Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 62
Found at i:6038482 original size:18 final size:18
Alignment explanation
Indices: 6038459--6038496 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6038449 ATTCATTATG
6038459 CAGGAGCTGTTCCTTCTT
1 CAGGAGCTGTTCCTTCTT
6038477 CAGGAGCTGTTCCTTCTT
1 CAGGAGCTGTTCCTTCTT
6038495 CA
1 CA
6038497 TTGCATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.29, G:0.21, T:0.37
Consensus pattern (18 bp):
CAGGAGCTGTTCCTTCTT
Found at i:6042823 original size:17 final size:18
Alignment explanation
Indices: 6042792--6042826 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6042782 TTGAAGAAGA
6042792 AAAAAAATGAAATGAAAAG
1 AAAAAAATG-AATGAAAAG
6042811 AAAAAAATG-ATGAAAA
1 AAAAAAATGAATGAAAA
6042827 TATATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
19 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAAAATGAATGAAAAG
Found at i:6043216 original size:21 final size:21
Alignment explanation
Indices: 6043190--6043230 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6043180 AGATTATCTT
*
6043190 TTTGAAATTCAATTTCTTTTG
1 TTTGAAATTCAATTTATTTTG
6043211 TTTGAAATTCAATTTATTTT
1 TTTGAAATTCAATTTATTTT
6043231 TTCACATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (21 bp):
TTTGAAATTCAATTTATTTTG
Found at i:6045841 original size:112 final size:113
Alignment explanation
Indices: 6045644--6046319 Score: 866
Period size: 114 Copynumber: 6.0 Consensus size: 113
6045634 TAGTAAAGAT
* * * *
6045644 TCGAATCCATCACTCAATGGATCAACA-TGCAAGGTAGAGTTCATAATGAGAAGAACCCATCTGA
1 TCGAATTCATCACTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGA
*
6045708 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
*
6045756 TCGAATTCATCACTTAATGGATCAACA-TGCCAGGTAGAGTTTATAATGAGAAGAACTCATCTGA
1 TCGAATTCATCACTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGA
*
6045820 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* *
6045868 TCGAATTCATCACTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCGAATTCATCACTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGA
* * *
6045933 AGAAGGAAGAAGAAATTCATAATGAGAAGTATTTGTTCAAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC-AACCTTTTGC
* * * **
6045982 TTGAATTCATCACTTGATGGATCAGCATTGCCAGAAAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCGAATTCATCACTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGA
* * *
6046047 AGAAGGAAGAAGAAATTCATAATAAGAAGAAATTGTTCAAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC-AACCTTTTGC
* * * * * *
6046096 TTGAATTCATAAC-TAGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTTATCT
1 TCGAATTCATCACTTA-ATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCT
*
6046159 GAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
64 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
* ** * * * * *
6046208 AT-G-ACTCTATCACAGAAGGTGATAGATCAATATTTCCA-GAAGTGTTCATGATGAGAAGAACT
1 -TCGAATTC-ATCACTTAA--TG---GATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACT
*
6046270 CATCTGAAGAAGG-AGAAGAAACTCATAATGAGAAGAACTTGTTCAACCTT
59 CATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTT
6046320 GCCTTAATTC
Statistics
Matches: 509, Mismatches: 41, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
111 3 0.01
112 147 0.29
113 106 0.21
114 175 0.34
115 1 0.00
116 62 0.12
117 15 0.03
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
TCGAATTCATCACTTAATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACCTTTTGC
Found at i:6046169 original size:227 final size:225
Alignment explanation
Indices: 6045660--6046319 Score: 882
Period size: 227 Copynumber: 2.9 Consensus size: 225
6045650 CCATCACTCA
* * *
6045660 ATGGATCAACA-TGCAAGGTAGAGTTCATAATGAGAAGAACCCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* *
6045724 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTTAATGGATCAACA-TGCCA
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAACATTGCCA
* * *
6045788 GGTAGAGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
131 -GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACT
* *
6045853 TGTTCAACCTTTTGCTCGAATTCATCACTTG
195 TGTTCAACCTTTTGCTCGAATTCATAACTAG
* * *
6045884 ATGGATCAGCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * * *
6045949 TCATAATGAGAAGTATTTGTTCAAACCTTTTGTTTGAATTCATCACTTGATGGATCAGCATTGCC
66 TCATAATGAGAAGAACTTGTTC-AACCTTTTGCTTGAATTCATCACTTGATGGATCAACATTGCC
* *
6046014 AGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAAA
130 AG-AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAC
* *
6046079 TTGTTCAAACCTTTTGTTTGAATTCATAACTAG
194 TTGTTC-AACCTTTTGCTCGAATTCATAACTAG
* * *
6046112 ATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAG
1 ATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * * *
6046175 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCATG-ACTCTATCACAGAAGGTGATAGATCAAT
65 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTC-ATCAC-----TTGATGGATCAAC
* * * *
6046239 ATTTCCAGAAGTGTTCATGATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAACTCATAATGAGA
124 ATTGCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
6046303 AGAACTTGTTCAACCTT
189 AGAACTTGTTCAACCTT
6046320 GCCTTAATTC
Statistics
Matches: 384, Mismatches: 40, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
224 10 0.03
225 73 0.19
226 50 0.13
227 100 0.26
228 72 0.19
229 29 0.08
230 34 0.09
231 16 0.04
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (225 bp):
ATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTTGATGGATCAACATTGCCA
GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTT
GTTCAACCTTTTGCTCGAATTCATAACTAG
Found at i:6046197 original size:20 final size:20
Alignment explanation
Indices: 6046135--6046198 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
6046125 TCCAGAGAAA
6046135 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
6046155 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
6046174 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
6046194 GTTCA
1 GTTCA
6046199 ACCTTTTGCA
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:6046303 original size:23 final size:22
Alignment explanation
Indices: 6046260--6046304 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
6046250 TGTTCATGAT
*
6046260 GAGAAGAACTCATCTGAAGAAG
1 GAGAAGAACTCATATGAAGAAG
6046282 GAGAAGAAACTCATAATG-AGAAG
1 GAGAAG-AACTCAT-ATGAAGAAG
6046305 AACTTGTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 12 0.60
24 2 0.10
ACGTcount: A:0.49, C:0.11, G:0.27, T:0.13
Consensus pattern (22 bp):
GAGAAGAACTCATATGAAGAAG
Found at i:6046688 original size:6 final size:6
Alignment explanation
Indices: 6046677--6046706 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6046667 TTTTTATCCA
6046677 TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
6046707 ATTAGTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:6046717 original size:18 final size:18
Alignment explanation
Indices: 6046678--6046724 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
6046668 TTTTATCCAT
* * *
6046678 TTATTTTTATTTTTATTT
1 TTATTTTTATTATTAGTG
6046696 TTATTTTTATTATTAGTG
1 TTATTTTTATTATTAGTG
6046714 TTATTTATTAT
1 TTATTT-TTAT
6046725 AAATATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
TTATTTTTATTATTAGTG
Found at i:6046772 original size:6 final size:6
Alignment explanation
Indices: 6046678--6046772 Score: 50
Period size: 6 Copynumber: 15.5 Consensus size: 6
6046668 TTTTATCCAT
* * * * * * *
6046678 TTATTT TTATTT TTATTT TTATTT TTATTA TTAGTG TTATTTA TTATAA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTA-TTA TTATTA
* * *
6046727 ATATTA TTATAA ATATT- TTATT- TTATTTA TTTATTTA TTATTA TTA
1 TTATTA TTATTA TTATTA TTATTA TTA-TTA -TTA-TTA TTATTA TTA
6046773 ATAATAATAA
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
5 7 0.10
6 51 0.71
7 7 0.10
8 7 0.10
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (6 bp):
TTATTA
Found at i:6046964 original size:16 final size:15
Alignment explanation
Indices: 6046939--6046968 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6046929 GCCTTCCACC
6046939 AACAAACCCTAGGGT
1 AACAAACCCTAGGGT
6046954 AACATAACCCTAGGG
1 AACA-AACCCTAGGG
6046969 ACACGCGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (15 bp):
AACAAACCCTAGGGT
Found at i:6048170 original size:2 final size:2
Alignment explanation
Indices: 6048163--6048205 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6048153 ATTATTATTT
6048163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6048205 T
1 T
6048206 TTGTTTAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6048364 original size:29 final size:29
Alignment explanation
Indices: 6048309--6048366 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
6048299 ATTCTATAAA
* *
6048309 TTATATATATTATTTTATTTTAATTATTT
1 TTATATAAATTATTTTATTATAATTATTT
*
6048338 TTATATAAATT-TTTTATTAATATTTATTT
1 TTATATAAATTATTTTATT-ATAATTATTT
6048367 ATTTTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
TTATATAAATTATTTTATTATAATTATTT
Found at i:6061095 original size:127 final size:129
Alignment explanation
Indices: 6060926--6061173 Score: 340
Period size: 127 Copynumber: 1.9 Consensus size: 129
6060916 TTAAGGGACC
* * * *
6060926 TTAAGGATTAAACCTAAAAATGTAGGCTCTAATTACTAATCCTATCCAATTTTAA-CAATTTATG
1 TTAAGGACTAAACCTAAAAATGAAGGCTCTAATTACTAATCCTAACCAATTTTAACCAACTTATG
* * * *
6060990 GAATTAAATAATTAAAATGAAACCTCGAGTATAAATGAGAAAACCAAATAAAAAATTCTCATAGT
66 G-ATCAAATAATCAAAATAAAACCTCGAGCATAAATGAGAAAACCAAATAAAAAATTCTCATAGT
6061055 TTAAGGACTAAA-CT-AAAATGAAGGCTCTAATTACTAATCCTAACCAATTTTAACCAACTTATG
1 TTAAGGACTAAACCTAAAAATGAAGGCTCTAATTACTAATCCTAACCAATTTTAACCAACTTATG
** * * **
6061118 GATCAAATAATCAAGTTAAAACCTCGGGCATAAATGTGAGGACCAAATAAAAAATT
66 GATCAAATAATCAAAATAAAACCTCGAGCATAAATGAGAAAACCAAATAAAAAATT
6061174 TACCTAAATT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
127 82 0.79
128 11 0.11
129 11 0.11
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (129 bp):
TTAAGGACTAAACCTAAAAATGAAGGCTCTAATTACTAATCCTAACCAATTTTAACCAACTTATG
GATCAAATAATCAAAATAAAACCTCGAGCATAAATGAGAAAACCAAATAAAAAATTCTCATAGT
Found at i:6064373 original size:14 final size:14
Alignment explanation
Indices: 6064354--6064387 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6064344 TTTGTCTTGC
6064354 ATGCATGACTATTG
1 ATGCATGACTATTG
* *
6064368 ATGCATGATTGTTG
1 ATGCATGACTATTG
6064382 ATGCAT
1 ATGCAT
6064388 TTGGGATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (14 bp):
ATGCATGACTATTG
Found at i:6065157 original size:54 final size:55
Alignment explanation
