCATCGTAT-TATGATAAT-GTA
* * * *
48894255 TAAGACCCTGTTTGGGATAGTGGCAT
1 TAAGACCATGTCTGGGACATTGGCAT
48894281 TGATATGTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
42 2 0.03
43 56 0.97
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTATGATAATGTA
Found at i:48900644 original size:37 final size:37
Alignment explanation
Indices: 48900573--48900680 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
48900563 AGCTCAGATG
* *
48900573 AAATCTCCACACGAAGTTATC-GGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
48900609 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
48900646 TAATCTCCACAAGTAGTCATCGGGACTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
48900681 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 19 0.29
37 47 0.71
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:48900879 original size:48 final size:48
Alignment explanation
Indices: 48900821--48901536 Score: 910
Period size: 48 Copynumber: 15.0 Consensus size: 48
48900811 ATATACACAC
* * * *
48900821 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
48900869 ATCTCATACATGTTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
48900917 ATCCCATACATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATAC--ATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
48900967 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
48901015 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
48901063 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAATATACACAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC-----ATAT--ACAT
* * * *
48901118 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
48901166 ATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
48901214 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
48901262 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
48901310 ATCCCATACATATTTCACATTAGCCATTCGGC-TTATCTC--ATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* ** * ** * *
48901355 ATTTC--ACAT-TAGC-CATTCAG-CTTTACCAC-ATA-TACATAT-C-T
1 ATCTCATACATATTTCACATT-AGCCATT-CGGCTTTACCACATATACAT
* *
48901396 CAT-ACAT--ATT--TCACATTAGCCATTCGGCTTTACCACATATACAT
1 -ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
48901440 ATCTCATACA-ATTTCACATTAACCGTTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
48901487 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
48901535 AT
1 AT
48901537 ATTTATCTTG
Statistics
Matches: 589, Mismatches: 50, Indels: 58
0.85 0.07 0.08
Matches are distributed among these distances:
40 5 0.01
41 21 0.04
42 17 0.03
43 9 0.02
44 4 0.01
45 9 0.02
46 1 0.00
47 47 0.08
48 384 0.65
50 48 0.08
53 4 0.01
55 40 0.07
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:48901075 original size:96 final size:96
Alignment explanation
Indices: 48900827--48901536 Score: 1056
Period size: 96 Copynumber: 7.5 Consensus size: 96
48900817 ACACATCTCC
* * * * *
48900827 TACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATGTTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
48900892 CCATTTGGCTTTACCACATATACATATCCCA
66 CCATTCGGCTTTACCACATATACATATCCCA
48900923 TACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATT
1 TAC--ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATT
48900988 AGCCATTCGGCTTTACCACATATACATATCCCA
64 AGCCATTCGGCTTTACCACATATACATATCCCA
48901021 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
48901086 CCATTCGGCTTTACCACATATA-ATATACACACA
66 CCATTCGGCTTTACCACATATACATAT-C-C-CA
* * *
48901119 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCAC
1 -----TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAC
* * *
48901184 ACTAGCCATTCGACTTTACCACATATACATATCTCA
61 ATTAGCCATTCGGCTTTACCACATATACATATCCCA
*
48901220 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
48901285 CCATTCGGCTTTACCACATATACATATCCCA
66 CCATTCGGCTTTACCACATATACATATCCCA
48901316 TACATATTTCACATTAGCCATTCGG--------C---T---TATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* *
48901367 CCATTCAGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCCCA
*
48901398 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA-ATTTCACATTAA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* *
48901462 CCGTTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCCCA
48901493 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
48901537 ATTTATCTTG
Statistics
Matches: 564, Mismatches: 25, Indels: 51
0.88 0.04 0.08
Matches are distributed among these distances:
82 77 0.14
85 1 0.00
88 1 0.00
90 1 0.00
93 1 0.00
95 88 0.16
96 213 0.38
97 1 0.00
98 92 0.16
101 2 0.00
103 83 0.15
104 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCCCA
Found at i:48901205 original size:199 final size:194
Alignment explanation
Indices: 48900821--48901532 Score: 1029
Period size: 199 Copynumber: 3.7 Consensus size: 194
48900811 ATATACACAC
* * * * *
48900821 ATCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATGTTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * *
