Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 197 of 222
Found at i:62934950 original size:23 final size:23
Alignment explanation
Indices: 62934923--62935929 Score: 948
Period size: 23 Copynumber: 40.9 Consensus size: 23
62934913 AATAGGTTAG
62934923 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
62934946 GGTTA-GGTTAGGGATTTCAATTAAATTAGGTTA
1 GGTTAGGGTT-----TTT-AATTAAA-T----TA
62934979 GGGTTAGGGTTTTTAATTAAATTAAATTA
1 G-GTTAGGGTTTTTAATT-A---A-ATTA
* *
62935008 GCTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935031 TGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
62935054 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATT-AA--A--TTA
*
62935082 GGGTTAGGGTTTTTAATT-AAGTA
1 -GGTTAGGGTTTTTAATTAAATTA
62935105 GGGTTAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
*
62935129 TGTTAGGGTTTTTAATTTAATTAAGTTA
1 GGTTAGGGTTTTTAA-TT-A--AA-TTA
*
62935157 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935180 TGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
62935203 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935226 GGTTAGGGTTAGGTTTTAATT-AAGTA
1 GGTTAGGG-T---TTTTAATTAAATTA
*
62935252 GGGTTAGGGTTTTAATTTAATTAAGTTA
1 -GGTTAGGG--TT--TTTAATTAAATTA
* *
62935280 GGTTAGGTTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935303 TGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
* * *
62935326 GGTTAGGGTTAGGGTTTTTATTTAAGTA
1 GGTTAGGG-T----TTTTAATTAAATTA
*
62935354 GGGTTAGGGTTTTTAATTAAGTTA
1 -GGTTAGGGTTTTTAATTAAATTA
* * *
62935378 TGTTCGGGTTTTGAATATAATTAAGTTA
1 GGTTAGGG-TTT---T-TAATTAAATTA
* *
62935406 GGTTAGGTTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935429 TGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
62935452 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935475 GGTTAGGGTTTTTAATT-AAGTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935497 GGGTTAGGGTTTTTAATTAAGTTA
1 -GGTTAGGGTTTTTAATTAAATTA
*
62935521 TGTTAGGGTTTTTAATTTAATTAAGTTA
1 GGTTAGGGTTTTTAA-TT-A--AA-TTA
* *
62935549 GGTTAGGTTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935572 TGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
62935595 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935618 GGTTAGGGTTTTTAATT-AAGTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
62935640 GGGTTAGAGTTTTTAATTAAGTTA
1 -GGTTAGGGTTTTTAATTAAATTA
*
62935664 TGTTAGGGTTTTTAATTTAATTAAGTTA
1 GGTTAGGGTTTTTAA-TT-A--AA-TTA
*
62935692 GGTTAGGTTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
62935715 GGTTA-GGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935737 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935760 TGTTAGGGTTTTTAATTTAATTAAGTTA
1 GGTTAGGGTTTTTAA-TT-A--AA-TTA
* *
62935788 GGTTAGGTTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
*
62935811 TGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
62935834 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATT-AA--A--TTA
*
62935862 GGGTTAGGGTTTTTAATT-AAGTA
1 -GGTTAGGGTTTTTAATTAAATTA
62935885 GGGTTAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
*
62935909 GGTTAGGGTTTTTAATCAAAT
1 GGTTAGGGTTTTTAATTAAAT
62935930 AATGTCAAAA
Statistics
Matches: 834, Mismatches: 73, Indels: 154
0.79 0.07 0.15
Matches are distributed among these distances:
22 33 0.04
23 487 0.58
24 48 0.06
25 9 0.01
26 10 0.01
27 53 0.06
28 126 0.15
29 50 0.06
30 4 0.00
33 5 0.01
34 5 0.01
35 4 0.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.48
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:62938077 original size:14 final size:15
Alignment explanation
Indices: 62938060--62938093 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
62938050 AATAAATATC
62938060 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
62938074 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
62938089 TAAAA
1 TAAAA
62938094 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:62938230 original size:29 final size:30
Alignment explanation
Indices: 62938192--62938252 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
62938182 TGAAAATATT
*
62938192 AAAAATTTTAAAATTAT-TTAAAAAAAATA
1 AAAAAATTTAAAATTATCTTAAAAAAAATA
* *
62938221 AAAAAATTTAAAATTTTCTTAAAAAAATTA
1 AAAAAATTTAAAATTATCTTAAAAAAAATA
62938251 AA
1 AA
62938253 TTTAATGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAAAATTTAAAATTATCTTAAAAAAAATA
Found at i:62938320 original size:22 final size:22
Alignment explanation
Indices: 62938290--62938331 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62938280 ATTTGGAGAT
*
62938290 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
62938312 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
62938332 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:62938339 original size:30 final size:30
Alignment explanation
Indices: 62938303--62938361 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
62938293 TTGAAGGAAA
* *
62938303 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
62938333 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
62938362 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:62938351 original size:52 final size:51
Alignment explanation
Indices: 62938281--62938383 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
62938271 TTAATATGGA
* * *
62938281 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
62938332 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
62938384 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:62938358 original size:22 final size:22
Alignment explanation
Indices: 62938333--62938424 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
62938323 ATTTGAGAGT
62938333 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
62938355 TTGAGAGAAATTTT-GAAGGGAA
1 TTGAGAG-AATTTTGGAAGGAAA
*
62938377 TTGAGAGAATTTTTGAAAGG-AA
1 TTGAGAGAA-TTTTGGAAGGAAA
*
62938399 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
62938421 TTGA
1 TTGA
62938425 TATTGAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
21 10 0.16
22 42 0.68
23 10 0.16
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:62938382 original size:44 final size:44
Alignment explanation
Indices: 62938333--62938424 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
62938323 ATTTGAGAGT
* *
62938333 TTGAGAGAA-TTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAAGG-AATTGAGAGAAATTTTGAAGGAAA
*
62938377 TTGAGAGAATTTTTGAAAGGAATTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
62938421 TTGA
1 TTGA
62938425 TATTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (44 bp):
TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
Found at i:62939571 original size:29 final size:29
Alignment explanation
Indices: 62939538--62939594 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
62939528 GCAAGACAAT
* * *
62939538 TTTCAATTAGGTGTTTATCTACGTTATTA
1 TTTCAAATAGATGTTTATCTAAGTTATTA
62939567 TTTCAAATAGATGTTTATCTAAGTTATT
1 TTTCAAATAGATGTTTATCTAAGTTATT
62939595 TATAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (29 bp):
TTTCAAATAGATGTTTATCTAAGTTATTA
Found at i:62944706 original size:18 final size:17
Alignment explanation
Indices: 62944673--62944711 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
62944663 AAAAGTTAAA
*
62944673 TTAA-TTTTTTCTATTT
1 TTAATTTTTTTATATTT
62944689 TTAATTTTTTTATCATTT
1 TTAATTTTTTTAT-ATTT
62944707 TTAAT
1 TTAAT
62944712 AATTCATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
TTAATTTTTTTATATTT
Found at i:62945099 original size:19 final size:18
Alignment explanation
Indices: 62945075--62945177 Score: 80
Period size: 19 Copynumber: 5.3 Consensus size: 18
62945065 TCATATGAAA
62945075 AAAAAATTAAAAATATTTT
1 AAAAAATTAAAAA-ATTTT
*
62945094 AAAAAATTGTAAAAAATTATA
1 AAAAAA-T-TAAAAAATT-TT
* *
62945115 AAAAAATATTAAAAATTCT
1 AAAAAAT-TAAAAAATTTT
*
62945134 AAAAGATTATAAAAATTATT
1 AAAAAATTA-AAAAATT-TT
* *
62945154 AAAAATTTTAAAAAATATT
1 AAAAA-ATTAAAAAATTTT
62945173 AAAAA
1 AAAAA
62945178 TTATTGTATC
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
18 1 0.01
19 26 0.39
20 24 0.36
21 16 0.24
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAAATTAAAAAATTTT
Found at i:62945128 original size:29 final size:29
Alignment explanation
Indices: 62945075--62945182 Score: 123
Period size: 29 Copynumber: 3.7 Consensus size: 29
62945065 TCATATGAAA
*
62945075 AAAAAATTA-AAAATATT-TTAAAAAATTGT
1 AAAAAATTATAAAA-ATTATT-AAAAATTCT
*
62945104 AAAAAATTATAAAAAAATATTAAAAATTCT
1 AAAAAATTAT-AAAAATTATTAAAAATTCT
* *
62945134 AAAAGATTATAAAAATTATTAAAAATTTT
1 AAAAAATTATAAAAATTATTAAAAATTCT
62945163 AAAAAA-TATTAAAAATTATT
1 AAAAAATTA-TAAAAATTATT
62945183 GTATCTTGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.03
29 42 0.61
30 19 0.28
31 6 0.09
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAAAATTATAAAAATTATTAAAAATTCT
Found at i:62945177 original size:11 final size:11
Alignment explanation
Indices: 62945067--62945129 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
62945057 TTACATCATC
*
62945067 ATATGAAAAAA
1 ATATTAAAAAA
* *
62945078 AAATTAAAAAT
1 ATATTAAAAAA
*
62945089 AT-TTTAAAAA
1 ATATTAAAAAA
62945099 AT-TGTAAAAAA
1 ATAT-TAAAAAA
*
62945110 TTA-TAAAAAA
1 ATATTAAAAAA
62945120 ATATTAAAAA
1 ATATTAAAAA
62945130 TTCTAAAAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
10 18 0.45
11 22 0.55
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (11 bp):
ATATTAAAAAA
Found at i:62945182 original size:10 final size:10
Alignment explanation
Indices: 62945080--62945182 Score: 95
Period size: 10 Copynumber: 10.3 Consensus size: 10
62945070 TGAAAAAAAA
62945080 ATTAAAAATAT
1 ATTAAAAAT-T
*
62945091 TTTAAAAAATT
1 ATT-AAAAATT
* *
62945102 GTAAAAAATT
1 ATTAAAAATT
* *
62945112 ATAAAAAAAT
1 ATTAAAAATT
62945122 ATTAAAAATT
1 ATTAAAAATT
*
62945132 -CTAAAAGATT
1 ATTAAAA-ATT
62945142 A-TAAAAATT
1 ATTAAAAATT
62945151 ATTAAAAATT
1 ATTAAAAATT
*
62945161 -TTAAAAAAT
1 ATTAAAAATT
62945170 ATTAAAAATT
1 ATTAAAAATT
62945180 ATT