Indices: 6065063--6065169 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 55
6065053 AATTGTTCTT
6065063 TTTTGCTTCTTGTTGTGGAAACAAGAACATAACGAAGACAAATAATGACTTAAAA
1 TTTTGCTTCTTGTTGTGGAAACAAGAACATAACGAAGACAAATAATGACTTAAAA
* *
6065118 TTTT-CTTCTTGTTGTGGAAACAAGAGCATAGC-AATGACAAATAATGACTTAA
1 TTTTGCTTCTTGTTGTGGAAACAAGAACATAACGAA-GACAAATAATGACTTAA
6065170 TTTTTTCTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
53 2 0.04
54 43 0.88
55 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (55 bp):
TTTTGCTTCTTGTTGTGGAAACAAGAACATAACGAAGACAAATAATGACTTAAAA
Found at i:6065810 original size:102 final size:105
Alignment explanation
Indices: 6065629--6065839 Score: 234
Period size: 102 Copynumber: 2.0 Consensus size: 105
6065619 AGACAATTTA
* ** *
6065629 TTTCAAGAGAAACAATCTCAAATGAGATAAAATTATTATTTTTTAGTGAAATGATCTTGAAGTTT
1 TTTCAAGAGAAACAACCTCAAATGAGAT-AAATTATTATTTTTTAGTGAAACAATCTTAAAGTTT
** * *
6065694 GAGTTTTGAGGGAAACTGTCTCGAGCGAGATAAAA-TTTTG
65 GAGTTTCAAAGGAAACTGTCTCAAGCGAGATAAAATTTTTG
*
6065734 TTTCAAGGGAAACAACCT-AAAGTGAGAT-AATT-TT-TTTTTTGAGTGAAACAATCTTAAAGTT
1 TTTCAAGAGAAACAACCTCAAA-TGAGATAAATTATTATTTTTT-AGTGAAACAATCTTAAAGTT
** * * *
6065795 TTTGTTTCAAAGGAAACTGTGTTAAGTGAGATAAAATTTTTG
64 TGAGTTTCAAAGGAAACTGTCTCAAGCGAGATAAAATTTTTG
6065837 TTT
1 TTT
6065840 TTGAGTGAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
101 6 0.07
102 46 0.52
103 12 0.13
104 3 0.03
105 22 0.25
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (105 bp):
TTTCAAGAGAAACAACCTCAAATGAGATAAATTATTATTTTTTAGTGAAACAATCTTAAAGTTTG
AGTTTCAAAGGAAACTGTCTCAAGCGAGATAAAATTTTTG
Found at i:6065869 original size:68 final size:67
Alignment explanation
Indices: 6065753--6065906 Score: 186
Period size: 68 Copynumber: 2.3 Consensus size: 67
6065743 AAACAACCTA
* * * *
6065753 AAGTGAGAT--AATTTTTTTTTTGAGTGAAACAATCTTAAAGTTTTTGTTTCAAAGGAAACTGTG
1 AAGTGAGATAAAATTTTTTTTTTGAGTGAAACAATCTTAAAATCTGTGTTTCAAAGGAAACTGTC
*
6065816 TT
66 TC
** *
6065818 AAGTGAGATAAAATTTTTGTTTTTGAGTGAAATGATCTTAAAATCTGTGTTTCAAGGGAAACTGT
1 AAGTGAGATAAAATTTTT-TTTTTGAGTGAAACAATCTTAAAATCTGTGTTTCAAAGGAAACTGT
6065883 CTC
65 CTC
* * *
6065886 AAGAGAGACAAAATTTGTTTT
1 AAGTGAGATAAAATTTTTTTT
6065907 AAAAAAAATA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
65 9 0.12
67 10 0.13
68 56 0.75
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (67 bp):
AAGTGAGATAAAATTTTTTTTTTGAGTGAAACAATCTTAAAATCTGTGTTTCAAAGGAAACTGTC
TC
Found at i:6065929 original size:104 final size:104
Alignment explanation
Indices: 6065818--6066212 Score: 440
Period size: 105 Copynumber: 3.8 Consensus size: 104
6065808 AAACTGTGTT
* **
6065818 AAGTGAGATAAAATTTTTGTTTTTGAGTGAAATGATCTTAAAATCTGTGTTTCAAGGGAAACTGT
1 AAGTGAGATAAAATTTTTGTTTTTGAGTGAAATGATCTTAAAGTCTGTGTTTCAAGGGAAACAAT
* * *
6065883 CTCAAGAGAGACAAAATTTGTTTTAAAAAAAATAATTTC
66 CTCAAGTGAGACAAAATTTGTTTTAAGAAAAATAATATC
* * * * * ***
6065922 AAGTGAGATAAAATTTTTG-TTTTGAATGAAAATGATCTCAAAGTATGTTTTTCAAGAGAAATTG
1 AAGTGAGATAAAATTTTTGTTTTTGAGTG-AAATGATCTTAAAGTCTGTGTTTCAAGGGAAACAA
* *
6065986 TCTCAAGTGAGATAAAATTTTGTTTTAGGAAAAATAATATC
65 TCTCAAGTGAGACAAAA-TTTGTTTTAAGAAAAATAATATC
* * * *
6066027 AAGTGAGATAAATTTTTTGTTTTGGAGTGAAATGATCTTAACG-CTTTTGTTTCAAGGGAAACAA
1 AAGTGAGATAAAATTTTTGTTTTTGAGTGAAATGATCTTAAAGTC-TGTGTTTCAAGGGAAACAA
* * * * *
6066091 TATCAAGTGAGACAAAAATTTGTTTTTAGGAAGATAATCTC
65 TCTCAAGTGAGAC-AAAATTTGTTTTAAGAAAAATAATATC
* * * *
6066132 AAGTGAGATAAGA--TTT-ATTTTGAGTGAAATGATCTTAAAGTTTATGTTTCAAGGGAAACAAT
1 AAGTGAGATAAAATTTTTGTTTTTGAGTGAAATGATCTTAAAGTCTGTGTTTCAAGGGAAACAAT
* *
6066194 CTCAAGCGAGACAACATTT
66 CTCAAGTGAGACAAAATTT
6066213 TTCTTTTTCG
Statistics
Matches: 244, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
101 6 0.02
102 50 0.20
103 11 0.05
104 63 0.26
105 103 0.42
106 11 0.05
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (104 bp):
AAGTGAGATAAAATTTTTGTTTTTGAGTGAAATGATCTTAAAGTCTGTGTTTCAAGGGAAACAAT
CTCAAGTGAGACAAAATTTGTTTTAAGAAAAATAATATC
Found at i:6068854 original size:3 final size:3
Alignment explanation
Indices: 6068846--6068920 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
6068836 CTTCCTTTAT
6068846 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
6068894 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
6068921 CTCCTAGTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:6069777 original size:28 final size:27
Alignment explanation
Indices: 6069734--6069805 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 27
6069724 TAATGTAGAG
* * **
6069734 ATGTGAATGCACAGATGCAAAGATATGA
1 ATGTAAATGCAAAGATGCAAAG-TACCA
*
6069762 ATGTAAATGCAAAGATACAAAGTACCA
1 ATGTAAATGCAAAGATGCAAAGTACCA
*
6069789 ATGCAAATGCAAA-ATGC
1 ATGTAAATGCAAAGATGC
6069806 CAATGCAACA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 3 0.08
27 15 0.41
28 19 0.51
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (27 bp):
ATGTAAATGCAAAGATGCAAAGTACCA
Found at i:6083494 original size:24 final size:23
Alignment explanation
Indices: 6083467--6083520 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 23
6083457 AACACTTAAT
6083467 TCCTAATTAAT-AATAAATTAAAAA
1 TCCTAATTAATAAAT-AATT-AAAA
6083491 TCCTAA-TAATAAATAATTAAAA
1 TCCTAATTAATAAATAATTAAAA
6083513 TCCTAATT
1 TCCTAATT
6083521 GAAATTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 10 0.36
23 9 0.32
24 9 0.32
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (23 bp):
TCCTAATTAATAAATAATTAAAA
Found at i:6083566 original size:23 final size:25
Alignment explanation
Indices: 6083467--6083566 Score: 54
Period size: 29 Copynumber: 4.1 Consensus size: 25
6083457 AACACTTAAT
*
6083467 TCCTAATTAATAATAAATTA--AAAA
1 TCCTAATTAAT-ATAAATAACTAAAA
*
6083491 TCCTAA-T-A-ATAAATAATTAAAA
1 TCCTAATTAATATAAATAACTAAAA
* *
6083513 TCCTAATTGAAATTCTAAGCA-AACTAGAA
1 TCCTAATT--AA-TATAA--ATAACTAAAA
6083542 TCCTAATTAAT-TAAATAA-TAAAA
1 TCCTAATTAATATAAATAACTAAAA
6083565 TC
1 TC
6083567 TCAAATGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 23
0.68 0.06 0.26
Matches are distributed among these distances:
20 7 0.12
22 11 0.18
23 9 0.15
24 8 0.13
25 3 0.05
26 2 0.03
27 2 0.03
28 3 0.05
29 14 0.23
30 1 0.02
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (25 bp):
TCCTAATTAATATAAATAACTAAAA
Found at i:6085892 original size:22 final size:22
Alignment explanation
Indices: 6085864--6085909 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6085854 GTTTTGAATA
6085864 TTGAAGATTTGATTTGGGTATT
1 TTGAAGATTTGATTTGGGTATT
6085886 TTGAAGATTTGATTTGGGTATT
1 TTGAAGATTTGATTTGGGTATT
6085908 TT
1 TT
6085910 ATTCAAGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (22 bp):
TTGAAGATTTGATTTGGGTATT
Found at i:6095647 original size:21 final size:21
Alignment explanation
Indices: 6095604--6095648 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6095594 TTTTTTTTTA
* *
6095604 TTATTTTATTGTTATGTACTG
1 TTATTTTATTCTTATGTAATG
6095625 TTATTTTATTCTTCAT-TAATG
1 TTATTTTATTCTT-ATGTAATG
6095646 TTA
1 TTA
6095649 CAATAAGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (21 bp):
TTATTTTATTCTTATGTAATG
Found at i:6095988 original size:19 final size:16
Alignment explanation
Indices: 6095949--6095987 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
6095939 CTTCCATCAT
6095949 CATCATCTTCTTCCTC
1 CATCATCTTCTTCCTC
6095965 CATCATCTTCTTCCTC
1 CATCATCTTCTTCCTC
*
6095981 CAACATC
1 CATCATC
6095988 ACACCACCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.44, G:0.00, T:0.38
Consensus pattern (16 bp):
CATCATCTTCTTCCTC
Found at i:6097907 original size:15 final size:15
Alignment explanation
Indices: 6097873--6097913 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
6097863 GTATCAGAAA
*
6097873 AATTATTT-ATTATC
1 AATTATTTAAATATC
*
6097887 AATTATTTAAATATG
1 AATTATTTAAATATC
6097902 AATTATTTAAAT
1 AATTATTTAAAT
6097914 TCGAGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (15 bp):
AATTATTTAAATATC
Found at i:6109044 original size:3 final size:3
Alignment explanation
Indices: 6109036--6109069 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6109026 ATATGACTAC
*
6109036 ATA ATA ATA ATA A-A ATA ATA ATA AAA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6109070 TTAAACATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:6109241 original size:13 final size:13
Alignment explanation
Indices: 6109223--6109249 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6109213 ATAATTATCC
6109223 CTTAATTATCAAT
1 CTTAATTATCAAT
6109236 CTTAATTATCAAT
1 CTTAATTATCAAT
6109249 C
1 C
6109250 AGTGATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (13 bp):
CTTAATTATCAAT
Found at i:6110472 original size:3 final size:3
Alignment explanation
Indices: 6110464--6110516 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
6110454 ATTATTTATT
* *
6110464 TAA TAA TAA TAA -AA TAA T-A TAA TAA TAA TAT TAA -AA GAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6110508 TAA TAA TAA
1 TAA TAA TAA
6110517 GTAAAATGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:6110488 original size:19 final size:19
Alignment explanation
Indices: 6110465--6110516 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
6110455 TTATTTATTT
* *
6110465 AATAATAATAA-AATAATAT
1 AATAATAATAATAA-AAGAA
*
6110484 AATAATAATATTAAAAGAA
1 AATAATAATAATAAAAGAA
6110503 AATAATAATAATAA
1 AATAATAATAATAA
6110517 GTAAAATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 26 0.93
20 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AATAATAATAATAAAAGAA
Found at i:6110492 original size:22 final size:21
Alignment explanation
Indices: 6110464--6110540 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 21
6110454 ATTATTTATT
6110464 TAATAATAATAAAATAATATAA
1 TAATAATAATAAAATAA-ATAA
* *
6110486 TAATAATATTAAAAGAAAATAA
1 TAATAATAATAAAA-TAAATAA
6110508 TAATAATAAGTAAAATGAAATAA
1 TAATAATAA-TAAAAT-AAATAA
* *
6110531 AAATATTAAT
1 TAATAATAAT
6110541 GTCTTCAGCT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
22 26 0.57
23 20 0.43
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (21 bp):
TAATAATAATAAAATAAATAA
Found at i:6111157 original size:224 final size:225
Alignment explanation
Indices: 6110740--6111534 Score: 1154
Period size: 224 Copynumber: 3.5 Consensus size: 225
6110730 GATGTAATCT
* *
6110740 AGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * ** * * *
6110804 CATTATGAACACT-TCTGGAAATGTTGATGCTGATCTATTTCCTTCTGTGAT-AGAGTCAAACAA
66 CATTATGAACTCTACCTGGCAATGTTGAT-C----C-A--T-C--GAGTGATGA-ATTCGAGCAA
*
6110867 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
