Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 34 of 325
Found at i:10075269 original size:44 final size:44
Alignment explanation
Indices: 10074834--10075306 Score: 291
Period size: 44 Copynumber: 10.7 Consensus size: 44
10074824 AAATCATAAG
* *
10074834 TCTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGACA-ATATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACA-A-A
* * * * *
10074879 TTTTATCTCTCTGAAGTTGCAGTGGAGCAG-GTCGAAGTTACGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATACAAA
* * * * * * * * * *
10074923 CCTCATCTCCCTGAAGTTACGGTAGAGTAG-GTTAAAATAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAA
* * * *
10074967 TCTTATCTCTCC-GAAGTTGCTGTGCAGCAGACTGAAGATAGTAGA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAA
* * * ** *
10075012 TCTTATCTCCCTAAAGTTGTAGTGGAACAGGTTGAAGTTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAA
* * * * * * *
10075056 CCTCATCTCCCTGAAGTTGCGGTGGAGCAG-GTTAAAATAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAA
* * * *
10075100 TCTTATCTCCCTGAAGTTGCGGTGAAGCAGACTGAAGATAGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAA
* * * * * *
10075145 TTTTATTTCCCAGAAGTTGCAGTAGAGCAGA-TCGAAGTTACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATACAAA
* * * *
10075189 CCTTATCTCTCTGAAGTTGCGGTGGAGCA-AGTTGAAGATACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATACAAA
* *
10075233 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATGAAGATA-ATGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACA--AA
*
10075278 TCTCATC-CCACT-AGAGTTGCAGTGGAGCA
1 TCTTATCTCC-CTGA-AGTTGCAGTGGAGCA
10075307 TATTGAAGCT
Statistics
Matches: 325, Mismatches: 87, Indels: 32
0.73 0.20 0.07
Matches are distributed among these distances:
43 11 0.03
44 177 0.54
45 137 0.42
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAA
Found at i:10076930 original size:22 final size:21
Alignment explanation
Indices: 10076883--10076930 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
10076873 TTACATTATC
*
10076883 TATTTTAAATCGTTTATATAT
1 TATTTTAAATCGTTTATAAAT
10076904 TATTTTAAAT-GATTTCATAAAT
1 TATTTTAAATCG-TTT-ATAAAT
10076926 TATTT
1 TATTT
10076931 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 13 0.54
22 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TATTTTAAATCGTTTATAAAT
Found at i:10076977 original size:27 final size:26
Alignment explanation
Indices: 10076844--10077043 Score: 83
Period size: 26 Copynumber: 7.7 Consensus size: 26
10076834 CTTTAATATT
* * ***
10076844 TTTATATATTATGTATCTTAAACCCC
1 TTTATATATTATTTATTTTAAATTAC
* * *
10076870 TTTTTACATTATCTATTTTAAA-T-C
1 TTTATATATTATTTATTTTAAATTAC
* *
10076894 GTT-TATA-TA-TTATTTTAAATGA-
1 TTTATATATTATTTATTTTAAATTAC
*
10076916 TTTCATAAATTATTTATTTTAAATTAC
1 TTT-ATATATTATTTATTTTAAATTAC
* **
10076943 TTTATATATTATTTCATTTTGAATTGT
1 TTTATATATTATTT-ATTTTAAATTAC
* * * * *
10076970 TTTGTATACTAATTTGTTTTCAATCA-
1 TTTATATA-TTATTTATTTTAAATTAC
* * *
10076996 TTT-TATATGATTTACTTTAAATTGC
1 TTTATATATTATTTATTTTAAATTAC
10077021 TTTTATAGTATCTATTCTATTTT
1 -TTTATA-TAT-TATT-TATTTT
10077044 CTTTCTATCA
Statistics
Matches: 129, Mismatches: 30, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
21 9 0.07
22 4 0.03
23 3 0.02
24 17 0.13
25 6 0.05
26 46 0.36
27 28 0.22
28 8 0.06
29 3 0.02
30 5 0.04
ACGTcount: A:0.29, C:0.09, G:0.05, T:0.56
Consensus pattern (26 bp):
TTTATATATTATTTATTTTAAATTAC
Found at i:10079772 original size:3 final size:3
Alignment explanation
Indices: 10079764--10079788 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10079754 GCAATAACTT
10079764 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
10079789 TAAAAAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:10084198 original size:19 final size:18
Alignment explanation
Indices: 10084174--10084209 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10084164 TAATAAATTA
*
10084174 TTTAATATTATAATTTTAT
1 TTTAATAATA-AATTTTAT
10084193 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
10084210 AAAATCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:10088949 original size:26 final size:26
Alignment explanation
Indices: 10088913--10088963 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
10088903 TGTACTGGAT
10088913 ATATAATTCCTTCGAAGTGATGAACA
1 ATATAATTCCTTCGAAGTGATGAACA
10088939 ATATAATTCCTTCGAAGTGATGAAC
1 ATATAATTCCTTCGAAGTGATGAAC
10088964 TTGAGTCAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (26 bp):
ATATAATTCCTTCGAAGTGATGAACA
Found at i:10092553 original size:49 final size:49
Alignment explanation
Indices: 10092475--10092720 Score: 285
Period size: 49 Copynumber: 5.0 Consensus size: 49
10092465 GTAGCCGAAG
* * * *
10092475 CTATCTGGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * *
10092524 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * * * *
10092574 CCATTTGATACACGTAGTAGCCTGCACTTAGTACTACATACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * * *
10092624 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
10092674 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
10092721 TCACAATAGC
Statistics
Matches: 162, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 80 0.49
50 46 0.28
51 36 0.22
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:10104135 original size:3 final size:3
Alignment explanation
Indices: 10104129--10104158 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10104119 ACACTACTAT
10104129 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10104159 TAGAAATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10104262 original size:3 final size:3
Alignment explanation
Indices: 10104254--10104286 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10104244 AAATATACAC
10104254 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10104287 AATGCAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10106063 original size:44 final size:44
Alignment explanation
Indices: 10106010--10106834 Score: 307
Period size: 44 Copynumber: 19.1 Consensus size: 44
10106000 CTATTACTTT
* * *
10106010 GGGGTTTAAGGCCCATCACCTTCGATTTATTTCCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* * * ** *
10106054 GGGGGTTAAGAT-CTTGTAAATTC-AGC-ATGTTACCCTACTGCTTA
1 GGGGGTTAAGGTCCAT-CACCTTCGATCTAT-TT-CCCTACTGCTTA
* * *
10106098 GGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* ** ** * * * *
10106142 GGGGGTTAAGATCTGT-AAATTCCACCTGTTACCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* * *
10106185 GGGGTTTAAGGTCCATCGCCTTTGATCTGA-TTCCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCT-ATTTCCCTACTGCTTA
* * * ** * * * *
10106229 AGGGGTTAAGATCCGT-AAATTCCACCTGTTACCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* * * *
10106272 GGGGTTTAAGGTCCATCGCCTTTGATCTGTTTCCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* ** ** * * * * *
10106316 GGGGGTTAAGATCTGT-AAATCCAACCTGTTACCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* * * * *
10106359 GGGGTTTGAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* ** ** * * * * *
10106403 GGGGGTTAAGTTCTGT-AAATTCCAACCTGTTACCCTACTACTTA
1 GGGGGTTAAGGTCCATCACCTT-CGATCTATTTCCCTACTGCTTA
* * * * *
10106447 GGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTATTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* ** * *
10106491 AGGGGTTAAGAGT-TGTAAACC-T--AT-TA---CCCTACTACTTA
1 GGGGGTTAAG-GTCCAT-CACCTTCGATCTATTTCCCTACTGCTTA
* * * * *
10106529 GGGGTTTAAGGTTCATCGCCTTCGATTTGTTTCCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* ** * ** * * * * *
10106573 GGGGGTTAAGATCTGTAAATTTAG-CCTGTTACCCTACTACTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* * * ** * * * *
10106616 GGGAGTTAAGGCCCGTTGCTTTCAATCTGTTTCCCTATTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
** *
10106660 GGGGGTTAAGAG-CTGTAAACC-T--AT-TA---CCCTACTGCTTA
1 GGGGGTTAAG-GTCCAT-CACCTTCGATCTATTTCCCTACTGCTTA
* * *
10106698 GGGGTTTAAGGTTCATCACTTTCGATCTATTTCCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* ** * ** * * * * *
10106742 GGGGGTTAAGATCTGTAAATTTAG-CCTGTTACCCTACTACTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
* ** * * *
10106785 GGGAGTTAAGGTCCGCCGCTTTCGATCTGTTTCCCTACTGCTTA
1 GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
10106829 GGGGGT
1 GGGGGT
10106835 CAAATCTGCT
Statistics
Matches: 550, Mismatches: 196, Indels: 70
0.67 0.24 0.09
Matches are distributed among these distances:
37 7 0.01
38 42 0.08
40 4 0.01
41 5 0.01
42 6 0.01
43 159 0.29
44 311 0.57
45 14 0.03
46 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (44 bp):
GGGGGTTAAGGTCCATCACCTTCGATCTATTTCCCTACTGCTTA
Found at i:10106202 original size:87 final size:86
Alignment explanation
Indices: 10105986--10106842 Score: 1090
Period size: 87 Copynumber: 10.0 Consensus size: 86
10105976 ATCTATAATT
* * * * * *
10105986 TTCAGCCTGTTACCCTATTACTTTGGGGTTTAAGGCCCATCACCTTCGATTTATTTCCCTACTGC
1 TTCA-CCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
10106051 TTAGGGGGTTAAGATCTTGTAAA
65 TTAGGGGGTTAAGATC-TGTAAA
* * * *
10106074 TTCAGCATGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTATTTCCCTACTGC
1 TTCA-CCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
10106139 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * *
10106161 TTCCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGATTCCCTACTGC
1 TT-CACCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
* *
10106226 TTAAGGGGTTAAGATCCGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* *
10106248 TTCCACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGTTTCCCTACTGC
1 TT-CACCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
10106313 TTAGGGGGTTAAGATCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* * * *
10106335 TCCAACCTGTTACCCTACTGCTTAGGGGTTTGAGGTTCATCGCCTTCGATCTGTTTCCCTACTGC
1 TTC-ACCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGC
*
10106400 TTAGGGGGTTAAGTTCTGTAAA
65 TTAGGGGGTTAAGATCTGTAAA
* *
10106422 TTCCAACCTGTTACCCTACTACTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTATTG
1 TT-C-ACCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTG
*
10106487 CTTAAGGGGTTAAGAGT-TGT-AA
64 CTTAGGGGGTTAAGA-TCTGTAAA
* * *
10106509 ---ACCTATTACCCTACTACTTAGGGGTTTAAGGTTCATCGCCTTCGATTTGTTTCCCTACTGCT
1 TTCACCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCT
10106571 TAGGGGGTTAAGATCTGTAAA
66 TAGGGGGTTAAGATCTGTAAA
* * * * * * *
10106592 TTTAGCCTGTTACCCTACTACTTAGGGAG-TTAAGGCCCGTTGCTTTCAATCTGTTTCCCTATTG
1 TTCA-CCTGTTACCCTACTACTTAGGG-GTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTG
*
10106656 CTTAGGGGGTTAAGAGCTGT-AA
64 CTTAGGGGGTTAAGATCTGTAAA
* * * * * *
10106678 ---ACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCACTTTCGATCTATTTCCCTACTGCT
1 TTCACCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCT
10106740 TAGGGGGTTAAGATCTGTAAA
66 TAGGGGGTTAAGATCTGTAAA
* ** *
10106761 TTTAGCCTGTTACCCTACTACTTAGGGAG-TTAAGGTCCGCCGCTTTCGATCTGTTTCCCTACTG
1 TTCA-CCTGTTACCCTACTACTTAGGG-GTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTG
*
10106825 CTTAGGGGGTCAA-ATCTG
64 CTTAGGGGGTTAAGATCTG
10106843 CTATCTTTAA
Statistics
Matches: 689, Mismatches: 62, Indels: 38
0.87 0.08 0.05
Matches are distributed among these distances:
81 2 0.00
82 140 0.20
83 5 0.01
86 10 0.01
87 379 0.55
88 152 0.22
89 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
TTCACCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCT
TAGGGGGTTAAGATCTGTAAA
Found at i:10106700 original size:169 final size:170
Alignment explanation
Indices: 10105995--10106834 Score: 1107
Period size: 169 Copynumber: 4.9 Consensus size: 170
10105985 TTTCAGCCTG
* * * ** * * *
10105995 TTACCCTATTACTTTGGGGTTTAAGGCCCATCACCTTCGATTTATTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * * *
10106060 TAAGATCTTGTAAATTCAGCATGTTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATC
66 TAAGATC-TGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCTTTCGATC
* * *
10106125 TATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCCACCTG
130 TGTTTCCCTACTGCTTAGGGGGTTAAGAGCTGTAAA----ACCTA
* * * *
10106170 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGATTCCCTACTGCTTAAGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* *
10106235 TAAGATCCGTAAATTCCA-CCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTT-GAT
66 TAAGATCTGTAAATT-CAGCCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCG-CTTTCGAT
* *
10106298 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCCAACCTG
129 CTGTTTCCCTACTGCTTAGGGGGTTAAGAGCTGT-AA---AACCTA
*
10106344 TTACCCTACTGCTTAGGGGTTTGAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * * *
10106409 TAAGTTCTGTAAATTCCAACCTGTTACCCTACTACTTAGGGGTTTAAGGTTCATCGCCTTCGATC
66 TAAGATCTGTAAATT-CAGCCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCTTTCGATC
* * *
10106474 TGTTTCCCTATTGCTTAAGGGGTTAAGAGTTGT-AAACCTA
130 TGTTTCCCTACTGCTTAGGGGGTTAAGAGCTGTAAAACCTA
* *
10106514 TTACCCTACTACTTAGGGGTTTAAGGTTCATCGCCTTCGATTTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * * * *
10106579 TAAGATCTGTAAATTTAGCCTGTTACCCTACTACTTAGGGAG-TTAAGGCCCGTTGCTTTCAATC
66 TAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGG-GTTTAAGGTCCATCGCTTTCGATC
*
10106643 TGTTTCCCTATTGCTTAGGGGGTTAAGAGCTGT-AAACCTA
130 TGTTTCCCTACTGCTTAGGGGGTTAAGAGCTGTAAAACCTA
* * *
10106683 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCACTTTCGATCTATTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* **
10106748 TAAGATCTGTAAATTTAGCCTGTTACCCTACTACTTAGGGAG-TTAAGGTCCGCCGCTTTCGATC
66 TAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGG-GTTTAAGGTCCATCGCTTTCGATC
10106812 TGTTTCCCTACTGCTTAGGGGGT
130 TGTTTCCCTACTGCTTAGGGGGT
10106835 CAAATCTGCT
Statistics
Matches: 602, Mismatches: 54, Indels: 24
0.89 0.08 0.04
Matches are distributed among these distances:
169 219 0.36
170 82 0.14
173 1 0.00
174 162 0.27
175 137 0.23
178 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (170 bp):
TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
TAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGTCCATCGCTTTCGATCT
GTTTCCCTACTGCTTAGGGGGTTAAGAGCTGTAAAACCTA
Found at i:10106991 original size:44 final size:44
Alignment explanation
Indices: 10106835--10107236 Score: 140
Period size: 44 Copynumber: 9.3 Consensus size: 44
10106825 CTTAGGGGGT
* * *
10106835 CAAATCTGCTATCTTTAA-CTTGTTCCTTATAAACACAAGGATGC
1 CAAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGC
** * * * *** *
10106879 C--ATGCTGAAATCTTCAATCTGCTTCACTGTAAGCACAATAATGT
1 CAAAT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGC
* * *
10106923 CAGATCTGCTATCTTCGATCTGTTCCCTATAAATACAGGGATGC
1 CAAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGC
* *
10106967 CAAATCTGCTATTTTCAA-CTTGTTCCCTATAAGCACAGGGATGC
1 CAAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGC
** ** ** * * * *
10107011 C--ATGCTGAAATCTTTGATCTGCTTTACTGTAAGCACAGGAATGT
1 CAAAT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGC
* * * * *
10107055 TAGATTTGCTATCTTCGATCTG-----T-T---CACAGAGATGC
1 CAAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGC
** * ** *
10107090 CAAATCTTTTATTTTCAA-CTTGTTCCCTATAAGGACAGGAATGC
1 CAAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGC
** * * * * *
10107134 C--ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCAC-GGGAATGT
1 CAAAT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGG-ATGC
** *
10107178 CAAATCTGCTATCTTTGATCTGTTCCCTATAAACATAGGGATGC
1 CAAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGC
*
10107222 CAAATCTGCAATCTT
1 CAAATCTGCTATCTT
10107237 TGATCTGCTC
Statistics
Matches: 257, Mismatches: 73, Indels: 56
0.67 0.19 0.15
Matches are distributed among these distances:
34 1 0.00
35 21 0.08
38 1 0.00
39 1 0.00
40 1 0.00
41 1 0.00
42 6 0.02
43 35 0.14
44 140 0.54
45 44 0.17
46 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.33
Consensus pattern (44 bp):
CAAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGC
Found at i:10107072 original size:132 final size:131
Alignment explanation
Indices: 10106835--10107230 Score: 531
Period size: 132 Copynumber: 3.1 Consensus size: 131
10106825 CTTAGGGGGT
* * * *
10106835 CAAATCTGCTATCTTT-AACTTGTTCCTTATAAACACAAGGATGCCATGCTGAAATCTTCAATCT
1 CAAATCTGCTAT-TTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCT
**
10106899 GCTTCACTGTAAGCACAATAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAATACAGGGA
65 GCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAA-ACAGGGA
10106964 TGC
129 TGC
*
10106967 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * *
10107032 CTTTACTGTAAGCACAGGAATGTTAGATTTGCTATCTTCGATCTGTT--C------ACAGAGATG
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAACAGGGATG
10107089 C
131 C
** * *
10107090 CAAATCTTTTATTTTCAACTTGTTCCCTATAAGGACAGGAATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * *
10107155 CTTCACTGTAAGCACGGGAATGTCAAATCTGCTATCTTTGATCTGTTCCCTATAAACATAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAA-ACAGGGAT
10107220 GC
130 GC
10107222 CAAATCTGC
1 CAAATCTGC
10107231 AATCTTTGAT
Statistics
Matches: 228, Mismatches: 26, Indels: 20
0.83 0.09 0.07
Matches are distributed among these distances:
123 110 0.48
125 1 0.00
130 1 0.00
131 3 0.01
132 113 0.50
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (131 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAACAGGGATG
C
Found at i:10107188 original size:123 final size:123
Alignment explanation
Indices: 10106835--10107202 Score: 461
Period size: 123 Copynumber: 2.9 Consensus size: 123
10106825 CTTAGGGGGT
* * *
10106835 CAAATCTGCTATCTTT-AACTTGTTCCTTATAAACACAAGG-ATGCCATGCTGAAATCTTCAATC
1 CAAATCTGCTAT-TTTCAACTTGTTCCCTATAAGCAC-AGGAATGCCATGCTGAAATCTTCGATC
** * *
10106898 TGCTTCACTGTAAGCACAATAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAATACAGGG
64 TGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCGATCTGTT--C-------ACAGAG
10106963 ATGC
120 ATGC
* *
10106967 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGAATGCCATGCTGAAATCTTCGATCTG
* * * *
10107032 CTTTACTGTAAGCACAGGAATGTTAGATTTGCTATCTTCGATCTGTTCACAGAGATGC
66 CTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCGATCTGTTCACAGAGATGC
** *
10107090 CAAATCTTTTATTTTCAACTTGTTCCCTATAAGGACAGGAATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGAATGCCATGCTGAAATCTTCGATCTG
* *
10107155 CTTCACTGTAAGCACGGGAATGTCAAATCTGCTATCTTTGATCTGTTC
66 CTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCGATCTGTTC
10107203 CCTATAAACA
Statistics
Matches: 213, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
123 111 0.52
130 1 0.00
131 6 0.03
132 95 0.45
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (123 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGAATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCGATCTGTTCACAGAGATGC
Found at i:10107350 original size:88 final size:88
Alignment explanation
Indices: 10107233--10107552 Score: 570
Period size: 88 Copynumber: 3.6 Consensus size: 88
10107223 AAATCTGCAA
* * * *
10107233 TCTTTGATCTGCTCTCCGCC-GCTACAGAGATGCCAAATCATCTTGGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
10107297 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
*
10107320 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
10107385 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
*
10107408 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTTCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
*
10107473 ACGTGAAAGCCAAATCAGTTATG
66 ACGTGAAAGCCAAATCAGCTATG
10107496 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
10107553 GGGAAGGTCA
Statistics
Matches: 223, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
87 18 0.08
88 205 0.92
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
ACGTGAAAGCCAAATCAGCTATG
Found at i:10107444 original size:47 final size:47
Alignment explanation
Indices: 10107305--10107536 Score: 149
Period size: 47 Copynumber: 5.2 Consensus size: 47
10107295 ACACGTGAAA
10107305 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
* * ** * * *
10107352 GCCAAAT---C-A--TCTTGGATCTGCT--TC-AATGTAAACACGTGAAA
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTG-ATACA-GAG-AT
10107393 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
* * ** * * *
10107440 GCCAAAT---C-A--TCTTGGATCTTCTTCAACG--T-AAACACGTGAAA
1 GCCAAATCAGCTATGTCTTCGATCTGC-TCCCCGCCTGATACA-GAG-AT
*
10107481 GCCAAATCAGTTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
1 GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
10107528 GCCAAATCA
1 GCCAAATCA
10107537 TCTTGGATCT
Statistics
Matches: 132, Mismatches: 29, Indels: 48
0.63 0.14 0.23
Matches are distributed among these distances:
38 2 0.02
39 9 0.07
40 5 0.04
41 38 0.29
42 4 0.03
43 2 0.02
44 3 0.02
45 2 0.02
46 4 0.03
47 47 0.36
48 5 0.04
49 9 0.07
50 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
Found at i:10109444 original size:11 final size:11
Alignment explanation
Indices: 10109428--10109453 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10109418 CTTTTTGGCA
10109428 TTTTTGTTTTG