48900886 CACTAGCCATTTGGCTTTACCACATATACATATCCCATAC-ATATATTTCACATTAGCCATTCGG
66 CATTAGCCATTCGGCTTTACCACATATACATATCCCATCCTACATATTTCACATTAGCCATTCGG
*
48900950 CTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
131 CTTTACCACATATAC-TATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
*
48901015 ATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
48901080 CATTAGCCATTCGGCTTTACCACATATA-ATATACACACATCTCCTACATATTTCACACTAGCCC
66 CATTAGCCATTCGGCTTTACCACATATACATAT-C-C-CA--TCCTACATATTTCACATTAGCCA
*
48901144 TTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGACTTTACCACATA
126 TTCGGCTTTACCACATATAC-TATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATA
48901209 TACAT
190 TACAT
*
48901214 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
48901279 CATTAGCCATTCGGCTTTACCACATATACATATCCCA---TACATATTTCACATTAGCCATTCGG
66 CATTAGCCATTCGGCTTTACCACATATACATATCCCATCCTACATATTTCACATTAGCCATTCGG
48901341 --------C---T--TATCTCATACATATTTCACATTAGCCATTC-AGCTTTACCACATATACAT
131 CTTTACCACATATACTATCTCATACATATTTCACATTAGCCATTCGA-CTTTACCACATATACAT
48901392 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA-ATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * *
48901456 CATTAACCGTTCGGCTTTACCACATATACATAT--C-TCATACATATTTCACATTAGCCATTCGG
66 CATTAGCCATTCGGCTTTACCACATATACATATCCCATCCTACATATTTCACATTAGCCATTCGG
48901518 CTTTACCACATATAC
131 CTTTACCACATATAC
48901533 ATATATTTAT
Statistics
Matches: 471, Mismatches: 23, Indels: 52
0.86 0.04 0.10
Matches are distributed among these distances:
175 1 0.00
177 63 0.13
178 103 0.22
181 1 0.00
184 1 0.00
185 1 0.00
188 1 0.00
192 23 0.05
193 4 0.01
194 86 0.18
195 1 0.00
196 2 0.00
197 2 0.00
198 3 0.01
199 175 0.37
200 4 0.01
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (194 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATACATATCCCATCCTACATATTTCACATTAGCCATTCGG
CTTTACCACATATACTATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
Found at i:48901357 original size:34 final size:34
Alignment explanation
Indices: 48901309--48901377 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
48901299 CACATATACA
*
48901309 TATCCCATACATATTTCACATTAGCCATTCGGCT
1 TATCCCATACATATTTCACATTAGCCATTCAGCT
*
48901343 TATCTCATACATATTTCACATTAGCCATTCAGCT
1 TATCCCATACATATTTCACATTAGCCATTCAGCT
48901377 T
1 T
48901378 TACCACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (34 bp):
TATCCCATACATATTTCACATTAGCCATTCAGCT
Found at i:48901363 original size:82 final size:82
Alignment explanation
Indices: 48901261--48901520 Score: 349
Period size: 82 Copynumber: 3.0 Consensus size: 82
48901251 CACATATACA
* *
48901261 TATCCCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
48901326 ACATTAGCCATTCGGCT
66 ACATTAGCCATTCGGCT
*
48901343 TATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
48901408 ACATTAGCCATTCGGCTT
66 ACATTAGCCATTCGGC-T
* * *
48901426 TACCACATATACATATCTCATACAATTTCACATTAACCGTTCGGCTTTACCACATATACATATCT
1 T-----ATCT-CATA---CAT---ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
48901491 CATACATATTTCACATTAGCCATTCGGCT
54 CATACATATTTCACATTAGCCATTCGGCT
48901520 T
1 T
48901521 TACCACATAT
Statistics
Matches: 158, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
82 78 0.49
83 2 0.01
88 3 0.02
89 4 0.03
92 3 0.02
94 2 0.01
95 66 0.42
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (82 bp):
TATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTC
ACATTAGCCATTCGGCT
Found at i:48901369 original size:130 final size:132
Alignment explanation
Indices: 48901212--48901536 Score: 476
Period size: 130 Copynumber: 2.4 Consensus size: 132
48901202 CCACATATAC
48901212 ATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTT
1 ATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTT
*
48901277 CACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAGCCATTCGG-
66 CACATTAGCCATTCGGCTTTACCACATATACATATCCCATACA-ATTTCACATTAACCATTCGGC
48901341 C-T
130 CAT
* *
48901343 -TATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTT
1 ATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTT
* *
48901407 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAATTTCACATTAACCGTTCGGCT
66 CACATTAGCCATTCGGCTTTACCACATATACATATCCCATACAATTTCACATTAACCATTCGG--
48901472 TTACCACATAT
129 ----C-C--AT
48901483 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 --ATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
48901537 ATTTATCTTG
Statistics
Matches: 174, Mismatches: 6, Indels: 16
0.89 0.03 0.08
Matches are distributed among these distances:
129 18 0.10
130 104 0.60
137 1 0.01
140 1 0.01
143 50 0.29
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (132 bp):
ATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTT
CACATTAGCCATTCGGCTTTACCACATATACATATCCCATACAATTTCACATTAACCATTCGGCC
AT
Found at i:48901473 original size:95 final size:96
Alignment explanation
Indices: 48901343--48901536 Score: 354
Period size: 95 Copynumber: 2.0 Consensus size: 96