119 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTAT
* * *
6110932 GAACT-TTCTCTGGAAATGTTGATCTATCGAATGATGAATTCG
184 GAACTCTAC-CTGGCAATGTTGATCCATCGAATGATGAATTCG
*
6110974 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTTTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*
6111038 CATTATGAACTCTACCTGGTAATGTTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACAA
66 CATTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACAA
*
6111103 GTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAAATGAGTTCTTCTCATTATGAACTCTACCTG
131 GTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTATGAACTCTACCTG
*
6111168 GCAATGTTGATCCATCGAGTGATGAATTCG
196 GCAATGTTGATCCATCGAATGATGAATTCG
* * *
6111198 AGTAAAAGGTTGAAAAAGTTCTTCTCATTATGAACTTTTTCTTCC-TCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*
6111262 CATTATGAACTCTACCTGACAATGTTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACAA
66 CATTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACAA
* *
6111327 GTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCT
131 GTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAAATGAGTTCTTCTCATTATGAACTCTACCT
* *
6111392 GGCAATGCTGATCCATC-AAGTGATGAATTCA
195 GGCAATGTTGATCCATCGAA-TGATGAATTCG
6111423 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
6111488 CATTATGAACTCTACCTGGCAATGCTGATCCATCGAGTGATGGATTC
66 CATTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTC
6111535 TAATCTTCGC
Statistics
Matches: 519, Mismatches: 35, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
224 260 0.50
225 106 0.20
226 64 0.12
227 1 0.00
229 1 0.00
230 1 0.00
234 70 0.13
235 16 0.03
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (225 bp):
AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAGCAAAAGGTTGAACAA
GTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCATTATGAACTCTACCTG
GCAATGTTGATCCATCGAATGATGAATTCG
Found at i:6111427 original size:113 final size:112
Alignment explanation
Indices: 6110864--6111534 Score: 1128
Period size: 112 Copynumber: 6.0 Consensus size: 112
6110854 TAGAGTCAAA
* *
6110864 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
* * * *
6110929 TATGAACT-TTCTCTGGAAATGTTGATCTATCGAATGATGAATTCGAG
66 TATGAACTCTAC-CTGGCAATGTTGATCCATCGAGTGATGAATTCGAG
*
6110976 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTTTTCTCAT
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
*
6111041 TATGAACTCTACCTGGTAATGTTGATCCATCGAGTGATGAATTCGAG
66 TATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAG
* *
6111088 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAAATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
6111153 TATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAG
66 TATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAG
* * *
6111200 TAAAAGGTTGAAAAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
*
6111265 TATGAACTCTACCTGACAATGTTGATCCATCGAGTGATGAATTCGAG
66 TATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAG
*
6111312 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATGAGTTCTTCTCA
* * *
6111377 TTATGAACTCTACCTGGCAATGCTGATCCATCAAGTGATGAATTCAAG
65 TTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAG
6111425 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCA
* *
6111490 TTATGAACTCTACCTGGCAATGCTGATCCATCGAGTGATGGATTC
65 TTATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTC
6111535 TAATCTTCGC
Statistics
Matches: 530, Mismatches: 26, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
112 357 0.67
113 173 0.33
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (112 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTACCTGGCAATGTTGATCCATCGAGTGATGAATTCGAG
Found at i:6111879 original size:22 final size:22
Alignment explanation
Indices: 6111854--6111910 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
6111844 AAAGCTTTCG
6111854 TCTTTGAAAATAGAATCTATCA
1 TCTTTGAAAATAGAATCTATCA
*
6111876 TCTTT-AAAGAGAGAATCTATCA
1 TCTTTGAAA-ATAGAATCTATCA
*
6111898 TTTTTGAAGAATA
1 TCTTTGAA-AATA
6111911 TAGATGTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.10
22 21 0.72
23 4 0.14
24 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (22 bp):
TCTTTGAAAATAGAATCTATCA
Found at i:6112362 original size:54 final size:54
Alignment explanation
Indices: 6112274--6112586 Score: 439
Period size: 54 Copynumber: 5.8 Consensus size: 54
6112264 TACTGGTTCA
* * * *
6112274 TAAAACATTTGACAACACATTCATCATCTT-CTGTGGCTTTTGCTCAGATGTTCG
1 TAAAACATTTGACAACACATTCATCCT-TTCCTGTGGCTTCTGCCCAGATGTTTG
*
6112328 TAAAACATTTGACAACACATTCATCTTTTCCTGTGGCTTCTGCCCAGATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGATGTTTG
* * * *
6112382 TAAACCATTTGACAACATATTCATCCTTTCCTGTGGCTTCTGCCCTGATGTTTT
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGATGTTTG
* * **
6112436 TAAAACATTTGACAACATATTCATCCTTTCCTGTGGCTTTTGTACAGATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGATGTTTG
* * *
6112490 TAAAACATTTGACAACATATTCATCCTTTCATGTGGCTTCTGCACAGATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGATGTTTG
* * *
6112544 TAAAACATTTAACAACACATTCATCCTTTTCTGTGGTTTCTGC
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
6112587 ACATATTTCT
Statistics
Matches: 235, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
53 2 0.01
54 233 0.99
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGATGTTTG
Found at i:6112460 original size:162 final size:162
Alignment explanation
Indices: 6112274--6112586 Score: 486
Period size: 162 Copynumber: 1.9 Consensus size: 162
6112264 TACTGGTTCA
6112274 TAAAACATTTGACAACACATTCATCATCTT-CTGTGGCTTTTGCT-CAGATGTTCGTAAAACATT
1 TAAAACATTTGACAACACATTCATCAT-TTCCTGTGGCTTTTG-TACAGATGTTCGTAAAACATT
* * * * * *
6112337 TGACAACACATTCATCTTTTCCTGTGGCTTCTGCCCAGATGTTTGTAAACCATTTGACAACATAT
64 TGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGATGTTTGTAAAACATTTAACAACACAT
6112402 TCATCCTTTCCTGTGGCTTCTGCCCTGATGTTTT
129 TCATCCTTTCCTGTGGCTTCTGCCCTGATGTTTT
* * *
6112436 TAAAACATTTGACAACATATTCATCCTTTCCTGTGGCTTTTGTACAGATGTTTGTAAAACATTTG
1 TAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTTTGTACAGATGTTCGTAAAACATTTG
*
6112501 ACAACATATTCATCCTTTCATGTGGCTTCTGCACAGATGTTTGTAAAACATTTAACAACACATTC
66 ACAACACATTCATCCTTTCATGTGGCTTCTGCACAGATGTTTGTAAAACATTTAACAACACATTC
* *
6112566 ATCCTTTTCTGTGGTTTCTGC
131 ATCCTTTCCTGTGGCTTCTGC
6112587 ACATATTTCT
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
161 3 0.02
162 134 0.98
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (162 bp):
TAAAACATTTGACAACACATTCATCATTTCCTGTGGCTTTTGTACAGATGTTCGTAAAACATTTG
ACAACACATTCATCCTTTCATGTGGCTTCTGCACAGATGTTTGTAAAACATTTAACAACACATTC
ATCCTTTCCTGTGGCTTCTGCCCTGATGTTTT
Found at i:6113594 original size:75 final size:75
Alignment explanation
Indices: 6113467--6113636 Score: 218
Period size: 75 Copynumber: 2.3 Consensus size: 75
6113457 TGATGTGGGT
* * *
6113467 CTTT-AGCATACCCCAACATTGGCTAATACAAACGTTCAAAATACATCAATATTCTTGATTCTGA
1 CTTTCAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATACATCAATATTCCTGATTATGA
6113531 TTGAAAGGGG
66 TTGAAAGGGG
* * ***
6113541 CTTTCAGCATGCCCCAGA-ATTGGTTAATACAAACGTTCCAAATGTGTCAATATTCCTGATTATG
1 CTTTCAGCATGCCCCA-ACATTGGCTAATACAAACGTTCAAAATACATCAATATTCCTGATTATG
*
6113605 ATTGAAATGGG
65 ATTGAAAGGGG
* *
6113616 CTTTCAGCATGCTCCATCATT
1 CTTTCAGCATGCCCCAACATT
6113637 TGCTTCTTGT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
74 4 0.05
75 77 0.94
76 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (75 bp):
CTTTCAGCATGCCCCAACATTGGCTAATACAAACGTTCAAAATACATCAATATTCCTGATTATGA
TTGAAAGGGG
Found at i:6117095 original size:13 final size:13
Alignment explanation
Indices: 6117077--6117106 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6117067 TGATTTAATT
*
6117077 TTTTCCTTTTTCC
1 TTTTCCTTTTCCC
6117090 TTTTCCTTTTCCC
1 TTTTCCTTTTCCC
6117103 TTTT
1 TTTT
6117107 TTTATTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCCTTTTCCC
Found at i:6118866 original size:42 final size:42
Alignment explanation
Indices: 6118803--6118883 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
6118793 ATATGGTCAT
* * * *
6118803 TTGTTCTTTTGAATCAGCCTGGAATTTTTTTGCTTGATCCAC
1 TTGTTCATTTGAATCACCCTGGAACTTTTTTACTTGATCCAC
6118845 TTGTTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
1 TTGTTCATTTGAATCACCCTGGAACTTTTTTACTTGATC
6118884 AATCATTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.47
Consensus pattern (42 bp):
TTGTTCATTTGAATCACCCTGGAACTTTTTTACTTGATCCAC
Found at i:6119356 original size:43 final size:44
Alignment explanation
Indices: 6119292--6119376 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 44
6119282 CCGTTCATCA
* *
6119292 AACAAAACTTTTACATGTAGGGGACAACTTTCAGTCCTAACTCC
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTCC
* *
6119336 AACAAAAC-TTTACATATAGGGGATAACTTTCCCTCCTAACT
1 AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACT
6119377 TCTCTAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 29 0.78
44 8 0.22
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (44 bp):
AACAAAACTTTTACATATAGGGGACAACTTTCACTCCTAACTCC
Found at i:6120599 original size:23 final size:23
Alignment explanation
Indices: 6120573--6120641 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
6120563 CACCACAACT
* *
6120573 CGTATAATTACACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
6120596 CGTAGAATTGCACCGGAGTACCG
1 CGTAGAATTGCACCGAAGTGCCA
*
6120619 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
6120642 TATAATAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:6125870 original size:23 final size:23
Alignment explanation
Indices: 6125844--6125908 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
6125834 TAGCTCGTAT
6125844 AATTGCACCGAAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
* **
6125867 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCATGTAG
* *
6125890 AATTGGACCGTAGTGCCAT
1 AATTGCACCGAAGTGCCAT
6125909 ATAATAATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:6129209 original size:17 final size:17
Alignment explanation
Indices: 6129187--6129219 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6129177 AATACTTGAA
6129187 AATAAAATAAA-AATATT
1 AATAAAA-AAATAATATT
6129204 AATAAAAAAATAATAT
1 AATAAAAAAATAATAT
6129220 ACATATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AATAAAAAAATAATATT
Found at i:6129265 original size:28 final size:27
Alignment explanation
Indices: 6129210--6129279 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
6129200 TATTAATAAA
* *
