Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 100 of 127
Found at i:18777967 original size:6 final size:6
Alignment explanation
Indices: 18777942--18777980 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
18777932 GGGTTCTCCC
* * *
18777942 AAGAAG AAGATG ACGGTG AAGATG AAGATG AAGATG AAG
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAG
18777981 CCATTGTTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.36, T:0.13
Consensus pattern (6 bp):
AAGATG
Found at i:18784123 original size:2 final size:2
Alignment explanation
Indices: 18784116--18784157 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
18784106 GGTCCTTTTC
18784116 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18784158 AGCTAAGCCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18795446 original size:3 final size:3
Alignment explanation
Indices: 18795440--18795489 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
18795430 TTCTTCTCTT
18795440 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18795488 TT
1 TT
18795490 TGGTGAACAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18798182 original size:25 final size:25
Alignment explanation
Indices: 18798137--18798193 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
18798127 TTTATCAATA
**
18798137 AATATA-TTTATTAATTTAATAAATT
1 AATATATTTTATTAATAAAATAAA-T
18798162 AATATATTTTATT-ATAAAATAAAT
1 AATATATTTTATTAATAAAATAAAT
*
18798186 AAAATATT
1 AATATATT
18798194 ACAAATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 8 0.29
25 14 0.50
26 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATATTTTATTAATAAAATAAAT
Found at i:18798818 original size:2 final size:2
Alignment explanation
Indices: 18798811--18798851 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
18798801 CAATCTCTTC
18798811 TA TA TA TA TA TA TA TCA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA T
18798852 CCTATAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.95
3 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18800756 original size:14 final size:14
Alignment explanation
Indices: 18800706--18800765 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
18800696 GAGTTTACTT
*
18800706 ATTTAATTATATTTTA
1 ATTTAA-TA-ATTATA
* *
18800722 ATTTATTAATTGATT
1 ATTTAATAATT-ATA
18800737 ATTTAATAATTATA
1 ATTTAATAATTATA
*
18800751 ATTTAATTATTATA
1 ATTTAATAATTATA
18800765 A
1 A
18800766 AATAATTGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 19 0.51
15 13 0.35
16 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
ATTTAATAATTATA
Found at i:18804922 original size:11 final size:11
Alignment explanation
Indices: 18804906--18804930 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18804896 ATTTTACTAA
18804906 TTTATCAAATT
1 TTTATCAAATT
18804917 TTTATCAAATT
1 TTTATCAAATT
18804928 TTT
1 TTT
18804931 GGTATGCGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATCAAATT
Found at i:18806884 original size:161 final size:160
Alignment explanation
Indices: 18806686--18807423 Score: 722
Period size: 161 Copynumber: 4.6 Consensus size: 160
18806676 CATTTGGGCA
* * * * *
18806686 TTTCACATATATCAATCATGGAAACCAAGTTCAATCATTCGAAAAATTTTAATATCATGTATTGA
1 TTTCACACATATCAACCGT-GAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGA
* * ** * * * *
18806751 AGCCATCCAAACTATTAAAATAGATTAATAATAGCAAATTTTTATTTTTGCGTTCTAATGGCA-A
65 AGCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTGCCTTTTAACGGCACA
* * *
18806815 AAATAGTTCTAAATAGATATAAACGATAAATT
130 AAATAGTCCTAAATAGACATAAAC-ATAACTT
* * * *
18806847 TTTCACACATATCAACCGTAGAAATCAAGTTCAATCATT-TAGATAAGTTTAATATCATATATTG
1 TTTCACACATATCAACCGT-GAAACCAAGTTCAATCATTCGA-ACAAGTTTAATATCATGTATTG
* * *
18806911 AAGCTATCAAAACTGTTAAAATAGAACAATAATATC-AATTTTTCA-TTTTGCCTTTTAACGGCA
64 AAGCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGT-ATTTTTGCCTTTTAACGGCA
* * *
18806974 TAAAATA-TCCTAAATAGACGTAAACATTAGCTT
128 CAAAATAGTCCTAAATAGACATAAACA-TAACTT
* * * *
18807007 TTTCACACATATCAACTGTGAAACCAAGTTAAATTATTCCAACAAGTTTAATATCATGTATTGAA
1 TTTCACACATATCAACCGTGAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAA
* * * * * * * *
18807072 GTTATGCAAACTGTTAAAATAGAACAACAACAACAAATTTGCATGTTTGCCTTTTAACAGCACAA
66 GCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTGCCTTTTAACGGCACAA
* * *
18807137 AA-AGTCTTAAACAGATATAAACGATAACTT
131 AATAGTCCTAAATAGACATAAAC-ATAACTT
* ** * * *
18807167 TTTCGCACATATCAACTTTGAAAATCAAGTTCAATTATTCGGACAAGTTTAATATCATGTATT-A
1 TTTCACACATATCAACCGTG-AAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGA
* * * *
18807231 GAGCTATCCAAATTGTTAAAATAGAACAAT--TTGTCCAAATTTGTATTTTTACCTATTAACGGC
65 -AGCTATCCAAACTGTTAAAATAGAACAATAATAG--CAAATTTGTATTTTTGCCTTTTAACGGC
18807294 ACAAAAT-GTCCTAAATAGACATAAACATGAACTT
127 ACAAAATAGTCCTAAATAGACATAAACAT-AACTT
* * * * *** *
18807328 TTTCATACATATCAACCGTGAAAACTAAGTTCAATAATTTGGGTAAGTTTAATATTATGTATTGA
1 TTTCACACATATCAACCGTG-AAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGA
* * * *
18807393 AACTATCAAAACTATTAAAACAGAACAATAA
65 AGCTATCCAAACTGTTAAAATAGAACAATAA
18807424 CTGTAAATTT
Statistics
Matches: 476, Mismatches: 83, Indels: 34
0.80 0.14 0.06
Matches are distributed among these distances:
159 69 0.14
160 126 0.26
161 280 0.59
162 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (160 bp):
TTTCACACATATCAACCGTGAAACCAAGTTCAATCATTCGAACAAGTTTAATATCATGTATTGAA
GCTATCCAAACTGTTAAAATAGAACAATAATAGCAAATTTGTATTTTTGCCTTTTAACGGCACAA
AATAGTCCTAAATAGACATAAACATAACTT
Found at i:18807155 original size:320 final size:321
Alignment explanation
Indices: 18806686--18807420 Score: 802
Period size: 320 Copynumber: 2.3 Consensus size: 321
18806676 CATTTGGGCA
* * * *
18806686 TTTCACATATATCAATCATG-GAAACCAAGTTCAATCATTCGAAAAATTTTAATATCATGTATTG
1 TTTCACACATATCAA-C-TGTGAAACCAAGTTAAATCATTCCAAAAAGTTTAATATCATGTATTG
** * * * ** * * **
18806750 AAGCCATCCAAACTATTAAAATAGATTAATAATAGCAAATTTTTATTTTTGCGTTCTAATGGCAA
64 AAGCCATCCAAACTATTAAAATAGAACAACAACAACAAATTTGCATGTTTGCCTTCTAACAGCAA
*
18806815 AAATAGTTCTAAATAGATATAAACGATAAATTTTTCACACATATCAACCGTAG-AAATCAAGTTC
129 AAATAGTTCTAAACAGATATAAACGATAAATTTTTCACACATATCAA-CGTAGAAAATCAAGTTC
* *
18806879 AATCATTTAGATAAGTTTAATATCATATATT-GAAGCTATCAAAACTGTTAAAATAGAACAATAA
193 AATCATTCAGACAAGTTTAATATCATATATTAG-AGCTATCAAAACTGTTAAAATAGAACAAT-A
* * * * * * *
18806943 TAT-C-AATTTTTCA-TTTTGCCTTTTAACGGCATAAAATATCCTAAATAGACGTAAACATTAGC
256 TATCCAAATTTGT-ATTTTTACCTATTAACGGCACAAAATATCCTAAATAGACATAAACATGAAC
18807005 TT
320 TT
* *
18807007 TTTCACACATATCAACTGTGAAACCAAGTTAAATTATTCCAACAAGTTTAATATCATGTATTGAA
1 TTTCACACATATCAACTGTGAAACCAAGTTAAATCATTCCAAAAAGTTTAATATCATGTATTGAA
** * * *
18807072 GTTATGCAAACTGTTAAAATAGAACAACAACAACAAATTTGCATGTTTGCCTTTTAACAGCACAA
66 GCCATCCAAACTATTAAAATAGAACAACAACAACAAATTTGCATGTTTGCCTTCTAACAGCA-AA
* * * *
18807137 AA-AG-TCTTAAACAGATATAAACGATAACTTTTTCGCACATATCAACTTTGAAAATCAAGTTCA
130 AATAGTTC-TAAACAGATATAAACGATAAATTTTTCACACATATCAACGTAGAAAATCAAGTTCA
* * * * * * *
18807200 ATTATTCGGACAAGTTTAATATCATGTATTAGAGCTATCCAAATTGTTAAAATAGAACAATTTGT
194 ATCATTCAGACAAGTTTAATATCATATATTAGAGCTATCAAAACTGTTAAAATAGAACAATATAT
*
