Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 69 of 438
Found at i:18091257 original size:27 final size:28
Alignment explanation
Indices: 18091200--18091269 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
18091190 AAATTTGTAC
**
18091200 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
18091228 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
18091255 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
18091270 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:18091278 original size:27 final size:27
Alignment explanation
Indices: 18091200--18091281 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
18091190 AAATTTGTAC
* *
18091200 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
18091228 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
18091255 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
18091282 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:18101830 original size:17 final size:19
Alignment explanation
Indices: 18101800--18101839 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
18101790 GTGTGGTTCA
18101800 CCCATGTGGGCCCACAC-G
1 CCCATGTGGGCCCACACGG
18101818 CCCATGT-GGCCCACACGG
1 CCCATGTGGGCCCACACGG
18101836 CCCA
1 CCCA
18101840 CCTGATCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.17, C:0.47, G:0.25, T:0.10
Consensus pattern (19 bp):
CCCATGTGGGCCCACACGG
Found at i:18115000 original size:16 final size:15
Alignment explanation
Indices: 18114975--18115008 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
18114965 TAAAACTTTA
18114975 TTATTATTATATTTTT
1 TTATTATTAT-TTTTT
*
18114991 TTATTTTTATTTTTT
1 TTATTATTATTTTTT
18115006 TTA
1 TTA
18115009 AAAAAATCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTATTATTTTTT
Found at i:18119027 original size:40 final size:40
Alignment explanation
Indices: 18118972--18119181 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
18118962 AACATTGGAA
18118972 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
18119012 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
18119052 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
18119092 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
18119131 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
18119172 CTATATCCGG
1 ATATATCCGG
18119182 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:18127162 original size:40 final size:40
Alignment explanation
Indices: 18127107--18127316 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
18127097 AACATTGGAA
18127107 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
18127147 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
18127187 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
18127227 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
18127266 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
18127307 CTATATCCGG
1 ATATATCCGG
18127317 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:18132901 original size:16 final size:16
Alignment explanation
Indices: 18132880--18132914 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18132870 AATGTCGAAG
18132880 TTTCGACACTTTGGCT
1 TTTCGACACTTTGGCT
**
18132896 TTTCGACTTTTTGGCT
1 TTTCGACACTTTGGCT
18132912 TTT
1 TTT
18132915 GCCGTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.09, C:0.20, G:0.17, T:0.54
Consensus pattern (16 bp):
TTTCGACACTTTGGCT
Found at i:18137231 original size:54 final size:54
Alignment explanation
Indices: 18137139--18137252 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 54
18137129 AGCATGGCTG
* * *
18137139 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGTAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCA
* * * *
18137192 CTAGAACAGATATTTGTGGC-GTAGCCATCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAG-AGCCACCAGAAACAGATATTTGTGGCAGAGCCA
18137247 CCAGAA
1 CCAGAA
18137253 TGCTTCCTCC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 12 0.24
54 21 0.42
55 17 0.34
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (54 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:18137236 original size:28 final size:28
Alignment explanation
Indices: 18137139--18137252 Score: 119
Period size: 27 Copynumber: 4.2 Consensus size: 28
18137129 AGCATGGCTG
* * *
18137139 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
* * *
18137165 CCAGATACAGATA-TTGTGGTAGAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
* *
18137192 CTAG-AACAGATATTTGTGGCGTAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
*
18137219 TCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
18137247 CCAGAA
1 CCAGAA
18137253 TGCTTCCTCC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 11 0.15
27 34 0.47
28 27 0.38
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCATAGCCA
Found at i:18137386 original size:26 final size:26
Alignment explanation
Indices: 18137357--18137417 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
18137347 AAATTAACCC
* *
18137357 TAGGGGTATAATGGTCACTTTGCACT
1 TAGGGGTATAATGGTAACTTTACACT
* *
18137383 TAGGGGTATAATGGTAATTTTATACT
1 TAGGGGTATAATGGTAACTTTACACT
18137409 TAGGGGTAT
1 TAGGGGTAT
18137418 TTTAGTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (26 bp):
TAGGGGTATAATGGTAACTTTACACT
Found at i:18137425 original size:26 final size:26
Alignment explanation
Indices: 18137357--18137430 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
18137347 AAATTAACCC
* * * **
18137357 TAGGGGTATAATGGTCACTTTGCACT
1 TAGGGGTATAATAGTAAATTTATACT
* *
18137383 TAGGGGTATAATGGTAATTTTATACT
1 TAGGGGTATAATAGTAAATTTATACT
**
18137409 TAGGGGTATTTTAGTAAATTTA
1 TAGGGGTATAATAGTAAATTTA
18137431 CTATTTTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (26 bp):
TAGGGGTATAATAGTAAATTTATACT
Found at i:18142095 original size:23 final size:23
Alignment explanation
Indices: 18142069--18142130 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
18142059 TTCACAAACA
18142069 ACACTGGTGCTCCCCACAGAGAC
1 ACACTGGTGCTCCCCACAGAGAC
** * *
18142092 ACACTATTGCTCCCTACGGAGAC
1 ACACTGGTGCTCCCCACAGAGAC
*
18142115 ACACTGGTACTCCCCA
1 ACACTGGTGCTCCCCA
18142131 TGAAGACACA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.26, C:0.39, G:0.18, T:0.18
Consensus pattern (23 bp):
ACACTGGTGCTCCCCACAGAGAC
Found at i:18145406 original size:27 final size:27
Alignment explanation
Indices: 18145389--18145443 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
18145379 GTCACTAGAT
18145389 ACAAATA-TTGTGGTAGAGCCACCAGA
1 ACAAATATTTGTGGTAGAGCCACCAGA
* *
18145415 ACAGATATTTGTGG-CGTAGCCACCAGA
1 ACAAATATTTGTGGTAG-AGCCACCAGA
18145442 AC
1 AC
18145444 GCTTCTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
ACAAATATTTGTGGTAGAGCCACCAGA
Found at i:18155052 original size:43 final size:43
Alignment explanation
Indices: 18154914--18155063 Score: 137
Period size: 42 Copynumber: 3.5 Consensus size: 43
18154904 TATGAGCTAT
* * *
18154914 CATGTAAGACCACGTCTAGGAC-GTCGGCATC-AATTTGAGATTTA
1 CATGTAAGACCATGTCTGGGACAGT-GGCATCGAATTT--GACTTA
* * * *
18154958 CGTGTAAGACCATGTCTGGGACATTGACATCGTATTTGACTT-
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGAATTTGACTTA
** * *
18155000 TGTGCAAGACCCTGTCTGGGACAGTGGCATCGACATTTGA-TTA
1 CATGTAAGACCATGTCTGGGACAGTGGCATCGA-ATTTGACTTA
18155043 CATGTAAGACCATGTCTGGGA
1 CATGTAAGACCATGTCTGGGA
18155064 TGTTGGCATT
Statistics
Matches: 85, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 29 0.34
43 27 0.32
44 24 0.28
45 5 0.06
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATCGAATTTGACTTA
Found at i:18155071 original size:43 final size:43
Alignment explanation
Indices: 18154914--18155072 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
18154904 TATGAGCTAT
* * * *
18154914 CATGTAAGACCACGTCTAGGACGTCGGCATC-AATTTGAGATTTA
1 CATGTAAGACCATGTCTGGGACGTTGGCATCGAATTT--GACTTA
* * * *
18154958 CGTGTAAGACCATGTCTGGGACATTGACATCGTATTTGACTT-
1 CATGTAAGACCATGTCTGGGACGTTGGCATCGAATTTGACTTA
** * *
18155000 TGTGCAAGACCCTGTCTGGGACAG-TGGCATCGACATTTGA-TTA
1 CATGTAAGACCATGTCTGGGAC-GTTGGCATCGA-ATTTGACTTA
*
18155043 CATGTAAGACCATGTCTGGGATGTTGGCAT
1 CATGTAAGACCATGTCTGGGACGTTGGCAT
18155073 TGTATGAGCT
Statistics
Matches: 91, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 29 0.32
43 33 0.36
44 25 0.27
45 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACGTTGGCATCGAATTTGACTTA
Found at i:18157287 original size:13 final size:13
Alignment explanation
Indices: 18157269--18157298 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18157259 TAATTTAATT
*
18157269 TTAATTTATTAAA
1 TTAATTTACTAAA
18157282 TTAATTTACTAAA
1 TTAATTTACTAAA
18157295 TTAA
1 TTAA
18157299 CCTTAGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAATTTACTAAA
Found at i:18159145 original size:16 final size:16
Alignment explanation
Indices: 18159124--18159172 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
18159114 TTAGAATTGG
18159124 ATTGAAAATTTATTTA
1 ATTGAAAATTTATTTA
* *
18159140 ATTGAAAAATTAATTA
1 ATTGAAAATTTATTTA
* *
18159156 ATT-TAAATTAATTTA
1 ATTGAAAATTTATTTA
18159171 AT
1 AT
18159173 AAATAATGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
ATTGAAAATTTATTTA
Found at i:18161567 original size:10 final size:9
Alignment explanation
Indices: 18161542--18161568 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
18161532 CATATCTTTA
18161542 TAGTTTTTC
1 TAGTTTTTC
18161551 TAGTTTTTC
1 TAGTTTTTC
18161560 TAGTTTTTC
1 TAGTTTTTC
18161569 CTTTAGTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (9 bp):
TAGTTTTTC
Found at i:18163632 original size:25 final size:26
Alignment explanation
Indices: 18163598--18163646 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
18163588 ATTTCTCACC
18163598 TAAAATCAC-ACCAATGACC-TGCACT
1 TAAAATCACAACCAAT-ACCATGCACT
*
18163623 TAAACTCACAACCAATACCATGCA
1 TAAAATCACAACCAATACCATGCA
18163647 ATTCAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.43, C:0.33, G:0.06, T:0.18