6129210 AAAATAAT-ATACATATAAATATTATG
1 AAAATAATAATATATATAAAAATTATG
*
6129236 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAATAA-TATATATAAAAATTATG
6129264 AAAATAAATAAT-TATA
1 AAAAT-AATAATATATA
6129280 AATTAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 8 0.21
27 5 0.13
28 20 0.53
29 5 0.13
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAATAATAATATATATAAAAATTATG
Found at i:6129287 original size:28 final size:30
Alignment explanation
Indices: 6129187--6129294 Score: 97
Period size: 29 Copynumber: 3.8 Consensus size: 30
6129177 AATACTTGAA
*
6129187 AATA-AAATAAAAATATTAAT-AAAA-AAAT
1 AATATAAATATAAATATT-ATGAAAATAAAT
*
6129215 AATATACATATAAATATTATGAAAAT-AAT
1 AATATAAATATAAATATTATGAAAATAAAT
* *
6129244 AAGTAT--ATATAAAAATTTTGAAAATAAAT
1 AA-TATAAATATAAATATTATGAAAATAAAT
6129273 AATTATAAAT-TAAATA-TATGAA
1 AA-TATAAATATAAATATTATGAA
6129295 TTTTAAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
28 23 0.35
29 33 0.50
30 8 0.12
31 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (30 bp):
AATATAAATATAAATATTATGAAAATAAAT
Found at i:6129949 original size:146 final size:137
Alignment explanation
Indices: 6129776--6130140 Score: 532
Period size: 146 Copynumber: 2.6 Consensus size: 137
6129766 ATATTTTTAT
* * * *
6129776 AAATAAGATATTTATTTACTTAGAAATATTAGAAAATGACTTCTAGGTGATTTAAGACAGCCCAT
1 AAATAGGATATTTATTTATTTAAAAATATTAGAAAATGACTTCTAGGTGCTTTAAGACA-CCCAT
6129841 TTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAAATAAATT
65 TTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAAAT--A-T
6129906 AATATATAATTTATAA
127 -ATA-AT-A--TATAA
* *
6129922 AAATAGGATATTTATTTATTTAAAAATATTAGAAAAGGACTTCTATGTGCTTTAAGACAACCCAT
1 AAATAGGATATTTATTTATTTAAAAATATTAGAAAATGACTTCTAGGTGCTTTAAGAC-ACCCAT
*
6129987 TTCTTAATATTAAAAAATAAATAAATATTAATAAAATATTTCTCTAAAAATAATTAAAATATATA
65 TTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAAATATATA
6130052 ATATATAA
130 ATATATAA
* * * *
6130060 AAATAGGATATTTATTTATTTAAGAATATCAGAAAATGACATCTAGGTGCTTTAAGACAACCATT
1 AAATAGGATATTTATTTATTTAAAAATATTAGAAAATGACTTCTAGGTGCTTTAAGACACCCA-T
6130125 TTCTTAATATTAAAAA
65 TTCTTAATATTAAAAA
6130141 TACATATTAA
Statistics
Matches: 204, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
137 4 0.02
138 75 0.37
140 1 0.00
141 2 0.01
142 3 0.01
143 1 0.00
144 1 0.00
146 116 0.57
147 1 0.00
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (137 bp):
AAATAGGATATTTATTTATTTAAAAATATTAGAAAATGACTTCTAGGTGCTTTAAGACACCCATT
TCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAAATATATAA
TATATAA
Found at i:6130202 original size:138 final size:138
Alignment explanation
Indices: 6129771--6130215 Score: 508
Period size: 146 Copynumber: 3.2 Consensus size: 138
6129761 TATTTATATT
* * *
6129771 TTTATAAATAAGATATTTATTTACTT-AGAAATATTAGAAAATGACTTCTAGGTGATTTAAGACA
1 TTTATAAATAGGATATTTATTTATTTAAG-AATATTAGAAAATGACTTCTAGGTGCTTTAAGACA
* * *
6129835 GCCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTCTCTAAAAATAATTAAAA
65 -ACCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAATATTTCTCTAAAAATAATT-TAA
6129900 TAAATTAATATATAA
128 T-AA--AATATA-AA
* * *
6129915 TTTATAAAAATAGGATATTTATTTATTTAAAAATATTAGAAAAGGACTTCTATGTGCTTTAAGAC
1 TTTAT--AAATAGGATATTTATTTATTTAAGAATATTAGAAAATGACTTCTAGGTGCTTTAAGAC
6129980 AACCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAATATTTCTCTAAAAATAA-TTAA
64 AA-CCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAATATTTCTCTAAAAATAATTTAA
*
6130044 -AATATATAATA
128 TAAAATATAA-A
* * * *
6130055 TATAAAAATAGGATATTTATTTATTTAAGAATATCAGAAAATGACATCTAGGTGCTTTAAGACAA
1 TTTATAAATAGGATATTTATTTATTTAAGAATATTAGAAAATGACTTCTAGGTGCTTTAAGACAA
* * * * * * *
6130120 CCATTTTCTTAATATT-AAAAATACAT-ATTA-AAATATGATTATTTTTCCTAAAAGTAATTTAT
66 CCA-TTTCTTAATATTAAAAAATAAATAAATATTAATA-AAATATTTCT-CTAAAAATAATTTA-
6130182 ATAAAAT-TAAA
127 ATAAAATATAAA
*
6130193 TTTATAAATAGGATTTTTATTTA
1 TTTATAAATAGGATATTTATTTA
6130216 ATATATATAA
Statistics
Matches: 262, Mismatches: 28, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
135 4 0.02
136 10 0.04
137 21 0.08
138 91 0.35
139 5 0.02
140 13 0.05
142 2 0.01
144 7 0.03
145 1 0.00
146 107 0.41
147 1 0.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (138 bp):
TTTATAAATAGGATATTTATTTATTTAAGAATATTAGAAAATGACTTCTAGGTGCTTTAAGACAA
CCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAATATTTCTCTAAAAATAATTTAATAA
AATATAAA
Found at i:6130307 original size:12 final size:11
Alignment explanation
Indices: 6130281--6130372 Score: 57
Period size: 11 Copynumber: 8.5 Consensus size: 11
6130271 ATGACTACAT
6130281 AATAATAATAA
1 AATAATAATAA
6130292 AATAATAATGAA
1 AATAATAAT-AA
**
6130304 AATAATAATTT
1 AATAATAATAA
* * *
6130315 AATCATATTGA
1 AATAATAATAA
6130326 AATAA-AA-AA
1 AATAATAATAA
* *
6130335 GGACAATAATAA
1 -AATAATAATAA
6130347 AATGAA-AAT-A
1 AAT-AATAATAA
*
6130357 AATAATAATTA
1 AATAATAATAA
6130368 AATAA
1 AATAA
6130373 AATTAAACAA
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
9 3 0.05
10 11 0.18
11 32 0.52
12 15 0.25
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (11 bp):
AATAATAATAA
Found at i:6131435 original size:22 final size:22
Alignment explanation
Indices: 6131409--6131457 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
6131399 TGGAAGTCTC
6131409 GGTGAGTCACCAGAGTTATGGT
1 GGTGAGTCACCAGAGTTATGGT
* *
6131431 GGTGAGTCATCATAGTTATGGT
1 GGTGAGTCACCAGAGTTATGGT
6131453 GGTGA
1 GGTGA
6131458 CTCAGCATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.37, T:0.31
Consensus pattern (22 bp):
GGTGAGTCACCAGAGTTATGGT
Found at i:6131466 original size:22 final size:22
Alignment explanation
Indices: 6131422--6131467 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
6131412 GAGTCACCAG
* *
6131422 AGTTATGGTGGTGAGTCATCAT
1 AGTTATGGTGGTGACTCAGCAT
6131444 AGTTATGGTGGTGACTCAGCAT
1 AGTTATGGTGGTGACTCAGCAT
6131466 AG
1 AG
6131468 AGTTCGACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.11, G:0.33, T:0.33
Consensus pattern (22 bp):
AGTTATGGTGGTGACTCAGCAT
Found at i:6131732 original size:3 final size:3
Alignment explanation
Indices: 6131724--6131776 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
6131714 ATTATTTAGT
* * *
6131724 TAA TAA TAA TAA -AA AAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6131768 TAA TAA TAA
1 TAA TAA TAA
6131777 ATAAAATGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
2 8 0.19
3 35 0.81
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:6131749 original size:22 final size:22
Alignment explanation
Indices: 6131724--6131782 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 22
6131714 ATTATTTAGT
6131724 TAATAATAATAAAA-AAATATAA
1 TAATAATAATAAAACAAA-ATAA
*
6131746 TAATAATATTAAAACAAAATAA
1 TAATAATAATAAAACAAAATAA
6131768 TAATAATAAATAAAA
1 TAATAAT-AATAAAA
6131783 TGAAATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 24 0.73
23 9 0.27
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
TAATAATAATAAAACAAAATAA
Found at i:6136514 original size:2 final size:2
Alignment explanation
Indices: 6136507--6136532 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6136497 TCTAACCATA
6136507 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6136533 TATTCTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6136563 original size:18 final size:19
Alignment explanation
Indices: 6136505--6136565 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 19
6136495 TATCTAACCA
*
6136505 TAATATATAT-ATA-TATA
1 TAATATATATAATATTATT
* *
6136522 T-ATATATATATTATTCTT
1 TAATATATATAATATTATT
*
6136540 TCATAT-TATAATATTATT
1 TAATATATATAATATTATT
6136558 TAATATAT
1 TAATATAT
6136566 CAAATACAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 8 0.24
17 3 0.09
18 18 0.53
19 5 0.15
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATATATAATATTATT
Found at i:6137130 original size:152 final size:156
Alignment explanation
Indices: 6136845--6137131 Score: 438
Period size: 152 Copynumber: 1.9 Consensus size: 156
6136835 AAAAAAAGGT
** *
6136845 CTTAAAATAAATCACAAATTGAAGGAATAAGGATATTATGAAAAATTGAAGGACTAAATTGAAAA
1 CTTAAAATAAATCACAAATTGAAAAAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAA
* * **
6136910 ATAAAAGTTTATTATCAAAAAGAGGAATTGAAAGTACACATGTATTCTACTATGGTTTAGGAGCA
66 ATAAAAGTTTATTATCAAAAAGAGAAATTGAAAGTACACATGTATTATACTATCATTTAGGAGCA
6136975 TGTGGCTCAAATTTGATAAAAACTGA
131 TGTGGCTCAAATTTGATAAAAACTGA
* * * *
6137001 CTTAAAATAAATGACGAATTTAAAAAATAAGGAGATTATTAAAAATTGAAGGACTAAA-T-AAAA
1 CTTAAAATAAATCACAAATTGAAAAAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAA
*
6137064 A-AAAA-TTTGTTATCAAAAAGAGAAATTGAAAGTACACATGTATTATACTATCATTTAGGAGCA
66 ATAAAAGTTTATTATCAAAAAGAGAAATTGAAAGTACACATGTATTATACTATCATTTAGGAGCA
6137127 TGTGG
131 TGTGG
6137132 TTTAAATATG
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
152 58 0.49
153 4 0.03
154 5 0.04
155 1 0.01
156 51 0.43
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (156 bp):
CTTAAAATAAATCACAAATTGAAAAAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAA
ATAAAAGTTTATTATCAAAAAGAGAAATTGAAAGTACACATGTATTATACTATCATTTAGGAGCA
TGTGGCTCAAATTTGATAAAAACTGA
Found at i:6137331 original size:14 final size:14
Alignment explanation
Indices: 6137309--6137338 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6137299 AATTCGATTT
*
6137309 GACTTAAATAACTC
1 GACTAAAATAACTC
6137323 GACTAAAATAACTC
1 GACTAAAATAACTC
6137337 GA
1 GA
6137339 AAAATTGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.23
Consensus pattern (14 bp):
GACTAAAATAACTC
Found at i:6154783 original size:57 final size:57
Alignment explanation
Indices: 6154617--6154952 Score: 475
Period size: 57 Copynumber: 5.9 Consensus size: 57
6154607 GTCCAATACA
* * * ** * **
6154617 GAAATCCATACACTTAGTATGGATTTCTTATA-ATGTTAACACATGAAGTGCCCTATCT
1 GAAATTCATACACTTAGTAT-GATTTCTTA-ACATTTTAGCGTACGAAACGCCCTATCT
* * *
6154675 GGAAATTCATACTCTTAGAATGATTTCCTTAACATTTTAGCATACGAAACGCCCTATCT
1 -GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAACGCCCTATCT
6154734 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
6154791 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACG-CCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
6154847 GAAATTCATACACTTAGTATAATTTCTTAACATTTTAGCGTACGAAACACTCTATCT
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
6154904 GAAATTCATACACTTAGTAT--TTTC-TAACATTTTAGCGTACGAAACGCCC
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCC
6154953 AACATTTTAG
Statistics
Matches: 257, Mismatches: 17, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