18807265 CCAAATTTGTATTTTTACCTATTAACGGCACAAAATGTCCTAAATAGACATAAACATGAACTT
259 CCAAATTTGTATTTTTACCTATTAACGGCACAAAATATCCTAAATAGACATAAACATGAACTT
* * * * * ***** *
18807328 TTTCATACATATCAACCGTGAAAACTAAGTTCAATAATTTGGGTAAGTTTAATATTATGTATTGA
1 TTTCACACATATCAACTGTG-AAACCAAGTTAAATCATTCCAAAAAGTTTAATATCATGTATTGA
* * * *
18807393 AACTATCAAAACTATTAAAACAGAACAA
65 AGCCATCCAAACTATTAAAATAGAACAA
18807421 TAACTGTAAA
Statistics
Matches: 344, Mismatches: 61, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
319 9 0.03
320 191 0.56
321 87 0.25
322 57 0.17
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (321 bp):
TTTCACACATATCAACTGTGAAACCAAGTTAAATCATTCCAAAAAGTTTAATATCATGTATTGAA
GCCATCCAAACTATTAAAATAGAACAACAACAACAAATTTGCATGTTTGCCTTCTAACAGCAAAA
ATAGTTCTAAACAGATATAAACGATAAATTTTTCACACATATCAACGTAGAAAATCAAGTTCAAT
CATTCAGACAAGTTTAATATCATATATTAGAGCTATCAAAACTGTTAAAATAGAACAATATATCC
AAATTTGTATTTTTACCTATTAACGGCACAAAATATCCTAAATAGACATAAACATGAACTT
Found at i:18813069 original size:89 final size:87
Alignment explanation
Indices: 18812885--18813060 Score: 199
Period size: 87 Copynumber: 2.0 Consensus size: 87
18812875 GAGTTTCAGG
* * *
18812885 TAAAAAACGCATTCAATAATCCTCTCTAATTTTAGACAAGGGATTATTAAAGGCATTTTTTTTAT
1 TAAAAAATGCCTTCAATAATCCTCTCTAATTTTAGACAAGCGATTATTAAAGGCATTTTTTTTAT
***
18812950 AAAAAATACCTTTAATAATTTG
66 AAAAAATACCTTTAATAATCCC
* ** * *
18812972 TAAAAAATGCCTTCAATAATCTTCTCTAATTTTTTATCAAGCGATTATTGAATGCATTTTTTTTT
1 TAAAAAATGCCTTCAATAATCCTCTCTAATTTTAGA-CAAGCGATTATTAAAGGCA-TTTTTTTT
* * **
18813037 GTAGAAAATGGCTTTAATAATCCC
64 ATAAAAAATACCTTTAATAATCCC
18813061 CTGAAAATGT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 31 0.43
88 16 0.22
89 25 0.35
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (87 bp):
TAAAAAATGCCTTCAATAATCCTCTCTAATTTTAGACAAGCGATTATTAAAGGCATTTTTTTTAT
AAAAAATACCTTTAATAATCCC
Found at i:18813270 original size:63 final size:66
Alignment explanation
Indices: 18812975--18813275 Score: 218
Period size: 62 Copynumber: 4.8 Consensus size: 66
18812965 TAATTTGTAA
* ** * * * * *
18812975 AAAATGCCTTCAATAATCTTCTCTAATTTTTTATCA-AGCGATTATTGAATGCATTTTTTTTTGT
1 AAAATGCCTTTAATAATCCCCTCTAAATTTTTATCAGAGAGATTATTGAAGGCA-TTTTTTATAT
18813039 AG
65 AG
* ** * * *
18813041 AAAATGGCTTTAATAATCCCCTGAAAATGTTTAT-AG-GAAATTATTGAAGGCATATTTTA-A-A
1 AAAATGCCTTTAATAATCCCCTCTAAATTTTTATCAGAGAGATTATTGAAGGCATTTTTTATATA
18813102 G
66 G
* * * * * * * * *
18813103 AAAACGCCTTCAATAA-CCTCTTTAAATTTTT-TTA-AGAAATTATTCAAGGTATTTTTT-TACA
1 AAAATGCCTTTAATAATCCCCTCTAAATTTTTATCAGAGAGATTATTGAAGGCATTTTTTATATA
*
18813164 T
66 G
* * * *
18813165 AAAACGCCTTTAATAATCCCCT-TATATTTTGA-C-GAGGAGATTATTGAAGGTATTTTTTAT-T
1 AAAATGCCTTTAATAATCCCCTCTAAATTTTTATCAGA-GAGATTATTGAAGGCATTTTTTATAT
18813226 A-
65 AG
*
18813227 AAAATACCTTTAATAATCCCCTCTAAATTTTTATCAGAG-GATTATTGAA
1 AAAATGCCTTTAATAATCCCCTCTAAATTTTTATCAGAGAGATTATTGAA
18813276 AGCTTTTAGT
Statistics
Matches: 185, Mismatches: 37, Indels: 29
0.74 0.15 0.12
Matches are distributed among these distances:
60 1 0.01
61 32 0.17
62 59 0.32
63 43 0.23
64 8 0.04
65 16 0.09
66 26 0.14
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (66 bp):
AAAATGCCTTTAATAATCCCCTCTAAATTTTTATCAGAGAGATTATTGAAGGCATTTTTTATATA
G
Found at i:18832004 original size:6 final size:6
Alignment explanation
Indices: 18831993--18832022 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
18831983 TCTTTTAATA
18831993 TCCTTT TCCTTT TCCTTT TCCTTT TCCTTT
1 TCCTTT TCCTTT TCCTTT TCCTTT TCCTTT
18832023 CATGCTCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCCTTT
Found at i:18832348 original size:1 final size:1
Alignment explanation
Indices: 18832344--18832369 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
18832334 CTTTTTCAGG
18832344 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
18832370 CAATCCTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:18836220 original size:33 final size:33
Alignment explanation
Indices: 18836183--18836285 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 33
18836173 CACGAGCTGG
* *
18836183 TTGCCTCTACCCTGGGTGAGGAAACTTCACTCA
1 TTGCCTCAACCCTAGGTGAGGAAACTTCACTCA
* * *
18836216 TTGCCCCAAGCCTAGGTGAGGAAGA-TTCATTCA
1 TTGCCTCAACCCTAGGTGAGGAA-ACTTCACTCA
* ** * * *
18836249 TGGTTTCAACCCTTGGTGAGGAAACTTTACCCA
1 TTGCCTCAACCCTAGGTGAGGAAACTTCACTCA
18836282 TTGC
1 TTGC
18836286 TATGAGTTTC
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
32 1 0.02
33 50 0.96
34 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (33 bp):
TTGCCTCAACCCTAGGTGAGGAAACTTCACTCA
Found at i:18836445 original size:51 final size:51
Alignment explanation
Indices: 18836369--18836470 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
18836359 TTAGTCGATG
18836369 GAACTTCAGTCATTACCACAACCATGTATGAGGAAACGTTGCCCATTTCCA
1 GAACTTCAGTCATTACCACAACCATGTATGAGGAAACGTTGCCCATTTCCA
18836420 GAACTTCAGTCATTACCACAACCATGTATGAGGAAACGTTGCCCATTTCCA
1 GAACTTCAGTCATTACCACAACCATGTATGAGGAAACGTTGCCCATTTCCA
18836471 CAACCATGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (51 bp):
GAACTTCAGTCATTACCACAACCATGTATGAGGAAACGTTGCCCATTTCCA
Found at i:18836477 original size:33 final size:33
Alignment explanation
Indices: 18836430--18836507 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
18836420 GAACTTCAGT
*
18836430 CATTACCACAACCATGTATGAGGAAACGTTGCC
1 CATTACCACAACCATGTACGAGGAAACGTTGCC
*
18836463 CATTTCCACAACCATGTACGAGGAAACGTTGCC
1 CATTACCACAACCATGTACGAGGAAACGTTGCC
*
18836496 CATTGCCACAAC
1 CATTACCACAAC
18836508 TGCAGGTGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.21
Consensus pattern (33 bp):
CATTACCACAACCATGTACGAGGAAACGTTGCC
Found at i:18836907 original size:33 final size:33
Alignment explanation
Indices: 18836869--18837060 Score: 165
Period size: 33 Copynumber: 5.8 Consensus size: 33
18836859 AACATTGGGC
18836869 GAAGAAACTCC-AGCCATTCCTACAACCTTCAGT
1 GAAGAAACTCCTA-CCATTCCTACAACCTTCAGT
* * ** * *
18836902 AAAGAAACACCGGCCATCCCTCCAACCTTCAGT
1 GAAGAAACTCCTACCATTCCTACAACCTTCAGT
*
18836935 GAAGAAACTCCTATCATTCCCT-CAA-CTTCCAGT
1 GAAGAAACTCCTACCATT-CCTACAACCTT-CAGT
* * * *
18836968 GAAGAAACTCCTATCATTCCTCCAACCCTCAGC
1 GAAGAAACTCCTACCATTCCTACAACCTTCAGT
* * **
18837001 GAAGAAACTCCTATCATTCCTGCAACCTTGGGT
1 GAAGAAACTCCTACCATTCCTACAACCTTCAGT
* ** *
18837034 GAGGAAACTCAGACCATTCCTATAACC
1 GAAGAAACTCCTACCATTCCTACAACC
18837061 ATGGGTGAGG
Statistics
Matches: 130, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
32 6 0.05
33 119 0.92
34 5 0.04
ACGTcount: A:0.32, C:0.34, G:0.12, T:0.22
Consensus pattern (33 bp):
GAAGAAACTCCTACCATTCCTACAACCTTCAGT
Found at i:18836939 original size:66 final size:66
Alignment explanation
Indices: 18836867--18837029 Score: 188
Period size: 66 Copynumber: 2.5 Consensus size: 66
18836857 AGAACATTGG
* * *
18836867 GCGAAGAAACTCC-AGCCATTCCTACAACCTT-CAGTAAAGAAACACCGGCCATCCCTCCAACCT
1 GCGAAGAAACTCCTA-TCATTCCT-CAACCTTCCAGTAAAGAAACACCGACCATCCCTCCAACCC
18836930 TCA
64 TCA
* * * * * *
18836933 GTGAAGAAACTCCTATCATTCCCTCAA-CTTCCAGTGAAGAAACTCCTATCATTCCTCCAACCCT
1 GCGAAGAAACTCCTATCATT-CCTCAACCTTCCAGTAAAGAAACACCGACCATCCCTCCAACCCT
18836997 CA
65 CA
18836999 GCGAAGAAACTCCTATCATTCCTGCAACCTT