Consensus pattern (26 bp):
TAAAATCACAACCAATACCATGCACT
Found at i:18175567 original size:13 final size:13
Alignment explanation
Indices: 18175549--18175582 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
18175539 TTATTTAAAT
18175549 AATTAATTATATA
1 AATTAATTATATA
18175562 AATTAATTATATA
1 AATTAATTATATA
18175575 AAGTTAAT
1 AA-TTAAT
18175583 ATTAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
AATTAATTATATA
Found at i:18178857 original size:13 final size:13
Alignment explanation
Indices: 18178839--18178866 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18178829 AAATGTTCGG
18178839 TACATAAATCTAC
1 TACATAAATCTAC
18178852 TACATAAATCTAC
1 TACATAAATCTAC
18178865 TA
1 TA
18178867 ATTCGACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (13 bp):
TACATAAATCTAC
Found at i:18182851 original size:24 final size:24
Alignment explanation
Indices: 18182800--18182942 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
18182790 GCTTTATCAT
*
18182800 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * * *
18182825 ATAACTGGGGAAAAATCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
18182849 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
18182872 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
18182896 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
18182920 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18182943 TCACTTCCTT
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
23 23 0.21
24 73 0.68
25 11 0.10
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:18182879 original size:47 final size:48
Alignment explanation
Indices: 18182800--18182941 Score: 171
Period size: 47 Copynumber: 3.0 Consensus size: 48
18182790 GCTTTATCAT
* *
18182800 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGAAAAATCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGAAAAAGCCCTTTCA
* * **
18182849 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGAAAAAGCCCTTTCA
* * *
18182896 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGAAAAAGCCCTTT
18182942 TTCACTTCCT
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
47 42 0.49
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGAAAAAGCCCTTTCA
Found at i:18182900 original size:71 final size:72
Alignment explanation
Indices: 18182799--18182942 Score: 202
Period size: 71 Copynumber: 2.0 Consensus size: 72
18182789 TGCTTTATCA
* *
18182799 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGAAAAATCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCATAA
18182864 GCCCTTT
66 GCCCTTT
* * * **
18182871 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCATA
18182934 AGCCCTTT
65 AGCCCTTT
18182942 T
1 T
18182943 TCACTTCCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
71 51 0.80
72 13 0.20
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:18183018 original size:20 final size:20
Alignment explanation
Indices: 18182993--18183031 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18182983 TATGATTACA
18182993 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
18183013 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
18183032 ACCATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:18183107 original size:25 final size:25
Alignment explanation
Indices: 18183075--18183122 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18183065 ATACATAAAC
* * *
18183075 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18183100 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18183123 CATGGTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:18184379 original size:27 final size:27
Alignment explanation
Indices: 18184359--18184887 Score: 483
Period size: 27 Copynumber: 19.6 Consensus size: 27
18184349 AGGGTATTTT
* *
18184359 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
18184386 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * * *
18184413 AGCAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * * *
18184440 GGAAATACTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
18184467 GGTAATTTTGTAAATCGAA-GGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* * *
18184494 -GATAATTATGTAAATCAGGGGTAAAAT
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * * *
18184521 GGTAATTATGTAAATTAGGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * * *
18184548 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
18184575 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* * *
18184602 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * ** *
18184629 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
18184656 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
18184683 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
18184710 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
* *
18184737 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * ** *
18184764 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
18184791 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * ** *
18184818 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
18184845 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-AAGGGTAAAAC
*
18184872 GGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
18184888 GGGAGTACTT
Statistics
Matches: 438, Mismatches: 54, Indels: 19
0.86 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 428 0.98
28 5 0.01
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:18184459 original size:81 final size:81
Alignment explanation
Indices: 18184360--18184888 Score: 645
Period size: 81 Copynumber: 6.5 Consensus size: 81
18184350 GGGTATTTTA
* * * * *
18184360 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGCAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
18184425 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * * * * *
18184441 GAAATACTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
18184506 AATC-AGGGGTAAAATG
66 AATCGA-GGGTAAAACG
* * * ** *
18184522 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTAT
18184586 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* * **
18184603 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
18184668 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
* ** *
18184684 GTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTAT
18184748 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* ** * * *
18184765 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
*
18184830 AATCGAGGGTAAAACA
66 AATCGAGGGTAAAACG
*
18184846 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
18184889 GGAGTACTTT
Statistics
Matches: 383, Mismatches: 56, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
80 5 0.01
81 374 0.98
82 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:18184919 original size:54 final size:54
Alignment explanation
Indices: 18184360--18184888 Score: 645
Period size: 54 Copynumber: 9.8 Consensus size: 54
18184350 GGGTATTTTA
* * * * *
18184360 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * * * * *
18184414 GCAATTCTATAAATCGAGGGTAAAATGGAAATACTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * * * * *
18184468 GTAATTTTGTAAATCGAAGGTAAAACGATAATTATGTAAATC-AGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGA-GGGTAAAACG
* * **
18184522 GTAATTATGTAAAT-TAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGA-GGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
18184576 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* ** *
18184630 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* ** *
18184684 GTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACG
* *
18184738 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* * * *
18184792 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
* *
18184846 GTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCG
18184889 GGAGTACTTT
Statistics
Matches: 413, Mismatches: 53, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.01
54 405 0.98
55 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
Found at i:18188563 original size:40 final size:40
Alignment explanation
Indices: 18188508--18188717 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
18188498 AACATTGGAA
18188508 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
18188548 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
18188588 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
18188628 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
18188667 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
18188708 CTATATCCGG
1 ATATATCCGG
18188718 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:18196700 original size:40 final size:40
Alignment explanation
Indices: 18196645--18196854 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
18196635 AACATTGGAA
18196645 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
18196685 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
18196725 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
18196765 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
18196804 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
18196845 CTATATCCGG
1 ATATATCCGG
18196855 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:18201154 original size:27 final size:26
Alignment explanation
Indices: 18201124--18201183 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
18201114 AGTGGGCCAA
* *
18201124 AGCCCATTACA-ATATCATTTGGGTCAT
1 AGCCCATAACAGA-ATCAATTGGG-CAT
*
18201151 AGCCCATAACAGAATCAATTGGGCCT
1 AGCCCATAACAGAATCAATTGGGCAT
18201177 AGCCCAT
1 AGCCCAT
18201184 CTCAATAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 19 0.66
28 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (26 bp):
AGCCCATAACAGAATCAATTGGGCAT
Found at i:18201580 original size:22 final size:22
Alignment explanation