48901333 CCATTCGGCT
*
48901343 TATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATACATATTTC
48901408 ACATTAGCCATTCGGCTTTACCACATATACA
66 ACATTAGCCATTCGGCTTTACCACATATACA
* *
48901439 TATCTCATACA-ATTTCACATTAACCGTTCGGCTTTACCACATATACATATCTCATACATATTTC
1 TATCTCATACATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATACATATTTC
48901503 ACATTAGCCATTCGGCTTTACCACATATACA
66 ACATTAGCCATTCGGCTTTACCACATATACA
48901534 TAT
1 TAT
48901537 ATTTATCTTG
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
95 84 0.88
96 11 0.12
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (96 bp):
TATCTCATACATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATACATATTTC
ACATTAGCCATTCGGCTTTACCACATATACA
Found at i:48904516 original size:27 final size:27
Alignment explanation
Indices: 48904486--48904561 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
48904476 TACCTCACAT
* *
48904486 AGGGCCAAACAGTCAATTTACCATGCA
1 AGGGCCAAACAGTCATTTTACCATACA
** * *
48904513 AGGG-CATTTCAGTTATTTTACCATATA
1 AGGGCCA-AACAGTCATTTTACCATACA
*
48904540 AGGGCAAAACAGTCATTTTACC
1 AGGGCCAAACAGTCATTTTACC
48904562 TCATAAAGGC
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
26 2 0.05
27 34 0.92
28 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (27 bp):
AGGGCCAAACAGTCATTTTACCATACA
Found at i:48904567 original size:27 final size:27
Alignment explanation
Indices: 48904522--48904575 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
48904512 AAGGGCATTT
* *
48904522 CAGTTATTTTACCATATAAGGGCAAAA
1 CAGTCATTTTACCATATAAAGGCAAAA
48904549 CAGTCATTTTACC-TCATAAAGGCAAAA
1 CAGTCATTTTACCAT-ATAAAGGCAAAA
48904576 TAAACTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (27 bp):
CAGTCATTTTACCATATAAAGGCAAAA
Found at i:48905908 original size:15 final size:16
Alignment explanation
Indices: 48905883--48905913 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
48905873 AAGTAGAGAG
48905883 AAAACTCTCAAAACTA
1 AAAACTCTCAAAACTA
48905899 AAAACT-TCAAAACTA
1 AAAACTCTCAAAACTA
48905914 GGAGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAACTCTCAAAACTA
Found at i:48924427 original size:21 final size:22
Alignment explanation
Indices: 48924394--48924441 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
48924384 TTTTCATTGA
**
48924394 AAACCCTTCTTAA-AATAAAAG
1 AAACCCTAATTAACAATAAAAG
**
48924415 AAACCCTAATTAACTTTAAAAG
1 AAACCCTAATTAACAATAAAAG
48924437 AAACC
1 AAACC
48924442 TTTCAGTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.52, C:0.21, G:0.04, T:0.23
Consensus pattern (22 bp):
AAACCCTAATTAACAATAAAAG
Found at i:48928603 original size:93 final size:93
Alignment explanation
Indices: 48928474--48928645 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
48928464 CGCCCATAAG
* *
48928474 CGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCAATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCAATAAGTGAACTCGGACTCAACTCA
48928539 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
48928567 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCAATAAGTGAACTCGGACTCAACTC
48928631 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
48928646 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCAATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48928640 original size:46 final size:46
Alignment explanation
Indices: 48928467--48928642 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
48928457 TGTAACCCGC
* * *
48928467 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * *
48928513 CAATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48928563 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
48928606 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48928643 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.55
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48928661 original size:46 final size:44
Alignment explanation
Indices: 48928518--48928661 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
48928508 CGCATCAATA
48928518 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
48928565 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
48928611 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
48928657 AGTGA
1 AGTGA
48928662 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:48936189 original size:93 final size:93
Alignment explanation
Indices: 48936025--48936196 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
48936015 CGCCCATAAG
* * *
48936025 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48936090 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
48936118 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
48936183 ATGAGTTCGGATGC
66 ACGAGTTCGGATGC
48936197 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:48936193 original size:46 final size:46
Alignment explanation
Indices: 48936018--48936193 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
48936008 TGTAACCCGC
* * * *