1 ATT
62945183 GTATCTTGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
9 17 0.22
10 50 0.65
11 4 0.05
12 6 0.08
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:62949289 original size:28 final size:28
Alignment explanation
Indices: 62949249--62949308 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
62949239 ACAAACAAGC
62949249 AGCCTTTCAATTACCGGACTACACGCAA
1 AGCCTTTCAATTACCGGACTACACGCAA
*
62949277 AGCCTTTCAATTACCGGACTACACGCAG
1 AGCCTTTCAATTACCGGACTACACGCAA
62949305 AGCC
1 AGCC
62949309 GTGTCCCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (28 bp):
AGCCTTTCAATTACCGGACTACACGCAA
Found at i:62949564 original size:7 final size:7
Alignment explanation
Indices: 62949552--62949579 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
62949542 TAACCCCAAA
62949552 GAGCTAC
1 GAGCTAC
62949559 GAGCTAC
1 GAGCTAC
62949566 GAGCTAC
1 GAGCTAC
62949573 GAGCTAC
1 GAGCTAC
62949580 CTCTATCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (7 bp):
GAGCTAC
Found at i:62952967 original size:17 final size:17
Alignment explanation
Indices: 62952941--62952978 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
62952931 AAATATGAAT
62952941 AAAT-AAATCTAGACTA
1 AAATAAAATCTAGACTA
*
62952957 AAATAAAATCTAGATTA
1 AAATAAAATCTAGACTA
62952974 AAATA
1 AAATA
62952979 TGCATTCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (17 bp):
AAATAAAATCTAGACTA
Found at i:62956434 original size:11 final size:11
Alignment explanation
Indices: 62956418--62956444 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62956408 AACAGGGGTG
62956418 GCACGATATCA
1 GCACGATATCA
62956429 GCACGATATCA
1 GCACGATATCA
62956440 GCACG
1 GCACG
62956445 TTACGGGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (11 bp):
GCACGATATCA
Found at i:62969672 original size:41 final size:40
Alignment explanation
Indices: 62969626--62969735 Score: 118
Period size: 41 Copynumber: 2.8 Consensus size: 40
62969616 GACTTCGAGT
*
62969626 TGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAT
1 TGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAC
* * * * *
62969666 TCGATGAGGCACTGGGTGCCAA--T-TTACTTTGGTTTAGC
1 T-GATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAC
* *
62969704 TGATGAGATACTGAGTGTCAATTTATTACTTC
1 TGATGAGACACTGGGTGTCAATTTATTACTTC
62969736 AAATTATCCA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
37 16 0.29
38 12 0.22
39 2 0.04
40 7 0.13
41 18 0.33
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (40 bp):
TGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAC
Found at i:62972227 original size:11 final size:11
Alignment explanation
Indices: 62972190--62972227 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
62972180 CCCAAGCCCA
62972190 TTTATATTATT
1 TTTATATTATT
62972201 TTTA-ATATATT
1 TTTATAT-TATT
62972212 TTTATATTATT
1 TTTATATTATT
62972223 TTTAT
1 TTTAT
62972228 TTAATATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 21 0.84
12 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTTATATTATT
Found at i:62972237 original size:22 final size:23
Alignment explanation
Indices: 62972189--62972251 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
62972179 ACCCAAGCCC
*
62972189 ATTTATATTATTTTTA-ATATAT
1 ATTTATATTATTTTTATTTATAT
*
62972211 TTTTATATTATTTTTATTTA-AT
1 ATTTATATTATTTTTATTTATAT
*
62972233 ATTTA-A-TAATTTTATTTAT
1 ATTTATATTATTTTTATTTAT
62972252 TAAATTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.31
21 1 0.03
22 21 0.60
23 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTATATTATTTTTATTTATAT
Found at i:62978536 original size:19 final size:21
Alignment explanation
Indices: 62978514--62978556 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
62978504 ATGTAAAATG
62978514 ATCCAGAAAATTCT-TAA-AA
1 ATCCAGAAAATTCTATAACAA
*
62978533 ATCCAGAAGATTCTATAACAA
1 ATCCAGAAAATTCTATAACAA
62978554 ATC
1 ATC
62978557 GAAAAGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 3 0.14
21 5 0.24
ACGTcount: A:0.49, C:0.19, G:0.07, T:0.26
Consensus pattern (21 bp):
ATCCAGAAAATTCTATAACAA
Found at i:62984910 original size:46 final size:46
Alignment explanation
Indices: 62984843--62985027 Score: 307
Period size: 46 Copynumber: 4.0 Consensus size: 46
62984833 ACATTGCTAT
* * *
62984843 AACTCAGTATGATTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * *
62984889 AACTCAGTATGGTTTTCTTCACTGAAACACTATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
62984935 AACTCAGTATGGTTTTCTTCGCCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
62984981 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
62985027 A
1 A
62985028 CTTTGCCATG
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:62991252 original size:44 final size:45
Alignment explanation
Indices: 62991166--62991252 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
62991156 TGTGAACTGA
* * *
62991166 ACATCATTGATTAGTAAGGTGGTTGCTATGTGTTGATTCCACCAG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
62991211 ACATCATTGATTAATAAGGTGG-TGCTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
62991253 GAGTATTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCAG
Found at i:62994795 original size:12 final size:12
Alignment explanation
Indices: 62994780--62994819 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
62994770 AGTAAATAAA
62994780 TAAATAAAATAT
1 TAAATAAAATAT
*
62994792 TAAATGAAATAT
1 TAAATAAAATAT
*
62994804 TAAATAAAATAG
1 TAAATAAAATAT
62994816 TAAA
1 TAAA
62994820 AAATGATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:62996821 original size:45 final size:45
Alignment explanation
Indices: 62996681--62996979 Score: 287
Period size: 45 Copynumber: 6.7 Consensus size: 45
62996671 GGTGTCTTTG
* * * * * *
62996681 ATCTGCTTCGCTGTCAGTACAGTAAGGCAAAATCTGCTATCTTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* * * ** ** * * * * * *
62996726 GTCTGCTCCGCTGTAAACCCAGGGAGGCAAGA-CTGGTGTCGTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* *
62996770 ATCTACTTCGCTGCCAATACAGGAAGATAAAATCTGCTATCTTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* * *
62996815 ATCTACTTTGCTGCCAATACAGAAAGACAAGATCTGCTAAT-TTCG
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT-ATCTTCA
* ** **
62996860 ATCTACTTTGCTGCCAATACAAAAAGACAAGATCTGCTAAATTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
*
62996905 ATCTACTTCGCTGCCGATACAGGAAGACAAGATCTGCTATCTTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
* *
62996950 ATCTACTTCGCTGCCAATGCCGGAAGACAA
1 ATCTACTTCGCTGCCAATACAGGAAGACAA
62996980 TGTCGAAACC
Statistics
Matches: 206, Mismatches: 45, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
44 30 0.15
45 174 0.84
46 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (45 bp):
ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCA
Found at i:62999753 original size:45 final size:45
Alignment explanation
Indices: 62999696--62999842 Score: 204
Period size: 45 Copynumber: 3.3 Consensus size: 45
62999686 TGGTTATTAC
*
62999696 AGACAAGATCTGTTATCTTTGATTTACTTCGCTGCCAATACAGGA
1 AGACAAGATCTGTTATCTTTGATCTACTTCGCTGCCAATACAGGA
* *
62999741 AGACAAAATCTGTTATCTTTGATCTACTTCGCAGCCAATACAGGA
1 AGACAAGATCTGTTATCTTTGATCTACTTCGCTGCCAATACAGGA
* * * **
62999786 AAACAAGATCTGCTATCTTCGATCTACTTTACTGCCAATACAGGA
1 AGACAAGATCTGTTATCTTTGATCTACTTCGCTGCCAATACAGGA
* *
62999831 ATATAAGATCTG
1 AGACAAGATCTG
62999843 CTATTTTCAA
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 90 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (45 bp):
AGACAAGATCTGTTATCTTTGATCTACTTCGCTGCCAATACAGGA
Found at i:62999865 original size:45 final size:45
Alignment explanation
Indices: 62999727--62999865 Score: 116
Period size: 45 Copynumber: 3.1 Consensus size: 45
62999717 ATTTACTTCG
* * * ** * * * *
62999727 CTGCCAATACAGGAAGACAAAATCTGTTATCTTTGATCTACTTCG
1 CTGCCAATACAGGAAAACAAGATCTGCTATCTTCAACCTAATCCA
* * * * **
62999772 CAGCCAATACAGGAAAACAAGATCTGCTATCTTCGATCTACTTTA
1 CTGCCAATACAGGAAAACAAGATCTGCTATCTTCAACCTAATCCA
* * *
62999817 CTGCCAATACAGGAATATAAGATCTGCTATTTTCAACCTAATCCA
1 CTGCCAATACAGGAAAACAAGATCTGCTATCTTCAACCTAATCCA
62999862 CTGC
1 CTGC
62999866 TGCTCAGGGA
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (45 bp):
CTGCCAATACAGGAAAACAAGATCTGCTATCTTCAACCTAATCCA
Found at i:63009499 original size:16 final size:16
Alignment explanation
Indices: 63009478--63009511 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
63009468 TTTTAGAATG
* *
63009478 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
63009494 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
63009510 AA
1 AA
63009512 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:63011079 original size:12 final size:12
Alignment explanation
Indices: 63011064--63011103 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
63011054 AGTAAATAAA
63011064 TAAATAAAATAT
1 TAAATAAAATAT
*
63011076 TAAATGAAATAT
1 TAAATAAAATAT
*
63011088 TAAATAAAATAG
1 TAAATAAAATAT
63011100 TAAA
1 TAAA
63011104 AAATGATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:63012956 original size:50 final size:50
Alignment explanation
Indices: 63012841--63013089 Score: 345
Period size: 50 Copynumber: 4.8 Consensus size: 50
63012831 GATCATAACA
* ** *
63012841 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
63012892 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
63012942 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
63012992 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG
* *
63013047 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
63013090 TTACCCAAAT
Statistics
Matches: 179, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
50 98 0.55
51 34 0.19
53 5 0.03
55 2 0.01
56 40 0.22
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:63013205 original size:13 final size:13
Alignment explanation
Indices: 63013184--63013215 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
63013174 GCTTGGATCA
*
63013184 TCATCAAATAAAT
1 TCATAAAATAAAT
63013197 TCATAAAATAAAT