Indices: 18201549--18201606 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
18201539 AATACGATTG
*
18201549 GCACAAAGCCATAATCAAGATA
1 GCACAGAGCCATAATCAAGATA
* * * * *
18201571 GCACAGAGCCATATTTAGGCTG
1 GCACAGAGCCATAATCAAGATA
18201593 GCACAGAGCCATAA
1 GCACAGAGCCATAA
18201607 ACAGATTAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (22 bp):
GCACAGAGCCATAATCAAGATA
Found at i:18204787 original size:15 final size:15
Alignment explanation
Indices: 18204750--18204781 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18204740 TGTTGATCTA
18204750 AATATATTCAAAATT
1 AATATATTCAAAATT
18204765 AATATATTCAAAATT
1 AATATATTCAAAATT
18204780 AA
1 AA
18204782 CTTATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATATTCAAAATT
Found at i:18208248 original size:29 final size:29
Alignment explanation
Indices: 18208220--18208320 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 29
18208210 CCTCCGAGCT
** * *
18208220 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATTTTTCCAGCA
* *
18208249 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATTTTTCCAGCA
*
18208278 CGCACACTTAGTGTCATA-TTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTTCCAGCA
18208306 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
18208321 GATCTCGTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 23 0.37
29 39 0.63
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATTTTTCCAGCA
Found at i:18208309 original size:28 final size:28
Alignment explanation
Indices: 18208162--18208320 Score: 131
Period size: 29 Copynumber: 5.5 Consensus size: 28
18208152 TACTCGATTT
* * *
18208162 CGCACACTTAGTGCCACGTAATTT-AAGCC
1 CGCACACTTAGTGCCA--TATTTTCCAGCA
** *** *
18208191 CGCACACACAGTGCCATACCCTCCGAGCT
1 CGCACACTTAGTGCCATATTTTCC-AGCA
** * *
18208220 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATA-TTTTCCAGCA
*
18208249 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATAT-TTTCCAGCA
*
18208278 CGCACACTTAGTGTCATATTTTCCAGCA
1 CGCACACTTAGTGCCATATTTTCCAGCA
18208306 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
18208321 GATCTCGTCA
Statistics
Matches: 106, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
27 3 0.03
28 24 0.23
29 76 0.72
30 3 0.03
ACGTcount: A:0.24, C:0.35, G:0.16, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATTTTCCAGCA
Found at i:18212127 original size:67 final size:66
Alignment explanation
Indices: 18212049--18212265 Score: 153
Period size: 67 Copynumber: 3.2 Consensus size: 66
18212039 GCCTAAGCCC
*
18212049 ATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCC
1 ATTCAGATAACAGTGGTACT-GGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCC
18212114 TT
65 TT
* * * * *** *
18212116 ATTCAGATAACA---GTA-TGGCCATAGGCCCATTTCAAAATAC-ATGCAACATCAGTAAACATA
1 ATTCAGATAACAGTGGTACTGGCCAGA-GCCCTTTTCAGATTACAAT--AA-A-C--TGGGCCT-
18212176 TA-CAAGCCC--
58 TAGC---CCCTT
** *
18212185 ATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCC
1 ATTCAGATAACAGTGGTACT-GGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCC
18212250 TT
65 TT
18212252 ATTCAGATAACAGT
1 ATTCAGATAACAGT
18212266 ATGGCCCATA
Statistics
Matches: 107, Mismatches: 23, Indels: 40
0.63 0.14 0.24
Matches are distributed among these distances:
62 8 0.07
63 14 0.13
64 5 0.05
65 4 0.04
66 1 0.01
67 24 0.22
68 8 0.07
69 11 0.10
70 1 0.01
71 4 0.04
72 5 0.05
73 14 0.13
74 8 0.07
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (66 bp):
ATTCAGATAACAGTGGTACTGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCT
T
Found at i:18212249 original size:136 final size:137
Alignment explanation
Indices: 18212043--18212328 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
18212033 CTATTGGCCT
**
18212043 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
18212108 AGCCCCTTATTCAGATAACAGTATGG-CCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
18212172 CATATAC
131 CATATAC
*
18212179 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
18212244 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTGAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
18212309 CATATGC
131 CATATAC
18212316 AAGCCCATTTGGG
1 AAGCCCATTTGGG
18212329 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 88 0.61
137 56 0.39
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATAC
Found at i:18212612 original size:25 final size:27
Alignment explanation
Indices: 18212575--18212627 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
18212565 TCAAACATGC
18212575 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
18212601 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
18212627 A
1 A
18212628 ACAGTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:18214150 original size:26 final size:26
Alignment explanation
Indices: 18214114--18214223 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
18214104 CATGAAATTC
18214114 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
18214140 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
18214166 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
18214192 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
18214218 TTATCA
1 TTATCA
18214224 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:18216461 original size:40 final size:40
Alignment explanation
Indices: 18216412--18216615 Score: 216
Period size: 40 Copynumber: 5.1 Consensus size: 40
18216402 TCTTCGGAAT
* * *
18216412 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
18216451 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
18216491 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
18216531 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
* * * *
18216571 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGAGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
18216611 TTAGC
1 TTAGC
18216616 TCGGGTATCA
Statistics
Matches: 141, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 3 0.02
40 137 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:18218597 original size:43 final size:43
Alignment explanation
Indices: 18218528--18218633 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
18218518 TCCTAGATAT
* * * * *
18218528 GGTCTTACATGTTATCACATATCGATGTCACTGTCCCAGACAG
1 GGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGACAG
* *
18218571 GGTCTTACAGGTAATCA-ATTAACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACA-TAACGATGCCAATGTCCCAGACAG
18218614 GGTCTTACACGTAATCACAT
1 GGTCTTACACGTAATCACAT
18218634 CTCGATAACC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 52 0.96
44 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGACAG
Found at i:18231504 original size:20 final size:21
Alignment explanation
Indices: 18231481--18231523 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
18231471 TACATGTGTG
*
18231481 TTTTG-ATGTTTGATGATAGA
1 TTTTGAATGCTTGATGATAGA
*
18231501 TTTTGAATGCTTGTTGATAGA
1 TTTTGAATGCTTGATGATAGA
18231522 TT
1 TT
18231524 ACAAGTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.51
Consensus pattern (21 bp):
TTTTGAATGCTTGATGATAGA
Found at i:18234460 original size:15 final size:15
Alignment explanation
Indices: 18234440--18234471 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18234430 TTTGGAACCA
18234440 ATCAATCTATTATTT
1 ATCAATCTATTATTT
18234455 ATCAATCTATTATTT
1 ATCAATCTATTATTT
18234470 AT
1 AT
18234472 TCTAACTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (15 bp):
ATCAATCTATTATTT
Found at i:18238455 original size:18 final size:19
Alignment explanation
Indices: 18238432--18238472 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
18238422 CATGTTTTTT
18238432 TTTATAAATTAAATAAAA-
1 TTTATAAATTAAATAAAAC
*
18238450 TTTATAATTTAAATAAAAC
1 TTTATAAATTAAATAAAAC
18238469 TTTA
1 TTTA
18238473 AAAACAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTATAAATTAAATAAAAC
Found at i:18240142 original size:41 final size:41
Alignment explanation
Indices: 18240098--18240299 Score: 325
Period size: 41 Copynumber: 4.9 Consensus size: 41
18240088 TTGTAAAACA
* * *
18240098 CAGAGCAATAGCGGCGTTTTTGTGAAAAACGCCGCTAAAGA-
1 CAGAGCATTAGCGGCGCTTTTG-GAAAGACGCCGCTAAAGAC
18240139 CAGAGCATTAGCGGCGCTTTTGGAAAGACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGAAAGACGCCGCTAAAGAC
* *
18240180 CAGAGCACTAGCGGCGCTTTTGGAAAGACGCCGCTAATGAC
1 CAGAGCATTAGCGGCGCTTTTGGAAAGACGCCGCTAAAGAC
*
18240221 CAGAGCATTAGCGGCGCTTTTGTAAAGACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGAAAGACGCCGCTAAAGAC
*
18240262 CAGAGCATTAGCGGCGCTTTTGGAAAAACGCCGCTAAA
1 CAGAGCATTAGCGGCGCTTTTGGAAAGACGCCGCTAAA
18240300 AGTCACATAA
Statistics
Matches: 150, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 17 0.11
41 133 0.89
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.18
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGAAAGACGCCGCTAAAGAC
Found at i:18240490 original size:21 final size:21
Alignment explanation
Indices: 18240466--18240550 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 21
18240456 CATTATAGTT
18240466 TATGGTTTATGATTTAAGATA
1 TATGGTTTATGATTTAAGATA
* * *
18240487 TATGATTTA-GAGTTTAAGGTT
1 TATGGTTTATGA-TTTAAGATA
*
18240508 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TATGATTTAAGATA
* *
18240533 TATGGTTTAGGGTTTAAG
1 TATGGTTTATGATTTAAG
18240551 GTTTAGGAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
20 2 0.04
21 29 0.58
22 2 0.04
24 3 0.06
25 13 0.26
26 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.45
Consensus pattern (21 bp):
TATGGTTTATGATTTAAGATA
Found at i:18240530 original size:46 final size:46
Alignment explanation
Indices: 18240473--18240566 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
18240463 GTTTATGGTT
*
18240473 TATGATTTAAGATATATGATTTAGAGTTTAAGGTTTATGAGTTAAC
1 TATGATTTAAGATATATGATTTAGAGTTTAAGGTTTAGGAGTTAAC
* * *
18240519 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGATTTAAGATATATGATTTAGAGTTTAAGGTTTAGGAGTTAAC