1 TTTTTGTTTTG
10109439 TTTTTGTTTTG
1 TTTTTGTTTTG
10109450 TTTT
1 TTTT
10109454 CTTCTTCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:10111861 original size:33 final size:33
Alignment explanation
Indices: 10111824--10111890 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
10111814 TTCTTATGAC
*
10111824 AAACTGTTCTATTTAGCAATCAAATATGAATCA
1 AAACTGTTCTATTTAGAAATCAAATATGAATCA
10111857 AAACTGTTCTATTTAGAAATCAAATATGAATCA
1 AAACTGTTCTATTTAGAAATCAAATATGAATCA
10111890 A
1 A
10111891 CACCTCATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (33 bp):
AAACTGTTCTATTTAGAAATCAAATATGAATCA
Found at i:10113614 original size:3 final size:3
Alignment explanation
Indices: 10113608--10113677 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
10113598 ATATAACAAC
10113608 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10113656 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
10113678 TAGAAATACA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10114839 original size:29 final size:30
Alignment explanation
Indices: 10114797--10114856 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
10114787 GATTTTTTGT
*
10114797 TCTTGAATCTCAAAAAAAGA-AAAATCCCC
1 TCTTGAATCACAAAAAAAGACAAAATCCCC
10114826 TCTTGAATCACAAAAAAAGAGCAAAATCCCC
1 TCTTGAATCACAAAAAAAGA-CAAAATCCCC
10114857 CCCTGTGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 19 0.68
31 9 0.32
ACGTcount: A:0.48, C:0.25, G:0.08, T:0.18
Consensus pattern (30 bp):
TCTTGAATCACAAAAAAAGACAAAATCCCC
Found at i:10122702 original size:12 final size:12
Alignment explanation
Indices: 10122685--10122714 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10122675 TACCATTTGT
10122685 ATGTATGCATGC
1 ATGTATGCATGC
*
10122697 ATGTATGTATGC
1 ATGTATGCATGC
10122709 ATGTAT
1 ATGTAT
10122715 AGGGAAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (12 bp):
ATGTATGCATGC
Found at i:10124185 original size:17 final size:18
Alignment explanation
Indices: 10124156--10124189 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10124146 TTTAATTAAT
10124156 TAAATTGATTTTTTCAAA
1 TAAATTGATTTTTTCAAA
10124174 TAAATT-ATTTTTTCAA
1 TAAATTGATTTTTTCAA
10124190 CCCAATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (18 bp):
TAAATTGATTTTTTCAAA
Found at i:10127517 original size:56 final size:56
Alignment explanation
Indices: 10127431--10127550 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
10127421 ACAAGGGATG
10127431 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
10127487 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
10127543 ATGGGCAA
1 ATGGGCAA
10127551 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:10128919 original size:40 final size:40
Alignment explanation
Indices: 10128681--10128905 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
10128671 TCGAATGATG
* * * * *
10128681 TCCGGGCTAAGTCCCGAAGG-TTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
10128721 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10128761 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
10128800 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
10128840 TCCGGGTTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
10128881 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10128906 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10131664 original size:97 final size:97
Alignment explanation
Indices: 10131519--10131740 Score: 282
Period size: 97 Copynumber: 2.3 Consensus size: 97
10131509 AAAAGTTGTT
* * *
10131519 AATACGTTGTGGATGAACCACTAGTCATTGTAGATAAACTACCAACTAAAACATGTTGCGGATGA
1 AATAAGTTGTGGATGAACCACTGGTCATTGGAGATAAACTACCAACTAAAACATGTTGCGGATGA
* * *
10131584 ACTACTGGTTGTGCAGATAAATTGTTGACTAA
66 ACTACTGGTCGTGCAGATAAACTGTCGACTAA
* * * ** * * * * *
10131616 AATATGTTGTGGATGAACCATTGGTCGTTGGAGATAAACTGTCGACTAAAATATTTTGTGGGTGA
1 AATAAGTTGTGGATGAACCACTGGTCATTGGAGATAAACTACCAACTAAAACATGTTGCGGATGA
10131681 ACTACTGGTCGTGCAGATAAACTGTCGACTAA
66 ACTACTGGTCGTGCAGATAAACTGTCGACTAA
* *
10131713 AATAAATTATGGATGAACCACTGGTCAT
1 AATAAGTTGTGGATGAACCACTGGTCAT
10131741 GCAAATAAAT
Statistics
Matches: 105, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
97 105 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (97 bp):
AATAAGTTGTGGATGAACCACTGGTCATTGGAGATAAACTACCAACTAAAACATGTTGCGGATGA
ACTACTGGTCGTGCAGATAAACTGTCGACTAA
Found at i:10131665 original size:49 final size:48
Alignment explanation
Indices: 10131519--10131749 Score: 237
Period size: 48 Copynumber: 4.8 Consensus size: 48
10131509 AAAAGTTGTT
* * * * ** *
10131519 AATACGTTGTGGATGAACCACTAGTCATTGTAGATAAACTACCAACTAA
1 AATATGTTGTGGATGAACCACTGGTC-GTGCAGATAAACTGTCGACTAA
* * * * * *
10131568 AACATGTTGCGGATGAACTACTGGTTGTGCAGATAAATTGTTGACTAA
1 AATATGTTGTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAA
* *
10131616 AATATGTTGTGGATGAACCATTGGTCGTTGGAGATAAACTGTCGACTAA
1 AATATGTTGTGGATGAACCACTGGTCG-TGCAGATAAACTGTCGACTAA
* * *
10131665 AATATTTTGTGGGTGAACTACTGGTCGTGCAGATAAACTGTCGACTAA
1 AATATGTTGTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAA
** * * *
10131713 AATAAATTATGGATGAACCACTGGTCATGCAAATAAA
1 AATATGTTGTGGATGAACCACTGGTCGTGCAGATAAA
10131750 TTGTTGACAC
Statistics
Matches: 148, Mismatches: 33, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
48 87 0.59
49 61 0.41
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
AATATGTTGTGGATGAACCACTGGTCGTGCAGATAAACTGTCGACTAA
Found at i:10131807 original size:17 final size:17
Alignment explanation
Indices: 10131785--10131823 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
10131775 CATCCCACCC
10131785 CATGCAATGTAACATAA
1 CATGCAATGTAACATAA
10131802 CATGCAATGTAACATAA
1 CATGCAATGTAACATAA
10131819 CATGC
1 CATGC
10131824 TTATAGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (17 bp):
CATGCAATGTAACATAA
Found at i:10136100 original size:19 final size:20
Alignment explanation
Indices: 10136063--10136102 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10136053 TCATTCCATA
*
10136063 ACTCAATATAACATAAAAAG
1 ACTCAATATAAAATAAAAAG
10136083 ACTCAA-ATAAAATCAAAAAG
1 ACTCAATATAAAAT-AAAAAG
10136103 CATACTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.17
Consensus pattern (20 bp):
ACTCAATATAAAATAAAAAG
Found at i:10139195 original size:77 final size:77
Alignment explanation
Indices: 10139053--10139195 Score: 178
Period size: 77 Copynumber: 1.9 Consensus size: 77
10139043 TTGACGACAA
* * ** * ** * *
10139053 TTCGGCTATGTATGGCACTCAATGTTTGATTTGAGATAGCTTCGGCTATGTATGGCACTTGGTGT
1 TTCGGCTATGTATAGCACTCAATATGAGATTCGAGATAGCTTCGGCTACATATGGAACTTAGTGT
10139118 GCAATTCAAGAT
66 GCAATTCAAGAT
* * *
10139130 TTCGGCTATGTATAGCACTTAGTATGAGATTCGAGATAGCTTCGGCTACATATTGAACTTAGTGT
1 TTCGGCTATGTATAGCACTCAATATGAGATTCGAGATAGCTTCGGCTACATATGGAACTTAGTGT
10139195 G
66 G
10139196 TGAGATTAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
77 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (77 bp):
TTCGGCTATGTATAGCACTCAATATGAGATTCGAGATAGCTTCGGCTACATATGGAACTTAGTGT
GCAATTCAAGAT
Found at i:10144585 original size:15 final size:15
Alignment explanation
Indices: 10144565--10144638 Score: 73
Period size: 15 Copynumber: 5.0 Consensus size: 15
10144555 CATAATATCG
*
10144565 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
10144580 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
10144595 TAT-TCTGGATTTCTT
1 TATCT-TGGATTTCTT
* *
10144610 TAT-TCTGGGTTT-TC
1 TATCT-TGGATTTCTT
10144624 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
10144639 GTTATCTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
14 11 0.22
15 38 0.78
ACGTcount: A:0.11, C:0.15, G:0.16, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:10148764 original size:60 final size:60
Alignment explanation
Indices: 10148671--10148789 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
10148661 TGATGTTATG
*
10148671 TTTGTTAAATGGTTGTATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATATTCTT
1 TTTGTTAAATGGTTGCATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATATTCTT
* *
10148731 TTTGTTAAATGGTTGCATAATTGTATTATAAGTCCGATAATGCTCTTTAACCATGTTCT
1 TTTGTTAAATGGTTGCATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATATTCT
10148790 GGCATTGAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (60 bp):
TTTGTTAAATGGTTGCATAATTGTATTATAAGTCCGATAATGCTCCTTAACCATATTCTT
Found at i:10149345 original size:6 final size:6
Alignment explanation
Indices: 10149314--10149370 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
10149304 AAACATAAAC
* * * * * *
10149314 AAATAA GAATAA CATTAA CAAT-A AAATAA AAATGA AAGTAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
10149361 AAATAA AAAT
1 AAATAA AAAT
10149371 TTTGAAGTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 4 0.10
6 37 0.90
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:10159736 original size:37 final size:38
Alignment explanation
Indices: 10159679--10159754 Score: 127
Period size: 37 Copynumber: 2.0 Consensus size: 38
10159669 AACAAATTGT
**
10159679 TGTACATTTGAATAGTGTTAGGTTTTAATTCAAAAGTA
1 TGTACATTTGAATACAGTTAGGTTTTAATTCAAAAGTA
10159717 TGTACA-TTGAATACAGTTAGGTTTTAATTCAAAAGTA
1 TGTACATTTGAATACAGTTAGGTTTTAATTCAAAAGTA
10159754 T
1 T
10159755 TTGCAGCTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 30 0.83
38 6 0.17
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.41
Consensus pattern (38 bp):
TGTACATTTGAATACAGTTAGGTTTTAATTCAAAAGTA
Found at i:10173869 original size:14 final size:14
Alignment explanation
Indices: 10173850--10173881 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
10173840 ATACTTAGCA
10173850 TATTTATGGATGTT
1 TATTTATGGATGTT
10173864 TATTTATGGATGTT
1 TATTTATGGATGTT
10173878 TATT
1 TATT
10173882 ACTAGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (14 bp):
TATTTATGGATGTT
Found at i:10176592 original size:27 final size:27
Alignment explanation
Indices: 10176572--10176757 Score: 239
Period size: 27 Copynumber: 6.9 Consensus size: 27
10176562 AATTACCAAA
*
10176572 TTACCCCCGATTTACAGAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
10176599 TTACCC-CTGATTTACATAATTATCGTT
1 TTACCCTC-GATTTACAGAATTACCGTT
* *
10176626 TTACCCTCGACTTATAGAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
10176653 TTACCCTCGATTTACAGAATTACCGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* * **
10176680 TTACCCTCGATTTACAAAACTACTATT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
10176707 TTACCCTTGATTTACAGAATTACTGTT
1 TTACCCTCGATTTACAGAATTACCGTT
* *
10176734 TTACCCTTGATTTACAAAATTACC