54 23 0.09
55 4 0.02
56 54 0.21
57 106 0.41
58 29 0.11
59 41 0.16
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (57 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:6154840 original size:114 final size:114
Alignment explanation
Indices: 6154617--6155533 Score: 1031
Period size: 114 Copynumber: 7.8 Consensus size: 114
6154607 GTCCAATACA
* * * ** * **
6154617 GAAATCCATACACTTAGTATGGATTTCTTATA-ATGTTAACACATGAAGTGCCCTATCTGGAAAT
1 GAAATTCATACACTTAGTAT-GATTTCTTA-ACATTTTAGCGTACGAAACGCCCTATCT-GAAAT
* * *
6154681 TCATACTCTTAGAATGATTTCCTTAACATTTTAGCATACGAAACGCCCTATCT
63 TCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAACGCCCTATCT
6154734 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
6154799 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACG-CCTATCT
66 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
6154847 GAAATTCATACACTTAGTATAATTTCTTAACATTTTAGCGTACGAAACACTCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
* *
6154912 TACACTTAGTAT--TTTC-TAACATTTTAGCGTACGAAACGCCCAACATTT
66 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCC--TATCT
* * * * * * * * * * ** * ** ****
6154960 TAGAGTACGAAACGCCCTA-TCTGAAATTCAT-ACACTTAGTATGATTTCTTAACATTTTAGCGT
1 GA-AATTC-ATAC-ACTTAGTATG-ATTTCTTAACA-TT-TTA-GCGTACGAAACGCCCTA---T
* *
6155023 ACGAAACTCCCTATCTGAAATTCATACACTTAGTATGATTTTTTTAACATTTTAGCGTACGAAAC
56 -C---T----------GAAATTCATACACTTAGTATGAT-TTCTTAACATTTTAGCGTACGAAAC
6155088 GCCCTATCT
106 GCCCTATCT
* *
6155097 GAAATTCATACACTTAGTACGATTTCTTAACATTTTAACGTACGAAACGCCCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
* *
6155162 TACAATTAGTATGATTTTTCTTAACATTTTAGCGTACGAAACACCCTATCT
66 TACACTTAGTATGA--TTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* * *
6155213 GAAATTCATACACTTAGTGTGATTTCTTTACATTTTAGCGTAC-AAAGCGCCCTACCTGAAATTC
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAA-CGCCCTATCTGAAATTC
*
6155277 ATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATAT
65 ATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
* *
6155327 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGTCCTATCTAAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
6155392 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
66 TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
*
6155441 GAAATTCATACACTTAGTGTGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
1 GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
*
6155506 TACACTTAGTATGATTTATTAACATTTT
66 TACACTTAGTATGATTTCTTAACATTTT
6155534 GCACACTTAG
Statistics
Matches: 681, Mismatches: 81, Indels: 79
0.81 0.10 0.09
Matches are distributed among these distances:
110 22 0.03
111 6 0.01
113 85 0.12
114 252 0.37
115 59 0.09
116 139 0.20
117 22 0.03
118 10 0.01
121 1 0.00
122 1 0.00
128 1 0.00
129 1 0.00
132 7 0.01
133 2 0.00
134 10 0.01
135 28 0.04
136 3 0.00
137 5 0.01
138 2 0.00
139 25 0.04
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (114 bp):
GAAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCTGAAATTCA
TACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATCT
Found at i:6154961 original size:24 final size:24
Alignment explanation
Indices: 6154929--6154976 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6154919 AGTATTTTCT
*
6154929 AACATTTTAGCGTACGAAACGCCC
1 AACATTTTAGAGTACGAAACGCCC
6154953 AACATTTTAGAGTACGAAACGCCC
1 AACATTTTAGAGTACGAAACGCCC
6154977 TATCTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
AACATTTTAGAGTACGAAACGCCC
Found at i:6155041 original size:57 final size:57
Alignment explanation
Indices: 6154953--6155533 Score: 984
Period size: 57 Copynumber: 10.1 Consensus size: 57
6154943 CGAAACGCCC
*
6154953 AACATTTTAGAGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
1 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
* *
6155010 AACATTTTAGCGTACGAAACTCCCTATCTGAAATTCATACACTTAGTATGATTTTTTT
1 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGA-TTTCTT
*
6155068 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTACGATTTCTT
1 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
* *
6155125 AACATTTTAACGTACGAAACGCCCTATCTGAAATTCATACAATTAGTATGATTTTTCTT
1 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGA--TTTCTT
* *
6155184 AACATTTTAGCGTACGAAACACCCTATCTGAAATTCATACACTTAGTGTGATTTCTT
1 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
* *
6155241 TACATTTTAGCGTAC-AAAGCGCCCTACCTGAAATTCATACACTTAGTATGATTTCTT
1 AACATTTTAGCGTACGAAA-CGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
*
6155298 AACATTTTAGCGTACGAAACGCCCTATATGAAATTCATACACTTAGTATGATTTCTT
1 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
* *
6155355 AACATTTTAGCGTACGAAACGTCCTATCTAAAATTCATACACTTAGTATGATTTCTT
1 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
*
6155412 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTGTGATTTCTT
1 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
*
6155469 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTATT
1 AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
6155526 AACATTTT
1 AACATTTT
6155534 GCACACTTAG
Statistics
Matches: 491, Mismatches: 28, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
56 3 0.01
57 378 0.77
58 57 0.12
59 53 0.11
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (57 bp):
AACATTTTAGCGTACGAAACGCCCTATCTGAAATTCATACACTTAGTATGATTTCTT
Found at i:6158223 original size:90 final size:90
Alignment explanation
Indices: 6158070--6158249 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
6158060 ATCAAAAAAT
6158070 TCTCAATTAATTATTCAAGTATCTATATCATTAACCATAAAAGCTATATATATATATATATATCT
1 TCTCAATTAATTATTCAAGTATCTATATCATTAACCATAAAAGCTATATATATATATATATATCT
6158135 TTCTGACATCATTTTCTTCACCATC
66 TTCTGACATCATTTTCTTCACCATC
6158160 TCTCAATTAATTATTCAAGTATCTATATCATTAACCATAAAAGCTATATATATATATATATATCT
1 TCTCAATTAATTATTCAAGTATCTATATCATTAACCATAAAAGCTATATATATATATATATATCT
6158225 TTCTGACATCATTTTCTTCACCATC
66 TTCTGACATCATTTTCTTCACCATC
6158250 ATTATCGATA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (90 bp):
TCTCAATTAATTATTCAAGTATCTATATCATTAACCATAAAAGCTATATATATATATATATATCT
TTCTGACATCATTTTCTTCACCATC
Found at i:6162847 original size:13 final size:14
Alignment explanation
Indices: 6162831--6162860 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6162821 ATCTTATTGG
6162831 ATAAAAATAT-TAA
1 ATAAAAATATATAA
6162844 ATAAAAATATATAA
1 ATAAAAATATATAA
6162858 ATA
1 ATA
6162861 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAAAATATATAA
Found at i:6162860 original size:21 final size:20
Alignment explanation
Indices: 6162835--6162873 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6162825 TATTGGATAA
6162835 AAATATTAAATAAAAATATAT
1 AAATATTAAA-AAAAATATAT
*
6162856 AAATATTAAAAATAATAT
1 AAATATTAAAAAAAATAT
6162874 TCTAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATATTAAAAAAAATATAT
Found at i:6165157 original size:20 final size:20
Alignment explanation
Indices: 6165115--6165160 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
6165105 CCAAAACCTC
**
6165115 TTCCAATCTCGAGACCAGCA
1 TTCCAATCTCGAGACCAAAA
*
6165135 TTCCAATCTCGATACCAAAA
1 TTCCAATCTCGAGACCAAAA
6165155 TTCCAA
1 TTCCAA
6165161 AAGGCTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.33, G:0.09, T:0.24
Consensus pattern (20 bp):
TTCCAATCTCGAGACCAAAA
Found at i:6167451 original size:2 final size:2
Alignment explanation
Indices: 6167441--6167514 Score: 54
Period size: 2 Copynumber: 39.5 Consensus size: 2
6167431 AAATTGAAAA
*
6167441 AT AT A- AT AT AT AT AT AT AT AT AT AT A- AT AT A- AA AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
6167479 AT AT AA ACT AT AT A- AT -T AT -T AT AA ACT AT AT AT AT A
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A
6167515 AATTATATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
1 7 0.12
2 49 0.84
3 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:6167470 original size:19 final size:19
Alignment explanation
Indices: 6167441--6167515 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 19
6167431 AAATTGAAAA
6167441 ATATA-ATATATATAT-AT
1 ATATATATATATATATAAT
*
6167458 ATATATATA-ATATAAAAT
1 ATATATATATATATATAAT
*
6167476 -TATATATAAACTATATAATT
1 ATATATATATA-TATATAA-T
*
6167496 ATTATAAACTATATATATAA
1 A-TATATA-TATATATATAA
6167516 ATTATATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
17 18 0.39
18 6 0.13
19 6 0.13
20 1 0.02
22 12 0.26
23 3 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATATATATATATATAAT
Found at i:6167482 original size:29 final size:29
Alignment explanation
Indices: 6167447--6167553 Score: 78
Period size: 27 Copynumber: 3.7 Consensus size: 29
6167437 AAAAATATAA
*
6167447 TATATATATATATATATATAA-TATAAAA
1 TATATATATATATATATATAATTATAAAC
* *
6167475 T-TATATATAAACTATATAATTATTATAAAC
1 TATATATATATA-TATAT-ATAATTATAAAC
* * * *
6167505 TATATATATAAAT-TATATTA-TGTGAAC
1 TATATATATATATATATATAATTATAAAC
* *
6167532 TATATATAAACTATGTATATAA
1 TATATATATA-TATATATATAA
6167554 AATTATATAA
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
27 23 0.35
28 12 0.18
29 12 0.18
30 8 0.12
31 10 0.15
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (29 bp):
TATATATATATATATATATAATTATAAAC
Found at i:6167503 original size:18 final size:19
Alignment explanation
Indices: 6167447--6167510 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
6167437 AAAAATATAA
6167447 TATATATATATATATATATAA-
1 TATATA-AT-TATATATA-AAC
*
6167468 TATAAAATTATATATAAAC
1 TATATAATTATATATAAAC
6167487 TATATAATTAT-TATAAAC
1 TATATAATTATATATAAAC
6167505 TATATA
1 TATATA
6167511 TATAAATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 15 0.38
19 18 0.45
20 2 0.05
21 5 0.12
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
TATATAATTATATATAAAC
Found at i:6167516 original size:13 final size:13
Alignment explanation
Indices: 6167449--6167644 Score: 110
Period size: 13 Copynumber: 15.3 Consensus size: 13
6167439 AAATATAATA
*
6167449 TATATATATATA-
1 TATATATATAAAC
*
6167461 TATATAATATAAAA
1 TATAT-ATATAAAC
6167475 T-TATATATAAAC
1 TATATATATAAAC
6167487 TATATAATTATTATAAAC
1 --TAT-A-TA-TATAAAC
*
6167505 TATATATATAAAT
1 TATATATATAAAC
* *
6167518 TATATTATGTGAAC
1 TATA-TATATAAAC
6167532 --TATATATAAAC
1 TATATATATAAAC
*
6167543 TATGTATATAAA-
1 TATATATATAAAC
6167555 -AT-TATAT-AA-
1 TATATATATAAAC
*
6167564 T-TAT-TATAAGC
1 TATATATATAAAC
*
6167575 TATATATA-AAAT
1 TATATATATAAAC
* * *
6167587 TATGTTTATGTGAAC
1 TA--TATATATAAAC
6167602 TATATATATAAAC
1 TATATATATAAAC
*
6167615 TATGTATATAAAC
1 TATATATATAAAC
*
6167628 TATATGTATAAAC
1 TATATATATAAAC