48936018 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48936064 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48936114 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
48936157 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
48936194 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:48936212 original size:46 final size:46
Alignment explanation
Indices: 48936067--48936205 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
48936057 TTCGCATCCA
48936067 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
48936115 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
*
48936160 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
48936206 CTAGTGACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 27 0.36
47 30 0.41
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:48951932 original size:43 final size:43
Alignment explanation
Indices: 48951880--48951970 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
48951870 ACACACGATA
*
48951880 GTGTCACATAGTCGTGTGTCATACACGGCTGAGGCACACACCC
1 GTGTCACATAGTCGTGTGTCATAAACGGCTGAGGCACACACCC
* * **
48951923 GTGTCACATAGTCGTGTGTCATAAACGGTTGAGGTACACGTCC
1 GTGTCACATAGTCGTGTGTCATAAACGGCTGAGGCACACACCC
48951966 GTGTC
1 GTGTC
48951971 TTAAGCTGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.25
Consensus pattern (43 bp):
GTGTCACATAGTCGTGTGTCATAAACGGCTGAGGCACACACCC
Found at i:48952102 original size:20 final size:22
Alignment explanation
Indices: 48952063--48952102 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
48952053 CCCATGACCA
48952063 ATGCATTAAAACATACCAAAAC
1 ATGCATTAAAACATACCAAAAC
*
48952085 ATGCA-TAAAATA-ACCAAA
1 ATGCATTAAAACATACCAAA
48952103 TTTCTATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.57, C:0.20, G:0.05, T:0.17
Consensus pattern (22 bp):
ATGCATTAAAACATACCAAAAC
Found at i:48953639 original size:20 final size:20
Alignment explanation
Indices: 48953616--48953675 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
48953606 AGATGTGCAT
*
48953616 TCAGGGGTACCGAAGTATAA
1 TCAGGGGTACCGAAGTACAA
* * * *
48953636 TCAGGGGCACTGATGTGCAA
1 TCAGGGGTACCGAAGTACAA
*
48953656 TCAAGGGTACCGAAGTACAA
1 TCAGGGGTACCGAAGTACAA
48953676 AAAATGGCAC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.18
Consensus pattern (20 bp):
TCAGGGGTACCGAAGTACAA
Found at i:48953641 original size:40 final size:40
Alignment explanation
Indices: 48953597--48953672 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
48953587 AAAGTGCAAA
* *
48953597 CAGGGAAACAGATGTGCATTCAGGGGTACCGAAGTATAAT
1 CAGGGAAACAGATGTGCAATCAAGGGTACCGAAGTATAAT
** *
48953637 CAGGGGCACTGATGTGCAATCAAGGGTACCGAAGTA
1 CAGGGAAACAGATGTGCAATCAAGGGTACCGAAGTA
48953673 CAAAAAATGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.18
Consensus pattern (40 bp):
CAGGGAAACAGATGTGCAATCAAGGGTACCGAAGTATAAT
Found at i:48953776 original size:40 final size:40
Alignment explanation
Indices: 48953618--48953782 Score: 233
Period size: 40 Copynumber: 4.1 Consensus size: 40
48953608 ATGTGCATTC
* * *
48953618 AGGGGTACCGAAGTATAATCAGGGGCACTGATGTGC-AAT
1 AGGGGTACCGAAGTACAAACAAGGGCACTGATGTGCAAAT
* * *
48953657 CAAGGGTACCGAAGTACAAAAAATGGCACTGATGTGCAAAT
1 -AGGGGTACCGAAGTACAAACAAGGGCACTGATGTGCAAAT
* *
48953698 AAGGGTACCGAAGTACAATCAAGGGCACTGATGTGCAAAT
1 AGGGGTACCGAAGTACAAACAAGGGCACTGATGTGCAAAT
*
48953738 AGGGGTATCGAAGTACAAACAAGGGCACTGATGTGCAAAT
1 AGGGGTACCGAAGTACAAACAAGGGCACTGATGTGCAAAT
48953778 AGGGG
1 AGGGG
48953783 CACTTTTTCA
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
40 109 0.97
41 3 0.03
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAACAAGGGCACTGATGTGCAAAT
Found at i:48953783 original size:20 final size:20
Alignment explanation
Indices: 48953640--48953786 Score: 102
Period size: 20 Copynumber: 7.3 Consensus size: 20
48953630 GTATAATCAG
48953640 GGGCACTGATGTGC-AATCAA
1 GGGCACTGATGTGCAAAT-AA
* * * * *
48953660 GGGTACCGAAGTACAAAAAA
1 GGGCACTGATGTGCAAATAA
*
48953680 TGGCACTGATGTGCAAATAA
1 GGGCACTGATGTGCAAATAA
* * * *
48953700 GGGTACCGAAGTAC-AATCAA
1 GGGCACTGATGTGCAAAT-AA
*
48953720 GGGCACTGATGTGCAAATAG
1 GGGCACTGATGTGCAAATAA
* * * *
48953740 GGGTA-TCGAAGTACAAACAA
1 GGGCACT-GATGTGCAAATAA
*
48953760 GGGCACTGATGTGCAAATAG
1 GGGCACTGATGTGCAAATAA
48953780 GGGCACT
1 GGGCACT
48953787 TTTTCATTTT
Statistics
Matches: 91, Mismatches: 31, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
19 4 0.04
20 81 0.89
21 6 0.07
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (20 bp):
GGGCACTGATGTGCAAATAA
Found at i:48954103 original size:161 final size:162
Alignment explanation
Indices: 48953790--48954115 Score: 566
Period size: 161 Copynumber: 2.0 Consensus size: 162
48953780 GGGCACTTTT
48953790 TCATTTTTGTATACATACATAAATTCATCTCATTCACATATAACTTTAATACAAATCCAAGAAAA
1 TCATTTTTGTATACATACATAAATTCATCTCATTCACATATAACTTTAATACAAATCCAAGAAAA
*
48953855 AACATTACCAATAATCTTTTCTCAATTTCATATATACATAAGTATTTGCAACACTTATCGTTATA
66 AACATTACCAATAATATTTTCTCAATTTCATATATACATAAGTATTTGCAACACTTATCGTTATA
* *
48953920 TAAATAATCGAAGTAATTCACATTTATATAAA