1 TTACCCTCGATTTACAGAATTACC
10176758 AAAATACCCT
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 137 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.39
Consensus pattern (27 bp):
TTACCCTCGATTTACAGAATTACCGTT
Found at i:10176765 original size:27 final size:27
Alignment explanation
Indices: 10176654--10176932 Score: 150
Period size: 27 Copynumber: 10.3 Consensus size: 27
10176644 ATTACCGTTT
* * ****
10176654 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
* * * ***
10176681 TACCCTCGATTTACAAAACTACTATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *****
10176708 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
10176735 TACCCTTGATTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
**
10176762 TACCCTT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* *** *
10176789 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** ** *
10176816 TACCCTCAATTTGTAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* *
10176843 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
**
10176870 TACCCTTGACTTT-CTAAAAATTATAAAAA
1 TACCCTTGA-TTTAC--AAAATTACCAAAA
* * **
10176899 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
10176926 TACCCTT
1 TACCCTT
10176933 AGTTTGTAGA
Statistics
Matches: 203, Mismatches: 41, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 177 0.87
28 6 0.03
29 17 0.08
30 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:10176782 original size:54 final size:54
Alignment explanation
Indices: 10176735--10176960 Score: 222
Period size: 54 Copynumber: 4.1 Consensus size: 54
10176725 ATTACTGTTT
*
10176735 TACCCTTGATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAA
* *** * * *
10176789 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAA
* * * *
10176843 TACCCCTGATTTACAAAGTTA-CAGAAATACCCTTGACTTTCTAAAAATTA-TAAAAA
1 TACCCTTGATTTACAAAATTACCA-AAATACCCTT-AGTTTGT-AAAATTACT-AAAA
* * ** * * *
10176899 TACCATTGGTTTACAAAATTACTGAAATACCCTTAGTTTGTAGATTTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAA
*
10176953 CACCCTTG
1 TACCCTTG
10176961 TAGGATGAAA
Statistics
Matches: 135, Mismatches: 31, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 85 0.63
55 11 0.08
56 38 0.28
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAA
Found at i:10177055 original size:27 final size:27
Alignment explanation
Indices: 10176978--10177055 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
10176968 AAATGACTAA
* *
10176978 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
10177005 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
10177032 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
10177056 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:10178244 original size:25 final size:25
Alignment explanation
Indices: 10178215--10178262 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10178205 TTATAATATG
* * *
10178215 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
10178240 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
10178263 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:10178313 original size:9 final size:9
Alignment explanation
Indices: 10178301--10178357 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
10178291 TTTGATAAAC
10178301 ATGATATGT
1 ATGATATGT
*
10178310 ATGATATGCAC
1 ATGATATG--T
*
10178321 ATGACATGT
1 ATGATATGT
*
10178330 ATGATATGCAC
1 ATGATATG--T
10178341 ATGATATGT
1 ATGATATGT
10178350 ATGATATG
1 ATGATATG
10178358 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:10178324 original size:20 final size:20
Alignment explanation
Indices: 10178299--10178369 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
10178289 ATTTTGATAA
10178299 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
10178319 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
10178339 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
10178359 ACATGAGATGT
1 ACATGATATGT
10178370 TCGTAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:10178346 original size:11 final size:11
Alignment explanation
Indices: 10178310--10178364 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
10178300 CATGATATGT
10178310 ATGATATGCAC
1 ATGATATGCAC
* *
10178321 ATGACATG--T
1 ATGATATGCAC
10178330 ATGATATGCAC
1 ATGATATGCAC
*
10178341 ATGATATG--T
1 ATGATATGCAC
10178350 ATGATATGCAC
1 ATGATATGCAC
10178361 ATGA
1 ATGA
10178365 GATGTTCGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:10178544 original size:24 final size:24
Alignment explanation
Indices: 10178416--10178561 Score: 217
Period size: 23 Copynumber: 6.1 Consensus size: 24
10178406 AGGAAGTGCA
*
10178416 AAAGGGCTTATGCCCTAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
10178439 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
10178462 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
10178487 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
10178512 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
10178536 AAAGGGCTTTTGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
10178559 AAA
1 AAA
10178562 AGAGGCTAGG
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 47 0.41
24 22 0.19
25 46 0.40
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:10178568 original size:25 final size:24
Alignment explanation
Indices: 10178415--10178568 Score: 213
Period size: 25 Copynumber: 6.4 Consensus size: 24
10178405 GAGGAAGTGC
*
10178415 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
10178439 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
10178462 -AAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
* *
10178485 ATGAAGGGCTTATGCCCCAGTTATG
1 A-AAAGGGCTTATGCCCCAGTTATT
*
10178510 ATAAAGGGCTTATGCCCCAGTTATA
1 A-AAAGGGCTTATGCCCCAGTTATT
*
10178535 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
10178559 AAAAGAGGCT
1 AAAAG-GGCT
10178569 AGGCCTCTAG
Statistics
Matches: 120, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 44 0.37
24 26 0.22
25 50 0.42
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:10178583 original size:49 final size:48
Alignment explanation
Indices: 10178415--10178568 Score: 222
Period size: 48 Copynumber: 3.2 Consensus size: 48
10178405 GAGGAAGTGC
*
10178415 AAAAGGGCTTATGCCCTAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTATT
* *
10178462 -AAAGGGCTTATGCCCCAGTTATGATGAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCCAGTTATT
* *
10178510 ATAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTATT
10178559 AAAAGAGGCT
1 AAAAG-GGCT
10178569 AGGCCTCTAG
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
46 21 0.22
48 26 0.27
49 26 0.27
50 22 0.23
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTATT
Found at i:10181611 original size:27 final size:27
Alignment explanation
Indices: 10181578--10181653 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
10181568 TACGCTTAGT
* *
10181578 TTGTAAAAATACTGAAATACCCTCGAT
1 TTGTAAAAATACTAAAATACCCTCGAC
* * *
10181605 TTTTAAAATTACTAAAATACCTTCGAC
1 TTGTAAAAATACTAAAATACCCTCGAC
* * *
10181632 TTGTAAAATTACCAAAGTACCC
1 TTGTAAAAATACTAAAATACCC
10181654 CCGATTTACA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TTGTAAAAATACTAAAATACCCTCGAC
Found at i:10181668 original size:27 final size:27
Alignment explanation
Indices: 10181638--10181698 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
10181628 CGACTTGTAA
10181638 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
**** *
10181665 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
10181692 AATTACC
1 AATTACC
10181699 GTTTTACCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:10181699 original size:27 final size:27
Alignment explanation
Indices: 10181649--10181852 Score: 228
Period size: 27 Copynumber: 7.6 Consensus size: 27
10181639 ATTACCAAAG
10181649 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
10181676 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * **
10181703 TACCCCTGATTTACATAATTATTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
10181730 TACCCTCGACTTATAGAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
10181757 TACCCTCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * * **
10181784 TACCCCCAATTTACAAAACTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
** **
10181811 TACCCTTGATTTACAGAATTATTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
10181838 TACCCTCGATTTACA
1 TACCCCCGATTTACA
10181853 AAAGTACCAA
Statistics
Matches: 150, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:10181868 original size:27 final size:27
Alignment explanation
Indices: 10181838--10181950 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
10181828 ATTATTGTTT
** *
10181838 TACCCTCGATTTACAAAAGTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
10181865 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * * *
10181892 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
10181919 TACCCTCAATTTGTAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
10181946 TACCC
1 TACCC
10181951 CTGATTTACA
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 69 0.99
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:10181869 original size:81 final size:81
Alignment explanation
Indices: 10181649--10181861 Score: 273
Period size: 81 Copynumber: 2.6 Consensus size: 81
10181639 ATTACCAAAG
* * * * **
10181649 TACCCCCGATTTACAGAATTACCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCCCAATT
* * * *
10181714 TACATAATTATTGTTT
66 TACAAAACTACTATTT
* * *
10181730 TACCCTCGACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCCCAATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCCCAATT
10181795 TACAAAACTACTATTT
66 TACAAAACTACTATTT
* ** *
10181811 TACCCTTGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAAGTACCA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCA
10181862 AAATACCCTT
Statistics
Matches: 113, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 113 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCCCAATT
TACAAAACTACTATTT
Found at i:10181896 original size:54 final size:53
Alignment explanation
Indices: 10181838--10181979 Score: 144
Period size: 54 Copynumber: 2.6 Consensus size: 53
10181828 ATTATTGTTT
*
10181838 TACCCTCGATTTACAAAAGTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTAC-AAAGTACCAAAATACCCTTAATTTGTAAAATTACCAAAA
* * ** * * * *
10181892 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACTAAAA
1 TACCCTCGATTT-ACAAAGTACCAAAATACCCTTAATTTGTAAAATTACCAAAA
10181946 TACCC-CTGATTTACAAAGTTA-CAGAAATACCCTT