18240565 TA
1 TA
18240567 GTATTTGAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (46 bp):
TATGATTTAAGATATATGATTTAGAGTTTAAGGTTTAGGAGTTAAC
Found at i:18240612 original size:14 final size:14
Alignment explanation
Indices: 18240588--18240625 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
18240578 TTTATGATGA
18240588 ATTATGGGTTTAGGG
1 ATTA-GGGTTTAGGG
18240603 ATTAGGGTTTAGGG
1 ATTAGGGTTTAGGG
*
18240617 GTTAGGGTT
1 ATTAGGGTT
18240626 AGAGTTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (14 bp):
ATTAGGGTTTAGGG
Found at i:18241906 original size:46 final size:46
Alignment explanation
Indices: 18241850--18241939 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
18241840 TATTTATATT
*
18241850 ATTTTTAATTTA-ATAT-TTAATATCCTATATATGTAATTGTATTAAA
1 ATTTTTAATTTATATATATTAAAAT--TATATATGTAATTGTATTAAA
* *
18241896 ATTTTTAATTTATATTTATTAAAATTTTATATGTAATTGTATTA
1 ATTTTTAATTTATATATATTAAAATTATATATGTAATTGTATTA
18241940 GCATTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
46 30 0.77
47 3 0.08
48 6 0.15
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (46 bp):
ATTTTTAATTTATATATATTAAAATTATATATGTAATTGTATTAAA
Found at i:18241946 original size:23 final size:23
Alignment explanation
Indices: 18241877--18241939 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
18241867 TAATATCCTA
18241877 TATATGTAATTGTATTAAAATTT
1 TATATGTAATTGTATTAAAATTT
*
18241900 T-TAATTTATATT-TATTAAAATTT
1 TAT-ATGTA-ATTGTATTAAAATTT
18241923 TATATGTAATTGTATTA
1 TATATGTAATTGTATTA
18241940 GCATTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
22 4 0.12
23 26 0.76
24 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (23 bp):
TATATGTAATTGTATTAAAATTT
Found at i:18247458 original size:42 final size:42
Alignment explanation
Indices: 18247399--18247571 Score: 181
Period size: 43 Copynumber: 4.1 Consensus size: 42
18247389 AATTTTTTTA
**
18247399 AAAGGTCATGGTTTTTAGCGGCGTTTATGAAAAAGCGCCGCT
1 AAAGGTCATGGCCTTTAGCGGCGTTTATGAAAAAGCGCCGCT
* * ** * * * *
18247441 AAAGGTTATAGTTTTTAGTGGCATTTTTGAGAAAAGCGTCGCT
1 AAAGGTCATGGCCTTTAGCGGCGTTTATGA-AAAAGCGCCGCT
*
18247484 AAAGGTCATGGCCTTTAGCGGCGTTTGCA-AAAAAAGCGCCGCT
1 AAAGGTCATGGCCTTTAGCGGCGTTT--ATGAAAAAGCGCCGCT
18247527 AAAGGTCATGGCCTTTAGCGGCG-TT-TGCAAAAATGCGCCGCT
1 AAAGGTCATGGCCTTTAGCGGCGTTTATG-AAAAA-GCGCCGCT
18247569 AAA
1 AAA
18247572 TTTTGCGGCC
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
41 5 0.05
42 38 0.35
43 65 0.60
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (42 bp):
AAAGGTCATGGCCTTTAGCGGCGTTTATGAAAAAGCGCCGCT
Found at i:18247569 original size:85 final size:84
Alignment explanation
Indices: 18247399--18247571 Score: 190
Period size: 85 Copynumber: 2.0 Consensus size: 84
18247389 AATTTTTTTA
** * * ** *
18247399 AAAGGTCATGGTTTTTAGCGGCGTTTATGAAAAAGCGCCGCTAAAGGTTATAGTTTTTAGTGGCA
1 AAAGGTCATGGCCTTTAGCGGCGTTTATAAAAAAGCGCCGCTAAAGGTCATAGCCTTTAGCGGCA
* *
18247464 TTTTTGAGAAAAGCGTCGCT
66 -GTTTGAGAAAAGCGCCGCT
*
18247484 AAAGGTCATGGCCTTTAGCGGCGTTTGCA-AAAAAAGCGCCGCTAAAGGTCATGGCCTTTAGCGG
1 AAAGGTCATGGCCTTTAGCGGCGTTT--ATAAAAAAGCGCCGCTAAAGGTCATAGCCTTTAGCGG
18247548 C-GTTTGCA-AAAATGCGCCGCT
64 CAGTTTG-AGAAAA-GCGCCGCT
18247569 AAA
1 AAA
18247572 TTTTGCGGCC
Statistics
Matches: 74, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
84 8 0.11
85 35 0.47
86 30 0.41
87 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (84 bp):
AAAGGTCATGGCCTTTAGCGGCGTTTATAAAAAAGCGCCGCTAAAGGTCATAGCCTTTAGCGGCA
GTTTGAGAAAAGCGCCGCT
Found at i:18252591 original size:30 final size:30
Alignment explanation
Indices: 18252557--18252617 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
18252547 TCCTTAACTC
18252557 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
18252587 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
18252617 A
1 A
18252618 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:18263187 original size:39 final size:40
Alignment explanation
Indices: 18263061--18263189 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
18263051 ATGCTGGAAA
* * *
18263061 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
18263101 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
18263141 TTCTATCC-GGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
18263180 TTATATCCGG
1 TTATATCCGG
18263190 TTATATTCCG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.46
40 38 0.53
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:18269749 original size:24 final size:24
Alignment explanation
Indices: 18269685--18269849 Score: 239
Period size: 23 Copynumber: 7.0 Consensus size: 24
18269675 GCTTTATCAT
*
18269685 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
18269710 ACAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18269733 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
18269756 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
18269780 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
18269804 ATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18269827 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18269850 TCACTTCCTC
Statistics
Matches: 129, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
23 61 0.47
24 61 0.47
25 7 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:18269784 original size:47 final size:47
Alignment explanation
Indices: 18269706--18269848 Score: 227
Period size: 47 Copynumber: 3.1 Consensus size: 47
18269696 CCTAGCCTCT
*
18269706 TTTAACAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
18269752 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
18269799 TTTTGATAACTGGGGCATAAG-CCATTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
18269846 TTT
1 TTT
18269849 TTCACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
46 18 0.20
47 53 0.59
48 19 0.21
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:18269799 original size:71 final size:70
Alignment explanation
Indices: 18269685--18269849 Score: 251
Period size: 71 Copynumber: 2.3 Consensus size: 70
18269675 GCTTTATCAT
*
18269685 ATAACTGGAGGCCT-AGCCTCTTTTAACAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAG
1 ATAACTGG-GGCATAAGCC-CTTTTAACAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAG
*
18269749 CCCTTTA
64 CCATTTA
* * *
18269756 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAACAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATAAGC
18269821 CATTTA
65 CATTTA
18269827 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18269850 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
70 20 0.23
71 67 0.77
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
ATAACTGGGGCATAAGCCCTTTTAACAACTGGGGCAAAGCCCTTTTAATAACTGGGGCATAAGCC
ATTTA
Found at i:18269923 original size:20 final size:20
Alignment explanation
Indices: 18269898--18269964 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
18269888 TTATGATTAC
18269898 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
18269918 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18269938 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18269958 ACCATGT
1 ATCATGT
18269965 TTATCAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:18269929 original size:11 final size:11
Alignment explanation
Indices: 18269898--18269953 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18269888 TTATGATTAC
18269898 ATCATGTGCAT
1 ATCATGTGCAT
*
18269909 ATCA--TACAT
1 ATCATGTGCAT
18269918 ATCATGTGCAT
1 ATCATGTGCAT
*
18269929 ATCA--TACAT
1 ATCATGTGCAT
*
18269938 GTCATGTGCAT
1 ATCATGTGCAT
18269949 ATCAT
1 ATCAT
18269954 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:18270033 original size:25 final size:25
Alignment explanation
Indices: 18270001--18270048 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18269991 ATACATAAAC
* * *
18270001 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18270026 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18270049 CATGTTATAG
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:18271298 original size:27 final size:27
Alignment explanation
Indices: 18271207--18271290 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
18271197 GGGCATATTC
*
18271207 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
18271234 GTCACTTTACCATACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
18271261 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
18271288 GTC
1 GTC
18271291 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:18271382 original size:27 final size:27
Alignment explanation
Indices: 18271356--18271581 Score: 120
Period size: 27 Copynumber: 8.3 Consensus size: 27
18271346 ATCTACAAAC
*
18271356 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
18271383 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
** *
18271412 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
18271439 CAGGGGTATTTTGGTAATTTTAAAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** *** *
18271466 TGAGGGTATTTC-GATAATTTCACAAAC
1 CAAGGGTATTTCAG-TAATTTTGTAAAT
* **
18271493 CAAGGGTATTT-TGATAATTTTACAAA-
1 CAAGGGTATTTCAG-TAATTTTGTAAAT
* *
18271519 CTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
* *** *
18271547 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
18271574 CAAGGGTA
1 CAAGGGTA
18271582 AAATAGTAAT
Statistics
Matches: 155, Mismatches: 33, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
26 3 0.02
27 126 0.81
28 9 0.06
29 16 0.10
30 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:18271538 original size:54 final size:54
Alignment explanation
Indices: 18271302--18271539 Score: 144
Period size: 54 Copynumber: 4.4 Consensus size: 54
18271292 TTTTACCTAA
* ** * * * *
18271302 TAGGGGTATTTTAGTCATTTCATCCTA-CAAGGGTGTTTTGGTAAATCTACAAAC
1 TAGGGGTATTTTAGTAATTTCA-CAAACCAAGGGTATTTTGATAATTTTACAAAC
* * * *** * * *
18271356 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAG
1 TAGGGGTATTTTAGTAATTTCACAAACCAAGGGTATTT-TGATAA-TTTTACAAAC
* * ** * * * *
18271411 TCAAGGGTATTTTTGTAACTTT-GTAAATCAGGGGTATTTTGGTAATTTTA-AAAA
1 T-AGGGGTATTTTAGTAA-TTTCACAAACCAAGGGTATTTTGATAATTTTACAAAC
* *
18271465 TTGAGGGTA-TTTCGATAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAAC
1 TAG-GGGTATTTTAG-TAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAAC
18271520 TAGGGGTATTTTAGTAATTT
1 TAGGGGTATTTTAGTAATTT
18271540 TGTAAATCGA
Statistics
Matches: 138, Mismatches: 35, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
53 8 0.06
54 74 0.54
55 22 0.16
56 31 0.22
57 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (54 bp):
TAGGGGTATTTTAGTAATTTCACAAACCAAGGGTATTTTGATAATTTTACAAAC
Found at i:18271553 original size:54 final size:54
Alignment explanation
Indices: 18271329--18271554 Score: 186
Period size: 54 Copynumber: 4.1 Consensus size: 54
18271319 TTTCATCCTA
* * * * * *
18271329 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAAC
* * * * * *
18271383 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGATAA-TTTTACAAACT-AAGGGTATTTTAGTAATTTTGTAAAC
* * * * * * ***
18271439 CAGGGGTATTTTGGTAATTTTAAAAATTGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTAG-TAATTTTGTAAAC
* *
18271493 CAAGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAAC
*
18271547 CGAGGGTA
1 CAAGGGTA
18271555 AAACAGTAAT
Statistics
Matches: 130, Mismatches: 36, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
53 4 0.03
54 71 0.55
55 21 0.16
56 34 0.26
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGATAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAAC
Found at i:18271582 original size:27 final size:27
Alignment explanation
Indices: 18271532--18271743 Score: 252
Period size: 27 Copynumber: 7.9 Consensus size: 27
18271522 GGGGTATTTT
*
18271532 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
18271559 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18271586 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18271613 TGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
18271640 GGTAATTCTGTAAGTCGATGGG-AAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
*
18271667 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
18271694 GGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18271721 -GATAATTCTGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
18271744 CTTTGGTAAT
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
26 6 0.04
27 154 0.94
28 4 0.02
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:18271770 original size:27 final size:27
Alignment explanation
Indices: 18271749--18271838 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
18271739 GGGTACTTTG
*
18271749 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
18271776 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * *
18271803 GCATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
18271830 GTAATTTTA
1 GTAATTTTA
18271839 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:18273151 original size:39 final size:40
Alignment explanation
Indices: 18273050--18273213 Score: 185
Period size: 40 Copynumber: 4.1 Consensus size: 40
18273040 TCGAATGATG
* *
18273050 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
18273090 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
18273129 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * **
18273169 ACCAGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
18273209 TCCGG
1 TCCGG
18273214 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
39 36 0.34
40 62 0.58
41 8 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:18273213 original size:79 final size:80
Alignment explanation
Indices: 18273050--18273201 Score: 195
Period size: 79 Copynumber: 1.9 Consensus size: 80
18273040 TCGAATGATG
*
18273050 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
**
18273115 GTGCGAGTTACTAAT
66 GAACGAGTTACTAAT
* * *
18273130 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCAGG-CTATG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAACC-GGACTAAGAT-CCGAAGGCA
18273191 TTTGAACGAGT
63 TTTGAACGAGT
18273202 AGCTATATCC
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
78 1 0.02
79 42 0.67
80 20 0.32
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAT
Found at i:18275869 original size:40 final size:40
Alignment explanation
Indices: 18275822--18275908 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
18275812 AAACACGGGC
*
18275822 GTGTGATCGATGAGCCAGGCCGTGCGCTCATGACACGACT
1 GTGTGATCGACGAGCCAGGCCGTGCGCTCATGACACGACT
*
18275862 GTGTGATCGACGAGCCAGGCCGTGCGCTCGTGACACGACT
1 GTGTGATCGACGAGCCAGGCCGTGCGCTCATGACACGACT
18275902 GTGTGAT
1 GTGTGAT
18275909 GGCCAGGCAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (40 bp):
GTGTGATCGACGAGCCAGGCCGTGCGCTCATGACACGACT
Found at i:18277569 original size:64 final size:64
Alignment explanation
Indices: 18277366--18277651 Score: 254
Period size: 64 Copynumber: 4.4 Consensus size: 64
18277356 CATAATTTTG
* ** * * * * *
18277366 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
* * ** * * * * * * *
18277429 GCTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTG---TACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCG
18277494 TA
63 TA
18277496 GCTCTCTTGTCTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
* * * *
18277560 GTTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTA---CAT-ATATCCC
18277625 GTA
62 GTA
*
18277628 GCTCTCTTGTAC-ACATGGTATACA
1 GCTCTCTTGT-CTACATGGTGTACA
18277652 TCCCGTATTA
Statistics
Matches: 187, Mismatches: 26, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
63 18 0.10
64 83 0.44
66 24 0.13
67 33 0.18
68 28 0.15
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:18278182 original size:30 final size:30
Alignment explanation
Indices: 18278148--18278204 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
18278138 TAACTCAAAC
18278148 TTTTGCAAAATTAAAATTTTGCCCCTAAAT
1 TTTTGCAAAATTAAAATTTTGCCCCTAAAT
* * * *
18278178 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGCAAAATTAAAATTTTGCCCCTA
18278205 GGCTCGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTTGCAAAATTAAAATTTTGCCCCTAAAT
Found at i:18283802 original size:25 final size:25
Alignment explanation
Indices: 18283755--18283802 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
18283745 TTATAATATG
* * *
18283755 AAAATGACCGTTTTGCCCATAGGTA
1 AAAATGACCATTATACCCATAGGTA
*
18283780 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCATAGG
18283803 GTTTATACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCATAGGTA
Found at i:18283866 original size:11 final size:11
Alignment explanation
Indices: 18283850--18283921 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
18283840 CATGATACGT
18283850 ATGATATGCAC
1 ATGATATGCAC
*
18283861 ATGATATG--T
1 ATGATATGCAC
18283870 ATGATATGCAC
1 ATGATATGCAC
* *
18283881 ATGACATG--T
1 ATGATATGCAC
18283890 ATGATATGCAC
1 ATGATATGCAC
*
18283901 ATGATATG--T
1 ATGATATGCAC
18283910 ATGATATGCAC
1 ATGATATGCAC
18283921 A
1 A
18283922 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18283873 original size:9 final size:9
Alignment explanation
Indices: 18283841--18283917 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
18283831 TTTGATAAAC
*
18283841 ATGATACGT
1 ATGATATGT
*
18283850 ATGATATGCAC
1 ATGATATG--T
18283861 ATGATATGT
1 ATGATATGT
*
18283870 ATGATATGCAC
1 ATGATATG--T
*
18283881 ATGACATGT
1 ATGATATGT
*
18283890 ATGATATGCAC
1 ATGATATG--T
18283901 ATGATATGT
1 ATGATATGT
18283910 ATGATATG
1 ATGATATG
18283918 CACACGAGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 30 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (9 bp):
ATGATATGT
Found at i:18283929 original size:20 final size:20
Alignment explanation
Indices: 18283839--18283921 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
18283829 ATTTTGATAA
*
18283839 ACATGATACGTATGATATGC
1 ACATGATATGTATGATATGC
18283859 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18283879 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
18283899 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
18283919 ACA
1 ACA
18283922 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:18284034 original size:24 final size:24
Alignment explanation
Indices: 18283975--18284162 Score: 251
Period size: 24 Copynumber: 8.0 Consensus size: 24
18283965 GAGGAAGTGA
18283975 AAAAGGGCTTATG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
18283997 TAAAGGGCTGATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18284021 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
18284045 AAAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
18284069 -AAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
18284092 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
18284115 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
18284139 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18284163 ATGATAAAGC
Statistics
Matches: 150, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
22 11 0.07
23 53 0.35
24 75 0.50
25 11 0.07
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:18284073 original size:47 final size:47
Alignment explanation
Indices: 18283976--18284162 Score: 238
Period size: 47 Copynumber: 4.0 Consensus size: 47
18283966 AGGAAGTGAA
* *
18283976 AAAGGGCTTATG-CCCAGTTAT-TAAAGGGCTGATGCCCCAGTTATC
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
*
18284021 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATC
1 -AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
* *
18284069 AAAGGGCTTACGCCCCAGTTATC-AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-C
* * *
18284116 AAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-CCAGTTAT
18284163 ATGATAAAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
46 33 0.26
47 51 0.41