131 TAAATAACCGAAGTAATTCACATATATATAAA
48953952 TCATTTTTGTATACATACATAAATTCATCTCATTCGA-ATATAACTTTAATACAAATCCAAG-AA
1 TCATTTTTGTATACATACATAAATTCATCTCATTC-ACATATAACTTTAATACAAATCCAAGAAA
* * *
48954015 AAACGTTACTAATAATATTTTCTCAATTTCATATATTCATAAGTATTTGCAACACTTATCGTTAT
65 AAACATTACCAATAATATTTTCTCAATTTCATATATACATAAGTATTTGCAACACTTATCGTTAT
*
48954080 ATGAATAACCGAAGTAATTCACATATATATAAA
130 ATAAATAACCGAAGTAATTCACATATATATAAA
48954113 TCA
1 TCA
48954116 ATTAACTAGA
Statistics
Matches: 156, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
161 96 0.62
162 59 0.38
163 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.37
Consensus pattern (162 bp):
TCATTTTTGTATACATACATAAATTCATCTCATTCACATATAACTTTAATACAAATCCAAGAAAA
AACATTACCAATAATATTTTCTCAATTTCATATATACATAAGTATTTGCAACACTTATCGTTATA
TAAATAACCGAAGTAATTCACATATATATAAA
Found at i:48961733 original size:19 final size:19
Alignment explanation
Indices: 48961711--48961750 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
48961701 TCAGAATATA
*
48961711 AAAATAATAAAAGTAAACT
1 AAAATAATAAAAATAAACT
48961730 AAAATAATAAAAATAAACT
1 AAAATAATAAAAATAAACT
48961749 AA
1 AA
48961751 CTTAGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAATAATAAAAATAAACT
Found at i:48962167 original size:27 final size:26
Alignment explanation
Indices: 48962119--48962178 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
48962109 ACGAGGCTGC
* *
48962119 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
48962146 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
48962172 CAGATAT
1 CAGATAT
48962179 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:48962489 original size:19 final size:19
Alignment explanation
Indices: 48962465--48962509 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
48962455 GGGCCCGTTG
48962465 GCCCATTGGCCAGTTTTCA
1 GCCCATTGGCCAGTTTTCA
*
48962484 GCCCATTGGCCCGTTTTCA
1 GCCCATTGGCCAGTTTTCA
48962503 GCCCATT
1 GCCCATT
48962510 AAGCCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.36, G:0.20, T:0.31
Consensus pattern (19 bp):
GCCCATTGGCCAGTTTTCA
Found at i:48963716 original size:29 final size:27
Alignment explanation
Indices: 48963660--48963711 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
48963650 ACTAAAATAT
**
48963660 ATATTTTAACCAACCAGAACACACAAA
1 ATATTTTAAAAAACCAGAACACACAAA
48963687 ATATTTTAAAAAACACAGAA-ACACA
1 ATATTTTAAAAAAC-CAGAACACACA
48963712 GAAAACCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (27 bp):
ATATTTTAAAAAACCAGAACACACAAA
Found at i:48966160 original size:40 final size:40
Alignment explanation
Indices: 48965959--48966146 Score: 299
Period size: 40 Copynumber: 4.7 Consensus size: 40
48965949 TATTCGAATG
* *
48965959 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
48965999 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48966038 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
48966078 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
48966118 ATAACCAGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
48966147 AGCAAGTAGC
Statistics
Matches: 136, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 35 0.26
40 101 0.74
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:48966160 original size:80 final size:80
Alignment explanation
Indices: 48965959--48966179 Score: 299
Period size: 80 Copynumber: 2.8 Consensus size: 80
48965949 TATTCGAATG
*
48965959 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTA-ATTCCGGGCTAAG-CCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAG-CTATA-TCCGGGCTAAGTCCCGAAGG
48966021 CATTTGTGCGAGTTACT
64 CATTTGTGCGAGTTACT
* ** *
48966038 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGTGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAGTCCCGAAGGC
48966102 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACT
* * * *
48966118 ATAACCAGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGG
48966180 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 61 0.49
80 64 0.51
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:48970608 original size:47 final size:47
Alignment explanation
Indices: 48970549--48970670 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
48970539 GCATTAGCAC
*
48970549 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTGG
48970596 TAAGACAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTGG
* *
48970643 TAAGATAAGGATATCATGTAAGACCATA
1 TAAGACAAGGATACCATGTAAGACCATA
48970671 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATATTTGGAACATGGCATTTGG
Found at i:48970719 original size:54 final size:54
Alignment explanation
Indices: 48970649--48970806 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 54
48970639 TTGGTAAGAT
* * *
48970649 AAGGATATCATGTAAGACCATACCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCACGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
*
48970703 AAGGAAATTACGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGAAATCACGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * *
48970757 AAGGAAATCATGTAAGACCATGTCGAGACATGGCATTGATGAGTTACTAT
1 AAGGAAATCACGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTAT
48970807 GTAACACCCC
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 89 0.96
55 4 0.04
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (54 bp):
AAGGAAATCACGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:48971537 original size:30 final size:32
Alignment explanation
Indices: 48971476--48971540 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
48971466 TTCAATCTCA
*
48971476 ACATATACTGGGCTGAAGCCTCTTCATAATTC
1 ACATATACTGGGCTAAAGCCTCTTCATAATTC
48971508 ACAT-TACTGGGCTAAAGCCTCTT-ATAATTC
1 ACATATACTGGGCTAAAGCCTCTTCATAATTC
48971538 ACA
1 ACA
48971541 ACTCATATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 10 0.31
31 18 0.56
32 4 0.12
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (32 bp):
ACATATACTGGGCTAAAGCCTCTTCATAATTC
Found at i:48982872 original size:30 final size:32
Alignment explanation
Indices: 48982811--48982875 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 32
48982801 TTCAATCTCA
48982811 ACATATACTGGGCTGAAGCCTCTTCATAATTC
1 ACATATACTGGGCTGAAGCCTCTTCATAATTC
*
48982843 ACAT-TACTGGGCTGAAGCCT-TTTATAATTC
1 ACATATACTGGGCTGAAGCCTCTTCATAATTC
48982873 ACA
1 ACA
48982876 ACTCATATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 12 0.38
31 16 0.50
32 4 0.12
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (32 bp):
ACATATACTGGGCTGAAGCCTCTTCATAATTC
Found at i:48983150 original size:25 final size:25
Alignment explanation
Indices: 48983122--48983216 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
48983112 CTCTTTTAAT
48983122 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
48983147 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
48983172 AACTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTGA-TA
*
48983197 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
48983217 GCACTTCCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
24 3 0.05
25 56 0.90
26 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:48983150 original size:50 final size:50
Alignment explanation
Indices: 48983109--48983216 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
48983099 CTGGAGGCCT
48983109 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
** * *
48983158 AGCCCTTTTCGGTAAACTGGGGCAAAGCCC-TTTTCAGTAAACTAGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTTGA-TAAACTGGGGCAA
48983208 AGCCCTTTT
1 AGCCCTTTT
48983217 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
48 5 0.10
49 10 0.19
50 37 0.71
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
Found at i:48985175 original size:53 final size:53
Alignment explanation
Indices: 48985095--48985201 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
48985085 ATTACATACT
* * * *
48985095 ATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC
1 ATAAGGCAAAGGTACCACGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC
*
48985148 ATAAGGC-AAGGATACCACGTAAGACCATGTCAAGACATGGCATTGGTAAGTTC
1 ATAAGGCAAAGG-TACCACGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC
48985201 A
1 A
48985202 AAAAGGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 4 0.08
53 44 0.92
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (53 bp):
ATAAGGCAAAGGTACCACGTAAGACCATGCCAAGACATGGCATTGGTAAGTTC
Found at i:48996167 original size:47 final size:47
Alignment explanation
Indices: 48996089--48996219 Score: 154
Period size: 47 Copynumber: 2.8 Consensus size: 47
48996079 GTGCGAATAA
* ** *
48996089 TACCTTGATTTGGCTACAGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTA-AGGGCCATGATATAGGTACTCCGAGAGAAGT
* * * * *
48996137 TATCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTAAGGGCCATGATATAGGTACTCCGAGAGAAGT
* *
48996184 TACCTTGATTTGGCTACGGGCCATAATATAGGTACT
1 TACCTTGATTTGGCTAAGGGCCATGATATAGGTACT
48996220 TATCGATTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
47 55 0.79
48 15 0.21
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTAAGGGCCATGATATAGGTACTCCGAGAGAAGT
Found at i:48998173 original size:15 final size:14
Alignment explanation
Indices: 48998155--48998202 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
48998145 TTTAATTAAA
48998155 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
48998169 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
*
48998184 -GTTTATGGCTTAT
1 GGTTTATGGATTAT
48998197 GGTTTA
1 GGTTTA
48998203 AGGGTTGGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 5 0.17
15 13 0.45
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:48998234 original size:22 final size:22
Alignment explanation
Indices: 48998205--48998280 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
48998195 ATGGTTTAAG
48998205 GGTT-GGGGTTTAAGGGTTATA
1 GGTTAGGGGTTTAAGGGTTATA
* *
48998226 GGTTAGGGGTTTAGGGGTTATG
1 GGTTAGGGGTTTAAGGGTTATA
**
48998248 GGTTAATGGTTTAAGGGTTA-A
1 GGTTAGGGGTTTAAGGGTTATA
*
48998269 GGCTTTGGGGTT