1 TACCCTC-GATTTACAAAG-TACCA-AAATACCCTT
10181980 GACTTTCTAA
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
53 4 0.06
54 64 0.94
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (53 bp):
TACCCTCGATTTACAAAGTACCAAAATACCCTTAATTTGTAAAATTACCAAAA
Found at i:10182158 original size:27 final size:27
Alignment explanation
Indices: 10182081--10182158 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
10182071 AAATGACTAA
* * *
10182081 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGATCGT
* *
10182108 AA-AGCCCCTGTAGGGTAAAGTGATCGT
1 AATA-CCCCTGTATGGTAAAATGATCGT
10182135 AATACCCCTGTATGGTAAAATGAT
1 AATACCCCTGTATGGTAAAATGAT
10182159 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGATCGT
Found at i:10183427 original size:20 final size:20
Alignment explanation
Indices: 10183402--10183452 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
10183392 ATTTTGATAA
10183402 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
10183422 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
10183442 ACATGAGATGT
1 ACATGATATGT
10183453 TCGTAAATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:10183578 original size:25 final size:24
Alignment explanation
Indices: 10183499--10183669 Score: 249
Period size: 25 Copynumber: 7.1 Consensus size: 24
10183489 AGGAAGTGCA
* *
10183499 AAAGGGTTTATGCCCTAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
10183522 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
10183545 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
10183570 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
10183595 GAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
10183620 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
10183644 AAAGGGCTTTTGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
10183667 AAA
1 AAA
10183670 AGAGGCTAGG
Statistics
Matches: 139, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
23 46 0.33
24 22 0.16
25 71 0.51
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:10187516 original size:13 final size:13
Alignment explanation
Indices: 10187498--10187526 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10187488 TTTAGTTTAA
10187498 TTAGTTAATTAGT
1 TTAGTTAATTAGT
10187511 TTAGTTAATTAGT
1 TTAGTTAATTAGT
10187524 TTA
1 TTA
10187527 ATAAACAACC
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:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:10199552 original size:46 final size:44
Alignment explanation
Indices: 10199496--10199674 Score: 180
Period size: 46 Copynumber: 3.9 Consensus size: 44
10199486 GGATATTTGG
10199496 GAATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *** * *
10199540 GAATGTCCGAACTGGTTGAGTTGAGTCTGAGTTCGAGAGATGTAATGAG
1 GAA--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GATG-C
*
10199589 GCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
10199633 AAACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -GA-ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10199675 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 19, Indels: 16
0.75 0.13 0.11
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 67 0.63
47 29 0.27
48 3 0.03
49 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (44 bp):
GAATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:10217072 original size:40 final size:40
Alignment explanation
Indices: 10217047--10217191 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
10217037 GATATGGTCG
10217047 CTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAA
*
10217087 CTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
* * * * *
10217127 CTTGCACAAATACCTTCGGGACTTAGACCGGAATTAATCA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
*
10217167 CTAGCACAAATGTCTTCGGGACTTA
1 CTAGCACAAATGCCTTCGGGACTTA
10217192 ACCCCGTTAG
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 93 0.98
41 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
Found at i:10223995 original size:40 final size:40
Alignment explanation
Indices: 10223966--10224110 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 40
10223956 GATATGGTCG
10223966 CTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAA
* *
10224006 CTCGCACAAATGCCTTCGGGACTTAGTCCGGAATTAGTAA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
* * *
10224046 CTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATCA
1 CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
*
10224086 CTAGCACAAATGTCTTCGGGACTTA
1 CTAGCACAAATGCCTTCGGGACTTA
10224111 ACCCCGTTAG
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 95 0.98
41 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAA
Found at i:10225455 original size:28 final size:25
Alignment explanation
Indices: 10225402--10225449 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
10225392 CTCCTTTCTT
10225402 CTTCCTTTGATTTTTCGGTCAAGGA
1 CTTCCTTTGATTTTTCGGTCAAGGA
10225427 CTTCCTTTGATTTTTCGGTCAAG
1 CTTCCTTTGATTTTTCGGTCAAG
10225450 AAGGACAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.46
Consensus pattern (25 bp):
CTTCCTTTGATTTTTCGGTCAAGGA
Found at i:10227858 original size:21 final size:20
Alignment explanation
Indices: 10227834--10227872 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10227824 TATTGAAACT
*
10227834 AAAACTAATACTAATAATAGC
1 AAAACTAATA-AAATAATAGC
10227855 AAAACTAATAAAATAATA
1 AAAACTAATAAAATAATA
10227873 TAGTACAAAA
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:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAATAATAGC
Found at i:10228939 original size:33 final size:33
Alignment explanation
Indices: 10228897--10228962 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
10228887 GGCGAAAGAA
10228897 AATCCAGCCAGGGGGCTTGTCACCGGCCGATCG
1 AATCCAGCCAGGGGGCTTGTCACCGGCCGATCG
10228930 AATCCAGCCAGGGGGCTTGTCACCGGCCGATCG
1 AATCCAGCCAGGGGGCTTGTCACCGGCCGATCG
10228963 TCGGCCGCCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.33, G:0.33, T:0.15
Consensus pattern (33 bp):
AATCCAGCCAGGGGGCTTGTCACCGGCCGATCG
Found at i:10253881 original size:46 final size:46
Alignment explanation
Indices: 10253819--10253908 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
10253809 TACAATAGAG
*
10253819 AATATGGAATTAAAGAAATAAACCAGTCACCAAGTATTCAAAGAAT
1 AATATGGAATTAAAGAAATAAACCAATCACCAAGTATTCAAAGAAT
**
10253865 AATATGGAATTAAAGAAATAAATTAATCACCAAGTATTCAAAGA
1 AATATGGAATTAAAGAAATAAACCAATCACCAAGTATTCAAAGA
10253909 TTAAAATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.53, C:0.11, G:0.12, T:0.23
Consensus pattern (46 bp):
AATATGGAATTAAAGAAATAAACCAATCACCAAGTATTCAAAGAAT
Found at i:10254664 original size:67 final size:67
Alignment explanation
Indices: 10254556--10254690 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
10254546 CGTCTTTGGA
10254556 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
1 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
10254621 GC
66 GC
10254623 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
1 CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
10254688 GC
66 GC
10254690 C
1 C
10254691 ATTCATCACG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.19
Consensus pattern (67 bp):
CCAAATTGGAAGCCAATAAGAAGAAATTGACCAACCATTCCACCACATTAAACCAATTCATCCTA
GC
Found at i:10265920 original size:50 final size:50
Alignment explanation
Indices: 10265845--10265945 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
10265835 AACCAGCTCG
10265845 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
1 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
10265895 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
1 ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
10265945 A
1 A
10265946 GGCGGGACAG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.50, C:0.16, G:0.18, T:0.16
Consensus pattern (50 bp):
ACGTGTACCAAAAAAACCAACCTGAAAAGTGGAATGAAAAAGATGTACTA
Found at i:10267750 original size:13 final size:13
Alignment explanation
Indices: 10267732--10267756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10267722 AAGCACGATT
10267732 CACACGGGCGTGC
1 CACACGGGCGTGC
10267745 CACACGGGCGTG
1 CACACGGGCGTG
10267757 TCCCTGCCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
CACACGGGCGTGC
Found at i:10275677 original size:24 final size:26
Alignment explanation
Indices: 10275626--10275677 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
10275616 ATCGATAGAA
**
10275626 ATTATAAGTTGAGAATAATTTATTTTG
1 ATTATAAGTTGAGAAT-ATTTAGCTTG
10275653 ATTATAAGTTGAGAAT-TTT-GCTTG
1 ATTATAAGTTGAGAATATTTAGCTTG
10275677 A
1 A
10275678 GGACAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 3 0.13
27 16 0.70
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (26 bp):
ATTATAAGTTGAGAATATTTAGCTTG
Found at i:10278635 original size:43 final size:45
Alignment explanation
Indices: 10278555--10278639 Score: 111
Period size: 43 Copynumber: 1.9 Consensus size: 45
10278545 ACGTATATGA
* *
10278555 GGCATCGACATGTGAATTCCGATATGTGATGTGCAAGTAAGAGAT
1 GGCATCGACATGTGAATTCCGATATATGATGAGCAAGTAAGAGAT
** *
10278600 GGCATCGATGTGTG-ATTCCTATATATG-TGAGCAAGTAAGA
1 GGCATCGACATGTGAATTCCGATATATGATGAGCAAGTAAGA
10278640 CCATATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 12 0.34
44 11 0.31
45 12 0.34
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (45 bp):
GGCATCGACATGTGAATTCCGATATATGATGAGCAAGTAAGAGAT
Found at i:10278735 original size:101 final size:101
Alignment explanation
Indices: 10278555--10278738 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
10278545 ACGTATATGA
* * *
10278555 GGCATCGACATGTGAATTCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATGTGTGATTCCT
1 GGCATCGACATGTGAACTCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATATGTGATTCCA
10278620 ATATATGTGAGCAAGTAAGACCATATTTAATATTTT
66 ATATATGTGAGCAAGTAAGACCATATTTAATATTTT
*
10278656 GGCATCGATATGTG-ACTCCGATATGTGATGTGCAAGTAAG-GCCATGGCATCGATATGTGATTC
1 GGCATCGACATGTGAACTCCGATATGTGATGTGCAAGTAAGAG--ATGGCATCGATATGTGATTC
*
10278719 CAATATATGTGTGCAAGTAA
64 CAATATATGTGAGCAAGTAA
10278739 AACCCTGTCT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
99 1 0.01
100 25 0.33
101 50 0.66
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (101 bp):
GGCATCGACATGTGAACTCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATATGTGATTCCA
ATATATGTGAGCAAGTAAGACCATATTTAATATTTT
Found at i:10278760 original size:101 final size:100
Alignment explanation
Indices: 10278555--10278771 Score: 256
Period size: 101 Copynumber: 2.1 Consensus size: 100