1 GCGAAGAAACTCCTATCATTCCT-CAACCTT
18837030 GGGTGAGGAA
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
65 6 0.07
66 69 0.84
67 7 0.09
ACGTcount: A:0.31, C:0.36, G:0.11, T:0.22
Consensus pattern (66 bp):
GCGAAGAAACTCCTATCATTCCTCAACCTTCCAGTAAAGAAACACCGACCATCCCTCCAACCCTC
A
Found at i:18837052 original size:66 final size:66
Alignment explanation
Indices: 18836915--18837108 Score: 178
Period size: 66 Copynumber: 2.9 Consensus size: 66
18836905 GAAACACCGG
* * ** *
18836915 CCATCCCTCCAACCTTCAGTGAAGAAACTCCTATCATTCCCT-CAA-CTTCCAGTGAAGAAACTC
1 CCATTCCTCCAACCATCAGTGAAGAAACTCCTATCATT-CCTGCAACCTT-GGGTGAGGAAACTC
**
18836978 CTA
64 AGA
* * *
18836981 TCATTCCTCCAACCCTCAGCGAAGAAACTCCTATCATTCCTGCAACCTTGGGTGAGGAAACTCAG
1 CCATTCCTCCAACCATCAGTGAAGAAACTCCTATCATTCCTGCAACCTTGGGTGAGGAAACTCAG
18837046 A
66 A
** ** * * **
18837047 CCATTCCTATAACCATGGGTGAGGAAACT-ATGGCCATTCCTGCAACCTTGGGTGAGGAAACT
1 CCATTCCTCCAACCATCAGTGAAGAAACTCCT-ATCATTCCTGCAACCTTGGGTGAGGAAACT
18837109 ACAATTGTCC
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
65 4 0.04
66 98 0.93
67 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (66 bp):
CCATTCCTCCAACCATCAGTGAAGAAACTCCTATCATTCCTGCAACCTTGGGTGAGGAAACTCAG
A
Found at i:18837066 original size:33 final size:33
Alignment explanation
Indices: 18837015--18837109 Score: 138
Period size: 33 Copynumber: 2.9 Consensus size: 33
18837005 AAACTCCTAT
18837015 CATTCCTGCAACCTTGGGTGAGGAAACTCA-GAC
1 CATTCCTGCAACCTTGGGTGAGGAAACT-ATGAC
** * *
18837048 CATTCCTATAACCATGGGTGAGGAAACTATGGC
1 CATTCCTGCAACCTTGGGTGAGGAAACTATGAC
18837081 CATTCCTGCAACCTTGGGTGAGGAAACTA
1 CATTCCTGCAACCTTGGGTGAGGAAACTA
18837110 CAATTGTCCC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
32 1 0.02
33 53 0.98
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (33 bp):
CATTCCTGCAACCTTGGGTGAGGAAACTATGAC
Found at i:18837289 original size:33 final size:33
Alignment explanation
Indices: 18837220--18837345 Score: 135
Period size: 33 Copynumber: 3.8 Consensus size: 33
18837210 CATCAATCCT
* * * *
18837220 ACAACCTTGGGTGAGGAAACTACAACCAGTCTC
1 ACAACCTTGGGTGAGGAAACTTCAACTACTCCC
* * * *
18837253 ACAACCTTGGGTGAGGAATCTTCGATTATTCCC
1 ACAACCTTGGGTGAGGAAACTTCAACTACTCCC
* **
18837286 ACAATCTTGGCCGAGGAAACTTCAACTACTCCC
1 ACAACCTTGGGTGAGGAAACTTCAACTACTCCC
* *
18837319 TCAACCTTGGGTGAGGAAGCTTCAACT
1 ACAACCTTGGGTGAGGAAACTTCAACT
18837346 GTTCTCACAA
Statistics
Matches: 74, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (33 bp):
ACAACCTTGGGTGAGGAAACTTCAACTACTCCC
Found at i:18837377 original size:66 final size:66
Alignment explanation
Indices: 18837254--18837378 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
18837244 ACCAGTCTCA
* * * * *
18837254 CAACCTTGGGTGAGGAATCTTCGATTATTCCCACAATCTTGGCCGAGGAAACTTCAACTACTCCC
1 CAACCTTGGGTGAGGAAGCTTCAACTATTCCCACAATCTTGGCCGAGCAAACATCAACTACTCCC
18837319 T
66 T
* * *
18837320 CAACCTTGGGTGAGGAAGCTTCAACTGTTCTCACAA-CTAATGG-TGAGCAAACATCAACT
1 CAACCTTGGGTGAGGAAGCTTCAACTATTCCCACAATCT--TGGCCGAGCAAACATCAACT
18837379 GTTTCCACGA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
65 2 0.04
66 44 0.90
67 3 0.06
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (66 bp):
CAACCTTGGGTGAGGAAGCTTCAACTATTCCCACAATCTTGGCCGAGCAAACATCAACTACTCCC
T
Found at i:18847643 original size:6 final size:6
Alignment explanation
Indices: 18847632--18847666 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
18847622 ATAGATCCGC
*
18847632 AAACCA AAACCA AAACCA AAACCA AAATCA AAACC
1 AAACCA AAACCA AAACCA AAACCA AAACCA AAACC
18847667 GAAGACAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.66, C:0.31, G:0.00, T:0.03
Consensus pattern (6 bp):
AAACCA
Found at i:18853711 original size:18 final size:19
Alignment explanation
Indices: 18853669--18853708 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
18853659 CCAAACCAAA
18853669 TTATATATTTTTAGTAATTT
1 TTATATATTTTTAG-AATTT
18853689 TTATATATATTTTA-AATTT
1 TTATATAT-TTTTAGAATTT
18853708 T
1 T
18853709 ATAAAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTATATATTTTTAGAATTT
Found at i:18853772 original size:22 final size:20
Alignment explanation
Indices: 18853732--18853784 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
18853722 TTTATGTCTT
18853732 AATTTATT-AAATACATAAA
1 AATTTATTAAAATACATAAA
18853751 AATTATATTAAAATAACATAAA
1 AATT-TATTAAAAT-ACATAAA
*
18853773 AATTTTTTAAAA
1 AATTTATTAAAA
18853785 AATAATTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 11 0.37
22 11 0.37
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTATTAAAATACATAAA
Found at i:18871009 original size:24 final size:24
Alignment explanation
Indices: 18870962--18871014 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
18870952 ATTTTTTAAT
* *
18870962 ATAAATATAAAATTAAGTATATAA
1 ATAAATATAAAATTAAATAAATAA
18870986 ATAAATATAAAATTAAATAAATAA
1 ATAAATATAAAATTAAATAAATAA
*
18871010 TTAAA
1 ATAAA
18871015 AAATAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAATATAAAATTAAATAAATAA
Found at i:18871020 original size:11 final size:12
Alignment explanation
Indices: 18870958--18871022 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
18870948 TATTATTTTT
18870958 TAATATAAATATAA
1 TAAT-TAAATA-AA
* *
18870972 -AATTAAGTATA
1 TAATTAAATAAA
*
18870983 TAAATAAATATAA
1 TAATTAAATA-AA
18870996 -AATTAAATAAA
1 TAATTAAATAAA
18871007 TAATTAAA-AAA
1 TAATTAAATAAA
18871018 TAATT
1 TAATT
18871023 TATATATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
11 11 0.26
12 27 0.64
13 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (12 bp):
TAATTAAATAAA
Found at i:18873317 original size:18 final size:18
Alignment explanation
Indices: 18873291--18873394 Score: 106
Period size: 18 Copynumber: 5.9 Consensus size: 18
18873281 TTTTGTTCTT
18873291 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
18873309 GATAGATTTGA---GGAT
1 GATACATTTGAGGTGGAG
* * *
18873324 GATACATTTGTGATGGGG
1 GATACATTTGAGGTGGAG
* ** *
18873342 GATACATTTGTGGTAAAT
1 GATACATTTGAGGTGGAG
18873360 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
18873378 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
18873395 TAATAACCAT
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
15 12 0.18
18 56 0.82
ACGTcount: A:0.29, C:0.05, G:0.35, T:0.32
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:18877672 original size:495 final size:492
Alignment explanation
Indices: 18876759--18877700 Score: 1466
Period size: 495 Copynumber: 1.9 Consensus size: 492
18876749 TTTATGCTAA
* *
18876759 ATTTTTTAATTTTTAGTTTTTAATATTAACAGTAATAGATCATAAAACACTAAATTTATTAAGTA
1 ATTTTTTAATTTTTAGTTTTTAATAATAAAAGTAATAGATCATAAAACACTAAATTTATTAAGTA
18876824 AATTAATCCTTTTGATACACTAATTGATATAAATTTTTTTATCACAAATAACTTTTAATAATTAT
66 AATTAATCCTTTTGATACACTAATTGATATAAATTTTTTTATCACAAATAACTTTTAATAATTAT
* *
18876889 ATAACAAATAGAATCTTCAATAATTACACAAAATAATAAGAATTAATCTAATGTCAAAAGAACTG
131 ATAACAAATAGAATCTTCAATAATTACACAAAATAATAAGAATTAATCTAATATCAAAAAAACTG
* * *
18876954 ACAACAATATAAATACTAAAACAACAAAAAAATTATTAAATTTTAGATACAAAATTATAAATTAA
196 ACAACAACATAAATACCAAAACAACAAAAAAATTATTAAATTTTAAATACAAAATTATAAATTAA
*
18877019 TATATAACACAATCAAAATATAATATTTAATTTTAATTAATTTTCATCTAACTTATACAAAAAAA