1 TCATAAAATAAAT
63013210 TCATAA
1 TCATAA
63013216 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:63015258 original size:12 final size:11
Alignment explanation
Indices: 63015241--63015275 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
63015231 AACAAATCCT
63015241 CTCTCATATTTC
1 CTCTCA-ATTTC
63015253 CTCTCAA-TTC
1 CTCTCAATTTC
63015263 CTCTCAATTTC
1 CTCTCAATTTC
63015274 CT
1 CT
63015276 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:63015323 original size:51 final size:51
Alignment explanation
Indices: 63015256--63015379 Score: 207
Period size: 51 Copynumber: 2.5 Consensus size: 51
63015246 ATATTTCCTC
*
63015256 TCAA-TTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATG
63015306 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATG
1 TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATG
*
63015357 TCAATTTGCTC-CAAATTTCCTTC
1 TCAATTTCCTCTC-AATTTCCTTC
63015380 TTTAAAATAA
Statistics
Matches: 70, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
50 5 0.07
51 65 0.93
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.42
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATG
Found at i:63017698 original size:45 final size:44
Alignment explanation
Indices: 63017649--63017817 Score: 158
Period size: 45 Copynumber: 3.6 Consensus size: 44
63017639 ATATTTTGAA
* *
63017649 TATTTTGATATTATTTTATGTAAAAAAAATAGAAATTTTTAGAGT
1 TATTTTGATATTATTTGATGT-AATAAAATAGAAATTTTTAGAGT
* * *
63017694 TATTTTGATATTATTCGATGTAATAAAATAGAAGTTTATTTTATGTAAT
1 TATTTTGATATTATTTGATGTAATAAAATAGAA--AT-TTTTA-G-AGT
* ** * * *
63017743 AAAATAGATGTTTATTTGATGTAATAAAATAGAAATTTTTTCGAGT
1 TATTTTGAT-ATTATTTGATGTAATAAAATAGAAA-TTTTTAGAGT
63017789 TATTTTGATATTATTTGATGTAATTAAAA
1 TATTTTGATATTATTTGATGTAA-TAAAA
63017818 ACCCTACCCC
Statistics
Matches: 97, Mismatches: 19, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
44 11 0.11
45 32 0.33
46 13 0.13
47 6 0.06
48 5 0.05
49 8 0.08
50 22 0.23
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (44 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAATTTTTAGAGT
Found at i:63017739 original size:25 final size:25
Alignment explanation
Indices: 63017704--63017776 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
63017694 TATTTTGATA
*
63017704 TTATTCGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
63017729 TTATTTTATGTAATAAAATAGATGT
1 TTATTTGATGTAATAAAATAGAAGT
63017754 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
63017777 ATTTTTTCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.41
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:63017857 original size:29 final size:29
Alignment explanation
Indices: 63017811--63018104 Score: 504
Period size: 29 Copynumber: 10.2 Consensus size: 29
63017801 ATTTGATGTA
*
63017811 ATTAAAAACCCTACCCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
63017840 ATTAAAAACCCTAACCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
63017869 ATTAAAAACCCT-AGCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
63017897 ATTAAAAACCCCAACCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
63017926 ATTAAAAACCCTAACCCTAACTTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
63017955 ATTAAAAACCCTAACCCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
63017984 ATTAAAAACCCTAACCTTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
63018013 ATTAAAAACCCTAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCCTAACCTAATTTG
63018042 ATTAAAAACCCTAA-CCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
*
63018070 AATAAAAACCCTAA-CCTAACCTAATTTG
1 ATTAAAAACCCTAACCCTAACCTAATTTG
63018098 ATTAAAA
1 ATTAAAA
63018105 TTCCAGTCAT
Statistics
Matches: 251, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
28 72 0.29
29 179 0.71
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (29 bp):
ATTAAAAACCCTAACCCTAACCTAATTTG
Found at i:63017952 original size:86 final size:86
Alignment explanation
Indices: 63017811--63018104 Score: 509
Period size: 86 Copynumber: 3.4 Consensus size: 86
63017801 ATTTGATGTA
*
63017811 ATTAAAAACCCTACCCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGATTAAAA
1 ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGATTAAAA
*
63017876 ACCCTAGCCTAACCTAATTTG
66 ACCCTAACCTAACCTAATTTG
* *
63017897 ATTAAAAACCCCAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACTTAATTTGATTAAAA
1 ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGATTAAAA
63017962 ACCCTAACCCTAACCTAATTTG
66 ACCCTAA-CCTAACCTAATTTG
* *
63017984 ATTAAAAACCCTAACCTTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTAATTAAAA
1 ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGATTAAAA
63018049 ACCCTAACCTAACCTAATTTG
66 ACCCTAACCTAACCTAATTTG
*
63018070 AATAAAAACCCTAA-CCTAACCTAATTTGATTAAAA
1 ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAA
63018105 TTCCAGTCAT
Statistics
Matches: 197, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
85 20 0.10
86 95 0.48
87 82 0.42
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (86 bp):
ATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTGATTAAAA
ACCCTAACCTAACCTAATTTG
Found at i:63020263 original size:126 final size:125
Alignment explanation
Indices: 63019953--63020304 Score: 562
Period size: 126 Copynumber: 2.8 Consensus size: 125
63019943 CCCAAACATG
* *
63019953 CTACTGTAGCAAAAGTGCGTCCAAGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
63020018 TAGAAGCGATTTTATACTATTTGCTCAGAAAAGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
*
63020077 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
63020142 TAGAAGCGATATTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGCC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
*
63020203 CTACTGTAGCAAAAGCGCGTCCACGAGACCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
** ** *
63020268 TAGAAGTTATTTTATACTATTTTATCAGAAACATCAA
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
63020305 CTCGAAATTA
Statistics
Matches: 210, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 95 0.45
125 6 0.03
126 109 0.52
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:63023286 original size:24 final size:24
Alignment explanation
Indices: 63023249--63023321 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
63023239 GGTAAGACAT
63023249 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
* *
63023273 TTTCCACTGTTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
*
63023297 TTTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
63023321 T
1 T
63023322 ATCGATTGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.12, C:0.47, G:0.04, T:0.37
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:63026156 original size:35 final size:33
Alignment explanation
Indices: 63026110--63026175 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 33
63026100 CAAACACCAG
* *
63026110 AAAATATTTTCCTGTAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAG-AAATCATTTTAC-GAAAAGT
63026145 AAAATATTTTCCAGAAATCATTTTACGAAAA
1 AAAATATTTTCCAGAAATCATTTTACGAAAA
63026176 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 11 0.38
35 13 0.45
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (33 bp):
AAAATATTTTCCAGAAATCATTTTACGAAAAGT
Found at i:63038952 original size:5 final size:5
Alignment explanation
Indices: 63038942--63038977 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
63038932 CTAATAAAGG
* *
63038942 ATAAA ATAAA ATAAA ATAAA GTAAC ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
63038978 ACAAGTCAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:63039531 original size:3 final size:3
Alignment explanation
Indices: 63039523--63039558 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
63039513 ATACATGGCT
63039523 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
63039559 GATCGATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:63039546 original size:17 final size:17
Alignment explanation
Indices: 63039526--63039558 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
63039516 CATGGCTATA
63039526 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
63039543 ATAATAATAATAATAA
1 ATAATAATAATAATAA
63039559 GATCGATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:63041750 original size:25 final size:25
Alignment explanation
Indices: 63041716--63041802 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
63041706 GACACACTAT
63041716 AGCTCGCATGAGCTT-CTCGTTATTC
1 AGCTCGCATGAGCTTCCT-GTTATTC
*
63041741 AGCTCGCATGACCTTCCTGTTATTC
1 AGCTCGCATGAGCTTCCTGTTATTC
* * * * *
63041766 AGCTCGGAAGAGCTTACTATT-TAC
1 AGCTCGCATGAGCTTCCTGTTATTC
*
63041790 AGCTCGTATGAGC
1 AGCTCGCATGAGC
63041803 ATACATGAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
24 13 0.25
25 37 0.71
26 2 0.04
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
AGCTCGCATGAGCTTCCTGTTATTC
Found at i:63044998 original size:5 final size:5
Alignment explanation
Indices: 63044988--63045025 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
63044978 AAACTATAAA
*
63044988 TATTT TATTT TATTT TACTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TAT
63045026 AATGAGAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:63049747 original size:15 final size:15
Alignment explanation
Indices: 63049727--63049758 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
63049717 AAGATTTTAG
63049727 AATACAATCCTTTGA
1 AATACAATCCTTTGA
63049742 AATACAATCCTTTGA
1 AATACAATCCTTTGA
63049757 AA
1 AA
63049759 AGAAAATTTT
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:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (15 bp):
AATACAATCCTTTGA
Found at i:63054076 original size:12 final size:12
Alignment explanation
Indices: 63054058--63054091 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
63054048 TTTTGAAAGG
63054058 AAGAAAAATAAA
1 AAGAAAAATAAA
* *
63054070 GAGAAAAAAAAA
1 AAGAAAAATAAA
63054082 AAGAAAAATA
1 AAGAAAAATA
63054092 GATCTTATAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (12 bp):