10278545 ACGTATATGA
* * * *
10278555 GGCATCGACATGTGAATTCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATGTGTGATTCCT
1 GGCATCGATATGTG-ACTCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATATGTGATTCCA
* * * ***
10278620 ATATATGTGAGCAAGTAAGACCATATTTAATATTTT
65 ATATATGTGAGCAAGTAAAACCATATCTAAGACAGT
10278656 GGCATCGATATGTGACTCCGATATGTGATGTGCAAGTAAG-GCCATGGCATCGATATGTGATTCC
1 GGCATCGATATGTGACTCCGATATGTGATGTGCAAGTAAGAG--ATGGCATCGATATGTGATTCC
* * * ** *
10278720 AATATATGTGTGCAAGTAAAACCCTGTCTGGGCCAGT
64 AATATATGTGAGCAAGTAAAACCATATCTAAGACAGT
10278757 GGCATCGATATGTGA
1 GGCATCGATATGTGA
10278772 TTACATGTAA
Statistics
Matches: 98, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 1 0.01
100 25 0.26
101 72 0.73
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (100 bp):
GGCATCGATATGTGACTCCGATATGTGATGTGCAAGTAAGAGATGGCATCGATATGTGATTCCAA
TATATGTGAGCAAGTAAAACCATATCTAAGACAGT
Found at i:10282855 original size:40 final size:40
Alignment explanation
Indices: 10282809--10282992 Score: 176
Period size: 40 Copynumber: 4.5 Consensus size: 40
10282799 TGATTGTATA
10282809 TATATATGGCACTTAGTGTGCAATTC-GAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAATTCAGA-ATAGCTTCGGC
*
10282849 TTTATATGGCACTTAGTGTGCAATTCAGAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCAATTCAGAATAGCTTCGGC
* * * * **
10282889 TATATATGGCACTTAGTGTGTGAGACTGAG-TTAGCTTCGAT
1 TATATATGGCACTTAGTGTG-CA-ATTCAGAATAGCTTCGGC
* ** * *
10282930 TATATAAGGTGCTTAGTGTGCGGGATT-ATAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGC--AATTCAGAATAGCTTCGGC
*
10282971 TATGTATTGGCACTTAGTGTGC
1 TATATA-TGGCACTTAGTGTGC
10282993 GAGAATTTGA
Statistics
Matches: 115, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
40 56 0.49
41 43 0.37
42 16 0.14
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCAATTCAGAATAGCTTCGGC
Found at i:10286290 original size:28 final size:26
Alignment explanation
Indices: 10286250--10286325 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 26
10286240 ATATATAAAT
* *
10286250 ATTATAAAATAATTATTTTGTACTTAA
1 ATTATAAAATAATTAATTT-TAATTAA
*
10286277 ATTATTAACATAATTAATTTTAATTAA
1 ATTA-TAAAATAATTAATTTTAATTAA
*
10286304 ATT-T---ATAATAAATTTTAATTAA
1 ATTATAAAATAATTAATTTTAATTAA
10286326 TTTTGATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 17 0.39
25 1 0.02
27 13 0.30
28 13 0.30
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTATAAAATAATTAATTTTAATTAA
Found at i:10286302 original size:10 final size:10
Alignment explanation
Indices: 10286287--10286338 Score: 61
Period size: 10 Copynumber: 5.1 Consensus size: 10
10286277 ATTATTAACA
10286287 TAATTAATTT
1 TAATTAATTT
10286297 TAATTAAATTT
1 TAATT-AATTT
*
10286308 ATAATAAATTT
1 -TAATTAATTT
10286319 TAATTAATTT
1 TAATTAATTT
*
10286329 TGATT-ATTT
1 TAATTAATTT
10286338 T
1 T
10286339 CGACAGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 5 0.14
10 18 0.49
11 10 0.27
12 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TAATTAATTT
Found at i:10286303 original size:27 final size:27
Alignment explanation
Indices: 10286250--10286311 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
10286240 ATATATAAAT
* *
10286250 ATTATAAAATAATTATTTTGTACTTAA
1 ATTATAAAATAATTAATTTGTAATTAA
*
10286277 ATTATTAACATAATTAATTT-TAATTAA
1 ATTA-TAAAATAATTAATTTGTAATTAA
10286304 ATTTATAA
1 A-TTATAA
10286312 TAAATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATAAAATAATTAATTTGTAATTAA
Found at i:10286913 original size:18 final size:17
Alignment explanation
Indices: 10286890--10286927 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
10286880 TTCACCTCTT
10286890 TTCTCTCTTCTCTCCACA
1 TTCTCTCTTCTCTCC-CA
*
10286908 TTCTCTCTTCTTTCCCA
1 TTCTCTCTTCTCTCCCA
10286925 TTC
1 TTC
10286928 AAAATTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.08, C:0.42, G:0.00, T:0.50
Consensus pattern (17 bp):
TTCTCTCTTCTCTCCCA
Found at i:10289176 original size:43 final size:43
Alignment explanation
Indices: 10289111--10289260 Score: 148
Period size: 43 Copynumber: 3.5 Consensus size: 43
10289101 TCTAAGATAT
* * *
10289111 CGTGTAAGACCGTGTCTAGGACACAGGCTTCG-ATTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGA-ATTTA
*
10289154 CGTATAAGACCATGTCTGGGACATC-GGCATCGTATCT-AATTT-
1 CGTGTAAGACCATGTCTGGGACA-CAGGCATCGTAT-TGAATTTA
* ** *
10289196 CGTGTAAGACCCTGTCTTAGACAGAGGCATCGATATTGAA-TTA
1 CGTGTAAGACCATGTCTGGGACACAGGCATCG-TATTGAATTTA
*
10289239 CATGTAAGACCATGTCTGGGAC
1 CGTGTAAGACCATGTCTGGGAC
10289261 GTCGGCATTG
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
42 29 0.33
43 53 0.61
44 4 0.05
45 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACACAGGCATCGTATTGAATTTA
Found at i:10289212 original size:42 final size:42
Alignment explanation
Indices: 10289110--10289277 Score: 144
Period size: 43 Copynumber: 3.9 Consensus size: 42
10289100 GTCTAAGATA
* * *
10289110 TCGTGTAAGACCGTGTCTAGGACA-CAGGCTTCG-ATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATC-GGCATCGTATTGA-ATT
*
10289152 TACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT-AATT
1 T-CGTGTAAGACCATGTCTGGGACATCGGCATCGTAT-TGAATT
* ** **
10289195 TCGTGTAAGACCCTGTCTTAGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACATCGGCATCG-TATTGAATT
* * * *
10289238 ACATGTAAGACCATGTCTGGGACGTCGGCATTGTACTTGA
1 TCGTGTAAGACCATGTCTGGGACATCGGCATCGTA-TTGA
10289278 TTATGAGCAT
Statistics
Matches: 100, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
42 30 0.30
43 65 0.65
44 4 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATCGGCATCGTATTGAATT
Found at i:10289247 original size:85 final size:85
Alignment explanation
Indices: 10289110--10289268 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 85
10289100 GTCTAAGATA
* * *
10289110 TCGTGTAAGACCGTGTCTAGGACACAGGCTTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTAGGACACAGGCATCGATTGAGATTTACATATAAGACCATGTCTGGGA
10289175 CATCGGCATCGTATCTAATT
66 CATCGGCATCGTATCTAATT
* *
10289195 TCGTGTAAGACCCTGTCTTA-GACAGAGGCATCGATATTGA-A-TTACATGTAAGACCATGTCTG
1 TCGTGTAAGACCCTGTC-TAGGACACAGGCATCG--ATTGAGATTTACATATAAGACCATGTCTG
*
10289257 GGACGTCGGCAT
63 GGACATCGGCAT
10289269 TGTACTTGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 57 0.88
86 3 0.05
87 5 0.08
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTAGGACACAGGCATCGATTGAGATTTACATATAAGACCATGTCTGGGA
CATCGGCATCGTATCTAATT
Found at i:10294653 original size:41 final size:41
Alignment explanation
Indices: 10294569--10294716 Score: 201
Period size: 41 Copynumber: 3.6 Consensus size: 41
10294559 GATTCGGATA
* *
10294569 TATATATGGCACTTAGTGTGCGA-TTCGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGC
* *
10294609 TATATATGGCACTTAGTGTGCGAGACCAAGATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGC
* *
10294650 TATATAAGGCACTTAGTGTGCGAGATTATA-ATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATCA-AGATAGCTTCGGC
*
10294691 TATGTATTGGCACTTAGTGTGCGAGA
1 TATATA-TGGCACTTAGTGTGCGAGA
10294717 ATTTGAGTAT
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 23 0.24
41 53 0.56
42 19 0.20
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCGAGATCAAGATAGCTTCGGC
Found at i:10298534 original size:25 final size:25
Alignment explanation
Indices: 10298501--10298548 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
10298491 TGGAATGAAT
10298501 ATATACCATATGATAAATTAATTAA
1 ATATACCATATGATAAATTAATTAA
*
10298526 ATATGCCATATGATAAATTAATT
1 ATATACCATATGATAAATTAATT
10298549 CATAGGTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (25 bp):
ATATACCATATGATAAATTAATTAA
Found at i:10309061 original size:12 final size:12
Alignment explanation
Indices: 10309044--10309068 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10309034 ACTTATAAGG
10309044 TTAAATATGTAA
1 TTAAATATGTAA
10309056 TTAAATATGTAA
1 TTAAATATGTAA
10309068 T
1 T
10309069 ACATTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTAAATATGTAA
Found at i:10316772 original size:14 final size:13
Alignment explanation
Indices: 10316749--10316780 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
10316739 GGAATATCAA
10316749 AACAATAATTAAG
1 AACAATAATTAAG
10316762 AACACATAATTAAG
1 AACA-ATAATTAAG
10316776 AACAA
1 AACAA
10316781 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:10318961 original size:27 final size:27
Alignment explanation
Indices: 10318920--10319007 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
10318910 ATGAGTTGAA
* *
10318920 ACCCCAAAATAGGTAAAATAATCATAAT
1 ACCCCTAAA-AGGTAAAATGATCATAAT
* *
10318948 ACCCCTAAAAGGTAAAATGACCGTAA-
1 ACCCCTAAAAGGTAAAATGATCATAAT
** *
10318974 AGCCCCTGTAGGGTAAAATGATCATAAT
1 A-CCCCTAAAAGGTAAAATGATCATAAT
10319002 ACCCCT
1 ACCCCT
10319008 TTATGGTAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.80
28 9 0.18
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (27 bp):
ACCCCTAAAAGGTAAAATGATCATAAT
Found at i:10319015 original size:27 final size:27
Alignment explanation
Indices: 10318930--10319016 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
10318920 ACCCCAAAAT
* *
10318930 AGGTAAAATAATCATAATACCCCTAAA
1 AGGTAAAATGATCATAATACCCCTATA
* * *
10318957 AGGTAAAATGACCGTAA-AGCCCCTGTA
1 AGGTAAAATGATCATAATA-CCCCTATA
* *
10318984 GGGTAAAATGATCATAATACCCCTTTA
1 AGGTAAAATGATCATAATACCCCTATA
*
10319011 TGGTAA
1 AGGTAA
10319017 CGTGACGATT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (27 bp):
AGGTAAAATGATCATAATACCCCTATA
Found at i:10329847 original size:28 final size:28
Alignment explanation
Indices: 10329814--10329868 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
10329804 ATTACACACT
* *
10329814 ACTGATACTGCATTGGGCTTAGGCCCAC
1 ACTGATACTGCATAGGGCTAAGGCCCAC
*
10329842 ACTGATACTGTATAGGGCTAAGGCCCA
1 ACTGATACTGCATAGGGCTAAGGCCCA
10329869 GATTATACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (28 bp):
ACTGATACTGCATAGGGCTAAGGCCCAC
Found at i:10331193 original size:45 final size:44
Alignment explanation
Indices: 10331142--10331248 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 44
10331132 CTAATTATGG
* ** *
10331142 GCACTTAATGTGTGAAATCGAGATAGCTTCGGATATATATATTTT
1 GCACTTAGTGTGCAAAATCGAGATAGCTTCGGATATATATA-TAT
* *
10331187 GCACTTAGCGTGCAAAATCGAGATAGCTTCGGCTATATATATAT
1 GCACTTAGTGTGCAAAATCGAGATAGCTTCGGATATATATATAT
10331231 GCACTTAGTGTGCAAAAT
1 GCACTTAGTGTGCAAAAT
10331249 TGATACAACT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 19 0.35
45 36 0.65
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (44 bp):
GCACTTAGTGTGCAAAATCGAGATAGCTTCGGATATATATATAT