261 TATATAACAAAATCAAAATATAATATTTAATTTTAATTAATTTTCATCTAACTTATACAAAAAAA
18877084 TTTATCAAAATTTTTCATCTAAAATCTCTATATATATCATATTAAATTATTAATCCCTTAATTTT
326 TTTATCAAAATTTTTCATCTAAAATCTCTATATATATCATATTAAATTATTAATCCCTTAATTTT
*** * *
18877149 TTTAATTATAAATCTTCAATCCCTCTAATTAGATTTTATCTAAAAAA-TTTCAAAAACTAAAAAT
391 TTTAATTATAAATCTTCAAAAACTCTAATTAAATTTTATCCAAAAAATTTTCAAAAACTAAAAAT
18877213 ATTCGAACTTATATTTTAATAAAATTTTCAAACTTAT
456 ATTCGAACTTATATTTTAATAAAATTTTCAAACTTAT
* **
18877250 ATTTTTTAATTTTTAGTTTTTAATCTTAATAAAAGTAAT-GAATTATAAAATGCTAAATTTATTA
1 ATTTTTTAATTTTTAGTTTTTAA---TAATAAAAGTAATAG-ATCATAAAACACTAAATTTATTA
* * * *
18877314 TGTAACTTAATCTTTTTGATAC-CTTAATTGATATAAATTTTTTTTATCACAAATTACTTTTAA-
62 AGTAAATTAATCCTTTTGATACAC-TAATTGATATAAA-TTTTTTTATCACAAATAACTTTTAAT
* * *
18877377 AACTTATATAATAAATATAATCTTTAATAA-TACACAAAATTAATAAGAATTAATCTAATATCAA
125 AA-TTATATAACAAATAGAATCTTCAATAATTACACAAAA-TAATAAGAATTAATCTAATATCAA
*
18877441 AAAAATTGACAACAACATAAATACCAAAACAACAAAAAAAATTATTAAATTTTAAATA-AAAA-T
188 AAAAACTGACAACAACATAAATACCAAAACAAC-AAAAAAATTATTAAATTTTAAATACAAAATT
* * *
18877504 ATAAGTTAATATATAGCAAAATTAAAATATAATATTTAATTTTAATTAATTTTCATCTAACTTAT
252 ATAAATTAATATATAACAAAATCAAAATATAATATTTAATTTTAATTAATTTTCATCTAACTTAT
* *
18877569 ACAAAAAAAATTTATCAAAATTTTTCATTTAAAATCTCTATATATATTATATTAAATTATTAATC
317 AC-AAAAAAATTTATCAAAATTTTTCATCTAAAATCTCTATATATATCATATTAAATTATTAATC
* *
18877634 CCTTAATTTTTTTAATTATAAATTTTTAAAAACTCTAATTAAATTTTATCCAAAAAATTTTCAAA
381 CCTTAATTTTTTTAATTATAAATCTTCAAAAACTCTAATTAAATTTTATCCAAAAAATTTTCAAA
18877699 AA
446 AA
18877701 TTAATTATAA
Statistics
Matches: 409, Mismatches: 31, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
491 23 0.06
493 2 0.00
494 138 0.34
495 214 0.52
496 32 0.08
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (492 bp):
ATTTTTTAATTTTTAGTTTTTAATAATAAAAGTAATAGATCATAAAACACTAAATTTATTAAGTA
AATTAATCCTTTTGATACACTAATTGATATAAATTTTTTTATCACAAATAACTTTTAATAATTAT
ATAACAAATAGAATCTTCAATAATTACACAAAATAATAAGAATTAATCTAATATCAAAAAAACTG
ACAACAACATAAATACCAAAACAACAAAAAAATTATTAAATTTTAAATACAAAATTATAAATTAA
TATATAACAAAATCAAAATATAATATTTAATTTTAATTAATTTTCATCTAACTTATACAAAAAAA
TTTATCAAAATTTTTCATCTAAAATCTCTATATATATCATATTAAATTATTAATCCCTTAATTTT
TTTAATTATAAATCTTCAAAAACTCTAATTAAATTTTATCCAAAAAATTTTCAAAAACTAAAAAT
ATTCGAACTTATATTTTAATAAAATTTTCAAACTTAT
Found at i:18880770 original size:56 final size:53
Alignment explanation
Indices: 18880671--18880795 Score: 130
Period size: 56 Copynumber: 2.3 Consensus size: 53
18880661 GGTTTGAGAC
* *
18880671 TAAGGTTTTAGGGTTTGCGATTTAAAGTTTTAGGATTTGGGGTTTTAGGGTTT
1 TAAGGTTTTAGGGTTTGCGATTTAAAGTTTTAGGATTTAGGGTTTTAGGATTT
18880724 TAAGGATTTTAGGGTTTG-GAGGGTTTAAAGATTTTA-G-TTTAAGGGTTTTAGGATTT
1 TAAGG-TTTTAGGGTTTGCGA---TTTAAAG-TTTTAGGATTT-AGGGTTTTAGGATTT
* * *
18880780 CAAGGGTTTATGGTTT
1 TAAGGTTTTAGGGTTT
18880796 TGAGTTTTGG
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
53 7 0.11
54 12 0.20
55 12 0.20
56 25 0.41
57 5 0.08
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.46
Consensus pattern (53 bp):
TAAGGTTTTAGGGTTTGCGATTTAAAGTTTTAGGATTTAGGGTTTTAGGATTT
Found at i:18881453 original size:10 final size:10
Alignment explanation
Indices: 18881438--18881481 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
18881428 AATTTAGATT
18881438 TTATTTATTA
1 TTATTTATTA
*
18881448 TTATTTATCA
1 TTATTTATTA
*
18881458 TTATTTACTA
1 TTATTTATTA
18881468 TTA-TTATTA
1 TTATTTATTA
*
18881477 ATATT
1 TTATT
18881482 AAAAAATAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
9 7 0.25
10 21 0.75
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTTATTA
Found at i:18883091 original size:24 final size:25
Alignment explanation
Indices: 18883065--18883123 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
18883055 AGTCATAAGT
*
18883065 TTTTTTTTTCTT-TTTTT-C-TTG-
1 TTTTTTTTTTTTGTTTTTACTTTGC
18883086 TTTTTTTGTTTTTGTTTTTACTTTGC
1 TTTTTTT-TTTTTGTTTTTACTTTGC
18883112 TTTTTTTTTTTT
1 TTTTTTTTTTTT
18883124 TTTACAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 7 0.22
22 4 0.12
23 5 0.16
24 1 0.03
25 8 0.25
26 7 0.22
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.85
Consensus pattern (25 bp):
TTTTTTTTTTTTGTTTTTACTTTGC
Found at i:18883092 original size:25 final size:26
Alignment explanation
Indices: 18883065--18883124 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
18883055 AGTCATAAGT
*
18883065 TTTTTTTTTCTT-TTTTT-C-TTG-T
1 TTTTTTTTTTTTGTTTTTACTTTGCT
*
18883087 TTTTTTGTTTTTGTTTTTACTTTGCT
1 TTTTTTTTTTTTGTTTTTACTTTGCT
18883113 TTTTTTTTTTTT
1 TTTTTTTTTTTT
18883125 TTACAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 10 0.32
23 5 0.16
24 1 0.03
25 3 0.10
26 12 0.39
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.85
Consensus pattern (26 bp):
TTTTTTTTTTTTGTTTTTACTTTGCT
Found at i:18883446 original size:23 final size:23
Alignment explanation
Indices: 18883390--18883470 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 23
18883380 CGTGGAAGTC
* * *
18883390 TTAGAAATTATGCCT-AGAGATA
1 TTAGAAATTATGCCTGAAAGTTT
* *
18883412 TTAAAAATTATGCTTGAAAGTTT
1 TTAGAAATTATGCCTGAAAGTTT
* *
18883435 TTAGAAATTATGCCCG-AAGTCT
1 TTAGAAATTATGCCTGAAAGTTT
18883457 TTAGAAATTATGCC
1 TTAGAAATTATGCC
18883471 CAGAGGTCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 32 0.65
23 17 0.35
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (23 bp):
TTAGAAATTATGCCTGAAAGTTT
Found at i:18883459 original size:22 final size:23
Alignment explanation
Indices: 18883429--18883480 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
18883419 TTATGCTTGA
*
18883429 AAGTTTTTAGAAATTATGCCC-G
1 AAGTCTTTAGAAATTATGCCCAG
18883451 AAGTCTTTAGAAATTATGCCCAG
1 AAGTCTTTAGAAATTATGCCCAG
*
18883474 AGGTCTT
1 AAGTCTT
18883481 AAAGATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (23 bp):
AAGTCTTTAGAAATTATGCCCAG
Found at i:18883595 original size:22 final size:23
Alignment explanation
Indices: 18883567--18883623 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
18883557 GGTCTTGGAG
*
18883567 ATTATGCCTAGAA-TTTTTAAAA
1 ATTATGCCTAGAAGTCTTTAAAA
* *
18883589 ATTATGCC-CGAAAGTCTTTAGAA
1 ATTATGCCTAG-AAGTCTTTAAAA
18883612 ATTATGCCTAGA
1 ATTATGCCTAGA
18883624 GGTTTTGGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
21 1 0.04
22 10 0.36
23 16 0.57
24 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (23 bp):
ATTATGCCTAGAAGTCTTTAAAA
Found at i:18883637 original size:22 final size:22
Alignment explanation
Indices: 18883567--18883648 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
18883557 GGTCTTGGAG
* *
18883567 ATTATGCCTAGAATTTTTAAAA
1 ATTATGCCTAGAAGTTTTAGAA
*
18883589 ATTATGCC-CGAAAGTCTTTAGAA
1 ATTATGCCTAG-AAGT-TTTAGAA
* *
18883612 ATTATGCCTAGAGGTTTTGGAA
1 ATTATGCCTAGAAGTTTTAGAA
**
18883634 ATTACACCTAGAAGT
1 ATTATGCCTAGAAGT
18883649 ATTAAAGATC
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.02
22 29 0.60
23 17 0.35
24 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (22 bp):
ATTATGCCTAGAAGTTTTAGAA
Found at i:18883733 original size:171 final size:170
Alignment explanation
Indices: 18883351--18883770 Score: 468