48 30 0.24
49 11 0.09
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
Found at i:18288979 original size:25 final size:25
Alignment explanation
Indices: 18288932--18288979 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
18288922 TTATAATATG
* * *
18288932 AAAATGACCGTTTTGCCCATAGGTA
1 AAAATGACCATTATACCCATAGGTA
*
18288957 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCATAGG
18288980 GTTTATACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCATAGGTA
Found at i:18289043 original size:11 final size:11
Alignment explanation
Indices: 18289027--18289098 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
18289017 CATGATACGT
18289027 ATGATATGCAC
1 ATGATATGCAC
*
18289038 ATGATATG--T
1 ATGATATGCAC
18289047 ATGATATGCAC
1 ATGATATGCAC
* *
18289058 ATGACATG--T
1 ATGATATGCAC
18289067 ATGATATGCAC
1 ATGATATGCAC
*
18289078 ATGATATG--T
1 ATGATATGCAC
18289087 ATGATATGCAC
1 ATGATATGCAC
18289098 A
1 A
18289099 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:18289050 original size:9 final size:9
Alignment explanation
Indices: 18289018--18289094 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
18289008 TTTGATAAAC
*
18289018 ATGATACGT
1 ATGATATGT
*
18289027 ATGATATGCAC
1 ATGATATG--T
18289038 ATGATATGT
1 ATGATATGT
*
18289047 ATGATATGCAC
1 ATGATATG--T
*
18289058 ATGACATGT
1 ATGATATGT
*
18289067 ATGATATGCAC
1 ATGATATG--T
18289078 ATGATATGT
1 ATGATATGT
18289087 ATGATATG
1 ATGATATG
18289095 CACACGAGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
9 30 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (9 bp):
ATGATATGT
Found at i:18289106 original size:20 final size:20
Alignment explanation
Indices: 18289016--18289098 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
18289006 ATTTTGATAA
*
18289016 ACATGATACGTATGATATGC
1 ACATGATATGTATGATATGC
18289036 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18289056 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
18289076 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
18289096 ACA
1 ACA
18289099 CGAGATGTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:18289213 original size:24 final size:24
Alignment explanation
Indices: 18289153--18289341 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
18289143 GAGGAAGTGA
18289153 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
18289176 TAAAGGGCTGATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
18289200 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
18289224 AAAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
18289248 -AAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
18289271 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
18289294 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
18289318 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
18289342 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
23 65 0.43
24 75 0.50
25 11 0.07
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:18289222 original size:47 final size:47
Alignment explanation
Indices: 18289153--18289320 Score: 257
Period size: 47 Copynumber: 3.6 Consensus size: 47
18289143 GAGGAAGTGA
*
18289153 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTGATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
18289200 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
* * *
18289248 -AAAGGGCTTACGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
*
18289294 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
18289321 AGAGGCTAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 21 0.19
47 67 0.61
48 21 0.19
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:18291134 original size:49 final size:49
Alignment explanation
Indices: 18291077--18291392 Score: 514
Period size: 49 Copynumber: 6.5 Consensus size: 49
18291067 TATGATATAC
* * * *
18291077 ATATATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
18291125 -TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
* * * *
18291173 ATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
18291221 -TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
*
18291269 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
*
18291318 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
18291367 ATATATATGTGATAAGGCCTAATGGC
1 ATATATATGTGATAAGGCCTAATGGC
18291393 TAATCTAAGA
Statistics
Matches: 250, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
47 86 0.34
49 164 0.66
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
Found at i:18291244 original size:96 final size:96
Alignment explanation
Indices: 18291084--18291392 Score: 555
Period size: 96 Copynumber: 3.2 Consensus size: 96
18291074 TACATATATG
*
18291084 TGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
18291149 CCGATGTGGTGAATGTGAAAGTGTATGTATA
66 CCGATGTGGTGAATGTGAAAGTGTATGTATA
*
18291180 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
18291245 CCGATGTGGTGAATGTGAAAGTGTATGTATA
66 CCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
18291276 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTAAT
*
18291341 GGCCGATGTGGTGAATGTGAAAGTGTATATATA
64 GGCCGATGTGGTGAATGTGAAAGTGTATGTATA
18291374 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
18291393 TAATCTAAGA
Statistics
Matches: 206, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
96 135 0.66
98 71 0.34
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:18291342 original size:145 final size:144
Alignment explanation
Indices: 18291077--18291392 Score: 535
Period size: 145 Copynumber: 2.2 Consensus size: 144
18291067 TATGATATAC
* *
18291077 ATATATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 ATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
18291142 CTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGA
66 CTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGA
18291207 TGAATGTGAAAGTG
131 TGAATGTGAAAGTG
* *
18291221 -TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAG
1 ATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA--TATATGTGATAAG
* *
18291285 GCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGT
64 GCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
18291350 GGTGAATGTGAAAGTG
129 GATGAATGTGAAAGTG
18291366 TATATATATGTGATAAGGCCTAATGGC
1 -ATATATATGTGATAAGGCCTAATGGC
18291393 TAATCTAAGA
Statistics
Matches: 161, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
143 45 0.28
145 91 0.57
147 25 0.16
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (144 bp):
ATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGA
TGAATGTGAAAGTG
Found at i:18291544 original size:37 final size:37
Alignment explanation
Indices: 18291494--18291615 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
18291484 GGAATATGTT
*
18291494 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
18291531 CCGGGTAAGACCCGATGACTACGTGTGAAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
18291568 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
18291605 CCGGGTAAGAC
1 CCGGGTAAGAC
18291616 TTCGTAATAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:18293733 original size:29 final size:29
Alignment explanation
Indices: 18293701--18293832 Score: 246
Period size: 29 Copynumber: 4.6 Consensus size: 29
18293691 CGTTAACCGA
*
18293701 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
18293730 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
18293759 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
18293788 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATTGAG
*
18293817 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
18293833 TTTTTCAACA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 101 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATTGAG
Found at i:18293740 original size:58 final size:58
Alignment explanation
Indices: 18293669--18293832 Score: 206
Period size: 58 Copynumber: 2.8 Consensus size: 58
18293659 CGAATGATTA
* *
18293669 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAAA-TCAG-TAACCGAGGCACTATGTGTGCGAGATCAGTAATC
* ** *
18293727 GAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATC
* ** *
18293785 GAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAG
18293833 TTTTTCAACA
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
57 5 0.05
58 90 0.93
59 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (58 bp):
GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:18293770 original size:87 final size:87
Alignment explanation
Indices: 18293669--18293832 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 87
18293659 CGAATGATTA
* *
18293669 GAGGCACTGTGTGTGC-AAATTCCGTTAACCGA-GCACTATGTGTGCGAGATCAGTAATCGAGGC
1 GAGGCACTATGTGTGCGAAA-TCAG-TAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGC
18293732 ACTATGTGTGCGAGATCAGTAATT
64 ACTATGTGTGCGAGATCAGTAATT
* ** *
18293756 GAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCAC
1 GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
*
18293821 TGTGTGTGCGAG
66 TATGTGTGCGAG
18293833 TTTTTCAACA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
86 5 0.07
87 61 0.90
88 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (87 bp):
GAGGCACTATGTGTGCGAAATCAGTAACCGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCAC
TATGTGTGCGAGATCAGTAATT
Found at i:18297239 original size:49 final size:49
Alignment explanation
Indices: 18297182--18297454 Score: 410
Period size: 49 Copynumber: 5.7 Consensus size: 49
18297172 TATGATATAC
* * *
18297182 ATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGT
*
18297230 -TATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGT
* * *
18297278 ATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGT
* *
18297326 -TATATATGTGATAAGGTCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGT
* *
18297374 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGT
*