6167641 TATA
1 TATA
6167645 AAAGTATATA
Statistics
Matches: 142, Mismatches: 22, Indels: 39
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.04
10 7 0.05
11 10 0.07
12 21 0.15
13 65 0.46
14 14 0.10
15 6 0.04
16 4 0.03
17 2 0.01
18 7 0.05
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:6167519 original size:20 final size:18
Alignment explanation
Indices: 6167480--6167521 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
6167470 TAAAATTATA
*
6167480 TATAAACTATATAATTAT
1 TATAAACTATATAATAAT
6167498 TATAAACTATATATATAAAT
1 TATAAACTATATA-AT-AAT
6167518 TATA
1 TATA
6167522 TTATGTGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
19 2 0.10
20 6 0.29
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
TATAAACTATATAATAAT
Found at i:6167578 original size:70 final size:71
Alignment explanation
Indices: 6167476--6167632 Score: 239
Period size: 70 Copynumber: 2.2 Consensus size: 71
6167466 AATATAAAAT
6167476 TATATATAAACTATATAATTATTATAAACTATATATATAAATTAT-ATTATGTGAAC-TATATAT
1 TATATA-AAACTATATAATTATTATAAACTATATATA-AAATTATGATTATGTGAACATATATAT
6167539 AAACTATG
64 AAACTATG
* * *
6167547 TATATAAAATTATATAATTATTATAAGCTATATATAAAATTATGTTTATGTGAACTATATATATA
1 TATATAAAACTATATAATTATTATAAACTATATATAAAATTATGATTATGTGAAC-ATATATATA
6167612 AACTATG
65 AACTATG
6167619 TATAT-AAACTATAT
1 TATATAAAACTATAT
6167633 GTATAAACTA
Statistics
Matches: 79, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
69 7 0.09
70 38 0.48
71 14 0.18
72 20 0.25
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (71 bp):
TATATAAAACTATATAATTATTATAAACTATATATAAAATTATGATTATGTGAACATATATATAA
ACTATG
Found at i:6167691 original size:16 final size:16
Alignment explanation
Indices: 6167602--6167710 Score: 55
Period size: 16 Copynumber: 6.8 Consensus size: 16
6167592 TTATGTGAAC
*
6167602 TATATATATAAACTATG
1 TATATATATAAAATA-G
**
6167619 TATATA-A-ACTATATG
1 TATATATATAAAATA-G
*
6167634 TATAAACTATAAAAGTA-
1 TATATA-TATAAAA-TAG
* *
6167651 TATAGTTTATAAAATAT
1 TATA-TATATAAAATAG
* *
6167668 TATTTATATAATATAG
1 TATATATATAAAATAG
*
6167684 TATATATATAAACTA-
1 TATATATATAAAATAG
*
6167699 TATATGTATAAA
1 TATATATATAAA
6167711 CTATATAAAA
Statistics
Matches: 70, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
15 21 0.30
16 24 0.34
17 21 0.30
18 2 0.03
19 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.41
Consensus pattern (16 bp):
TATATATATAAAATAG
Found at i:6167724 original size:31 final size:29
Alignment explanation
Indices: 6167684--6167769 Score: 73
Period size: 31 Copynumber: 2.8 Consensus size: 29
6167674 TATAATATAG
*
6167684 TATATATATAAACTATATATGTATAAACTA
1 TATAAATATAAA-TATATATGTATAAACTA
* * **
6167714 TATAAAATATATAGTTTATATGTTATAATTTA
1 TAT-AAATATA-AATATATATG-TATAAACTA
*
6167746 TATTAATATAATATATATATGTAT
1 TATAAATATAA-ATATATATGTAT
6167770 GCATTAGTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
30 7 0.16
31 26 0.59
32 11 0.25
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (29 bp):
TATAAATATAAATATATATGTATAAACTA
Found at i:6167733 original size:16 final size:15
Alignment explanation
Indices: 6167641--6167717 Score: 66
Period size: 15 Copynumber: 4.9 Consensus size: 15
6167631 ATGTATAAAC
6167641 TATAAAAGTATATAGTT
1 TATAAAA-TATATA-TT
6167658 TATAAAATAT-TATT
1 TATAAAATATATATT
*
6167672 TATATAATATAGTATATA
1 TATA-AA-ATA-TATATT
* *
6167690 TATAAACTATATATG
1 TATAAAATATATATT
*
6167705 TATAAACTATATA
1 TATAAAATATATA
6167718 AAATATATAG
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
14 6 0.11
15 22 0.42
16 8 0.15
17 10 0.19
18 7 0.13
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (15 bp):
TATAAAATATATATT
Found at i:6167846 original size:2 final size:2
Alignment explanation
Indices: 6167841--6167892 Score: 79
Period size: 2 Copynumber: 26.0 Consensus size: 2
6167831 TTATATAGTT
*
6167841 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6167882 TA TA TA CTA TA
1 TA TA TA -TA TA
6167893 CATGGTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 43 0.93
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6167922 original size:7 final size:7
Alignment explanation
Indices: 6167910--6167968 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
6167900 TATACATACA
6167910 TTAGGGT
1 TTAGGGT
6167917 TTAGGGT
1 TTAGGGT
**
6167924 TTATTGT
1 TTAGGGT
6167931 TTAGGGT
1 TTAGGGT
6167938 TTAGGGT
1 TTAGGGT
**
6167945 TTATTGT
1 TTAGGGT
6167952 TTAGGGT
1 TTAGGGT
*
6167959 TTAAGGT
1 TTAGGGT
6167966 TTA
1 TTA
6167969 TATAAACTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (7 bp):
TTAGGGT
Found at i:6167936 original size:21 final size:21
Alignment explanation
Indices: 6167910--6167969 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
6167900 TATACATACA
6167910 TTAGGGTTTAGGGTTTATTGT
1 TTAGGGTTTAGGGTTTATTGT
6167931 TTAGGGTTTAGGGTTTATTGT
1 TTAGGGTTTAGGGTTTATTGT
*
6167952 TTAGGGTTTAAGGTTTAT
1 TTAGGGTTTAGGGTTTAT
6167970 ATAAACTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.52
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTTATTGT
Found at i:6168211 original size:19 final size:20
Alignment explanation
Indices: 6168198--6168245 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
6168188 AATTTTTCTA
*
6168198 TTCCCTCTAAATTTCTCAAT
1 TTCCCTATAAATTTCTCAAT
6168218 TTCCCTATAAA-TTCTCAAT
1 TTCCCTATAAATTTCTCAAT
*
6168237 TTTCCTATA
1 TTCCCTATA
6168246 TTCTCAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (20 bp):
TTCCCTATAAATTTCTCAAT
Found at i:6168250 original size:17 final size:18
Alignment explanation
Indices: 6168210--6168252 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
6168200 CCCTCTAAAT
6168210 TTCTCAATTTCCCTATAAA
1 TTCTCAATTTCCCTAT-AA
*
6168229 TTCTCAATTTTCCTAT-A
1 TTCTCAATTTCCCTATAA
6168246 TTCTCAA
1 TTCTCAA
6168253 AATTTCCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.35
19 15 0.65
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCTCAATTTCCCTATAA
Found at i:6168260 original size:18 final size:17
Alignment explanation
Indices: 6168210--6168261 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
6168200 CCCTCTAAAT
6168210 TTCTC-AATTTCCCTATAAA
1 TTCTCAAATTT-CCTAT--A
*
6168229 TTCTCAATTTTCCTATA
1 TTCTCAAATTTCCTATA
6168246 TTCTCAAAATTTCCTA
1 TTCTC-AAATTTCCTA
6168262 ATTTCCCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 6 0.21
18 9 0.31
19 10 0.34
20 4 0.14
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (17 bp):
TTCTCAAATTTCCTATA
Found at i:6168373 original size:12 final size:12
Alignment explanation
Indices: 6168355--6168389 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6168345 TGAATAATAT
6168355 ATATATATATAA
1 ATATATATATAA
* *
6168367 GTATATACATAA
1 ATATATATATAA
6168379 ATATATATATA
1 ATATATATATA
6168390 TAATTAAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (12 bp):
ATATATATATAA
Found at i:6168835 original size:2 final size:2
Alignment explanation
Indices: 6168828--6168897 Score: 101
Period size: 2 Copynumber: 36.0 Consensus size: 2
6168818 TATGTTTAAT
*
6168828 TA TA TA TA T- TT TA TA TA CT- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
6168869 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6168898 ATTATTCAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
1 3 0.05
2 59 0.94
3 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6168837 original size:29 final size:31
Alignment explanation
Indices: 6168828--6168897 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
6168818 TATGTTTAAT
6168828 TATATATATTTTATATACTTATATATATATA
1 TATATATATTTTATATACTTATATATATATA
*
6168859 TATATATA-TATATATA-TATATATATTATATA
1 TATATATATTTTATATACT-TATATA-TATATA
6168890 TATATATA
1 TATATATA
6168898 ATTATTCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 1 0.03
30 13 0.36
31 22 0.61
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (31 bp):
TATATATATTTTATATACTTATATATATATA
Found at i:6169500 original size:20 final size:20
Alignment explanation
Indices: 6169477--6169515 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6169467 TTATTTTTTC
6169477 TTTATATAATTAAACTATAA
1 TTTATATAATTAAACTATAA
6169497 TTTATATAATTAAACTATA
1 TTTATATAATTAAACTATA
6169516 TTAATTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTATATAATTAAACTATAA
Found at i:6169846 original size:16 final size:16
Alignment explanation
Indices: 6169809--6169872 Score: 74
Period size: 16 Copynumber: 4.0 Consensus size: 16
6169799 AAAGTAAGTA
* * *
6169809 AGGTTAAAAACATGCC
1 AGGTTGAAAACAGGTC
* *
6169825 AGGTTGAAAACATGTT
1 AGGTTGAAAACAGGTC
*
6169841 ATGTTGAAAACAGGTC
1 AGGTTGAAAACAGGTC
6169857 AGGTTGAAAACAGGTC
1 AGGTTGAAAACAGGTC
6169873 GGGTAATACC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.23
Consensus pattern (16 bp):
AGGTTGAAAACAGGTC
Found at i:6169959 original size:32 final size:31
Alignment explanation
Indices: 6169903--6169973 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
6169893 CAGGTTAATC
*
6169903 TCGGGTTCGGGTTCATATCATTCGGATGCAGT
1 TCGGGTTCGGGTTCATATCATTCGG-TGCAAT
* * *
6169935 TCGGGTTTGGGTATCATAT-TTTCGGTTCAAT
1 TCGGGTTCGGGT-TCATATCATTCGGTGCAAT
6169966 TCGGGTTC
1 TCGGGTTC
6169974 AGGTCGTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 11 0.33
32 16 0.48
33 6 0.18
ACGTcount: A:0.14, C:0.17, G:0.30, T:0.39
Consensus pattern (31 bp):
TCGGGTTCGGGTTCATATCATTCGGTGCAAT
Found at i:6169972 original size:31 final size:30
Alignment explanation
Indices: 6169886--6169973 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 30
6169876 TAATACCAGT
6169886 TATTTATCAGGTT-AATCTCGGGTTCGGGTTCA
1 TATTT-TC-GGTTCAAT-TCGGGTTCGGGTTCA
* * * *
6169918 TATCATTCGGATGCAGTTCGGGTTTGGGTATCA
1 TAT-TTTCGG-TTCAATTCGGGTTCGGGT-TCA
6169951 TATTTTCGGTTCAATTCGGGTTC
1 TATTTTCGGTTCAATTCGGGTTC
6169974 AGGTCGTTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
31 13 0.30
32 22 0.50
33 9 0.20
ACGTcount: A:0.17, C:0.16, G:0.26, T:0.41
Consensus pattern (30 bp):
TATTTTCGGTTCAATTCGGGTTCGGGTTCA
Found at i:6170342 original size:13 final size:13
Alignment explanation
Indices: 6170324--6170352 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6170314 TTTATGATTT
6170324 ATTCTTTTTTCCA
1 ATTCTTTTTTCCA
6170337 ATTCTTTTTTCCA
1 ATTCTTTTTTCCA
6170350 ATT
1 ATT
6170353 ATAATGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTCTTTTTTCCA
Found at i:6170524 original size:13 final size:13
Alignment explanation
Indices: 6170506--6170534 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6170496 TTTATGATTT
6170506 ATTCTTTTTTCCA
1 ATTCTTTTTTCCA
6170519 ATTCTTTTTTCCA
1 ATTCTTTTTTCCA