Period size: 171 Copynumber: 2.4 Consensus size: 170
18883341 TTAGAAACGT
* * * * * *
18883351 TTGAAATTTTGAAAATTTAAAATACTTTGCGTGGAAGTCTTAGAAATTATGCCTAGAGATATTAA
1 TTGAAACTTTGAAAATTTAAAATATTTTGCCTGGAGGTCTTAGAGATTATGCCTAGA-ATTTTAA
** * * ** * *
18883416 AAATTATGCTTGAAAGTTTTTAGAAATTATGCCCGAAGTCTTTAGAAATTATGCCCAGAGGTCTT
65 AAATTATGCCCGAAAGTCTTTAGAAATTATGCCAGAAGTCTTTAGAAATTACACCCAGAAGTATT
* * **
18883481 AAAGATATTAAAATCTTTGAATGCTTTTCATATTAGAGGCA
130 AAAGATATCAAAATCTTTGAATGATCCTCATATTAGAGGCA
* * *
18883522 TTGAAACTTTGAAAATTTAAAATATTTTGCTTGAAGGTCTTGGAGATTATGCCTAGAATTTTTAA
1 TTGAAACTTTGAAAATTTAAAATATTTTGCCTGGAGGTCTTAGAGATTATGCCTAGAA-TTTTAA
* * *
18883587 AAATTATGCCCGAAAGTCTTTAGAAATTATGCCTAGAGGT-TTTGGAAATTACACCTAGAAGTAT
65 AAATTATGCCCGAAAGTCTTTAGAAATTATGCC-AGAAGTCTTTAGAAATTACACCCAGAAGTAT
* * *
18883651 TAAAGATCTCAAAATTTTTGAATGATCCTCGTATTAGA-GCTA
129 TAAAGATATCAAAATCTTTGAATGATCCTCATATTAGAGGC-A
* * * *
18883693 TTGAAACTTTGAAGATTTAAAATATTTTGCCCGGAGGTCTTATAGATTATGACCTA-AAGCCTTT
1 TTGAAACTTTGAAAATTTAAAATATTTTGCCTGGAGGTCTTAGAGATTATG-CCTAGAA--TTTT
*
18883757 AGAAATTATGCCCG
63 AAAAATTATGCCCG
18883771 GAGGTATTAA
Statistics
Matches: 209, Mismatches: 35, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
170 3 0.01
171 182 0.87
172 24 0.11
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (170 bp):
TTGAAACTTTGAAAATTTAAAATATTTTGCCTGGAGGTCTTAGAGATTATGCCTAGAATTTTAAA
AATTATGCCCGAAAGTCTTTAGAAATTATGCCAGAAGTCTTTAGAAATTACACCCAGAAGTATTA
AAGATATCAAAATCTTTGAATGATCCTCATATTAGAGGCA
Found at i:18883822 original size:149 final size:147
Alignment explanation
Indices: 18883589--18884018 Score: 447
Period size: 149 Copynumber: 2.9 Consensus size: 147
18883579 ATTTTTAAAA
* * ** ** * * *
18883589 ATTATGCCCGAAAGTCTTTAGAAATTATGCCTAGAGGTTTTGGAAATTACACCTAGAAGTATTAA
1 ATTATG-CCTAAAGTCTTTAGAAATTATGCCTAGAGGTATTAAAAATTACACCCGGAGGTCTAAA
* *
18883654 AGATCTCAAAATTTTTGAATGATCCTCGTATTAGAGCTATTGAAACTTTGAAGATTTAAAATATT
65 AGATCTCAAAATCTTTGAATGATCCTCGTATTAGAGC-ATTGAAACTTTGAAAATTTAAAATATT
* *
18883719 TTGCCCGGAGGTCTTATAG
129 TTGCCCGGAAGTCTTAGAG
* **
18883738 ATTATGACCTAAAGCCTTTAGAAATTATGCCCGGAGGTATTAAAAATTACACCCGGAGGTCTAAA
1 ATTATG-CCTAAAGTCTTTAGAAATTATGCCTAGAGGTATTAAAAATTACACCCGGAGGTCTAAA
* * * *
18883803 AGATCTCAAAATCTTTGAATGCTCTTCGTATCAGAGGCATTAAAACTTTGAAAATTTAAAATATT
65 AGATCTCAAAATCTTTGAATGATCCTCGTATTAGA-GCATTGAAACTTTGAAAATTTAAAATATT
* ** *
18883868 TTACATGGAAGTCTTAGAT
129 TTGCCCGGAAGTCTTAGAG
* * * ** * *
18883887 ATTATG-CTCAAAGGTCTTT-GAAATTATGCTTAGAAGTCTTAAAAATTATGCTCGGAGATCTAA
1 ATTATGCCT-AAA-GTCTTTAGAAATTATGCCTAGAGGTATTAAAAATTACACCCGGAGGTCTAA
* * * *
18883950 AAGATCTCAAAATCTTTGACT-A--CTCATATTAGAGACATTGAAAATTTGAAAATTTAAAATGT
64 AAGATCTCAAAATCTTTGAATGATCCTCGTATTAGAG-CATTGAAACTTTGAAAATTTAAAATAT
18884012 TTTGCCC
128 TTTGCCC
18884019 TTTAATACAA
Statistics
Matches: 231, Mismatches: 46, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
144 1 0.00
145 36 0.16
147 2 0.01
148 58 0.25
149 132 0.57
150 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (147 bp):
ATTATGCCTAAAGTCTTTAGAAATTATGCCTAGAGGTATTAAAAATTACACCCGGAGGTCTAAAA
GATCTCAAAATCTTTGAATGATCCTCGTATTAGAGCATTGAAACTTTGAAAATTTAAAATATTTT
GCCCGGAAGTCTTAGAG
Found at i:18883903 original size:22 final size:22
Alignment explanation
Indices: 18883875--18883939 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
18883865 ATTTTACATG
*
18883875 GAAGTCTTAGATATTATGCTCA
1 GAAGTCTTAGAAATTATGCTCA
* *
18883897 -AAGGTCTTTGAAATTATGCTTA
1 GAA-GTCTTAGAAATTATGCTCA
*
18883919 GAAGTCTTAAAAATTATGCTC
1 GAAGTCTTAGAAATTATGCTC
18883940 GGAGATCTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (22 bp):
GAAGTCTTAGAAATTATGCTCA
Found at i:18884467 original size:29 final size:29
Alignment explanation
Indices: 18884395--18884478 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
18884385 CACGATTGTC
18884395 TTTTTCATGATGCACATGTG-A-GCAT-C-
1 TTTTTCATGATGCACATGTGAATG-ATGCA
*
18884421 TTTGTCATGATGCACATGTGAATGATGCA
1 TTTTTCATGATGCACATGTGAATGATGCA
* *
18884450 TTTTTCATGATGTACATGTAAATGATGCA
1 TTTTTCATGATGCACATGTGAATGATGCA
18884479 AATGTCCCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 19 0.38
27 3 0.06
28 2 0.04
29 26 0.52
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.38
Consensus pattern (29 bp):
TTTTTCATGATGCACATGTGAATGATGCA
Found at i:18886604 original size:14 final size:14
Alignment explanation
Indices: 18886587--18886613 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18886577 AACAAATGCA
18886587 TATAGAAAAATTTT
1 TATAGAAAAATTTT
18886601 TATAGAAAAATTT
1 TATAGAAAAATTT
18886614 GAAGCATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
TATAGAAAAATTTT
Found at i:18893213 original size:17 final size:16
Alignment explanation
Indices: 18893138--18893228 Score: 73
Period size: 16 Copynumber: 5.8 Consensus size: 16
18893128 TAGGGTCTCG
* *
18893138 TTTTAAGGTTTCAAGA
1 TTTTAAGGTTTTAGGA
* *
18893154 TGTTAGGGTTTT-GGA
1 TTTTAAGGTTTTAGGA
*
18893169 TTTT-AGAG-TTTGGGA
1 TTTTAAG-GTTTTAGGA
*
18893184 -TTTAAGGTTTTAGGG
1 TTTTAAGGTTTTAGGA
18893199 TTTTAAGGATTTTAGGA
1 TTTTAAGG-TTTTAGGA
*
18893216 TTTGAAGGTTTTA
1 TTTTAAGGTTTTA
18893229 AAGATTTTAG
Statistics
Matches: 59, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
14 8 0.14
15 16 0.27
16 21 0.36
17 14 0.24
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (16 bp):
TTTTAAGGTTTTAGGA
Found at i:18893328 original size:15 final size:15
Alignment explanation
Indices: 18893310--18893383 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
18893300 GAGTTTTGGA
18893310 TTTTGAGTTTCAAGG
1 TTTTGAGTTTCAAGG
* * *
18893325 TTTTGAATTTTAAGA
1 TTTTGAGTTTCAAGG
18893340 TTTTGAAGTTT-AAGG
1 TTTTG-AGTTTCAAGG
* *
18893355 TTTTAAGTTTTAAAGG
1 TTTTGAG-TTTCAAGG
*
18893371 TTTAGAGTTTCAA
1 TTTTGAGTTTCAA
18893384 AATATAAGGT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
14 2 0.04
15 32 0.68
16 13 0.28
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.49
Consensus pattern (15 bp):
TTTTGAGTTTCAAGG
Found at i:18893328 original size:30 final size:30
Alignment explanation
Indices: 18893308--18893367 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
18893298 TGGAGTTTTG
18893308 GATTTTG-AGTTTCAAGGTTTTGAATTTTAA
1 GATTTTGAAGTTT-AAGGTTTTGAATTTTAA
18893338 GATTTTGAAGTTTAAGGTTTT-AAGTTTTAA
1 GATTTTGAAGTTTAAGGTTTTGAA-TTTTAA
18893368 AGGTTTAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 2 0.07
30 21 0.75
31 5 0.18
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (30 bp):
GATTTTGAAGTTTAAGGTTTTGAATTTTAA
Found at i:18893380 original size:30 final size:30
Alignment explanation
Indices: 18893308--18893383 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
18893298 TGGAGTTTTG
*
18893308 GATTTTGAGTTTCAAGGTTTTGAATTTTAA
1 GATTTAGAGTTTCAAGGTTTTGAATTTTAA
*
18893338 GATTTTGAAGTTT-AAGGTTTT-AAGTTTTAAA
1 GATTTAG-AGTTTCAAGGTTTTGAA-TTTT-AA
*
18893369 GGTTTAGAGTTTCAA
1 GATTTAGAGTTTCAA
18893384 AATATAAGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 2 0.05
30 24 0.60
31 14 0.35
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (30 bp):
GATTTAGAGTTTCAAGGTTTTGAATTTTAA