1 GG-TTAGGGGTT
48998281 ATTGTTTTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 6 0.14
22 38 0.86
ACGTcount: A:0.17, C:0.01, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTAGGGGTTTAAGGGTTATA
Found at i:48998498 original size:21 final size:20
Alignment explanation
Indices: 48998474--48998530 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 20
48998464 TTGTTTTGTG
48998474 GTTTATGGTTTAAGGGATATA
1 GTTTA-GGTTTAAGGGATATA
48998495 GTTTAGGGTTT-AGAGGATATA
1 GTTTA-GGTTTAAG-GGATATA
48998516 GTTTAGAGTTTAAGG
1 GTTTAG-GTTTAAGG
48998531 TTATGGGGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.09
21 27 0.84
22 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (20 bp):
GTTTAGGTTTAAGGGATATA
Found at i:48998525 original size:28 final size:28
Alignment explanation
Indices: 48998494--48998561 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
48998484 TAAGGGATAT
*
48998494 AGTTTAGGGTT-TAGAGGATATAGTTTAG
1 AGTTTAAGGTTAT-GAGGATATAGTTTAG
*
48998522 AGTTTAAGGTTATGGGGATATAGTTTA-
1 AGTTTAAGGTTATGAGGATATAGTTTAG
48998549 ATGGTTTAAGGTT
1 A--GTTTAAGGTT
48998562 TAGGGTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 1 0.03
28 23 0.66
29 11 0.31
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (28 bp):
AGTTTAAGGTTATGAGGATATAGTTTAG
Found at i:49000032 original size:20 final size:20
Alignment explanation
Indices: 49000007--49000045 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
48999997 TTTGTTAAAA
49000007 CCAATTTCGGTTTAATTTTT
1 CCAATTTCGGTTTAATTTTT
49000027 CCAATTTCGGTTTAATTTT
1 CCAATTTCGGTTTAATTTT
49000046 CTTAGTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.54
Consensus pattern (20 bp):
CCAATTTCGGTTTAATTTTT
Found at i:49001076 original size:99 final size:99
Alignment explanation
Indices: 49000910--49001483 Score: 578
Period size: 99 Copynumber: 5.7 Consensus size: 99
49000900 GTTTTCTTTG
* * * * *
49000910 ATTTTATTTTCAATTTACCTAATTAAATTAAATAATATTTAAAGTTTCATTTTAAATGTTTTATT
1 ATTTTATTTTCAAATTACATAATTAAATTAAGTTATATTTAAAGTTTCATTTTAAATATTTTATT
49000975 TTATTTGAATCACGAAAATTAATTTCAATATTTT
66 TTATTTGAATCACGAAAATTAATTTCAATATTTT
* *
49001009 ATTTTATTTT-AACATTACATAATTAAATTAAGTTGTATTTAAAGTTTTATTTTAAATATTTTAT
1 ATTTTATTTTCAA-ATTACATAATTAAATTAAGTTATATTTAAAGTTTCATTTTAAATATTTTA-
* * *** * *
49001073 TTTATTTCACTTTAATTTAATCACGAAAAAT-ATTTTTTTCTTTA
64 --T-TTT-A---T--TTGAATCACGAAAATTAATTTCAATATTTT
* *
49001117 ATTTTATTTTCAATTTACCA-AATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATTTTAT
1 ATTTTATTTTCAAATTA-CATAATTAAATTAAGTTATATTTAAAGTTTCATTTTAAATATTTTAT
*
49001181 TTTATTTGAATCGCGAAAATTAATTTCAATATTTT
65 TTTATTTGAATCACGAAAATTAATTTCAATATTTT
* * ** *
49001216 ATTTTATTTT-AACATTATATAATTAAATTAAGTTGTATTTTAAA---T-ATTTTATTTTATTTC
1 ATTTTATTTTCAA-ATTACATAATTAAATTAAGTTATA-TTTAAAGTTTCATTTTA-AATATTTT
* * * * * *
49001276 ACTTTAATTT-AATCACGAAAAATATTTTGTC-TTCTTTA
63 A-TTTTATTTGAATCACGAAAATTA-ATT-TCAATATTTT
* * *
49001314 ATTTTATTTTCAATTTACCTAATTGAATTAAAG-TATATTTAAAGTTTCATTTTAAATATTTTAT
1 ATTTTATTTTCAAATTACATAATTAAATT-AAGTTATATTTAAAGTTTCATTTTAAATATTTTAT
*
49001378 TTTATTTGAATCGCGAAAATTAATTTCAATATTTT
65 TTTATTTGAATCACGAAAATTAATTTCAATATTTT
* *
49001413 ATTTTATTTT-AACATTACATAATTAAATTAAGTTGTATTTAAAGTTTTATTTTAAATATTTTAT
1 ATTTTATTTTCAA-ATTACATAATTAAATTAAGTTATATTTAAAGTTTCATTTTAAATATTTTAT
49001477 TTTATTT
65 TTTATTT
49001484 CACTTTAATT
Statistics
Matches: 384, Mismatches: 60, Indels: 62
0.76 0.12 0.12
Matches are distributed among these distances:
96 6 0.02
97 25 0.07
98 63 0.16
99 168 0.44
100 26 0.07
101 6 0.02
102 1 0.00
103 4 0.01
104 4 0.01
105 1 0.00
107 1 0.00
108 61 0.16
109 18 0.05
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.53
Consensus pattern (99 bp):
ATTTTATTTTCAAATTACATAATTAAATTAAGTTATATTTAAAGTTTCATTTTAAATATTTTATT
TTATTTGAATCACGAAAATTAATTTCAATATTTT
Found at i:49001362 original size:197 final size:203
Alignment explanation
Indices: 49000897--49001553 Score: 1062
Period size: 197 Copynumber: 3.2 Consensus size: 203
49000887 ATGGCATACA
*
49000897 TTTGTTTTCTTTGATTTTATTTTCAATTTACCTAATTAAATTAAATAATATTTAAAGTTTCATTT
1 TTTGTTTTCTTTAATTTTATTTTCAATTTACCTAATTAAATTAAAT-ATATTTAAAGTTTCATTT
* *
49000962 TAAATGTTTTATTTTATTTGAATCACGAAAATTAATTTCAATATTTTATTTTATTTTAACATTAC
65 TAAATATTTTATTTTATTTGAATCGCGAAAATTAATTTCAATATTTTATTTTATTTTAACATTA-
49001027 ATAATTAAATTAAGTTGTATTTAAAGTTTTATTTTAAATATTTTATTTTATTTCACTTTAATTTA
129 ATAATTAAATTAA----TATTTAAAGTTTTATTTTAAATATTTTATTTTATTTCACTTTAATTTA
49001092 ATCACGAAAAATA-
190 ATCACGAAAAATAT
*
49001105 TTT-TTTTCTTTAATTTTATTTTCAATTTACCAAATTAAATTAAATTATATTTAAAGTTTCATTT
1 TTTGTTTTCTTTAATTTTATTTTCAATTTACCTAATTAAATTAAA-TATATTTAAAGTTTCATTT
49001169 TAAATATTTTATTTTATTTGAATCGCGAAAATTAATTTCAATATTTTATTTTATTTTAACATT-A
65 TAAATATTTTATTTTATTTGAATCGCGAAAATTAATTTCAATATTTTATTTTATTTTAACATTAA
*
49001233 T-A-T-AATTAA-A-TT-AAGTTGTATTTTAAATATTTTATTTTATTTCACTTTAATTTAATCAC
130 TAATTAAATTAATATTTAAAGTTTTATTTTAAATATTTTATTTTATTTCACTTTAATTTAATCAC