6170532 ATT
1 ATT
6170535 ATAATGTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTCTTTTTTCCA
Found at i:6170585 original size:182 final size:183
Alignment explanation
Indices: 6170278--6170642 Score: 723
Period size: 182 Copynumber: 2.0 Consensus size: 183
6170268 CCAATTAATC
6170278 TAGATAAAATATTATAAATATGTATTAGAATACAACTTTATGATTTATTCTTTTTTCCAATTCTT
1 TAGATAAAATATTATAAATATGTATTAGAATACAACTTTATGATTTATTCTTTTTTCCAATTCTT
6170343 TTTTCCAATTATAATGTCAAGATTTAAAATAGATTTAAAGTTTCATCCGCTCGATCAATTTA-GT
66 TTTTCCAATTATAATGTCAAGATTTAAAATAGATTTAAAGTTTCATCCGCTCGATCAATTTAGGT
6170407 TATGGGCCTTTCCAAGTTGGGTTGGAACTATAAAACACATTGAAACAAAATTG
131 TATGGGCCTTTCCAAGTTGGGTTGGAACTATAAAACACATTGAAACAAAATTG
6170460 TAGATAAAATATTATAAATATGTATTAGAATACAACTTTATGATTTATTCTTTTTTCCAATTCTT
1 TAGATAAAATATTATAAATATGTATTAGAATACAACTTTATGATTTATTCTTTTTTCCAATTCTT
6170525 TTTTCCAATTATAATGTCAAGATTTAAAATAGATTTAAAGTTTCATCCGCTCGATCAATTTAGGT
66 TTTTCCAATTATAATGTCAAGATTTAAAATAGATTTAAAGTTTCATCCGCTCGATCAATTTAGGT
6170590 TATGGGCCTTTCCAAGTTGGGTTGGAACTATAAAACACATTGAAACAAAATTG
131 TATGGGCCTTTCCAAGTTGGGTTGGAACTATAAAACACATTGAAACAAAATTG
6170643 GGCCCGAAAA
Statistics
Matches: 182, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
182 127 0.70
183 55 0.30
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (183 bp):
TAGATAAAATATTATAAATATGTATTAGAATACAACTTTATGATTTATTCTTTTTTCCAATTCTT
TTTTCCAATTATAATGTCAAGATTTAAAATAGATTTAAAGTTTCATCCGCTCGATCAATTTAGGT
TATGGGCCTTTCCAAGTTGGGTTGGAACTATAAAACACATTGAAACAAAATTG
Found at i:6170676 original size:2 final size:2
Alignment explanation
Indices: 6170669--6170752 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
6170659 CCCTAAAAGT
6170669 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6170711 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6170753 CATAAACCTT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6171599 original size:25 final size:25
Alignment explanation
Indices: 6171571--6171619 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6171561 TTTATTTTCT
6171571 TTTTCTATAAAATTCTT-TAAATTTA
1 TTTTCTATAAAATT-TTATAAATTTA
*
6171596 TTTTCTCTAAAATTTTATAAATTT
1 TTTTCTATAAAATTTTATAAATTT
6171620 TAAATTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTCTATAAAATTTTATAAATTTA
Found at i:6182814 original size:2 final size:2
Alignment explanation
Indices: 6182807--6182851 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
6182797 TTGTGACTAT
6182807 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6182848 TA TA
1 TA TA
6182852 ACATTTAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6182830 original size:21 final size:21
Alignment explanation
Indices: 6182804--6182848 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
6182794 AGATTGTGAC
6182804 TATTATATATATATATATATA
1 TATTATATATATATATATATA
6182825 TATTATATATATATATATATA
1 TATTATATATATATATATATA
6182846 TAT
1 TAT
6182849 ATAACATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTATATATATATATATATA
Found at i:6184748 original size:50 final size:49
Alignment explanation
Indices: 6184624--6184748 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 49
6184614 GTAGCAGTAA
* *
6184624 AGCGCGCCCCTGAACCGCGCTATACGCTGATTTGGCACCACGCGGGTAT
1 AGCGCGCCCCTGAACCGCACTATACGCTGATCTGGCACCACGCGGGTAT
* * * *
6184673 AGCGCACCCCTTAACCCGCGA-TATACAG-TGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCTGAA-CCGC-ACTATAC-GCTGATCTGGCACCACGCGGGTAT
*
6184723 AGCGCGTCCCCTGATCCGCACTATAC
1 AGCGCG-CCCCTGAACCGCACTATAC
6184749 CTGGGTATCT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
49 13 0.21
50 42 0.68
51 7 0.11
ACGTcount: A:0.20, C:0.35, G:0.26, T:0.19
Consensus pattern (49 bp):
AGCGCGCCCCTGAACCGCACTATACGCTGATCTGGCACCACGCGGGTAT
Found at i:6184900 original size:12 final size:10
Alignment explanation
Indices: 6184871--6184895 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6184861 TTTATCACAC
6184871 CAAATTCTCT
1 CAAATTCTCT
6184881 CAAATTCTCT
1 CAAATTCTCT
6184891 CAAAT
1 CAAAT
6184896 ATTCTATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:6185170 original size:111 final size:111
Alignment explanation
Indices: 6185035--6185359 Score: 569
Period size: 111 Copynumber: 2.9 Consensus size: 111
6185025 ATATATATCT
* *
6185035 ACACTGTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATATTTAGT
1 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
6185100 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
66 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
6185146 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
1 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
*
6185211 TGATTTATTTAATGCATGATTATTAGTTTAAGAATTAAATATCTCG
66 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
* * * *
6185257 ACATTTTGCTGATACGATAGCATTTTAACGTTTCAATTTAATTTAAATTATTAGTAATAATTAGT
1 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
* *
6185322 TGATTTATTTAATGCATGATTATTACAGTAAGAATTAA
66 TGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
6185360 TTTTTGTAAT
Statistics
Matches: 204, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 204 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (111 bp):
ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
TGATTTATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
Found at i:6189765 original size:20 final size:20
Alignment explanation
Indices: 6189740--6189781 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6189730 TCGACATTGA
6189740 GATCGAAAAAGCTCGCAGTC
1 GATCGAAAAAGCTCGCAGTC
6189760 GATCGAAAAAGCTCGCAGTC
1 GATCGAAAAAGCTCGCAGTC
6189780 GA
1 GA
6189782 ATGCCTCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.24, G:0.26, T:0.14
Consensus pattern (20 bp):
GATCGAAAAAGCTCGCAGTC
Found at i:6191519 original size:35 final size:35
Alignment explanation
Indices: 6191473--6191546 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
6191463 TATTGCGATT
6191473 GATAAAATTTATCTATGCGATATGATATACAGTTA
1 GATAAAATTTATCTATGCGATATGATATACAGTTA
6191508 GATAAAATTTATCTATGCGATATGATATACAGTTA
1 GATAAAATTTATCTATGCGATATGATATACAGTTA
6191543 GATA
1 GATA
6191547 CAAAAAAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (35 bp):
GATAAAATTTATCTATGCGATATGATATACAGTTA
Found at i:6194538 original size:5 final size:5
Alignment explanation
Indices: 6194528--6194552 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6194518 CACTTCTCTA
6194528 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
6194553 GAAGAGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:6195628 original size:2 final size:2
Alignment explanation
Indices: 6195621--6195656 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6195611 TAACTAATCA
6195621 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6195657 TAATTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6196648 original size:260 final size:251
Alignment explanation
Indices: 6196149--6196752 Score: 836
Period size: 260 Copynumber: 2.4 Consensus size: 251
6196139 CTTATTTATA
* * *
6196149 TATTGAATAAAAAT-ATTTTTTATTATTTCGGGTTGGGTCA-GGTTTGTAATTCATATATTCGGA
1 TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGGGT-AGGGTTTCTAATTCATATATTCGGG
* * *
6196212 TCGGGTCTGGTGAAACTTTA--TTT-T-GGTTGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCG
65 TTGGGTCGGGTGAAACTTTATTTTTGTCGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCG
* * *
6196273 AGTTCGGGTTTAGGGTGAAAAATACATGACCCGAAAATATATATAATTTTACCTTATATATTTAG
130 AGTTCGGGTTCAGGGTGAAAAATACACGACCCGAAAAAATATATAATTTTACCTTATATATTTAG
*
6196338 GAATAATTACAATAATACCCCTCTATATAGAATTTTTTTCAATTAAGTCACTATTTT
195 GAATAATTACAATAATACCCCTCTATATAGAATTATTTTCAATTAAGTCACTATTTT
6196395 TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGGGTAAGGTCGGATTTCTAATTCATATATT
1 TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGGGT-A-G--GG-TTTCTAATTCATATATT
*
6196460 CGGGTTGGGTCGGGTGAAACTTTATTTTTGTCGGGTCGGGTCGGTTTTTTTAAGTGTGCTATTCG
61 CGGGTTGGGTCGGGTGAAACTTTATTTTTGTC-GGTCGGGTCGGTTTTTTTAAGTGTGATATTCG
* *
6196525 GGTCGAGTTCGTGTTCAGGGTGAAAAATACCCGACCCGACCCAAAAATATATAATTTTACCTTAT
125 GGTCGAGTTCGGGTTCAGGGTGAAAAATACACGACCCGA---AAAAATATATAATTTTACCTTAT
* * * *
6196590 ATATTTAGGAATAATTACAATAATACCCCTCTCTCTA-TATATATTTTCAATTAAGTCACTGTTT
187 ATATTTAGGAATAATTACAATAATACCCCTCTATATAGAAT-TATTTTCAATTAAGTCACTATTT
6196654 T
251 T
6196655 TATTGAATAAAAATAATTTTTTTATTATTTCGGGTC-----GGGTTTCTAATTCATATATTCGGG
1 TATTGAATAAAAATAA-TTTTTTATTATTTCGGGTCGGGTAGGGTTTCTAATTCATATATTCGGG
* *
6196715 TTGGGTCGGGTGAAACCTTATTTTGGTCAGGTCGGGTC
65 TTGGGTCGGGTGAAACTTTATTTTTGTC-GGTCGGGTC
6196753 TCGGATGGAG
Statistics
Matches: 321, Mismatches: 21, Indels: 27
0.87 0.06 0.07
Matches are distributed among these distances:
246 14 0.04
247 24 0.07
251 58 0.18
252 39 0.12
254 4 0.01
255 1 0.00
257 65 0.20
259 2 0.01
260 95 0.30
261 19 0.06
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (251 bp):
TATTGAATAAAAATAATTTTTTATTATTTCGGGTCGGGTAGGGTTTCTAATTCATATATTCGGGT
TGGGTCGGGTGAAACTTTATTTTTGTCGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGA
GTTCGGGTTCAGGGTGAAAAATACACGACCCGAAAAAATATATAATTTTACCTTATATATTTAGG
AATAATTACAATAATACCCCTCTATATAGAATTATTTTCAATTAAGTCACTATTTT
Found at i:6197021 original size:41 final size:40
Alignment explanation
Indices: 6196957--6197036 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
6196947 TTTATAAAAC
*
6196957 AAACTAAAATTTAAAAAAAAAGAAAGAAGGGCAATCCTGTA
1 AAACTAAAATTTAAAAAAAAAG-AAGAAGAGCAATCCTGTA
*
6196998 AAACTAAAA-TTAAACAAAGAAGAAGAAGAGCAATCCTGT
1 AAACTAAAATTTAAA-AAAAAAGAAGAAGAGCAATCCTGT
6197037 CATTTTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 21 0.58
41 15 0.42
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.16
Consensus pattern (40 bp):
AAACTAAAATTTAAAAAAAAAGAAGAAGAGCAATCCTGTA
Found at i:6197141 original size:17 final size:18
Alignment explanation
Indices: 6197119--6197180 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 18
6197109 TATGAAATTG
6197119 GATTCT-ATTTCCTGACA
1 GATTCTAATTTCCTGACA
6197136 GATTCTAATTT-CTGACA
1 GATTCTAATTTCCTGACA
* *
6197153 GATTCTAATTTCTTCACA
1 GATTCTAATTTCCTGACA
6197171 GATTCTAATT
1 GATTCTAATT
6197181 CCCTCAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
17 23 0.56
18 18 0.44
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (18 bp):
GATTCTAATTTCCTGACA
Found at i:6198808 original size:17 final size:17
Alignment explanation
Indices: 6198786--6198829 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
6198776 TAGGTGAAAC
6198786 CCTAAAATTTGACCGCA
1 CCTAAAATTTGACCGCA
6198803 CCTAAAATTTGACCGCA