Found at i:18893470 original size:19 final size:19
Alignment explanation
Indices: 18893429--18893471 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
18893419 AAGGTTTTGG
* *
18893429 ATTTTTAAAAAATCCTAAT
1 ATTTATAAAAAATCCTAAC
* *
18893448 ATTTATAAAAATTCTTAAC
1 ATTTATAAAAAATCCTAAC
18893467 ATTTA
1 ATTTA
18893472 AGTAGACTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTATAAAAAATCCTAAC
Found at i:18893543 original size:3 final size:3
Alignment explanation
Indices: 18893535--18893615 Score: 96
Period size: 3 Copynumber: 27.3 Consensus size: 3
18893525 ATTTTTCATA
18893535 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T GT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * *
18893582 TGTT TGT TTT TAT TAT TAT T-T TAT TAT TAT TAT T
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18893616 TTTTATGATA
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
2 4 0.06
3 65 0.92
4 2 0.03
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:18893618 original size:27 final size:27
Alignment explanation
Indices: 18893537--18893630 Score: 88
Period size: 27 Copynumber: 3.5 Consensus size: 27
18893527 TTTTCATATA
18893537 TTATTATTATTATTATTATTATTATTATT
1 TTATTATTATT-TTATTATTATTATT-TT
* *
18893566 ATTATTATTATTTGT-TT-GT-TT-GTTT
1 -TTATTATTATTT-TATTATTATTATTTT
18893591 TTATTATTATTTTATTATTATTATTTT
1 TTATTATTATTTTATTATTATTATTTT
* *
18893618 TTATGATAATTTT
1 TTATTATTATTTT
18893631 TCAATATCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
23 1 0.02
24 14 0.26
25 3 0.06
26 3 0.06
27 16 0.30
28 1 0.02
29 3 0.06
30 12 0.23
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (27 bp):
TTATTATTATTTTATTATTATTATTTT
Found at i:18893735 original size:15 final size:16
Alignment explanation
Indices: 18893715--18893744 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18893705 GAGAAACAAT
18893715 TTTTTTATCA-CTTTA
1 TTTTTTATCATCTTTA
18893730 TTTTTTATCATCTTT
1 TTTTTTATCATCTTT
18893745 TGAGTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTATCATCTTTA
Found at i:18894036 original size:7 final size:7
Alignment explanation
Indices: 18894026--18894072 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
18894016 AACTAATAAC
*
18894026 AAAAATT
1 AAAAAAT
18894033 AAAAAAT
1 AAAAAAT
* *
18894040 AATATAT
1 AAAAAAT
18894047 AAAAAAT
1 AAAAAAT
18894054 -AAAAAT
1 AAAAAAT
18894060 AAAAAAT
1 AAAAAAT
18894067 AAAAAA
1 AAAAAA
18894073 ATTTAACCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAAAAT
Found at i:18894057 original size:20 final size:20
Alignment explanation
Indices: 18894034--18894072 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18894024 ACAAAAATTA
* *
18894034 AAAAATAATATATAAAAAAT
1 AAAAATAAAAAATAAAAAAT
18894054 AAAAATAAAAAATAAAAAA
1 AAAAATAAAAAATAAAAAA
18894073 ATTTAACCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAATAAAAAATAAAAAAT
Found at i:18894061 original size:13 final size:13
Alignment explanation
Indices: 18894026--18894071 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
18894016 AACTAATAAC
18894026 AAAAATTAAAAAAT
1 AAAAA-TAAAAAAT
*
18894040 AATATATAAAAAAT
1 AA-AAATAAAAAAT
18894054 AAAAATAAAAAAT
1 AAAAATAAAAAAT
18894067 AAAAA
1 AAAAA
18894072 AATTTAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 15 0.52
14 12 0.41
15 2 0.07
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:18900603 original size:12 final size:12
Alignment explanation
Indices: 18900578--18900609 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18900568 TCTAAAAAAA
18900578 TTTTAAAA--TT
1 TTTTAAAATTTT
18900588 TTTTAAAATTTT
1 TTTTAAAATTTT
18900600 TTTTAAAATT
1 TTTTAAAATT
18900610 CTAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.40
12 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTTAAAATTTT
Found at i:18900825 original size:19 final size:20
Alignment explanation
Indices: 18900784--18900829 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
18900774 AAAGAAACTT
18900784 AAAAAATCCCAAAATATTAA
1 AAAAAATCCCAAAATATTAA
18900804 AAAAAATCCCAAAA-A-TACA
1 AAAAAATCCCAAAATATTA-A
18900823 AAAAAAT
1 AAAAAAT
18900830 GATGATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.08
19 9 0.36
20 14 0.56
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (20 bp):
AAAAAATCCCAAAATATTAA
Found at i:18901312 original size:10 final size:10
Alignment explanation
Indices: 18901216--18901323 Score: 58
Period size: 10 Copynumber: 10.7 Consensus size: 10
18901206 ATATTTTAAT
*
18901216 TTTTTTCAAA
1 TTTTTTAAAA
*
18901226 TTTTATAGAAA
1 TTTTTTA-AAA
18901237 TTTTTTAAAGA
1 TTTTTTAAA-A
* *
18901248 TTTTTTAGTAG
1 TTTTTTA-AAA
***
18901259 TTTTTGGGAA
1 TTTTTTAAAA
*
18901269 -TTTTTAGAA
1 TTTTTTAAAA
18901278 -TTTTTAAAA
1 TTTTTTAAAA
**
18901287 AATTTTAAAA
1 TTTTTTAAAA
**
18901297 AATTTTAAAA
1 TTTTTTAAAA
*
18901307 TTTTTTGAAA
1 TTTTTTAAAA
18901317 TTTTTTA
1 TTTTTTA
18901324 GTTTTTTTTT
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
9 15 0.19
10 39 0.51
11 22 0.29
12 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.55
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:18901888 original size:15 final size:15
Alignment explanation
Indices: 18901858--18901900 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
18901848 TTATATATTT
*
18901858 TTTCCTTTTTTC-TC
1 TTTCTTTTTTTCTTC
18901872 TTTCTTTTTTTCTTC
1 TTTCTTTTTTTCTTC
18901887 TTT-TTATTTTTCTT
1 TTTCTT-TTTTTCTT
18901901 TCTTCTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTTTCTTC
Found at i:18901890 original size:23 final size:22
Alignment explanation
Indices: 18901855--18901901 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
18901845 ATTTTATATA
*
18901855 TTTTTTCCTTTTTTCTCTTTCT
1 TTTTTTCCTTTTTTATCTTTCT
* *
18901877 TTTTTTCTTCTTTTTATTTTTCT
1 TTTTTTCCT-TTTTTATCTTTCT
18901900 TT
1 TT
18901902 CTTCTTTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTCCTTTTTTATCTTTCT
Found at i:18902906 original size:20 final size:20
Alignment explanation
Indices: 18902877--18902915 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18902867 CATTTTTTAT
*
18902877 TTTTTTAATTTTTTCTTTTC
1 TTTTTCAATTTTTTCTTTTC
*
18902897 TTTTTCAATTTTTTGTTTT
1 TTTTTCAATTTTTTCTTTT
18902916 AAATTAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTTCAATTTTTTCTTTTC
Found at i:18904696 original size:13 final size:12
Alignment explanation
Indices: 18904663--18904699 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18904653 TTAAATTATA
18904663 AATAATATTTTT
1 AATAATATTTTT
18904675 AATAATATTTTT
1 AATAATATTTTT
*
18904687 -AT-ATATTATT
1 AATAATATTTTT
18904697 AAT
1 AAT
18904700 TTTTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
10 7 0.30
11 4 0.17
12 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATAATATTTTT
Found at i:18907112 original size:32 final size:32
Alignment explanation
Indices: 18907076--18907136 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
18907066 TGAATAAGAC
**
18907076 ATGATATGAATGTATAAATT-TTAATATTTTAT
1 ATGATATGAATACATAAATTATTAA-ATTTTAT
18907108 ATGATATGAATACATAAATTATTAAATTT
1 ATGATATGAATACATAAATTATTAAATTT
18907137 GAATAGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 22 0.85