AAGAAAAATAAA
Found at i:63061113 original size:35 final size:35
Alignment explanation
Indices: 63061067--63061138 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
63061057 ACAGGCCCGG
*
63061067 GTTCCAATCCGGGGGACAATCCAACTAATCCTGTA
1 GTTCCAATCCGGGGGACAATCCAACCAATCCTGTA
* *
63061102 GTTCCAATCCGGGGGACAATCTAACCAGTCCTGTA
1 GTTCCAATCCGGGGGACAATCCAACCAATCCTGTA
63061137 GT
1 GT
63061139 AGTGTCTGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (35 bp):
GTTCCAATCCGGGGGACAATCCAACCAATCCTGTA
Found at i:63064798 original size:50 final size:50
Alignment explanation
Indices: 63064725--63064900 Score: 142
Period size: 50 Copynumber: 3.5 Consensus size: 50
63064715 GGGAATGAGA
* * * * * **
63064725 TCCCATGTAGGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* * *
63064775 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCAATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* * * * * **
63064825 TCCCATGTAAGACCATATCTGGGATATGACATTGGCAGTACAGA--A-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCA-AGATGAGAAC
* *
63064873 ATCCCATGTAAGACTATGTCTGGGACAT
1 -TCCCACGTAAGACCATGTCTGGGACAT
63064901 AGCTTTGGCA
Statistics
Matches: 101, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
48 3 0.03
49 25 0.25
50 71 0.70
51 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
Found at i:63067162 original size:51 final size:51
Alignment explanation
Indices: 63067086--63067184 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
63067076 GAAGATAGCG
* *
63067086 AATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAACCACA
1 AATCTTATTACCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAAACCACA
**
63067137 AATCTTA-TACCCTTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAACC
1 AATCTTATTACCC-TGAAGTTGCAGTGGAACAGATTAAAGCCACAAACC
63067185 TTATCTCCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 4 0.09
51 39 0.91
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (51 bp):
AATCTTATTACCCTGAAGTTGCAGTGGAACAGATTAAAGCCACAAACCACA
Found at i:63067201 original size:44 final size:44
Alignment explanation
Indices: 63067152--63067295 Score: 144
Period size: 44 Copynumber: 3.2 Consensus size: 44
63067142 TATACCCTTG
* *
63067152 AAGTTGCAGTGGAGTAGATTAAAGCCACAAACCTTATCTCCCTG
1 AAGTTGCAGTGGAGTAAATTAAAGCCACAAACCTTATCTCCCTA
* * * * * * * * *
63067196 CAGTTGCAGTAGAGTAAATTGAAGACAGCGAATCTTATTTTCTTA
1 AAGTTGCAGTGGAGTAAATTAAAGCCA-CAAACCTTATCTCCCTA
** * *
63067241 AAGTTGCAGTGGAACAAATTAAAGCTACAAGCCTTATCTCCCTA
1 AAGTTGCAGTGGAGTAAATTAAAGCCACAAACCTTATCTCCCTA
63067285 AAGTTGCAGTG
1 AAGTTGCAGTG
63067296 AAGCAGGTTG
Statistics
Matches: 75, Mismatches: 24, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
44 44 0.59
45 31 0.41
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGGAGTAAATTAAAGCCACAAACCTTATCTCCCTA
Found at i:63067307 original size:89 final size:88
Alignment explanation
Indices: 63067152--63067389 Score: 257
Period size: 88 Copynumber: 2.7 Consensus size: 88
63067142 TATACCCTTG
* * * * *
63067152 AAGTTGCAGTGGAGTAGATTAAAGCCACAAACCTTATCTCCCTGCAGTTGCAGT-AGAGTAAATT
1 AAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAAGTTGCAGTGA-AGCAGATT
**
63067216 GAAGA-CAGCGAATCTTAT-TTTCTTA
65 GAA-ATCA-AAAATCTTATCTTTC-TA
* * * * *
63067241 AAGTTGCAGTGGAACAAATTAAAGCTACAAGCCTTATCTCCCTAAAGTTGCAGTGAAGCAGGTTG
1 AAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTG
*
63067306 AAATTAAAAATCTTATCTTTCTA
66 AAATCAAAAATCTTATCTTTCTA
* ** * *
63067329 AAGTTACAGCAGAGCAGATTAAAGCTATAAACCTCATCTCCCTGAAGTTGCAGTGAAGCAG
1 AAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAG
63067390 TTGCAGCGAA
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
88 63 0.51
89 60 0.48
90 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (88 bp):
AAGTTGCAGTGGAGCAGATTAAAGCTACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTG
AAATCAAAAATCTTATCTTTCTA
Found at i:63067321 original size:44 final size:44
Alignment explanation
Indices: 63067239--63067389 Score: 137
Period size: 44 Copynumber: 3.4 Consensus size: 44
63067229 CTTATTTTCT
* * *
63067239 TAAAGTTGCAGTGGAA-CAAATTAAAGCTACAAGCCTTATCTCCC
1 TAAAGTTGCAGT-GAAGCAGATTAAAGCTAAAAACCTTATCTCCC
* * * **
63067283 TAAAGTTGCAGTGAAGCAGGTTGAAA-TTAAAAATCTTATCTTTC
1 TAAAGTTGCAGTGAAGCAGATT-AAAGCTAAAAACCTTATCTCCC
* * * *
63067327 TAAAGTTACAG-CAGAGCAGATTAAAGCTATAAACCTCATCTCCC
1 TAAAGTTGCAGTGA-AGCAGATTAAAGCTAAAAACCTTATCTCCC
*
63067371 TGAAGTTGCAGTGAAGCAG
1 TAAAGTTGCAGTGAAGCAG
63067390 TTGCAGCGAA
Statistics
Matches: 82, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
43 7 0.09
44 71 0.87
45 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (44 bp):
TAAAGTTGCAGTGAAGCAGATTAAAGCTAAAAACCTTATCTCCC
Found at i:63067695 original size:153 final size:153
Alignment explanation
Indices: 63067361--63067687 Score: 654
Period size: 153 Copynumber: 2.1 Consensus size: 153
63067351 AGCTATAAAC
63067361 CTCATCTCCCTGAAGTTGCAGTGAAGCAGTTGCAGCGAAGCATACTAAAGTGAACTAATCCAATA
1 CTCATCTCCCTGAAGTTGCAGTGAAGCAGTTGCAGCGAAGCATACTAAAGTGAACTAATCCAATA
63067426 CCTCTGAAGTTGTAGTAGGTTGGATTAAATCTACCATAGCAAGTCTTATATCCCTAATGTTGTAG
66 CCTCTGAAGTTGTAGTAGGTTGGATTAAATCTACCATAGCAAGTCTTATATCCCTAATGTTGTAG
63067491 TGGAGCAGACTAAAACCACAAAT
131 TGGAGCAGACTAAAACCACAAAT
63067514 CTCATCTCCCTGAAGTTGCAGTGAAGCAGTTGCAGCGAAGCATACTAAAGTGAACTAATCCAATA
1 CTCATCTCCCTGAAGTTGCAGTGAAGCAGTTGCAGCGAAGCATACTAAAGTGAACTAATCCAATA
63067579 CCTCTGAAGTTGTAGTAGGTTGGATTAAATCTACCATAGCAAGTCTTATATCCCTAATGTTGTAG
66 CCTCTGAAGTTGTAGTAGGTTGGATTAAATCTACCATAGCAAGTCTTATATCCCTAATGTTGTAG
63067644 TGGAGCAGACTAAAACCACAAAT
131 TGGAGCAGACTAAAACCACAAAT
63067667 CTCATCTCCCTGAAGTTGCAG
1 CTCATCTCCCTGAAGTTGCAG
63067688 CAGAGCAGAT
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 174 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (153 bp):
CTCATCTCCCTGAAGTTGCAGTGAAGCAGTTGCAGCGAAGCATACTAAAGTGAACTAATCCAATA
CCTCTGAAGTTGTAGTAGGTTGGATTAAATCTACCATAGCAAGTCTTATATCCCTAATGTTGTAG
TGGAGCAGACTAAAACCACAAAT
Found at i:63073927 original size:30 final size:31
Alignment explanation
Indices: 63073872--63073973 Score: 102
Period size: 29 Copynumber: 3.4 Consensus size: 31
63073862 GGCCTAACTT
*
63073872 AAATTTTCAAAAAATCTAGAGGGTTTAATGA
1 AAATTTTCAAAAAAACTAGAGGGTTTAATGA
* * * *
63073903 GAATTTTCAAAAAAAGTTGA-GGTTTAATTA
1 AAATTTTCAAAAAAACTAGAGGGTTTAATGA
* * *
63073933 AAATTTT-AAAAAAATTA-AGGGCTTAAAGA
1 AAATTTTCAAAAAAACTAGAGGGTTTAATGA
*
63073962 AAATTTCCAAAA
1 AAATTTTCAAAA
63073974 TATTTGGGAG
Statistics
Matches: 57, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
28 1 0.02
29 21 0.37
30 19 0.33
31 16 0.28
ACGTcount: A:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (31 bp):
AAATTTTCAAAAAAACTAGAGGGTTTAATGA
Found at i:63094320 original size:50 final size:50
Alignment explanation
Indices: 63094245--63094343 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
63094235 TACACCAAAA
*
63094245 TACCTCTTATTCCTTTGTCTCCATATCACATACAAATATGCATTCCAAGT
1 TACCTCTTATTCCTCTGTCTCCATATCACATACAAATATGCATTCCAAGT
* *
63094295 TACCTCTTGTTCCTCTGTCTCCATATCATATACAAATATGCATTCCAAG
1 TACCTCTTATTCCTCTGTCTCCATATCACATACAAATATGCATTCCAAG
63094344 CAAGCTTGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.27, C:0.28, G:0.07, T:0.37
Consensus pattern (50 bp):
TACCTCTTATTCCTCTGTCTCCATATCACATACAAATATGCATTCCAAGT
Found at i:63097456 original size:27 final size:27
Alignment explanation
Indices: 63097415--63097470 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
63097405 AAACAACAAA
63097415 CATCAATCTTAAATCTAACTAACCTAT
1 CATCAATCTTAAATCTAACTAACCTAT
* *
63097442 CATCAATTTTCAATCTAACTAACCTAT
1 CATCAATCTTAAATCTAACTAACCTAT
63097469 CA
1 CA
63097471 ATTATAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (27 bp):
CATCAATCTTAAATCTAACTAACCTAT
Found at i:63101492 original size:18 final size:18
Alignment explanation
Indices: 63101469--63101522 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
63101459 AATTTTTATG
63101469 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
*
63101487 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
63101505 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
63101523 TTAGGTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 22 0.71
19 9 0.29
ACGTcount: A:0.11, C:0.02, G:0.46, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:63103708 original size:32 final size:32
Alignment explanation
Indices: 63103669--63103732 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
63103659 GTAGATAAAT
63103669 ATTTTATTAATTTAATAAGATTTAATATGAAA
1 ATTTTATTAATTTAATAAGATTTAATATGAAA
63103701 ATTTTATTAATTTAATAAGATTTAATATGAAA
1 ATTTTATTAATTTAATAAGATTTAATATGAAA
63103733 TTTAATCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (32 bp):
ATTTTATTAATTTAATAAGATTTAATATGAAA
Found at i:63111118 original size:28 final size:26
Alignment explanation
Indices: 63111066--63111120 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
63111056 ATATAAATTG
63111066 AAAATAAAAATAACAAATTTAGTTAA
1 AAAATAAAAATAACAAATTTAGTTAA
* *
63111092 AAAATAAAACATAAATAAATTTGGTTAA
1 AAAATAAAA-AT-AACAAATTTAGTTAA
63111120 A
1 A
63111121 TTTTTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.36
27 2 0.08
28 14 0.56
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAATAAAAATAACAAATTTAGTTAA
Found at i:63122057 original size:33 final size:33
Alignment explanation
Indices: 63121999--63122066 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 33
63121989 TTGGGTTAAG
* *
63121999 AGGGAAAAGATGAAAAAATATAAGAAAGAAAGAA
1 AGGGAAAAAAAGAAAAAATATAAGAAAGAAA-AA
* *
63122033 AGGGAAAAAAAGAAAAATTA-AAGAAATAAAAA
1 AGGGAAAAAAAGAAAAAATATAAGAAAGAAAAA
63122065 AG
1 AG
63122067 AAATTAGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 4 0.13
33 9 0.30
34 17 0.57
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (33 bp):
AGGGAAAAAAAGAAAAAATATAAGAAAGAAAAA
Found at i:63126586 original size:12 final size:12
Alignment explanation