1 CCTAAAATTTGACCGCA
*
6198820 TCTAAAATTT
1 CCTAAAATTT
6198830 TGAATGAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (17 bp):
CCTAAAATTTGACCGCA
Found at i:6205874 original size:42 final size:41
Alignment explanation
Indices: 6205811--6205898 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
6205801 CGGGCTATCA
* * *
6205811 GTAAGCCTTTCGAGCATGATGATTAAATCCTTTGGGTCATTT
1 GTAAGCCTTTCGAGCATGATGA-TAAATCCTTCGGGCCATTC
* *
6205853 GTAAGTCTTTCGAGCGA-GATGATAAGTCCTTCGGGCCATTC
1 GTAAGCCTTTCGAGC-ATGATGATAAATCCTTCGGGCCATTC
6205894 GTAAG
1 GTAAG
6205899 ATTTCGGGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
41 20 0.50
42 19 0.47
43 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
GTAAGCCTTTCGAGCATGATGATAAATCCTTCGGGCCATTC
Found at i:6205898 original size:41 final size:42
Alignment explanation
Indices: 6205792--6205898 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 42
6205782 CCAAAATCGG
* *
6205792 TAAGTCTTTCGGGCTA-TCAGTAAGCCTTTCGAGCATGATGAT
1 TAAGTCCTTCGGGCCATTC-GTAAGCCTTTCGAGCATGATGAT
* * * * *
6205834 TAAATCCTTTGGGTCATTTGTAAGTCTTTCGAGCGA-GATGA-
1 TAAGTCCTTCGGGCCATTCGTAAGCCTTTCGAGC-ATGATGAT
6205875 TAAGTCCTTCGGGCCATTCGTAAG
1 TAAGTCCTTCGGGCCATTCGTAAG
6205899 ATTTCGGGTA
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
41 20 0.38
42 30 0.58
43 2 0.04
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATTCGTAAGCCTTTCGAGCATGATGAT
Found at i:6206100 original size:42 final size:41
Alignment explanation
Indices: 6206053--6206148 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
6206043 ATTGGTAAGG
6206053 CCTTCGGGCCATCAATAAGCCTTTCGAGCATGATGATTAAAT
1 CCTTCGGGCCATCAATAAGCCTTTCGAGCATGATGA-TAAAT
* * * * * **
6206095 CCTTCGAGTCATCTATAAGTCTTTCGAGCGTGATGATATGT
1 CCTTCGGGCCATCAATAAGCCTTTCGAGCATGATGATAAAT
*
6206136 CTTTCGGGCCATC
1 CCTTCGGGCCATC
6206149 CGTAAGACCT
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 13 0.30
42 31 0.70
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (41 bp):
CCTTCGGGCCATCAATAAGCCTTTCGAGCATGATGATAAAT
Found at i:6206275 original size:257 final size:256
Alignment explanation
Indices: 6205533--6206358 Score: 1102
Period size: 257 Copynumber: 3.2 Consensus size: 256
6205523 TTTTTACTTA
* * * * * *
6205533 GTAAGTCCTCCGAGCCATCAGTAAGTCTTTCGTGCATGATAATTAAATCCTTATG-GTCATCTGT
1 GTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTT-CGAGTCATCTGT
* * * ** * * * *
6205597 CAGTCTTTCGAGCAAGATGATAAGTCATTCAGGCCATATATAAGGCCTTTGGGAATGATGTTTTC
65 AAGTCTTTCGAGCGAGATGATAAGTCATTCGGGCCATACGTAAGACCTTCGGGTAGGATGTTTTC
* * * * * * * *
6205662 ACGTGATTTTCAAAAAATGAGAAAACGACTTCCAAAGTTTCTCATTTAGTATTTTTCAGAAAGTG
130 ACATGAATTT-GAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATA-TTTTCAGAAAATG
* * *
6205727 AAATTTTTGAAACTTAAGAAAGCGATTTCCAAAGTTTCTTACC-AGTAGACTATTTCCAAAATCG
193 AAATTTTTGAAA-ATAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * * * *
6205791 GTAAGTCTTTCGGGCTATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTTGGGTCATTTGTA
1 GTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTA
* * *
6205856 AGTCTTTCGAGCGAGATGATAAGTCCTTCGGGCCATTCGTAAGA-TTTCGGGTAGGATGTTTTCA
66 AGTCTTTCGAGCGAGATGATAAGTCATTCGGGCCATACGTAAGACCTTCGGGTAGGATGTTTTCA
*
6205920 CATGAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCCCATTTAATATTTTCAGAAAATGAAA
131 CATGAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAA
* *
6205985 TTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCTAATAAACTATTTCCAAAATTG
196 TTTTTGAAAA-TAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * *
6206047 GTAAGGCCTTCGGGCCATCAATAAGCCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTATA
1 GTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTA
* * * * *
6206112 AGTCTTTCGAGCGTGATGATATGTCTTTCGGGCCATCCGTAAGACCTTCGGGTAGGATGTTTACA
66 AGTCTTTCGAGCGAGATGATAAGTCATTCGGGCCATACGTAAGACCTTCGGGTAGGATGTTTTCA
* *
6206177 TATGAATTTGAAAAATTG-GAAAGCAATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAA
131 CATGAATTTGAAAAA-TGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAA
*
6206241 ATTTTTGAAGAATAATAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
195 ATTTTTGAA-AATAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
* * *
6206304 GTAAGTCCTTCAGGCCATTAGTAAGCCTTTCGAGCATGATGCTTAAATCCTTCGA
1 GTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGA
6206359 AATATAAAAT
Statistics
Matches: 503, Mismatches: 59, Indels: 13
0.87 0.10 0.02
Matches are distributed among these distances:
255 52 0.10
256 149 0.30
257 208 0.41
258 94 0.19
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (256 bp):
GTAAGTCCTTCGGGCCATCAGTAAGCCTTTCGAGCATGATGATTAAATCCTTCGAGTCATCTGTA
AGTCTTTCGAGCGAGATGATAAGTCATTCGGGCCATACGTAAGACCTTCGGGTAGGATGTTTTCA
CATGAATTTGAAAAATGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCAGAAAATGAAA
TTTTTGAAAATAAGAAAGCGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTG
Found at i:6206417 original size:20 final size:20
Alignment explanation
Indices: 6206392--6206462 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
6206382 TGACTCTTGT
*
6206392 GTTGCGAATTTAAAAATCGC
1 GTTGCGAATTTAAAAATCGA
*
6206412 GTTGCGAA--AAAGAAATTCGA
1 GTTGCGAATTTAA-AAA-TCGA
*
6206432 GTTGCGAATTTGAAAA-CTGA
1 GTTGCGAATTTAAAAATC-GA
6206452 GTTGCGAATTT
1 GTTGCGAATTT
6206463 GGAAACTGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 2 0.05
19 4 0.10
20 32 0.76
21 3 0.07
22 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (20 bp):
GTTGCGAATTTAAAAATCGA
Found at i:6206484 original size:20 final size:20
Alignment explanation
Indices: 6206430--6206485 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
6206420 AAAGAAATTC
*
6206430 GAGTTGCGAATTTGAAAACT
1 GAGTTGCGAATTTGGAAACT
6206450 GAGTTGCGAATTTGGAAACT
1 GAGTTGCGAATTTGGAAACT
* *
6206470 GTGTTGCGAAATTGGA
1 GAGTTGCGAATTTGGA
6206486 GTTCGTATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (20 bp):
GAGTTGCGAATTTGGAAACT
Found at i:6206846 original size:17 final size:18
Alignment explanation
Indices: 6206826--6206876 Score: 86
Period size: 17 Copynumber: 2.8 Consensus size: 18
6206816 GCTAATGTTT
6206826 AAAAAAGAATATAAATG-
1 AAAAAAGAATATAAATGA
6206843 AAAAAAGAATATAAATGAA
1 AAAAAAGAATATAAATG-A
6206862 AAAAAAGAATATAAA
1 AAAAAAGAATATAAA
6206877 AAAGATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.53
19 15 0.47
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.16
Consensus pattern (18 bp):
AAAAAAGAATATAAATGA
Found at i:6206886 original size:19 final size:18
Alignment explanation
Indices: 6206827--6206886 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
6206817 CTAATGTTTA
**
6206827 AAAAAGAATATAAATGA-
1 AAAAAGAATATAAAAAAG
6206844 AAAAAGAATATAAATGAAA-
1 AAAAAGAATATAAA--AAAG
6206863 AAAAAGAATATAAAAAAG
1 AAAAAGAATATAAAAAAG
6206881 ATAAAA
1 A-AAAA
6206887 ACAAATTTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 17 0.46
18 1 0.03
19 19 0.51
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (18 bp):
AAAAAGAATATAAAAAAG
Found at i:6206922 original size:22 final size:22
Alignment explanation
Indices: 6206897--6206977 Score: 73
Period size: 22 Copynumber: 3.8 Consensus size: 22
6206887 ACAAATTTAG
*
6206897 TTAAATTAAAA-AAGAAAAATAA
1 TTAAAATAAAATAA-AAAAATAA
6206919 TTAAAATAAAATAAAAAAAT-A
1 TTAAAATAAAATAAAAAAATAA
*
6206940 --AAAATAAAACAACAACAAA-AA
1 TTAAAATAAAATAA-AA-AAATAA
*
6206961 TAAAAATAAAATAAAAA
1 TTAAAATAAAATAAAAA
6206978 TAAAAATGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
19 11 0.22
20 2 0.04
21 6 0.12
22 18 0.36
23 13 0.26
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (22 bp):
TTAAAATAAAATAAAAAAATAA
Found at i:6206929 original size:14 final size:13
Alignment explanation
Indices: 6206898--6206977 Score: 63
Period size: 14 Copynumber: 5.8 Consensus size: 13
6206888 CAAATTTAGT
*
6206898 TAAATTAAAAAAGA
1 TAAAATAAAAAA-A
*
6206912 -AAAATAATTAAAA
1 TAAAATAA-AAAAA
6206925 TAAAATAAAAAAA
1 TAAAATAAAAAAA
*
6206938 TAAAAATAAAACAA
1 T-AAAATAAAAAAA
* *
6206952 CAACAAAAATAAAAA
1 TAA-AATAA-AAAAA
6206967 TAAAATAAAAA
1 TAAAATAAAAA
6206978 TAAAAATGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
13 17 0.33
14 29 0.56
15 6 0.12
ACGTcount: A:0.79, C:0.04, G:0.01, T:0.16
Consensus pattern (13 bp):
TAAAATAAAAAAA
Found at i:6206942 original size:6 final size:6
Alignment explanation
Indices: 6206921--6206984 Score: 69
Period size: 6 Copynumber: 10.8 Consensus size: 6
6206911 AAAAATAATT
* * * *
6206921 AAAATA AAATAAA AAAATA AAAAT- AAAACA ACAACA AAAATA AAAAT-
1 AAAATA AAA-ATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
6206968 AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAAT
6206985 GTTGGATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
5 9 0.18
6 35 0.71
7 5 0.10
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:6206948 original size:11 final size:11
Alignment explanation
Indices: 6206921--6206982 Score: 69
Period size: 11 Copynumber: 5.8 Consensus size: 11
6206911 AAAAATAATT
6206921 AAAATAAAAT-
1 AAAATAAAATA
6206931 -AAA-AAAATA
1 AAAATAAAATA
*
6206940 AAAATAAAACA
1 AAAATAAAATA
6206951 ACAACA-AAAATA
1 A-AA-ATAAAATA
6206963 AAAATAAAATA
1 AAAATAAAATA
6206974 AAAATAAAA
1 AAAATAAAA
6206983 ATGTTGGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
8 5 0.11
9 3 0.07
10 4 0.09
11 23 0.52
12 8 0.18
13 1 0.02
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:6206976 original size:17 final size:17
Alignment explanation
Indices: 6206934--6206984 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
6206924 ATAAAATAAA
6206934 AAAATAAAAATAAAACA-
1 AAAATAAAAATAAAA-AT
* *
6206951 ACAACAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
6206968 AAAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
6206985 GTTGGATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 1 0.03
17 28 0.97
ACGTcount: A:0.80, C:0.06, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:6206982 original size:23 final size:23
Alignment explanation
Indices: 6206898--6206984 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
6206888 CAAATTTAGT
* *
6206898 TAAATTAAAAAAGAAAAAT--AAT
1 TAAAATAAAAAA-AAAAATAAAAA
6206920 TAAAATAAAATAAAAAAATAAAAA
1 TAAAATAAAA-AAAAAAATAAAAA
* * *
6206944 TAAAACAACAACAAAAATAAAAA
1 TAAAATAAAAAAAAAAATAAAAA
*
6206967 TAAAATAAAAATAAAAAT
1 TAAAATAAAAAAAAAAAT
6206985 GTTGGATTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 15 0.28
23 29 0.54
24 10 0.19
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.17
Consensus pattern (23 bp):
TAAAATAAAAAAAAAAATAAAAA
Done.