33 4 0.15
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (32 bp):
ATGATATGAATACATAAATTATTAAATTTTAT
Found at i:18924150 original size:64 final size:64
Alignment explanation
Indices: 18924049--18924171 Score: 228
Period size: 64 Copynumber: 1.9 Consensus size: 64
18924039 ATAATCCTTC
*
18924049 AATTATAGGATCAATTTTTAAGAAGATTTAGTTTCTTAGTGTACCCACTAGTTAGTTGTCTCTT
1 AATTATAGGATCAATTTTTAAGAAGATTTAGTTTCTTAATGTACCCACTAGTTAGTTGTCTCTT
*
18924113 AATTATAGGATCAATTTTTAAGAAGATTTAGTTTCTTAATTTACCCACTAGTTAGTTGT
1 AATTATAGGATCAATTTTTAAGAAGATTTAGTTTCTTAATGTACCCACTAGTTAGTTGT
18924172 ATATAAATCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (64 bp):
AATTATAGGATCAATTTTTAAGAAGATTTAGTTTCTTAATGTACCCACTAGTTAGTTGTCTCTT
Found at i:18925095 original size:16 final size:16
Alignment explanation
Indices: 18925070--18925111 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
18925060 TTTACTTAAA
18925070 TATT-TAATTAATTTT
1 TATTGTAATTAATTTT
18925085 TATTGTAATTAATTTT
1 TATTGTAATTAATTTT
* *
18925101 TTTTGTTATTA
1 TATTGTAATTA
18925112 TTTACTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (16 bp):
TATTGTAATTAATTTT
Found at i:18927068 original size:41 final size:40
Alignment explanation
Indices: 18926978--18927076 Score: 135
Period size: 41 Copynumber: 2.5 Consensus size: 40
18926968 CTCTGACTAG
* * *
18926978 AGGCTATGAAATTTTAAAATTTAAAGGCACATCTGACCAG
1 AGGCTATGAAACTTTAAAATTTAAAGGCACATCTAACCAA
* *
18927018 AGGCTATGAAACTTTAAAATTTAAAAGGCTCATTTAACCAA
1 AGGCTATGAAACTTTAAAATTT-AAAGGCACATCTAACCAA
*
18927059 AGGCAATGAAACTTTAAA
1 AGGCTATGAAACTTTAAA
18927077 TAGCTCTTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 21 0.40
41 31 0.60
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (40 bp):
AGGCTATGAAACTTTAAAATTTAAAGGCACATCTAACCAA
Found at i:18927097 original size:34 final size:34
Alignment explanation
Indices: 18927059--18927145 Score: 122
Period size: 34 Copynumber: 2.6 Consensus size: 34
18927049 ATTTAACCAA
*
18927059 AGGCAATGAAACTTTAAATAGCT-CTTCTTACTAG
1 AGGCAATGAAACTTTAAATAGCTCCTT-TGACTAG
*
18927093 AGGCAATAAAACTTTAAATAGCTCCTTTGACTAG
1 AGGCAATGAAACTTTAAATAGCTCCTTTGACTAG
* *
18927127 TGACAATGAAACTTTAAAT
1 AGGCAATGAAACTTTAAAT
18927146 TTAAAAATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 44 0.94
35 3 0.06
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (34 bp):
AGGCAATGAAACTTTAAATAGCTCCTTTGACTAG
Found at i:18927342 original size:206 final size:205
Alignment explanation
Indices: 18927031--18927521 Score: 593
Period size: 206 Copynumber: 2.4 Consensus size: 205
18927021 CTATGAAACT
* * * * * * *
18927031 TTAAAATTTAAAAGGCTCATTTAACCAAAGGCAATGAAACTTTAAA-T----AGCTCTTCTTACT
1 TTAAAA-TTAAAAAGCTCCTATAACCAAAGGTAATGAAACTTTAAATTAAAAAGCTCATCTGACC
* * *
18927091 AGAGGCAATAAAACTTTAAATAGCTCCTTTGACTAGTGACAATGAAACTTTAAATTTAAAAATCT
65 AAAGGCAATAAAACTTTAAATAGCTCCTTTGACCAGAGACAATGAAACTTTAAATTTAAAAATCT
* * * * *
18927156 GATAGGACTTATAGATTATGCCTTTTGGTCTTATAAATCATGCCTAATTTTGATGGAGTTCTCTG
130 GATAGGACTTATAGATTATACCTTTTGGTATTACAAATCATGCCTAATTTTGATGGAGTGCTCTA
* * *
18927221 ACCAGAGGCTC
195 ACCAAAAGATC
* * * *
18927232 TTAAAATTATAAAGCTCCTATGA-TAAGAGGTAATGAAACTTTAAATTTAAAAGGCTTC-TCTGA
1 TTAAAATTAAAAAGCTCCTATAACCAA-AGGTAATGAAACTTTAAA-TTAAAAAGC-TCATCTGA
* * * *
18927295 CCAAAGGCAATAAAATTTTAAATAGC-CCTTCTTACCAGAGGCAATGAAATTTTAAATTTAAAAA
63 CCAAAGGCAATAAAACTTTAAATAGCTCCTT-TGACCAGAGACAATGAAACTTTAAATTTAAAAA
18927359 TCTGATAGGACTTATAGATTATACCTTTTGGTATTACAAATCATGCCTAATTTTGATGGAGTGCT
127 TCTGATAGGACTTATAGATTATACCTTTTGGTATTACAAATCATGCCTAATTTTGATGGAGTGCT
*
18927424 CTAACTAAAAGATC
192 CTAACCAAAAGATC
* * *
18927438 TTAAAATTAAAAAGCTCTTCTAACCAAAGGTAATGAAACTTTAAATTAAAAAGCTCATTTGACCA
1 TTAAAATTAAAAAGCTCCTATAACCAAAGGTAATGAAACTTTAAATTAAAAAGCTCATCTGACCA
**
18927503 AAGGCAAGGAAACTTTAAA
66 AAGGCAATAAAACTTTAAA
18927522 GTTTAAAAGG
Statistics
Matches: 243, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
199 2 0.01
200 29 0.12
201 6 0.02
202 1 0.00
204 2 0.01
205 35 0.14
206 164 0.67
207 4 0.02
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (205 bp):
TTAAAATTAAAAAGCTCCTATAACCAAAGGTAATGAAACTTTAAATTAAAAAGCTCATCTGACCA
AAGGCAATAAAACTTTAAATAGCTCCTTTGACCAGAGACAATGAAACTTTAAATTTAAAAATCTG
ATAGGACTTATAGATTATACCTTTTGGTATTACAAATCATGCCTAATTTTGATGGAGTGCTCTAA
CCAAAAGATC
Found at i:18927493 original size:39 final size:39
Alignment explanation
Indices: 18927441--18927530 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
18927431 AAAGATCTTA
* *
18927441 AAATTAAAAAGCTC-TTCTAACCAAAGGTAATGAAACTTT
1 AAATTAAAAAGCTCATT-TAACCAAAGGCAAGGAAACTTT
*
18927480 AAATTAAAAAGCTCATTTGACCAAAGGCAAGGAAACTTT
1 AAATTAAAAAGCTCATTTAACCAAAGGCAAGGAAACTTT
*
18927519 AAAGTTTAAAAG
1 AAA-TTAAAAAG
18927531 GTTCCTCTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
39 36 0.80
40 9 0.20
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (39 bp):
AAATTAAAAAGCTCATTTAACCAAAGGCAAGGAAACTTT
Found at i:18929724 original size:13 final size:13
Alignment explanation
Indices: 18929706--18929730 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18929696 AATACCAAGG
18929706 TTTTTTTGTCAAT
1 TTTTTTTGTCAAT
18929719 TTTTTTTGTCAA
1 TTTTTTTGTCAA
18929731 CATTTGAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (13 bp):
TTTTTTTGTCAAT
Found at i:18934541 original size:8 final size:8
Alignment explanation
Indices: 18934530--18934595 Score: 66
Period size: 8 Copynumber: 8.2 Consensus size: 8
18934520 TTTTTTAAAT
18934530 AATAATAA
1 AATAATAA
18934538 AATAA-AA
1 AATAATAA
*
18934545 TATAATAA
1 AATAATAA
18934553 AATAATAA
1 AATAATAA
18934561 AATAATAA
1 AATAATAA
18934569 TAA-AAT-A
1 -AATAATAA
*
18934576 AATGAAAAA
1 AAT-AATAA
18934585 AATAAATAA
1 AAT-AATAA
18934594 AA
1 AA
18934596 GAGAATAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
6 2 0.04
7 7 0.15
8 27 0.56
9 12 0.25
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:18934542 original size:11 final size:11
Alignment explanation
Indices: 18934526--18934576 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
18934516 TTCCTTTTTT
18934526 AAATAATAATA
1 AAATAATAATA
18934537 AAATAA-AATA
1 AAATAATAATA
*
18934547 TAATAAAATAATA
1 -AA-ATAATAATA
18934560 AAATAATAATA
1 AAATAATAATA
18934571 AAATAA
1 AAATAA
18934577 ATGAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 4 0.11
11 22 0.63
12 5 0.14
13 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATAATAATA
Found at i:18934543 original size:5 final size:5
Alignment explanation
Indices: 18934526--18934595 Score: 69
Period size: 5 Copynumber: 14.6 Consensus size: 5
18934516 TTCCTTTTTT
*
18934526 AAATA ATAATA AAATA AAATA TAATA AAAT- -AATA AAATA ATAATA AAAT-
1 AAATA A-AATA AAATA AAATA AAATA AAATA AAATA AAATA A-AATA AAATA
*
18934575 AAATG AAA-A AAAT- AAATA AAA
1 AAATA AAATA AAATA AAATA AAA
18934596 GAGAATAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 14
0.76 0.04 0.19
Matches are distributed among these distances:
3 3 0.05
4 11 0.20
5 31 0.56
6 10 0.18
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:18934570 original size:29 final size:28
Alignment explanation