Indices: 63126569--63126593 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63126559 TAAACTGTTT
63126569 TTATTATTACTA
1 TTATTATTACTA
63126581 TTATTATTACTA
1 TTATTATTACTA
63126593 T
1 T
63126594 AATGATGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:63127039 original size:29 final size:27
Alignment explanation
Indices: 63127006--63127097 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 27
63126996 ATTTCTATAG
63127006 TTTTTTATACTTTAAATATTTTTTTTATT
1 TTTTTTATACTTT--ATATTTTTTTTATT
* ** *
63127035 TTTTTAATAACTTTTATATTTTTCCTATA
1 TTTTTTAT-AC-TTTATATTTTTTTTATT
* *
63127064 TTTTTTATAATTTTTATTTTATTTTATT
1 TTTTTTATACTTTATATTTT-TTTTATT
*
63127092 TATTTT
1 TTTTTT
63127098 CATTTTTATC
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
27 9 0.18
28 10 0.20
29 25 0.51
30 2 0.04
31 3 0.06
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTTTATACTTTATATTTTTTTTATT
Found at i:63127043 original size:20 final size:20
Alignment explanation
Indices: 63127021--63127097 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
63127011 TATACTTTAA
63127021 ATATTTTTTTTATTTTT-TT
1 ATATTTTTTTTATTTTTATT
** * **
63127040 AATAACTTTTATATTTTTCCT
1 -ATATTTTTTTTATTTTTATT
*
63127061 ATATTTTTTATAATTTTTATT
1 ATATTTTTT-TTATTTTTATT
* *
63127082 TTATTTTATTTATTTT
1 ATATTTTTTTTATTTT
63127098 CATTTTTATC
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
ATATTTTTTTTATTTTTATT
Found at i:63127240 original size:10 final size:10
Alignment explanation
Indices: 63127168--63127251 Score: 54
Period size: 9 Copynumber: 8.9 Consensus size: 10
63127158 CTTTAAATAT
63127168 TATATTTTTA
1 TATATTTTTA
*
63127178 TA-ATTTCTA
1 TATATTTTTA
*
63127187 -AT-TTTTTC
1 TATATTTTTA
63127195 TA-ATTTTTA
1 TATATTTTTA
* *
63127204 AATAAATTTTA
1 TAT-ATTTTTA
* *
63127215 AATATTTTTC
1 TATATTTTTA
63127225 TATATTTTTA
1 TATATTTTTA
*
63127235 TTTA-TTTTA
1 TATATTTTTA
63127244 -ATATTTTT
1 TATATTTTT
63127252 TTGTTTTTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
8 7 0.12
9 22 0.39
10 18 0.32
11 9 0.16
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (10 bp):
TATATTTTTA
Found at i:63128748 original size:34 final size:35
Alignment explanation
Indices: 63128690--63128756 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 35
63128680 CAAACACCAG
63128690 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
63128725 AAAATATTTTTCC-G-AAATCATTTTACGGAAAA
1 AAAATA-TTTTCCAGTAAATCATTTTACAGAAAA
63128757 TATTTTACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 17 0.57
35 7 0.23
36 6 0.20
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:63130233 original size:29 final size:29
Alignment explanation
Indices: 63130185--63130241 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
63130175 TTTTAGGTTA
*
63130185 TTATTATTTTAAATATATATAATATAAAC
1 TTATTATTTTAAATATATATAAAATAAAC
63130214 TTATATATTTATAAA-A-ATATAAAATAAA
1 TTAT-TATTT-TAAATATATATAAAATAAA
63130242 TACAATTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 15 0.60
30 6 0.24
31 4 0.16
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
TTATTATTTTAAATATATATAAAATAAAC
Found at i:63130323 original size:15 final size:16
Alignment explanation
Indices: 63130285--63130325 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
63130275 TTTGAAAACT
63130285 AAATTAAAA-AATATA
1 AAATTAAAATAATATA
*
63130300 ATATATAAAATAATA-A
1 AAAT-TAAAATAATATA
63130316 AAATTAAAAT
1 AAATTAAAAT
63130326 TTTAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTAAAATAATATA
Found at i:63130343 original size:35 final size:40
Alignment explanation
Indices: 63130284--63130370 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 40
63130274 TTTTGAAAAC
* * *
63130284 TAAATTAAAAAATATAATATATAAAATAA-TAAAAA-TTA
1 TAAATTTATAAATATAATATATAAAAGAATTAAAAATTTA
63130322 -AAATTT-TAAATA-AATATATAAAAGAATTAAAAATTTA
1 TAAATTTATAAATATAATATATAAAAGAATTAAAAATTTA
63130359 TAAATTTATAAA
1 TAAATTTATAAA
63130371 ATTTATAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 13 0.31
36 11 0.26
37 8 0.19
38 6 0.14
39 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (40 bp):
TAAATTTATAAATATAATATATAAAAGAATTAAAAATTTA
Found at i:63130349 original size:29 final size:27
Alignment explanation
Indices: 63130317--63130371 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
63130307 AAATAATAAA
*
63130317 AATTAAAATTTTAAATAAATATATAAAAG
1 AATTAAAAATTT--ATAAATATATAAAAG
*
63130346 AATTAAAAATTTATAAATTTATAAAA
1 AATTAAAAATTTATAAATATATAAAA
63130372 TTTATAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
29 11 0.46
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
AATTAAAAATTTATAAATATATAAAAG
Found at i:63130515 original size:24 final size:25
Alignment explanation
Indices: 63130462--63130516 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
63130452 TTTATTAATT
63130462 TATATATTTTAAATTTTCAAAAAAA
1 TATATATTTTAAATTTTCAAAAAAA
* *
63130487 TATAT-TTTTAAGTTTT-AAAATAA
1 TATATATTTTAAATTTTCAAAAAAA
63130510 TAATATA
1 T-ATATA
63130517 AATGGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 7 0.27
24 14 0.54
25 5 0.19
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TATATATTTTAAATTTTCAAAAAAA
Found at i:63131713 original size:29 final size:29
Alignment explanation
Indices: 63131649--63131713 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
63131639 GATTTCGGGG
*
63131649 AAAAT-GGCCCATTCCGGTAAATAATAAA
1 AAAATAGGCCCATTCCGATAAATAATAAA
* * * **
63131677 ATACTAGGCCCATTTCGATAAATTTTAAA
1 AAAATAGGCCCATTCCGATAAATAATAAA
63131706 AAAATAGG
1 AAAATAGG
63131714 ACTTTTATGT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (29 bp):
AAAATAGGCCCATTCCGATAAATAATAAA
Found at i:63135594 original size:15 final size:16
Alignment explanation
Indices: 63135574--63135609 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
63135564 GATGCCATTC
63135574 TTTTTTTCTTTTTCT-
1 TTTTTTTCTTTTTCTA
*
63135589 TTTTTTTTTTTTTCTA
1 TTTTTTTCTTTTTCTA
63135605 TTTTT
1 TTTTT
63135610 AGGTCACGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.03, C:0.08, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTTTCTTTTTCTA
Found at i:63135609 original size:14 final size:14
Alignment explanation
Indices: 63135571--63135599 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
63135561 TTGGATGCCA
63135571 TTCTTTTTTTCTTT
1 TTCTTTTTTTCTTT
63135585 TTCTTTTTTT-TTT
1 TTCTTTTTTTCTTT
63135598 TT
1 TT
63135600 TTCTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTCTTTTTTTCTTT
Found at i:63137236 original size:239 final size:226
Alignment explanation
Indices: 63136759--63137284 Score: 578
Period size: 227 Copynumber: 2.3 Consensus size: 226
63136749 ATATGTTACA
* * *
63136759 ATAA-AAAAAATATAGTATTACATGATATTATAATCTTTAATCATTGATGCATATATATAAACTA
1 ATAATAAAAGATATAATATTACAT-ATATTATAATGTTTAATCATTGATGCATATATATAAACTA
* * **
63136823 TTAATATATGATATGATATGATATAACATTATATAATATAGTAGGAGGGTTATTTTTTTAGTGTA
65 TTAATATATGATATGATATGATATAACATTATATAATATAGTAGGAGGGCTACTTTCATAGTGTA
* * * * *
63136888 CGAAAAGTATAGACTTGGAGCATATTTCAACTAGCATAATAACAAACAATAATATATGATGTACT
130 CAAAAACTATAGACTTAGAGCATATTTCAACCAGCATAATAACAAACAATAATATATGATGTAAT
* *
63136953 AGTACTATTATATATAACTATTATTATAATTT
195 AGTAATATTATATATAACTATTATTATAATAT
*
63136985 ATAATAAAAGATATAATATTACATAATATTATAATGTTTAATCATTGGTGCATATATATAAACTA
1 ATAATAAAAGATATAATATTACAT-ATATTATAATGTTTAATCATTGATGCATATATATAAACTA
* *
63137050 TTAACATATTATATACTATATGATATGATATAACATTATATAATATAGTAGGATGGCTACCTTTC
65 TT---A-A-TATAT--GATATGATATGATATAACATTATATAATATAGTAGGAGGGCTA-CTTTC
* *
63137115 ATA-TGTACAAAAACTATAGGGACTTAGAGCATATTTCAACCAGTATAATAATAAACAATAATAT
122 ATAGTGTACAAAAACTATA--GACTTAGAGCATATTTCAACCAGCATAATAACAAACAATAATAT
* * *
63137179 ATG-T-TAATAATTAATATATAATGTATTACTATTAGATTATAGA-AT
185 ATGATGTAAT-AGTAATAT-T-ATATATAACTATT--ATTATA-ATAT
** * * * * **
63137224 ATAATAAAAGATACCATGTTACAT-TATTTTAAAGTTCAATCATTGAACCATATATATAAAC
1 ATAATAAAAGATATAATATTACATATATTATAATGTTTAATCATTGATGCATATATATAAAC
63137285 CAATGGCGAA
Statistics
Matches: 251, Mismatches: 32, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
226 4 0.02
227 57 0.23
230 1 0.00
231 1 0.00
232 5 0.02
234 56 0.22
235 12 0.05
236 44 0.18
237 42 0.17
239 28 0.11
240 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (226 bp):
ATAATAAAAGATATAATATTACATATATTATAATGTTTAATCATTGATGCATATATATAAACTAT
TAATATATGATATGATATGATATAACATTATATAATATAGTAGGAGGGCTACTTTCATAGTGTAC
AAAAACTATAGACTTAGAGCATATTTCAACCAGCATAATAACAAACAATAATATATGATGTAATA
GTAATATTATATATAACTATTATTATAATAT
Found at i:63138624 original size:23 final size:23
Alignment explanation
Indices: 63138583--63138645 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
63138573 GGTATGTATT
*
63138583 AAAATAAAATGAATTATTATCTT-C
1 AAAATTAAAT-AATTATTA-CTTAC
*
63138607 AAAATTAAATAATTATTACTTAT
1 AAAATTAAATAATTATTACTTAC
*
63138630 AAAATTTAA-AATTATT
1 AAAATTAAATAATTATT
63138646 TGAATCTGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.29
23 16 0.46
24 9 0.26
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAATTAAATAATTATTACTTAC
Found at i:63140213 original size:23 final size:23
Alignment explanation
Indices: 63140178--63140225 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
63140168 GCTGCAATCT
** *
63140178 TTTTTTTTTCTATTTTCTTGTTA
1 TTTTTTTCACTATTATCTTGTTA
*
63140201 TTTTTTTCACTATTATGTTGTTA
1 TTTTTTTCACTATTATCTTGTTA
63140224 TT
1 TT
63140226 ATATAACTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.12, C:0.08, G:0.06, T:0.73
Consensus pattern (23 bp):
TTTTTTTCACTATTATCTTGTTA
Found at i:63149612 original size:11 final size:11
Alignment explanation
Indices: 63149592--63149621 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
63149582 TTAAAAAATA
63149592 AAAAAGTATTTT
1 AAAAA-TATTTT
63149604 AAAAATATTTT
1 AAAAATATTTT
63149615 AAAAATA
1 AAAAATA
63149622 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:63151675 original size:16 final size:16
Alignment explanation
Indices: 63151656--63151686 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63151646 TAGTTTTATT