Found at i:10331261 original size:44 final size:45
Alignment explanation
Indices: 10331156--10331266 Score: 125
Period size: 44 Copynumber: 2.5 Consensus size: 45
10331146 TTAATGTGTG
* * * *
10331156 AAATCGAGATAGCTTCGGATATATATATTTTGCACTTAGCGTGCA
1 AAATCGAGACAACTTCGGCTATATATATTATGCACTTAGCGTGCA
* * *
10331201 AAATCGAGATAGCTTCGGCTATATATA-TATGCACTTAGTGTGCA
1 AAATCGAGACAACTTCGGCTATATATATTATGCACTTAGCGTGCA
* * *
10331245 AAATTGATACAACTTCGACTAT
1 AAATCGAGACAACTTCGGCTAT
10331267 TTATTTGGCA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 32 0.55
45 26 0.45
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (45 bp):
AAATCGAGACAACTTCGGCTATATATATTATGCACTTAGCGTGCA
Found at i:10340079 original size:22 final size:22
Alignment explanation
Indices: 10340051--10340095 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10340041 AAGATTTGGA
10340051 AAACCAAATGGGTTAGTTAGCT
1 AAACCAAATGGGTTAGTTAGCT
10340073 AAACCAAATGGGTTAGTTAGCT
1 AAACCAAATGGGTTAGTTAGCT
10340095 A
1 A
10340096 CGGAGCTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (22 bp):
AAACCAAATGGGTTAGTTAGCT
Found at i:10341955 original size:13 final size:13
Alignment explanation
Indices: 10341933--10341963 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10341923 TTACTTTAGT
10341933 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
10341945 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
10341958 TTAGTT
1 TTAGTT
10341964 AATAAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:10345448 original size:27 final size:28
Alignment explanation
Indices: 10345418--10345479 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 28
10345408 TCATACATCT
*
10345418 CATAAGGG-C-ATCATAGTCATTTTATCA
1 CATAAGGGACAAT-ATAGTCATTTTACCA
*
10345445 CAT-AGGGACAATATAGTCTTTTTACCA
1 CATAAGGGACAATATAGTCATTTTACCA
*
10345472 CAAAAGGG
1 CATAAGGG
10345480 GGTCTAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 19 0.66
28 6 0.21
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (28 bp):
CATAAGGGACAATATAGTCATTTTACCA
Found at i:10346573 original size:14 final size:15
Alignment explanation
Indices: 10346551--10346580 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10346541 GAATATTAAA
10346551 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
10346566 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
10346580 A
1 A
10346581 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:10365629 original size:18 final size:19
Alignment explanation
Indices: 10365594--10365629 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10365584 ATAATTTTCA
*
10365594 TTTTTTTTCATGTTCAAGT
1 TTTTTTTTCATGTACAAGT
10365613 TTTTTTTTCAT-TACAAG
1 TTTTTTTTCATGTACAAG
10365630 ATTTCTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTTTTTCATGTACAAGT
Found at i:10365948 original size:40 final size:40
Alignment explanation
Indices: 10365846--10365949 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
10365836 TGATAGTTGT
* * *
10365846 GGCTAAGTCCCGAAGAGCATTCATGCTAGTGTTATATCCG
1 GGCTAAGTCCCGAAGAGCATTCGTCCTAGTGTTACATCCG
*
10365886 GGCTAAGTCCCGAAGAGCATTCGTCCT-GATGTTACATCTG
1 GGCTAAGTCCCGAAGAGCATTCGTCCTAG-TGTTACATCCG
* *
10365926 GGCTAAGTCCTGAAGGGCATTCGT
1 GGCTAAGTCCCGAAGAGCATTCGT
10365950 GCCGGTGATG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.02
40 56 0.98
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGAGCATTCGTCCTAGTGTTACATCCG
Found at i:10366159 original size:25 final size:25
Alignment explanation
Indices: 10366120--10366174 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
10366110 TGTGTAATAA
10366120 CGAATGAATGTAGGCACTATGTGTG
1 CGAATGAATGTAGGCACTATGTGTG
*
10366145 CGAATGAAT-TGAGGCACTGTGTGTG
1 CGAATGAATGT-AGGCACTATGTGTG
10366170 CGAAT
1 CGAAT
10366175 TCTTTAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (25 bp):
CGAATGAATGTAGGCACTATGTGTG
Found at i:10390109 original size:22 final size:21
Alignment explanation
Indices: 10390060--10390121 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
10390050 AAGCCTTCTA
* *
10390060 ATTATGGCTTTGTGTCAACCT
1 ATTATGGCTCTGTGCCAACCT
*
10390081 ACATATGGCTCTGTGCCAACCT
1 A-TTATGGCTCTGTGCCAACCT
* *
10390103 GATTATGGTTGTGTGCCAA
1 -ATTATGGCTCTGTGCCAA
10390122 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:10390401 original size:27 final size:27
Alignment explanation
Indices: 10390281--10390395 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
10390271 TTCTGTTAAG
* * *
10390281 TGGCTTTGCCACATTATCTGTTTCT-A
1 TGGCTCTGCCACAATATCTGTATCTGA
* *
10390307 GTGGCTATGCCACAAATATCTGT-TCTGG
1 -TGGCTCTGCCAC-AATATCTGTATCTGA
10390335 TGGCTCTGCCACAATATCTGTATCTGA
1 TGGCTCTGCCACAATATCTGTATCTGA
*
10390362 TGGTTCTGCCACAATATCTGTATCTGA
1 TGGCTCTGCCACAATATCTGTATCTGA
*
10390389 TGACTCT
1 TGGCTCT
10390396 ATCACAGTAT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
26 9 0.12
27 60 0.78
28 8 0.10
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.37
Consensus pattern (27 bp):
TGGCTCTGCCACAATATCTGTATCTGA
Found at i:10390406 original size:27 final size:27
Alignment explanation
Indices: 10390316--10390408 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
10390306 AGTGGCTATG
* * *
10390316 CCACAAATATCTGT-TCTGGTGGCTCTG
1 CCAC-AATATCTGTATCTGATGACTCTA
** *
10390343 CCACAATATCTGTATCTGATGGTTCTG
1 CCACAATATCTGTATCTGATGACTCTA
10390370 CCACAATATCTGTATCTGATGACTCTA
1 CCACAATATCTGTATCTGATGACTCTA
* *
10390397 TCACAGTATCTG
1 CCACAATATCTG
10390409 ATAACTGAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.16
27 49 0.84
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (27 bp):
CCACAATATCTGTATCTGATGACTCTA
Found at i:10390607 original size:6 final size:6
Alignment explanation
Indices: 10390598--10390694 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
10390588 ATTTTGTTAC
* * *
10390598 CTGATA CTGATT CTGATT TTGATT CTG-TT ACTTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT -C-TGATT CTGATT CTGATT
* *
10390647 CTGATT CTG-TCAC CTGATT CTGATT CTGATT TTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
10390695 AATGTTACTT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 61 0.82
7 7 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:10390621 original size:31 final size:31
Alignment explanation
Indices: 10390545--10390685 Score: 212
Period size: 31 Copynumber: 4.5 Consensus size: 31
10390535 TTGCATTCAC
*
10390545 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
10390577 ATTCTG-TTTTGATTTTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
10390607 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * *
10390638 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
10390669 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
10390686 AGTTCTGATA
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
30 28 0.28
31 65 0.66
32 6 0.06
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.52
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:10390694 original size:12 final size:12
Alignment explanation
Indices: 10390568--10390694 Score: 84
Period size: 12 Copynumber: 10.4 Consensus size: 12
10390558 ATTCTGTTAC
*
10390568 CTGATACTGATT
1 CTGATTCTGATT
*
10390580 CTG-TTTTGATT
1 CTGATTCTGATT
* *
10390591 TTG-TTACCTGATA
1 CTGATT--CTGATT
10390604 CTGATTCTGATT
1 CTGATTCTGATT
*
10390616 TTGATTCTG-TT
1 CTGATTCTGATT
*
10390627 ACTTGATACTGATT
1 -C-TGATTCTGATT
10390641 CTGATTCTGATT
1 CTGATTCTGATT
*
10390653 CTG-TCACCTGATT
1 CTGAT--TCTGATT
10390666 CTGATTCTGATT
1 CTGATTCTGATT
*
10390678 TTGATTCT-AGTT
1 CTGATTCTGA-TT
10390690 CTGAT
1 CTGAT
10390695 AATGTTACTT
Statistics
Matches: 90, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
11 14 0.16
12 48 0.53
13 23 0.26
14 5 0.06
ACGTcount: A:0.18, C:0.16, G:0.17, T:0.50
Consensus pattern (12 bp):
CTGATTCTGATT
Found at i:10392679 original size:27 final size:27
Alignment explanation
Indices: 10392649--10392814 Score: 197
Period size: 27 Copynumber: 6.1 Consensus size: 27
10392639 TTAGTTTACC
*
10392649 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * * *
10392676 AAATCACTAAAATACCCTTGGTATATA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
10392703 AAATCACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
10392730 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
10392757 AAATTACAAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
10392784 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
10392811 AAAT
1 AAAT
10392815 ACCCCTATAG
Statistics
Matches: 116, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:10392718 original size:54 final size:54
Alignment explanation
Indices: 10392649--10392814 Score: 260
Period size: 54 Copynumber: 3.1 Consensus size: 54
10392639 TTAGTTTACC
* *
10392649 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTATATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
10392703 AAATCACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
10392757 AAATTACAAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
10392811 AAAT
1 AAAT
10392815 ACCCCTATAG
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 100 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:10392850 original size:27 final size:27
Alignment explanation
Indices: 10392811--10393127 Score: 330
Period size: 27 Copynumber: 12.0 Consensus size: 27
10392801 TTTGTTTATA
*
10392811 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
10392838 GAATACCTCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
10392865 AAATACCACTATAGGGTAGAA-T----
1 AAATACCCCTGTAGGGTAGAATTACCG
*
10392887 ---TACCCCTGTAGGGTAAAATTACC-
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
10392910 AGAATACCCTTGTAGGGTAGAATTATCG
1 A-AATACCCCTGTAGGGTAGAATTACCG
* *
10392938 CAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
10392965 AAATACCCCTGTAGGATAGAATTAACG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
10392992 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
10393019 AAATACCCCTATAGAGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
10393046 CAATACCACTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
10393073 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
*
10393100 AAATA-CCCTAGTAGGGTGGAATTACCG
1 AAATACCCCT-GTAGGGTAGAATTACCG
10393127 A
1 A
10393128 GAAACCTTGT
Statistics
Matches: 244, Mismatches: 36, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.06
20 1 0.00
26 5 0.02
27 223 0.91
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:10393630 original size:22 final size:22
Alignment explanation