49001292 GAAAAATAT
195 GAAAAATAT
* *
49001301 TTTGTCTTCTTTAATTTTATTTTCAATTTACCTAATTGAATTAAAGTATATTTAAAGTTTCATTT
1 TTTGTTTTCTTTAATTTTATTTTCAATTTACCTAATTAAATTAAA-TATATTTAAAGTTTCATTT
49001366 TAAATATTTTATTTTATTTGAATCGCGAAAATTAATTTCAATATTTTATTTTATTTTAACATTAC
65 TAAATATTTTATTTTATTTGAATCGCGAAAATTAATTTCAATATTTTATTTTATTTTAACATTA-
*
49001431 ATAATTAAATTAAGTTGTATTTAAAGTTTTATTTTAAATATTTTATTTTATTTCACTTTAATTTT
129 ATAATTAAATTAA----TATTTAAAGTTTTATTTTAAATATTTTATTTTATTTCACTTTAATTTA
49001496 ATCACGAAAAATAT
190 ATCACGAAAAATAT
49001510 TTTGTTTTCTTTAATTTTATTTTCAATTTACCTAATTAAATTAA
1 TTTGTTTTCTTTAATTTTATTTTCAATTTACCTAATTAAATTAA
49001554 GTTTTATTTT
Statistics
Matches: 421, Mismatches: 13, Indels: 29
0.91 0.03 0.06
Matches are distributed among these distances:
195 54 0.13
196 5 0.01
197 121 0.29
199 2 0.00
200 1 0.00
201 1 0.00
202 12 0.03
203 1 0.00
204 1 0.00
205 2 0.00
207 119 0.28
208 6 0.01
209 96 0.23
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (203 bp):
TTTGTTTTCTTTAATTTTATTTTCAATTTACCTAATTAAATTAAATATATTTAAAGTTTCATTTT
AAATATTTTATTTTATTTGAATCGCGAAAATTAATTTCAATATTTTATTTTATTTTAACATTAAT
AATTAAATTAATATTTAAAGTTTTATTTTAAATATTTTATTTTATTTCACTTTAATTTAATCACG
AAAAATAT
Found at i:49001605 original size:9 final size:9
Alignment explanation
Indices: 49001582--49001862 Score: 120
Period size: 9 Copynumber: 32.8 Consensus size: 9
49001572 CTAGCAACTC
*
49001582 ACATATTTT
1 ACATAATTT
*
49001591 ATATAATTT
1 ACATAATTT
49001600 ACATAA--T
1 ACATAATTT
* *
49001607 GCATAACTT
1 ACATAATTT
49001616 ACATAATTT
1 ACATAATTT
*
49001625 --A-AAGTT
1 ACATAATTT
49001631 -CA-AATTT
1 ACATAATTT
*
49001638 -CATAACTT
1 ACATAATTT
49001646 ACATAATTT
1 ACATAATTT
*
49001655 ACATAACTT
1 ACATAATTT
49001664 ACATAA--T
1 ACATAATTT
* *
49001671 ACATAACTA
1 ACATAATTT
*
49001680 AAATAATTT
1 ACATAATTT
*
49001689 --A-AAGTT
1 ACATAATTT
49001695 -CA-AATTT
1 ACATAATTT
*
49001702 -CATAACTT
1 ACATAATTT
49001710 ACATAATTT
1 ACATAATTT
*
49001719 ACATAACTT
1 ACATAATTT
49001728 ACATAA--T
1 ACATAATTT
* *
49001735 ACATAACTA
1 ACATAATTT
49001744 ACATAATTT
1 ACATAATTT
*
49001753 AAAGATCAAATTT
1 --ACAT--AATTT
*
49001766 -CATAACTT
1 ACATAATTT
49001774 ACATAATTT
1 ACATAATTT
*
49001783 ACATAACTT
1 ACATAATTT
49001792 ACATAA--T
1 ACATAATTT
*
49001799 ACATAACTT
1 ACATAATTT
49001808 ACATAATTT
1 ACATAATTT
*
49001817 AAAGATCACATTT
1 --ACAT-A-ATTT
*
49001830 -CATAACTT
1 ACATAATTT
*
49001838 ATATAATTT
1 ACATAATTT
* *
49001847 ACATGACTT
1 ACATAATTT
49001856 ACATAAT
1 ACATAAT
49001863 ACATAAATAT
Statistics
Matches: 209, Mismatches: 39, Indels: 48
0.71 0.13 0.16
Matches are distributed among these distances:
6 8 0.04
7 43 0.21
8 15 0.07
9 123 0.59
10 4 0.02
11 6 0.03
12 1 0.00
13 9 0.04
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (9 bp):
ACATAATTT
Found at i:49001670 original size:64 final size:64
Alignment explanation
Indices: 49001577--49001868 Score: 467
Period size: 64 Copynumber: 4.6 Consensus size: 64
49001567 GTTCACTAGC
* * * * * * *
49001577 AACTCACATATTTTATATAATTTACATAATGCATAACTTACATAATTTAAAGTTCAAATTTCAT
1 AACTTACATAATTTACATAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
* *
49001641 AACTTACATAATTTACATAACTTACATAATACATAACTAAAATAATTTAAAGTTCAAATTTCAT
1 AACTTACATAATTTACATAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
49001705 AACTTACATAATTTACATAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
1 AACTTACATAATTTACATAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
* *
49001769 AACTTACATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCACATTTCAT
1 AACTTACATAATTTACATAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
* *
49001833 AACTTATATAATTTACATGACTTACATAATACATAA
1 AACTTACATAATTTACATAACTTACATAATACATAA
49001869 ATATATATCA
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 215 1.00
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (64 bp):
AACTTACATAATTTACATAACTTACATAATACATAACTAACATAATTTAAAGATCAAATTTCAT
Found at i:49001827 original size:25 final size:25
Alignment explanation
Indices: 49001645--49001814 Score: 80
Period size: 25 Copynumber: 7.0 Consensus size: 25
49001635 TTTCATAACT
*
49001645 TACATAATTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * * *
49001670 TACATAACTAAAATAATTTA-A-AG
1 TACATAACTTACATAACTTACATAA
* *
49001693 TTCA-AA-TTTCATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
49001716 TTTACATAACTTACATAA--TACATAA
1 --TACATAACTTACATAACTTACATAA
*
49001741 CTAACATAATTTA-A-AGA--T-CA-AA
1 -T-ACATAACTTACATA-ACTTACATAA
* *
49001763 TTTCATAACTTACATAATTTACATAA
1 -TACATAACTTACATAACTTACATAA
49001789 CTTACATAA--TACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
49001814 T
1 T
49001815 TTAAAGATCA
Statistics
Matches: 110, Mismatches: 20, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
21 16 0.15
22 8 0.07
23 10 0.09
24 6 0.05
25 52 0.47
26 4 0.04
27 14 0.13
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.35
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Done.