63151656 CAATTACAACTCTATC
1 CAATTACAACTCTATC
*
63151672 CAATTACAGCTCTAT
1 CAATTACAACTCTAT
63151687 TTTATTACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (16 bp):
CAATTACAACTCTATC
Found at i:63156182 original size:778 final size:778
Alignment explanation
Indices: 63154688--63156238 Score: 2561
Period size: 778 Copynumber: 2.0 Consensus size: 778
63154678 CACTTGACAC
* * * *
63154688 TTGTTGGGATAGAACTCAAATAGAACATGATTGTCCTTCGCAAATTTCGACACAGACAGGAGGTT
1 TTGTTGGGAAAGAACTCAAACAAAACATGATTGTCCTTCGCAAATTTCGACACAAACAGGAGGTT
* * * * *
63154753 TTTAGTGATGTTAGGTATAAATAAAAGAGTTACATATAAAGTGGACGAGAACAAGTGAGTAAGGA
66 TTTAGTGATGTTAGGCACAAATAAAAGAGTCACAGATAAAGTGGACGAGAACAAGTGAGTAAGAA
* *
63154818 TAATTGACTAGTGCGAATAATAGGTAGACCAGCACCATTACCCACATATACCATACTTGAACCAT
131 TAATTGACCAGTGCGAATAATAGGTAGACCAGCACCATTACCCACATATACCATACCTGAACCAT
* *
63154883 TATAAGGAGTGTTATAACTCATTGAAGTAACAAAATGAGTAGGATGATGAGTAACCTCAGAATCA
196 TATAAGGAGTGTTATAACTCATTGAAGCAACAAAATGAGTAAGATGATGAGTAACCTCAGAATCA
63154948 GGAAACCAGACATGGTCTCCTACAGTGTCTGGAGTGGCAACATAAGCTTGTGAGTTGGATGATAG
261 GGAAACCAGACATGGTCTCCTACAGTGTCTGGAGTGGCAACATAAGCTTGTGAGTTGGATGATAG
* * *
63155013 TGCAGGCATTTGTTATGTAGATGTAGGAGATGAGCATGACTAATGTTGCGATGGTGGAAATGAGG
326 TGCAAGCATTTGTTATGTAGATGTAAGAGATGAGCATGACCAATGTTGCGATGGTGGAAATGAGG
* * *
63155078 AACCCCAACTGTCTTGAGAGTTCAACACCAGAGAAAAAACTGGTAAATGAGAGCTATATGGAGGC
391 AACCCCAACTATCTTGAGAGTTCAACACCAGAGAAAAAACTAGTAAATGAGAGCTATATAGAGGC
* *
63155143 ATTCAAGGCATGGATACTCCATTACCAAACATGCACATGTTAGCTTATGGAGGAGGCTGAGAAGC
456 ATTCAAGGCATGGATACTCCATTACCAAAAATGCACATGTTAGCTTATGAAGGAGGCTGAGAAGC
* *
63155208 TGTACTCTTGTATGTAGTGTCAAATCGATGATAACAATGATCCACAAGATGACCAATTTTTCCTT
521 TGTACTCTTGTATGTAGTGTCAAATCGATGATAACAATGATCCACAAGATGACCAATTTTCCCTC
* ** *
63155273 ATAGTTGACATTGAATACGTGAGCTAAATGAGTGTCCATGTCCACGACCACGTCTAGAAGCATAG
586 AGAGTTGACATTGAATACGTGAGCTAAATGAGTGTCCACATCCACGACCACGTCCAGAAGCATAG
*
63155338 GTGAGACAATATAGTGGCGGTTGAGTACTAGTAGCAGAGTCAACTGACTGAGTGGTAACTATATT
651 GTGAGACAATATAGTGGCGGTTGAGTACTAGCAGCAGAGTCAACTGACTGAGTGGTAACTATATT
*
63155403 GGTAGAGCTAAACACATCAACCAACGTAGTTTGTAATCTGGCTTCAGCGTCAAGAAGCGTAGT
716 GGTAGAGCGAAACACATCAACCAACGTAGTTTGTAATCTGGCTTCAGCGTCAAGAAGCGTAGT
*
63155466 TTGTTGGGAAAGAACTCAAACAAAACCTGATTGTCCTTCGCAAATTTCGACACAAACAGGAGGTT
1 TTGTTGGGAAAGAACTCAAACAAAACATGATTGTCCTTCGCAAATTTCGACACAAACAGGAGGTT
*
63155531 TTTAGTGATGTTAGGCACAAATAAAAGAGATCGCAGATAAAGTGGACGAGAACAAGTGAGTAAGA
66 TTTAGTGATGTTAGGCACAAATAAAAGAG-TCACAGATAAAGTGGACGAGAACAAGTGAGTAAGA
*
63155596 ATGATTGACCAGTGCGAATAATAGGTAGACCAGCACCATTACCCACATATACCATACCTGAACCA
130 ATAATTGACCAGTGCGAATAATAGGTAGACCAGCACCATTACCCACATATACCATACCTGAACCA
* * * *
63155661 TTATAGGGAGTGTTGTCACTCATTGAAGCAACAAAATGAGTAAGATGATGAGTAGCC-CTAGAAT
195 TTATAAGGAGTGTTATAACTCATTGAAGCAACAAAATGAGTAAGATGATGAGTAACCTC-AGAAT
* * * *
63155725 C-GAGATACTAGGCATTGTCTCCTACAGTGTCTGGAGTGGCAACATAAGCTTGTGAGTTGGATGA
259 CAG-GAAACCAGACATGGTCTCCTACAGTGTCTGGAGTGGCAACATAAGCTTGTGAGTTGGATGA
* * **
63155789 TGGTGCAAGCATTTGTTGTGTAGATGTAAGAGATGAGTGTGACCAAT-TTGCGATGGTGGAAATG
323 TAGTGCAAGCATTTGTTATGTAGATGTAAGAGATGAGCATGACCAATGTTGCGATGGTGGAAATG
* *
63155853 AGGAACCCTAACTATCTTGAGAGTTCAACACCAGAGAAAAAACTAGTAAATGAGAGTTATATAGA
388 AGGAACCCCAACTATCTTGAGAGTTCAACACCAGAGAAAAAACTAGTAAATGAGAGCTATATAGA
* * *
63155918 GGCATTCAAGGCATGGATACTCTATTACCAAAAATGCACATGTTAGCTTGTGAAGGAGGCTGATA
453 GGCATTCAAGGCATGGATACTCCATTACCAAAAATGCACATGTTAGCTTATGAAGGAGGCTGAGA
63155983 AGCTGTACTCTTGTATGTAGTGTCAAATCGATGATAACAATGATCCACAAGATGACCAATTTTCC
518 AGCTGTACTCTTGTATGTAGTGTCAAATCGATGATAACAATGATCCACAAGATGACCAATTTTCC
* *
63156048 CTCAGAGTTGACATTGAATACGTGAGCTAGATGAGTGTCCACATCCACGACCATGTCCAGAAGCA
583 CTCAGAGTTGACATTGAATACGTGAGCTAAATGAGTGTCCACATCCACGACCACGTCCAGAAGCA
*
63156113 TAGGCTG-GACAATATAGTGGTGGTTGAGTACTAGCAGCAGAGTCAACTGACTGAGTGGTAACTA
648 TAGG-TGAGACAATATAGTGGCGGTTGAGTACTAGCAGCAGAGTCAACTGACTGAGTGGTAACTA
*
63156177 TATTGGTAGAGCGAAACACATCAACCAACGTAGTTTGTAATTTGGCTTCAGCGTCAAGAAGC
712 TATTGGTAGAGCGAAACACATCAACCAACGTAGTTTGTAATCTGGCTTCAGCGTCAAGAAGC
63156239 ATAATTGTAA
Statistics
Matches: 716, Mismatches: 53, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
778 467 0.65
779 249 0.35
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (778 bp):
TTGTTGGGAAAGAACTCAAACAAAACATGATTGTCCTTCGCAAATTTCGACACAAACAGGAGGTT
TTTAGTGATGTTAGGCACAAATAAAAGAGTCACAGATAAAGTGGACGAGAACAAGTGAGTAAGAA
TAATTGACCAGTGCGAATAATAGGTAGACCAGCACCATTACCCACATATACCATACCTGAACCAT
TATAAGGAGTGTTATAACTCATTGAAGCAACAAAATGAGTAAGATGATGAGTAACCTCAGAATCA
GGAAACCAGACATGGTCTCCTACAGTGTCTGGAGTGGCAACATAAGCTTGTGAGTTGGATGATAG
TGCAAGCATTTGTTATGTAGATGTAAGAGATGAGCATGACCAATGTTGCGATGGTGGAAATGAGG
AACCCCAACTATCTTGAGAGTTCAACACCAGAGAAAAAACTAGTAAATGAGAGCTATATAGAGGC
ATTCAAGGCATGGATACTCCATTACCAAAAATGCACATGTTAGCTTATGAAGGAGGCTGAGAAGC
TGTACTCTTGTATGTAGTGTCAAATCGATGATAACAATGATCCACAAGATGACCAATTTTCCCTC
AGAGTTGACATTGAATACGTGAGCTAAATGAGTGTCCACATCCACGACCACGTCCAGAAGCATAG
GTGAGACAATATAGTGGCGGTTGAGTACTAGCAGCAGAGTCAACTGACTGAGTGGTAACTATATT
GGTAGAGCGAAACACATCAACCAACGTAGTTTGTAATCTGGCTTCAGCGTCAAGAAGCGTAGT
Found at i:63156417 original size:15 final size:15
Alignment explanation
Indices: 63156399--63156429 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63156389 TAGTCTTTAT
63156399 TTTCATCAAAAAATC
1 TTTCATCAAAAAATC
*
63156414 TTTCATCAATAAATC
1 TTTCATCAAAAAATC
63156429 T
1 T
63156430 CTCTTTCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTCATCAAAAAATC
Found at i:63157052 original size:28 final size:27
Alignment explanation
Indices: 63157012--63157066 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
63157002 TAAAATTGCT
63157012 AAGTTGTTCAACAAACTAACTTCTTTAA
1 AAGTTGTTCAAC-AACTAACTTCTTTAA
* * * *
63157040 AAGTTTTTTAACAGCTAGCTTCTTTAA
1 AAGTTGTTCAACAACTAACTTCTTTAA
63157067 CAGTCTAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (27 bp):
AAGTTGTTCAACAACTAACTTCTTTAA
Found at i:63157067 original size:16 final size:17
Alignment explanation
Indices: 63157046--63157078 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
63157036 TTAAAAGTTT
63157046 TTTAACAG-CTAGCTTC
1 TTTAACAGTCTAGCTTC
63157062 TTTAACAGTCTAGCTTC
1 TTTAACAGTCTAGCTTC
63157079 AGAACTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (17 bp):
TTTAACAGTCTAGCTTC
Found at i:63157163 original size:14 final size:16
Alignment explanation
Indices: 63157139--63157174 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
63157129 TATTTACTCT
63157139 AAAAATCATTT-TTAA
1 AAAAATCATTTATTAA
63157154 AAAAAT-ATTTATTAA
1 AAAAATCATTTATTAA
63157169 AAAAAT
1 AAAAAT
63157175 TTAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAAATCATTTATTAA
Found at i:63165964 original size:25 final size:25
Alignment explanation
Indices: 63165928--63165982 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
63165918 TTAAATAAGT
63165928 ATAAATATTTTTAGTTG-ATATTTTA
1 ATAAATATTTTTAG-TGAATATTTTA
63165953 ATAAA-ATGTTTTAGTGAATATTTTA
1 ATAAATAT-TTTTAGTGAATATTTTA
63165978 ATAAA
1 ATAAA
63165983 GAAGCTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (25 bp):
ATAAATATTTTTAGTGAATATTTTA
Found at i:63166322 original size:11 final size:11
Alignment explanation
Indices: 63166305--63166338 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
63166295 TTTAAAAGAA
63166305 AGGTATTTTTT
1 AGGTATTTTTT
*
63166316 GGGTATTTTTT
1 AGGTATTTTTT
*
63166327 ATGTATTTTTT
1 AGGTATTTTTT
63166338 A
1 A
63166339 AAGGTAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (11 bp):
AGGTATTTTTT
Found at i:63174145 original size:15 final size:15
Alignment explanation
Indices: 63174125--63174160 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
63174115 TCTTTTTATC
*
63174125 ATTATTATTATTGCT
1 ATTATTATTATTCCT
63174140 ATTATTATTATTCCT
1 ATTATTATTATTCCT
63174155 ATTATT
1 ATTATT
63174161 TCATGTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTATTATTATTCCT
Found at i:63183515 original size:18 final size:19
Alignment explanation
Indices: 63183480--63183519 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
63183470 TTAATTTTAG
*
63183480 TTTTCACAATTTCCTTAAA
1 TTTTCACAATTTCATTAAA
*
63183499 TTTTCAC-ATTTTATTAAA
1 TTTTCACAATTTCATTAAA
63183517 TTT
1 TTT
63183520 AATCCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTCACAATTTCATTAAA
Found at i:63191741 original size:12 final size:12
Alignment explanation
Indices: 63191724--63191748 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63191714 GGTGTTCAGT
63191724 CGGTTAACCGAC
1 CGGTTAACCGAC
63191736 CGGTTAACCGAC
1 CGGTTAACCGAC
63191748 C
1 C
63191749 CGAAATTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:63191923 original size:9 final size:9
Alignment explanation
Indices: 63191909--63192025 Score: 162
Period size: 9 Copynumber: 12.6 Consensus size: 9
63191899 TTTGGTTAAA
63191909 AATTACCCG
1 AATTACCCG
63191918 AATTACCCG
1 AATTACCCG
63191927 AATTACCCG
1 AATTACCCG
*
63191936 ACTTACCCG
1 AATTACCCG
63191945 AATTACCCG
1 AATTACCCG
*
63191954 ACTTACCCG
1 AATTACCCG
63191963 AATTACCCG
1 AATTACCCG
63191972 AATTACCCG
1 AATTACCCG
* *
63191981 AAAATTATCCA
1 --AATTACCCG
63191992 AATTACCCG
1 AATTACCCG
63192001 AATTACCCG
1 AATTACCCG
63192010 AAAATTACCCG
1 --AATTACCCG
63192021 AATTA
1 AATTA
63192026 AATCACTACA
Statistics
Matches: 96, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
9 80 0.83
11 16 0.17
ACGTcount: A:0.36, C:0.32, G:0.09, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:63192054 original size:17 final size:17
Alignment explanation
Indices: 63192032--63192092 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
63192022 ATTAAATCAC
63192032 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
63192049 TACATAAATCTTTGAATCAC
1 TACAT-AA--TTAAAAACAT
*
63192069 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
63192086 TACATAA
1 TACATAA
63192093 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 17 0.53
18 2 0.06
19 2 0.06
20 11 0.34