Indices: 10393578--10393642 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
10393568 TTAAAGCCTT
* *
10393578 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
10393600 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
10393622 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
10393643 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:10393831 original size:27 final size:27
Alignment explanation
Indices: 10393801--10393929 Score: 116
Period size: 27 Copynumber: 4.8 Consensus size: 27
10393791 ATTCTGTTAA
* * * *
10393801 GTGGCTTTGCCTCATTATCTGTTTTTG
1 GTGGCTATGCCACAATATCTGTTTCTG
10393828 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
10393855 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * * *
10393882 ATGCCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * * *
10393909 GTGACTCTGTCACAGTATCTG
1 GTGGCTATGCCACAATATCTG
10393930 ATAATTGAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.09
27 73 0.83
28 7 0.08
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:10394104 original size:6 final size:6
Alignment explanation
Indices: 10394089--10394207 Score: 82
Period size: 6 Copynumber: 19.3 Consensus size: 6
10394079 ATTCTGTTAC
* * *
10394089 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * * *
10394138 TTGATT CTG-TT ACTTGATA CTGATA CTGATT CTGATT TTG-TCAC CTGATT
1 CTGATT CTGATT -C-TGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT
*
10394188 CTGATT CTGATT TTGATT CT
1 CTGATT CTGATT CTGATT CT
10394208 AGTCCTGATA
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
5 5 0.06
6 73 0.82
7 8 0.09
8 3 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:10394130 original size:37 final size:31
Alignment explanation
Indices: 10394066--10394207 Score: 212
Period size: 31 Copynumber: 4.5 Consensus size: 31
10394056 TTGCATTCAT
*
10394066 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
10394098 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
10394129 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
10394160 ATACTGATTCTGATTTTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
10394191 ATTCTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
10394208 AGTCCTGATA
Statistics
Matches: 99, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 92 0.93
32 7 0.07
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:10394161 original size:19 final size:19
Alignment explanation
Indices: 10394108--10394161 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
10394098 ATTCTGATTT
*
10394108 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACTTGATAC
10394127 TGATTCTG--A-TT--T--
1 TGATTCTGTTACTTGATAC
10394139 TGATTCTGTTACTTGATAC
1 TGATTCTGTTACTTGATAC
10394158 TGAT
1 TGAT
10394162 ACTGATTCTG
Statistics
Matches: 27, Mismatches: 1, Indels: 14
0.64 0.02 0.33
Matches are distributed among these distances:
12 8 0.30
14 2 0.07
15 2 0.07
16 1 0.04
17 2 0.07
19 12 0.44
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (19 bp):
TGATTCTGTTACTTGATAC
Found at i:10396137 original size:12 final size:13
Alignment explanation
Indices: 10396101--10396138 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
10396091 AAATATTTGA
10396101 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
10396114 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
10396128 CTTG-TCTTAAT
1 CTTGTTCTTAAT
10396139 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:10402586 original size:12 final size:13
Alignment explanation
Indices: 10402550--10402587 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
10402540 AAATATTTGA
10402550 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
10402563 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
10402577 CTTG-TCTTAAT
1 CTTGTTCTTAAT
10402588 ATTCTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:10407422 original size:47 final size:46
Alignment explanation
Indices: 10407305--10407470 Score: 158
Period size: 45 Copynumber: 3.6 Consensus size: 46
10407295 GGAGGAATTG
* * *
10407305 ACTGTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGT
1 ACTGTCAAGGATACCATGTAAGACCAAGTCAAGACATGGCATTGGC
* * * * *
10407351 A-AGGCAAGGATCCCGTGTAAGACCAAGTCAAGACATGGCATCGGC
1 ACTGTCAAGGATACCATGTAAGACCAAGTCAAGACATGGCATTGGC
* **
10407396 ACTGATTAAGGACT-CCATGTAAGACCACA-TCAAGATGTGGCATTGGC
1 ACTG-TCAAGGA-TACCATGTAAGACCA-AGTCAAGACATGGCATTGGC
*
10407443 ACTAAGACAAGGATACCATGTAAGACCA
1 ACT--GTCAAGGATACCATGTAAGACCA
10407471 TGTTTGGAAC
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
45 37 0.39
46 2 0.02
47 36 0.38
48 20 0.21
49 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (46 bp):
ACTGTCAAGGATACCATGTAAGACCAAGTCAAGACATGGCATTGGC
Found at i:10407623 original size:55 final size:53
Alignment explanation
Indices: 10407492--10407694 Score: 246
Period size: 54 Copynumber: 3.8 Consensus size: 53
10407482 TGGCATTTGG
* * * * *
10407492 TAAGGTAAGGATATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTC-A
* * *
10407546 TAAGGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACAA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-C-A
* * *
10407601 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCA
1 TAAGGC-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCA
* *
10407654 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCA
10407695 ATGGTAAGTT
Statistics
Matches: 129, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.26
54 46 0.36
55 42 0.33
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
TAAGGCAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCA
Found at i:10423724 original size:37 final size:38
Alignment explanation
Indices: 10423657--10423743 Score: 115
Period size: 37 Copynumber: 2.3 Consensus size: 38
10423647 GCTCCTCGTT
*
10423657 CAAATCCTTCGGGACATAGCCCGGTATAGTAACTCGCA
1 CAAATCCTTCGGGACATAGCCCGATATAGTAACTCGCA
* *
10423695 CAAATCCTTCGGG-CTTAGCCCGA-ATTAGTATCTCGCA
1 CAAATCCTTCGGGACATAGCCCGATA-TAGTAACTCGCA
10423732 CAAATGCCTTCG
1 CAAAT-CCTTCG
10423744 ATCCTTAGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 1 0.02
37 24 0.55
38 19 0.43
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (38 bp):
CAAATCCTTCGGGACATAGCCCGATATAGTAACTCGCA
Found at i:10430634 original size:41 final size:41
Alignment explanation
Indices: 10430577--10430659 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
10430567 CTTGGAACAC
10430577 TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
1 TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
10430618 TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
1 TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
10430659 T
1 T
10430660 ATACTTACAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (41 bp):
TTCTTTTTTTGTTGTAATAATCTATATTACAACCTAACCTG
Found at i:10431853 original size:30 final size:30
Alignment explanation
Indices: 10431819--10431890 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
10431809 ATATGAATTT
10431819 TAAGCAAAATTGATTAGAATTATA-ATTAA-A
1 TAAGCAAAATTGATTA-AA-TATAGATTAAGA
* *
10431849 TAAGCTAAATTTGATTACATATAGATTAAGA
1 TAAGC-AAAATTGATTAAATATAGATTAAGA
*
10431880 AAAGCAAAATT
1 TAAGCAAAATT
10431891 CAGATTTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 4 0.11
30 16 0.46
31 15 0.43
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (30 bp):
TAAGCAAAATTGATTAAATATAGATTAAGA
Found at i:10431890 original size:31 final size:31
Alignment explanation
Indices: 10431820--10431890 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
10431810 TATGAATTTT
*
10431820 AAGCAAAA-TTGATTAGAATTATAATTAAAT
1 AAGCAAAATTTGATTAGAATTATAATTAAAA
* *
10431850 AAGCTAAATTTGATTA-CA-TATAGATTAAGAA
1 AAGCAAAATTTGATTAGAATTATA-ATTAA-AA
10431881 AAGCAAAATT
1 AAGCAAAATT
10431891 CAGATTTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 4 0.12
30 13 0.38
31 17 0.50
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (31 bp):
AAGCAAAATTTGATTAGAATTATAATTAAAA
Found at i:10432879 original size:25 final size:24
Alignment explanation
Indices: 10432835--10432885 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
10432825 AAAGACCATT
* *
10432835 TTTATATGTTGTGTATAATTGTCA
1 TTTATATGTTGTGTAGAATTGGCA
10432859 TTTATATGCTTGTTGT-GAATTGGCA
1 TTTATATG-TTG-TGTAGAATTGGCA
10432884 TT
1 TT
10432886 ATGGATACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 12 0.52
26 3 0.13
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.53
Consensus pattern (24 bp):
TTTATATGTTGTGTAGAATTGGCA
Found at i:10465427 original size:27 final size:27
Alignment explanation
Indices: 10465397--10465468 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
10465387 GTAGGCTACC
*
10465397 ATTACTGGAATACCCTTGTAGGGTAGA
1 ATTACTGAAATACCCTTGTAGGGTAGA
10465424 ATTACTGAAATACCCTTGTAGGGTAGA
1 ATTACTGAAATACCCTTGTAGGGTAGA
**
10465451 ATTACCAAAATACCCTTG
1 ATTACTGAAATACCCTTG
10465469 GTTTATAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (27 bp):
ATTACTGAAATACCCTTGTAGGGTAGA
Found at i:10465480 original size:27 final size:26
Alignment explanation
Indices: 10465450--10465545 Score: 138
Period size: 27 Copynumber: 3.6 Consensus size: 26
10465440 TGTAGGGTAG
*
10465450 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCC-TAGTTTATAA
*
10465477 AATTACCAATATACTCCTAGTTTATAA
1 AATTACCAAAATAC-CCTAGTTTATAA
*
10465504 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAGTTTATAA
10465531 AATTACCAAAATACC
1 AATTACCAAAATACC
10465546 TCTGATTTGT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
26 2 0.03
27 58 0.92
28 3 0.05
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTATAA
Found at i:10465554 original size:27 final size:26
Alignment explanation
Indices: 10465450--10465628 Score: 137
Period size: 27 Copynumber: 6.7 Consensus size: 26
10465440 TGTAGGGTAG
* *
10465450 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCC-TGATTTGTAA
* *
10465477 AATTACCAATATACTCCT-AGTTTATAA
1 AATTACCAAAATAC-CCTGA-TTTGTAA
10465504 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATA-CCCTGA-TTTGTAA
*
10465531 AATTACCAAAATACCTCTGATTTGTGA
1 AATTACCAAAATACC-CTGATTTGTAA
** * **
10465558 AATTACTGAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCCT-GATTTGTAA
** *
10465585 AATTACTGAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCT-GATTTGTAA
* *
10465612 AATTTCCAAAGTACCCT
1 AATTACCAAAATACCCT
10465629 CAATTTACAA
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
26 4 0.03
27 121 0.94
28 4 0.03
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (26 bp):
AATTACCAAAATACCCTGATTTGTAA
Done.