18297423 ATATATATGTGATAAGGCCTAATGGCTAATGT
1 ATATATATGTGATAAGGCCTAATGGCCAATGT
18297455 AAAATATATG
Statistics
Matches: 203, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
47 85 0.42
49 118 0.58
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
ATATATATGTGATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGT
Found at i:18297349 original size:96 final size:96
Alignment explanation
Indices: 18297189--18297448 Score: 466
Period size: 96 Copynumber: 2.7 Consensus size: 96
18297179 TACATATATG
18297189 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
18297254 CCGATGTGGTGAATGTGAAAGTGTATGTATA
66 CCGATGTGGTGAATGTGAAAGTGTATGTATA
*
18297285 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTCTAATGG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
18297350 CCGATGTGGTGAATGTGAAAGTGTATGTATA
66 CCGATGTGGTGAATGTGAAAGTGTATGTATA
* * *
18297381 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
18297446 GGC
64 GGC
18297449 TAATGTAAAA
Statistics
Matches: 157, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
96 133 0.85
98 24 0.15
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (96 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:18297520 original size:145 final size:145
Alignment explanation
Indices: 18297183--18297496 Score: 404
Period size: 145 Copynumber: 2.2 Consensus size: 145
18297173 ATGATATACA
* * * * *
18297183 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGG
1 TATATATGTGATAAAGCCGAATGGCCGATATGGTGAATGTGAAAGTGTATGTATATGTGATAAGG
*
18297246 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTG
66 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
* *
18297311 ATGAATGTGAAAGTG
131 ATAAATATGAAAGTG
* * * *
18297326 TATATATGTGATAAGGTCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGG
1 TATATATGTGATAAAGCCGAATGGCCGATATGGTGAATGTGAAAGTGTATGTATATGTGATAAGG
* *
18297391 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTAATGT-
66 CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
**
18297455 A-AAATAT-ATGTGTG
131 ATAAATATGA-AAGTG
*
18297469 ATATGCATATGTGGTAAAGCCGAATGGC
1 -TAT--ATATGTGATAAAGCCGAATGGC
18297497 TAATGTGAAT
Statistics
Matches: 149, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
142 1 0.01
143 51 0.34
144 4 0.03
145 75 0.50
146 18 0.12
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (145 bp):
TATATATGTGATAAAGCCGAATGGCCGATATGGTGAATGTGAAAGTGTATGTATATGTGATAAGG
CCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
ATAAATATGAAAGTG
Found at i:18297600 original size:37 final size:37
Alignment explanation
Indices: 18297550--18297634 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
18297540 GGAATATGTT
* *
18297550 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTCTGGAGATTATGA
*
18297587 CCGGGTAAGACCCGATGACTACGTCTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTCTGGAGATTATGA
18297624 CCGGGTAAGAC
1 CCGGGTAAGAC
18297635 TTCGTAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTCTGGAGATTATGA
Found at i:18302632 original size:31 final size:31
Alignment explanation
Indices: 18302591--18302654 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
18302581 CCTTTTCATA
*
18302591 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
18302622 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
18302653 TT
1 TT
18302655 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:18302924 original size:23 final size:24
Alignment explanation
Indices: 18302848--18303014 Score: 252
Period size: 24 Copynumber: 7.0 Consensus size: 24
18302838 ACTTTATCAT
*
18302848 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
18302873 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
18302898 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18302921 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
18302945 ATAACAGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18302969 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
18302993 ATAACTGGGGCAT-AGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18303015 GCACTTCCTC
Statistics
Matches: 134, Mismatches: 3, Indels: 12
0.90 0.02 0.08
Matches are distributed among these distances:
23 33 0.25
24 70 0.52
25 25 0.19
26 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:18303091 original size:20 final size:20
Alignment explanation
Indices: 18303068--18303110 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
18303058 GAACATCTCG
18303068 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
18303088 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
18303108 TGT
1 TGT
18303111 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:18303175 original size:25 final size:25
Alignment explanation
Indices: 18303147--18303194 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18303137 ATATATAAAC
* * *
18303147 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18303172 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18303195 CATATTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:18304454 original size:27 final size:27
Alignment explanation
Indices: 18304434--18304936 Score: 581
Period size: 27 Copynumber: 18.6 Consensus size: 27
18304424 AGGGTATTTT
*
18304434 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18304461 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18304488 AGTAATTCTATAAATCGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18304514 TGCTAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
18304542 -GATAATTTTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
18304569 AATAATTATGTAAATC-AGGGGTAAAAT
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* **
18304596 GGTAA-TCATGTAAATTAAGGGTAAAAC
1 AGTAATTC-TGTAAATCGAGGGTAAAAC
* * *
18304623 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18304650 AGTAATTCTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
18304677 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
18304704 -GATAATTCTATAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
18304731 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18304758 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
18304785 GGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
18304812 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
18304839 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
18304866 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
18304893 AGTAATTCTATAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
18304920 GGTAATTCTATAAATCG
1 AGTAATTCTGTAAATCG
18304937 GGAGTACTTT
Statistics
Matches: 411, Mismatches: 50, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.02
27 397 0.97
28 7 0.02
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:18304521 original size:81 final size:81
Alignment explanation
Indices: 18304435--18304936 Score: 645
Period size: 81 Copynumber: 6.2 Consensus size: 81
18304425 GGGTATTTTA
* * * * *
18304435 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
*
18304500 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * * * *
18304516 CTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACAATAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
*
18304581 AATC-AGGGGTAAAATG
66 AATCGA-GGGTAAAACG
** *
18304597 GTAA-TCATGTAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTC-TGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
*
18304661 AAATTGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* ** * *
18304678 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
* *
18304743 AATCAAGGGTAAAACA
66 AATCGAGGGTAAAACG
* * *
18304759 ATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
18304823 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* * *
18304840 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
18304905 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAACG
*
18304921 GTAATTCTATAAATCG
1 GTAATTCTGTAAATCG
18304937 GGAGTACTTT
Statistics
Matches: 370, Mismatches: 44, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
80 5 0.01
81 362 0.98
82 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
AATCGAGGGTAAAACG
Found at i:18307136 original size:46 final size:46
Alignment explanation
Indices: 18307086--18307211 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
18307076 TGGTTGAGCA
*
18307086 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
18307132 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
* *
18307178 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18307212 GGGGCGGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
Found at i:18313162 original size:43 final size:43
Alignment explanation
Indices: 18313115--18313209 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
18313105 CGGCTAGAGT
18313115 ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
1 ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
* *
18313158 ACACGCCCATGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAT
1 ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
18313201 ACACGCCCA
1 ACACGCCCA
18313210 CGTCTAAGCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.22, C:0.36, G:0.27, T:0.15
Consensus pattern (43 bp):
ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
Found at i:18314746 original size:32 final size:32
Alignment explanation
Indices: 18314705--18314769 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
18314695 TTTCTCGTGA
18314705 TGTCGTGGATAATGACCAATATCATTCATACT
1 TGTCGTGGATAATGACCAATATCATTCATACT
18314737 TGTCGTGGATAATGACCAATATCATTCATACT
1 TGTCGTGGATAATGACCAATATCATTCATACT
18314769 T
1 T
18314770 ACAAAGTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTCGTGGATAATGACCAATATCATTCATACT
Found at i:18320382 original size:40 final size:40
Alignment explanation
Indices: 18320325--18320509 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
18320315 TCGAATGATG