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:63192074 original size:20 final size:20
Alignment explanation
Indices: 63192049--63192112 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
63192039 TTAAAAACAT
63192049 TACATAAATCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
*** *
63192069 TACAT-AAT-TAAAAAT-AT
1 TACATAAATCTTTGAATCAC
*
63192086 TACATAAGTCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
63192106 TACATAA
1 TACATAA
63192113 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 7 0.22
20 13 0.41
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
TACATAAATCTTTGAATCAC
Found at i:63192132 original size:37 final size:37
Alignment explanation
Indices: 63192026--63192138 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
63192016 ACCCGAATTA
* *
63192026 AATCACTACATAATTAAAAACATTACATAAATCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
63192063 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
63192100 AATCACTACATAATTAAAAATATTACACAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
63192136 AAT
1 AAT
63192139 TAAAACATAA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 6 0.08
37 67 0.92
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:63192206 original size:24 final size:24
Alignment explanation
Indices: 63192179--63192237 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
63192169 ATTCTCCATT
*
63192179 TATATCCATTTCATCTTTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
63192203 TATATTCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
63192227 TATCTCCATTT
1 TATATCCATTT
63192238 GCATTAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:63195321 original size:16 final size:16
Alignment explanation
Indices: 63195300--63195333 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
63195290 TTTTTTTTCT
*
63195300 TACATTAATTATAATA
1 TACATTAATTACAATA
63195316 TACATTAATTACAATA
1 TACATTAATTACAATA
63195332 TA
1 TA
63195334 TTCAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
TACATTAATTACAATA
Found at i:63196249 original size:16 final size:17
Alignment explanation
Indices: 63196228--63196268 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
63196218 GCCTAAGAGA
63196228 AAATTGGGCT-GGATTT
1 AAATTGGGCTGGGATTT
*
63196244 AAATTGGGCTGGGTTTT
1 AAATTGGGCTGGGATTT
63196261 AAATTGGG
1 AAATTGGG
63196269 AGGGAGTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.24, C:0.05, G:0.34, T:0.37
Consensus pattern (17 bp):
AAATTGGGCTGGGATTT
Found at i:63197426 original size:12 final size:11
Alignment explanation
Indices: 63197389--63197448 Score: 50
Period size: 12 Copynumber: 5.2 Consensus size: 11
63197379 AATTAAAAAT
*
63197389 ATAATAATGACA
1 ATAATAAT-ATA
*
63197401 ATGATAATGATA
1 ATAATAAT-ATA
*
63197413 ATGATAATATTA
1 ATAATAATA-TA
63197425 ATAATAATACTA
1 ATAATAATA-TA
63197437 ATAATAA-ATA
1 ATAATAATATA
63197447 AT
1 AT
63197449 TTAGATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
10 4 0.09
11 2 0.05
12 37 0.86
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (11 bp):
ATAATAATATA
Found at i:63197426 original size:18 final size:18
Alignment explanation
Indices: 63197389--63197432 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
63197379 AATTAAAAAT
63197389 ATAATAATGACAATGATA
1 ATAATAATGACAATGATA
* *
63197407 ATGATAATGATAAT-ATTA
1 ATAATAATGACAATGA-TA
63197425 ATAATAAT
1 ATAATAAT
63197433 ACTAATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAATAATGACAATGATA
Found at i:63197503 original size:17 final size:18
Alignment explanation
Indices: 63197464--63197511 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
63197454 TTTTAAAAAA
63197464 ATAA-AAATAAAA-AGAT
1 ATAATAAATAAAACAGAT
63197480 ATAAATAAATAAAACA-AT
1 AT-AATAAATAAAACAGAT
*
63197498 ATAATAAATTAAAC
1 ATAATAAATAAAAC
63197512 GTGTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 2 0.07
17 13 0.46
18 12 0.43
19 1 0.04
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (18 bp):
ATAATAAATAAAACAGAT
Found at i:63199344 original size:96 final size:95
Alignment explanation
Indices: 63199220--63199527 Score: 314
Period size: 96 Copynumber: 3.3 Consensus size: 95
63199210 TTTGCTATGA
* *
63199220 TCTACTCAACTGCAACTTTAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
1 TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
*
63199285 ACTTCAGGGAAATAAGATTCACTTTCTTCAG
66 AATTCAGGGAAATAAGATTC-CTTTCTTCAG
* * * * *
63199316 TCTACTCCACTGCAACTTCAAAGAGATAAGACTTG-----TA-A-CTTCAACCTGCTCCACTGCA
1 TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
* * * *
63199374 AATTCAGGGAGATAAG-GT--TTGCTATGA-
66 AATTCAGGGAAATAAGATTCCTTTCT-TCAG
* * * * *
63199401 TATACTCTACTACAACTTTAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCTACTGCA
1 TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
* * *
63199466 ATTTCAGGAAAATAAGATTCGCTATCTTCAG
66 AATTCAGGGAAATAAGATTC-CTTTCTTCAG
* *
63199497 TCTGCTCTACTGCAACTTCAGGGAGATAAGA
1 TCTACTCTACTGCAACTTCAGAGAGATAAGA
63199528 CTTGAAACTT
Statistics
Matches: 166, Mismatches: 33, Indels: 26
0.74 0.15 0.12
Matches are distributed among these distances:
85 32 0.19
86 2 0.01
88 1 0.01
89 32 0.19
90 3 0.02
91 3 0.02
92 30 0.18
93 1 0.01
95 2 0.01
96 60 0.36
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (95 bp):
TCTACTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCA
AATTCAGGGAAATAAGATTCCTTTCTTCAG
Found at i:63199355 original size:181 final size:181
Alignment explanation
Indices: 63199115--63199583 Score: 688
Period size: 181 Copynumber: 2.6 Consensus size: 181
63199105 GTTTGATATG
* * * * * * * *
63199115 ATAAGATCCGCTATCTTGAGTGTACTCCACTACAACTT-TAGGAAGATAAGACTTGTAACTTTAA
1 ATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAAAG-AGATAAGACTTGTAACTTCAA
* * *
63199179 CCTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGCTATGATCTACTCAACTGCAACTTTAGAGA
65 CCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATATACTCAACTACAACTTTAGAGA
* *
63199244 GATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAA
130 GATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGAAA
*
63199296 ATAAGATTCACTTTCTTCAGTCTACTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAAC
1 ATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAAC
* *
63199361 CTGCTCCACTGCAAATTCAGGGAGATAAGGTTTGCTATGATATACTCTACTACAACTTTAGAGAG
66 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATATACTCAACTACAACTTTAGAGAG
* *
63199426 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCTACTGCAATTTCAGGAAA
131 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGAAA
* * * ** *
63199477 ATAAGATTCGCTATCTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGAAACTTCAAC
1 ATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAAC
* *
63199542 CTACTCCACTGCAACTTCAGGGAGATAATGTTTGCTATGATA
66 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATA
63199584 GATTTAATCT
Statistics
Matches: 259, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
181 257 0.99
182 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (181 bp):
ATAAGATTCACTATCTTCAGTCTACTCCACTGCAACTTCAAAGAGATAAGACTTGTAACTTCAAC
CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATATACTCAACTACAACTTTAGAGAG
ATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGAAA
Found at i:63199380 original size:89 final size:88
Alignment explanation
Indices: 63199158--63199569 Score: 309
Period size: 96 Copynumber: 4.6 Consensus size: 88
63199148 AACTTTAGGA
* * * * * *
63199158 AGATAAGACTTGTAACTTTAACCTGCTCCACTGTAACTTCAGGGAGATAAG-GT--TTGCTATGA
1 AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCCTTTCT-TCA
* *
63199220 -TCTACTCAACTGCAACTTTAGAG
65 GTCTACTCTACTGCAACTTCAGAG
* * *
63199243 AGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCACT
1 AGATAAGACTTG-----TA-A-CTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTC-CT
* *
63199308 TTCTTCAGTCTACTCCACTGCAACTTCAAAG
58 TTCTTCAGTCTACTCTACTGCAACTTCAGAG
* * * * *
63199339 AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAAATTCAGGGAGATAAG-GT--TTGCTATGA
1 AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCCTTTCT-TCA
* * *
63199401 -TATACTCTACTACAACTTTAGAG
65 GTCTACTCTACTGCAACTTCAGAG
* * * * * *
63199424 AGATAAGATCTGTAATTTATAGCTTCAATCTGTTCTACTGCAATTTCAGGAAAATAAGATTCGCT
1 AGATAAGA-C--T--TGTA-A-CTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTC-CT
* * *
63199489 ATCTTCAGTCTGCTCTACTGCAACTTCAGGG
58 TTCTTCAGTCTACTCTACTGCAACTTCAGAG
* * *
63199520 AGATAAGACTTGAAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAA
1 AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAAATAA
63199570 TGTTTGCTAT
Statistics
Matches: 252, Mismatches: 50, Indels: 46
0.72 0.14 0.13
Matches are distributed among these distances:
85 41 0.16
86 3 0.01
88 2 0.01
89 60 0.24
90 7 0.03
91 6 0.02
92 61 0.24
93 3 0.01
95 5 0.02
96 64 0.25
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (88 bp):
AGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCCTTTCTTCAG
TCTACTCTACTGCAACTTCAGAG
Found at i:63199664 original size:44 final size:44
Alignment explanation
Indices: 63199497--63199695 Score: 124
Period size: 44 Copynumber: 4.5 Consensus size: 44
63199487 CTATCTTCAG
* * ** ** *
63199497 TCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGAAACTTCAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAGGATTTCTAGTTTTAA
* * * *
63199541 CCTACTCCACTGCAACTTCAGGGAGATAATG-TTTGCTATGATAGATTTAA
1 TCTGCTCTACTGCAACTTCAGGGAGAT-AGGATTT-CTA-G-T---TTTAA
* *
63199591 TCTGGC-CTACTGCAACCTCAGAGG-TATAGGATTTCTAGTTTTAA
1 TCT-GCTCTACTGCAACTTCAG-GGAGATAGGATTTCTAGTTTTAA
* *
63199635 TCTGCTCTACTGCAACTTCAGGGAGATAGGATTACTA----TGA
1 TCTGCTCTACTGCAACTTCAGGGAGATAGGATTTCTAGTTTTAA
*
63199675 TCTGCTCTATTGCAACTTCAG
1 TCTGCTCTACTGCAACTTCAG
63199696 AGAGGTAAGA
Statistics
Matches: 122, Mismatches: 21, Indels: 28
0.71 0.12 0.16
Matches are distributed among these distances:
40 22 0.18
43 4 0.03
44 59 0.48
45 3 0.02
47 1 0.01
48 1 0.01
49 5 0.04