* *
18320325 TCCGGACTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
18320365 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
18320405 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
**
18320444 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
18320485 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
18320510 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
39 36 0.27
40 86 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18320461 original size:79 final size:81
Alignment explanation
Indices: 18320325--18320509 Score: 254
Period size: 79 Copynumber: 2.3 Consensus size: 81
18320315 TCGAATGATG
*
18320325 TCCGGACTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
18320389 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
18320404 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
18320466 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
18320484 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18320510 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
78 1 0.01
79 61 0.65
80 32 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:18320532 original size:79 final size:79
Alignment explanation
Indices: 18320378--18320532 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
18320368 GGACTAAGAT
* **
18320378 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
18320443 ATCCGGGTTAAGTC
66 ATCCGAGTTAAGTC
*
18320457 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
18320520 TATATCC-AGTTAA
63 TAAATCCGAGTTAA
18320533 ACTCCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.60
80 25 0.37
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAGTC
Found at i:18323037 original size:79 final size:81
Alignment explanation
Indices: 18322901--18323085 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 81
18322891 TCGAATGATG
18322901 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
18322965 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * *
18322980 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCC-GAGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGA-CTAAGAT-CCGAAGGC
18323041 ATTTGTGCGAGTTACTATA
63 ATTTGTGCGAGTTACTATA
* *
18323060 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18323086 AACGAGTAGC
Statistics
Matches: 95, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
78 3 0.03
79 59 0.62
80 33 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:18323092 original size:40 final size:39
Alignment explanation
Indices: 18322902--18323085 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 39
18322892 CGAATGATGT
* *
18322902 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
18322941 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
18322982 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
18323020 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
18323061 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
18323086 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 34 0.27
40 82 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:18323108 original size:79 final size:79
Alignment explanation
Indices: 18322902--18323108 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 79
18322892 CGAATGATGT
** * * *
18322902 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCG-GACTAAGAT-CCGAAGGCAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTAAATCCGAG-TTAAG-TCCCGAAGGCAT
*
18322964 TTGTGCGAGTTACTAATT
62 TTGTGCGAGTTACTAATA
**
18322982 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATTTGT
18323047 GCGAGTTACT-ATAA
66 GCGAGTTACTAAT-A
* *
18323061 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCG-GTTAA
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCCGAGTTAA
18323109 ACTCTGAAGG
Statistics
Matches: 113, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
78 3 0.03
79 66 0.58
80 44 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGAGTTAAGTCCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:18331103 original size:40 final size:39
Alignment explanation
Indices: 18331020--18331203 Score: 248
Period size: 40 Copynumber: 4.7 Consensus size: 39
18331010 TCGAATGATG
* *
18331020 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
18331059 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
18331098 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
18331138 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
18331178 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18331204 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
39 61 0.47
40 69 0.53
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:18331155 original size:79 final size:80
Alignment explanation
Indices: 18331020--18331203 Score: 252
Period size: 79 Copynumber: 2.3 Consensus size: 80
18331010 TCGAATGATG
18331020 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTT
18331084 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * **
18331098 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCA
18331160 TTTGTGCGAGTTACTATA
63 TTTGTGCGAGTTACTATA
* *
18331178 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
18331204 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
78 16 0.17
79 63 0.67
80 15 0.16
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:18331225 original size:79 final size:79
Alignment explanation
Indices: 18331021--18331226 Score: 217
Period size: 79 Copynumber: 2.6 Consensus size: 79
18331011 CGAATGATGT
** * * **
18331021 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
*
18331083 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
**
18331100 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
18331165 GCGAGTTACT-ATAA
66 GCGAGTTACTAAT-A
* *
18331179 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAA
18331227 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
78 18 0.16
79 69 0.62
80 25 0.22
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:18334950 original size:28 final size:27
Alignment explanation
Indices: 18334898--18334952 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
18334888 ATACTTATTT
* *
18334898 TTATTAAAATTTAATACTTAGTACTAA
1 TTATTAAAACTTAATACTTAATACTAA
18334925 TTATTGAAAACTTAATA-TTAAATACTAA
1 TTATT-AAAACTTAATACTT-AATACTAA
18334953 AGTCGCTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (27 bp):
TTATTAAAACTTAATACTTAATACTAA
Found at i:18335356 original size:18 final size:18
Alignment explanation
Indices: 18335333--18335368 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18335323 TACACCAATC
18335333 CTATTTGTGAAAAAGTAA
1 CTATTTGTGAAAAAGTAA
18335351 CTATTTGTGAAAAAGTAA
1 CTATTTGTGAAAAAGTAA
18335369 GATGGATCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (18 bp):
CTATTTGTGAAAAAGTAA
Found at i:18336398 original size:82 final size:82
Alignment explanation
Indices: 18336293--18336457 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
18336283 AACATGTCAT
*
18336293 AAGCATATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAGCCTACCAT
1 AAGCATATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
18336358 TTAACTCACAAATAACC
66 TTAACTCACAAATAACC
*
18336375 AAGCTTATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
1 AAGCATATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
18336440 TTAACTCACAAATAACC
66 TTAACTCACAAATAACC
18336457 A
1 A
18336458 CATCAATTAC
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.32
Consensus pattern (82 bp):
AAGCATATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
TTAACTCACAAATAACC
Found at i:18337432 original size:42 final size:43
Alignment explanation
Indices: 18337353--18337451 Score: 132
Period size: 42 Copynumber: 2.3 Consensus size: 43
18337343 TCTCAGATGA
* *
18337353 GGTCTTACACGTAATCGACTATCGATGCCACTTTCCCAGACAG
1 GGTCTTACACGTAATCGACTATCGATGCCAATGTCCCAGACAG
*
18337396 GGTCTTACACG-AACTC-A-TATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAA-TCGACTAT-CGATGCCAATGTCCCAGACAG
18337438 GGTCTTACACGTAA
1 GGTCTTACACGTAA
18337452 ACCACAAACC
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
41 3 0.06
42 32 0.64
43 15 0.30
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGTAATCGACTATCGATGCCAATGTCCCAGACAG
Found at i:18350307 original size:29 final size:29
Alignment explanation
Indices: 18350274--18350405 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
18350264 GTGACGAGAT
18350274 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
18350303 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
18350332 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
18350361 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
18350390 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
18350406 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:18352266 original size:40 final size:39
Alignment explanation
Indices: 18352106--18352268 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
18352096 TGTGTATGAA
*
18352106 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
18352145 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
18352184 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
18352223 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
18352263 TGTGCG
1 TGTGCG
18352269 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:18352284 original size:40 final size:39
Alignment explanation
Indices: 18352106--18352299 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
18352096 TGTGTATGAA
* *
18352106 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
18352145 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
18352184 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
18352223 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
18352263 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
18352300 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Done.