50 24 0.20
51 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAGGATTTCTAGTTTTAA
Found at i:63199800 original size:45 final size:45
Alignment explanation
Indices: 63199717--63199850 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 45
63199707 CTATAATTTG
* * * *
63199717 TAGCTTTAATCTGTTCCAATGTAACTTTAGGGAAATAAGATTCGC
1 TAGCTTCAATCTGCTCCAATGTAACTTTAAGGAGATAAGATTCGC
* * * ** *
63199762 TATCTTCAGTCTGCTCCACTGTAACTTTAAGGAGATAAGGCT-GG
1 TAGCTTCAATCTGCTCCAATGTAACTTTAAGGAGATAAGATTCGC
* * * * *
63199806 TGGCTTCAATCTGCTCCATTGCAACTTCATGGAGATAAGATTCGC
1 TAGCTTCAATCTGCTCCAATGTAACTTTAAGGAGATAAGATTCGC
63199851 CATGATGACT
Statistics
Matches: 68, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
44 34 0.50
45 34 0.50
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (45 bp):
TAGCTTCAATCTGCTCCAATGTAACTTTAAGGAGATAAGATTCGC
Found at i:63199893 original size:274 final size:275
Alignment explanation
Indices: 63199361--63199898 Score: 663
Period size: 274 Copynumber: 2.0 Consensus size: 275
63199351 TAACTTCAAC
* * *
63199361 CTGCTCCACTGCAAATTCAGGGAGATAAGGTTTGCTATGATATACTCTACTACAACTTTAGAGAG
1 CTGCTCCACTGCAAATTCAGGGAGATAAGGATTACTATGATATACTCTACTACAACTTCAGAGAG
* * *
63199426 ATAAGATCTGTAATTTATAGCTTCAATCTGTTCTACTGCAATTTCAGGAAAATAAGATTCGCTAT
66 ATAAGATCTATAATTTATAGCTTCAATCTGTTCCAATGCAATTTCAGGAAAATAAGATTCGCTAT
* * *
63199491 CTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTTGAAACTTCAACCTACTCCACTGCAA
131 CTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTGGAAACTTCAACCTACTCCACTGCAA
* * * ** *
63199556 CTTCAGGGAGATAATGTTTGCTATGATAGATTTAATCTGGCCTACTGCAACCTCAGAGGTATAGG
196 CTTCAGGGAGATAATGTTCGCCATGATAGATTCAATCCAGCCCACTGCAACCTCAGAGGTATAGG
63199621 ATTTCTAGTTTTAAT
261 ATTTCTAGTTTTAAT
* * * * * *
63199636 CTGCTCTACTGCAACTTCAGGGAGAT-AGGATTACTATGATCTGCTCTATTGCAACTTCAGAGAG
1 CTGCTCCACTGCAAATTCAGGGAGATAAGGATTACTATGATATACTCTACTACAACTTCAGAGAG
* * * * *
63199700 GTAAGATCTATAATTTGTAGCTTTAATCTGTTCCAATGTAACTTT-AGGGAAATAAGATTCGCTA
66 ATAAGATCTATAATTTATAGCTTCAATCTGTTCCAATGCAA-TTTCAGGAAAATAAGATTCGCTA
* * * *** * * *
63199764 TCTTCAGTCTGCTCCACTGTAACTTTAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCATTGCA
130 TCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTGGAAACTTCAACCTACTCCACTGCA
* * *
63199829 ACTTCATGGAGATAA-GATTCGCCATGAT-GACTTCAATCCATCCCACTGCAACTTCA-AGGGTA
195 ACTTCAGGGAGATAATG-TTCGCCATGATAGA-TTCAATCCAGCCCACTGCAACCTCAGA-GGTA
63199891 TAGGATTT
257 TAGGATTT
63199899 GTGGTTTCAC
Statistics
Matches: 221, Mismatches: 38, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
273 4 0.02
274 190 0.86
275 27 0.12
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (275 bp):
CTGCTCCACTGCAAATTCAGGGAGATAAGGATTACTATGATATACTCTACTACAACTTCAGAGAG
ATAAGATCTATAATTTATAGCTTCAATCTGTTCCAATGCAATTTCAGGAAAATAAGATTCGCTAT
CTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTGGAAACTTCAACCTACTCCACTGCAA
CTTCAGGGAGATAATGTTCGCCATGATAGATTCAATCCAGCCCACTGCAACCTCAGAGGTATAGG
ATTTCTAGTTTTAAT
Found at i:63200741 original size:11 final size:11
Alignment explanation
Indices: 63200727--63200784 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
63200717 TTGGCCTCTC
63200727 CTTTTATTTTT
1 CTTTTATTTTT
*
63200738 CTTTTCTTTTTT
1 CTTTT-ATTTTT
63200750 CATTTT-TTCCTTT
1 C-TTTTATT--TTT
63200763 CTTTTATTTTT
1 CTTTTATTTTT
*
63200774 CTTTTCTTTTT
1 CTTTTATTTTT
63200785 TTATGAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 20 0.50
12 10 0.25
13 10 0.25
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTATTTTT
Found at i:63200758 original size:20 final size:18
Alignment explanation
Indices: 63200728--63200785 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
63200718 TGGCCTCTCC
63200728 TTTTATTTTTCTTTTCTT
1 TTTTATTTTTCTTTTCTT
*
63200746 TTTTCATTTTTTCCTTTC--
1 TTTT-A-TTTTTCTTTTCTT
63200764 TTTTATTTTTCTTTTCTT
1 TTTTATTTTTCTTTTCTT
63200782 TTTT
1 TTTT
63200786 TATGAAACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
16 10 0.29
17 1 0.03
18 12 0.35
19 1 0.03
20 10 0.29
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTCTTTTCTT
Found at i:63200774 original size:16 final size:16
Alignment explanation
Indices: 63200727--63200783 Score: 69
Period size: 16 Copynumber: 3.3 Consensus size: 16
63200717 TTGGCCTCTC
63200727 CTTTTATTTTTCTTTT
1 CTTTTATTTTTCTTTT
*
63200743 CTTTTTTCATTTTTTCCTTT
1 C--TTTT-A-TTTTTCTTTT
63200763 CTTTTATTTTTCTTTT
1 CTTTTATTTTTCTTTT
63200779 CTTTT
1 CTTTT
63200784 TTTATGAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 15 0.43
17 1 0.03
18 8 0.23
19 1 0.03
20 10 0.29
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (16 bp):
CTTTTATTTTTCTTTT
Found at i:63205928 original size:18 final size:17
Alignment explanation
Indices: 63205901--63205943 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
63205891 AGTTTAAAAA
63205901 ATAA-AAATAAAA-AGAT
1 ATAATAAATAAAACA-AT
63205917 ATAAATAAATAAAACAAT
1 AT-AATAAATAAAACAAT
63205935 ATAATAAAT
1 ATAATAAAT
63205944 TAAATGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 9 0.38
18 12 0.50
19 1 0.04
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
ATAATAAATAAAACAAT
Found at i:63206208 original size:13 final size:13
Alignment explanation
Indices: 63206190--63206214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63206180 GAAGTTATAT
63206190 GTGTGAAAATTTC
1 GTGTGAAAATTTC
63206203 GTGTGAAAATTT
1 GTGTGAAAATTT
63206215 GATAGTTTGA
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:63207943 original size:57 final size:59
Alignment explanation
Indices: 63207855--63207994 Score: 187
Period size: 57 Copynumber: 2.4 Consensus size: 59
63207845 TCGGATTACC
* * * *
63207855 CGTCCGGACTAAATCAATTTTCCACATATTCTTCGGGAGGGCTATATCA-AT-ATCACT
1 CGTCCGGGCTAGATCATTTTTCCACATATTCTTCAGGAGGGCTATATCAGATGATCACT
63207912 CGTCCGGGCTAGATC-TTTTTCACACATATTCTTCAGGAGGGCTATATCAGGATAGGATCACT
1 CGTCCGGGCTAGATCATTTTTC-CACATATTCTTCAGGAGGGCTATATCA-GAT--GATCACT
63207974 CGTCCGGGCTAGATCATTTTT
1 CGTCCGGGCTAGATCATTTTT
63207995 ACCGTCAATT
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
56 5 0.07
57 39 0.54
59 2 0.03
62 21 0.29
63 5 0.07
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (59 bp):
CGTCCGGGCTAGATCATTTTTCCACATATTCTTCAGGAGGGCTATATCAGATGATCACT
Found at i:63213698 original size:13 final size:13
Alignment explanation
Indices: 63213680--63213704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63213670 TAGGTTATAT
63213680 GTGTGAAAATTTC
1 GTGTGAAAATTTC
63213693 GTGTGAAAATTT
1 GTGTGAAAATTT
63213705 GATAGTTTGA
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:63215130 original size:41 final size:41
Alignment explanation
Indices: 63215073--63215189 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
63215063 ATAATTGGTT
* *
63215073 TTCAGGCTTAATGTCTAGCAGGCTTGATGCCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAC
* *
63215114 TTCAGACTTTATGTCTAGCAAGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAC
* * *
63215155 TTCAGAC-TTATTATCTAGCAGGCTTCATGCTGGTG
1 TTCAGACTTTA-TGTCTAGCAGGCTTGATGCCGGTG
63215190 TACTTCAGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.04
41 64 0.96
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAC
Found at i:63220031 original size:50 final size:50
Alignment explanation
Indices: 63219907--63220155 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
63219897 GATAATAACA
* * ** * *
63219907 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
63219958 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
63220008 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
63220058 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
63220113 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
63220156 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:63220085 original size:100 final size:104
Alignment explanation
Indices: 63219906--63220155 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
63219896 TGATAATAAC
**
63219906 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
63219971 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
63220008 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
63220071 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
63220113 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
63220156 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:63220271 original size:13 final size:13
Alignment explanation
Indices: 63220250--63220281 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
63220240 GCTTGGATCA
*
63220250 TCATCAAATAAAT
1 TCATAAAATAAAT
63220263 TCATAAAATAAAT
1 TCATAAAATAAAT
63220276 TCATAA
1 TCATAA
63220282 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:63220527 original size:30 final size:30
Alignment explanation
Indices: 63220492--63220549 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
63220482 CCTCGACTCT
*
63220492 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
63220522 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
63220550 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:63222258 original size:41 final size:41
Alignment explanation
Indices: 63222201--63222282 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
63222191 TTTCGAGGTT
63222201 TAAAGATTTATTTATCTCACTTTGAGGGAGACATAATTATA
1 TAAAGATTTATTTATCTCACTTTGAGGGAGACATAATTATA
63222242 TAAAGATTTATTTATCTCACTTTGAGGGAGACATAATTATA
1 TAAAGATTTATTTATCTCACTTTGAGGGAGACATAATTATA
63222283 GTTTTAAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (41 bp):
TAAAGATTTATTTATCTCACTTTGAGGGAGACATAATTATA
Found at i:63239075 original size:26 final size:26
Alignment explanation
Indices: 63239039--63239090 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
63239029 TGATTAAGTT
63239039 AATATTACAAGTTAGTCAGACACTAA
1 AATATTACAAGTTAGTCAGACACTAA
*
63239065 AATATTACAAGTTAGTTAGACACTAA
1 AATATTACAAGTTAGTCAGACACTAA
63239091 CTCAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (26 bp):
AATATTACAAGTTAGTCAGACACTAA
Done.