Indices: 18934526--18934595 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
18934516 TTCCTTTTTT
18934526 AAATAATAATAAAATAAAATATAAT-AAAA
1 AAATAA-AATAAAATAAAATA-AATGAAAA
*
18934555 TAATAAAATAATAATAAAATAAATGAAAA
1 AAATAAAATAA-AATAAAATAAATGAAAA
18934584 AAAT-AAATAAAA
1 AAATAAAATAAAA
18934596 GAGAATAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 2 0.05
28 14 0.38
29 21 0.57
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.23
Consensus pattern (28 bp):
AAATAAAATAAAATAAAATAAATGAAAA
Found at i:18934595 original size:11 final size:12
Alignment explanation
Indices: 18934526--18934593 Score: 72
Period size: 13 Copynumber: 5.8 Consensus size: 12
18934516 TTCCTTTTTT
18934526 AAAT-AATAATA
1 AAATAAATAATA
18934537 AAAT-AA-AATA
1 AAATAAATAATA
*
18934547 TAATAAAATAATA
1 AAAT-AAATAATA
18934560 AAAT-AATAATA
1 AAATAAATAATA
*
18934571 AAATAAATGAAAA
1 AAATAAAT-AATA
18934584 AAATAAATAA
1 AAATAAATAA
18934594 AAGAGAATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
10 7 0.14
11 17 0.35
12 7 0.14
13 18 0.37
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:18934605 original size:17 final size:17
Alignment explanation
Indices: 18934526--18934606 Score: 58
Period size: 17 Copynumber: 4.5 Consensus size: 17
18934516 TTCCTTTTTT
*
18934526 AAATAAT-AATAAAATAA
1 AAATAATAAATAAAA-GA
18934543 AATATAATAAAATAATAA-A
1 AA-ATAAT-AAATAA-AAGA
*
18934562 ATAATAATAAAATAAATGA
1 A-AATAAT-AAATAAAAGA
*
18934581 AAAAAATAAATAAAAGA
1 AAATAATAAATAAAAGA
*
18934598 GAATAATAA
1 AAATAATAA
18934607 CAAAAAAATG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
17 18 0.34
18 11 0.21
19 16 0.30
20 6 0.11
21 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (17 bp):
AAATAATAAATAAAAGA
Found at i:18934779 original size:15 final size:15
Alignment explanation
Indices: 18934749--18934790 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18934739 TATTAAATAA
*
18934749 TAATAA-TAAAAAAT
1 TAATAATTAATAAAT
18934763 TAA-AAGTTAATAAAT
1 TAATAA-TTAATAAAT
18934778 TAATAATTAATAA
1 TAATAATTAATAA
18934791 TAAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.08
14 3 0.12
15 17 0.71
16 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
TAATAATTAATAAAT
Found at i:18936848 original size:10 final size:10
Alignment explanation
Indices: 18936833--18936872 Score: 55
Period size: 9 Copynumber: 3.9 Consensus size: 10
18936823 CGACAAGACA
18936833 AAAAAAAAAG
1 AAAAAAAAAG
18936843 -AAAAAAAAG
1 AAAAAAAAAG
18936852 AAAAAAAAAGG
1 AAAAAAAAA-G
18936863 CAAAAAAAAA
1 -AAAAAAAAA
18936873 AGGTATCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 9 0.33
10 8 0.30
11 1 0.04
12 9 0.33
ACGTcount: A:0.88, C:0.03, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:18940879 original size:25 final size:24
Alignment explanation
Indices: 18940816--18940878 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
18940806 AGTAAAAGAA
18940816 AAATAAAAATAAAAAT-TGAAAAT
1 AAATAAAAATAAAAATATGAAAAT
*
18940839 AAA-ACAAAACTTAAAATATGAAAAT
1 AAATA-AAAA-TAAAAATATGAAAAT
*
18940864 AAATGAAAATAAAAA
1 AAATAAAAATAAAAA
18940879 AAATAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 1 0.03
23 7 0.21
24 11 0.33
25 14 0.42
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (24 bp):
AAATAAAAATAAAAATATGAAAAT
Found at i:18940883 original size:19 final size:21
Alignment explanation
Indices: 18940859--18940900 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
18940849 TTAAAATATG
*
18940859 AAAAT-AAATGAAAATA-AAA
1 AAAATAAAATAAAAATAGAAA
18940878 AAAATAAAATAAAAATAGAAA
1 AAAATAAAATAAAAATAGAAA
18940899 AA
1 AA
18940901 GAAAACCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 10 0.50
21 5 0.25
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAATAAAATAAAAATAGAAA
Found at i:18940900 original size:14 final size:14
Alignment explanation
Indices: 18940814--18940892 Score: 61
Period size: 14 Copynumber: 5.1 Consensus size: 14
18940804 CCAGTAAAAG
*
18940814 AAAAATAAAA-ATA
1 AAAAATAAAATAAA
*
18940827 AAAATTGAAAATAAA
1 AAAAAT-AAAATAAA
18940842 ACAAAACTTAAAATATGAA
1 A-AAAA--TAAAATA--AA
18940861 AATAAATGAAAATAAA
1 AA-AAAT-AAAATAAA
18940877 AAAAATAAAATAAA
1 AAAAATAAAATAAA
18940891 AA
1 AA
18940893 TAGAAAAAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
13 5 0.09
14 14 0.26
15 7 0.13
16 7 0.13
17 7 0.13
18 8 0.15
19 6 0.11
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.18
Consensus pattern (14 bp):
AAAAATAAAATAAA
Found at i:18941311 original size:20 final size:20
Alignment explanation
Indices: 18941288--18941329 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18941278 AACTCTCCAG
*
18941288 AAACTTAAATC-AAACCTCAA
1 AAACCTAAATCTAAACCT-AA
18941308 AAACCTAAATCTAAACCTAA
1 AAACCTAAATCTAAACCTAA
18941328 AA
1 AA
18941330 TTTTTCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (20 bp):
AAACCTAAATCTAAACCTAA
Found at i:18941672 original size:3 final size:3
Alignment explanation
Indices: 18941666--18941764 Score: 74
Period size: 3 Copynumber: 36.0 Consensus size: 3
18941656 AAAGAAAGAA
* * *
18941666 AAT AAT AAT AAT AA- AAT AAT AAT AGT -AT AA- AAT -AT AGT -AT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
18941709 AAT -AT AGT ACT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AA- AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
18941752 AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT
18941765 GTGATATAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
2 18 0.23
3 57 0.73
4 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:18941712 original size:13 final size:12
Alignment explanation
Indices: 18941681--18941749 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 12
18941671 TAATAATAAA
18941681 ATAATAATAGTAT
1 ATAAT-ATAGTAT
*
18941694 AAAATATAGTATT
1 ATAATATAGTA-T
18941707 ATAATATAGTACT
1 ATAATATAGTA-T
*
18941720 AATAATAATAATA-
1 -ATAAT-ATAGTAT
*
18941733 ATAATAATAATAT
1 ATAAT-ATAGTAT
18941746 ATAA
1 ATAA
18941750 AAAATATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
12 18 0.38
13 20 0.42
14 5 0.10
15 5 0.10
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (12 bp):
ATAATATAGTAT
Found at i:18941775 original size:22 final size:23
Alignment explanation
Indices: 18941666--18941780 Score: 60
Period size: 22 Copynumber: 4.9 Consensus size: 23
18941656 AAAGAAAGAA
18941666 AATAATA-ATAATAAAATAATAAT
1 AATAATATAT-ATAAAATAATAAT
* **
18941689 AGTATAAAATATAGTATTATAATATAGT
1 A--ATAATATATA-TAAAATAATA-A-T
* *
18941717 ACTAATA-ATA-ATAATAATAAT
1 AATAATATATATAAAATAATAAT
*
18941738 AATAATATATAAAAAAT-ATAAT
1 AATAATATATATAAAATAATAAT
*
18941760 -ATAATGTGATATAAAACTAAT
1 AATAATAT-ATATAAAA-TAAT
18941781 GATGAAAATC
Statistics
Matches: 71, Mismatches: 10, Indels: 21
0.70 0.10 0.21
Matches are distributed among these distances:
21 13 0.18
22 16 0.23
23 14 0.20
24 2 0.03
25 9 0.13
26 14 0.20
27 1 0.01
28 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (23 bp):
AATAATATATATAAAATAATAAT
Found at i:18942776 original size:17 final size:17
Alignment explanation
Indices: 18942756--18942844 Score: 58
Period size: 17 Copynumber: 5.2 Consensus size: 17
18942746 TAAGTTTTGC
*
18942756 AAAGGTTCTAGATTCAT
1 AAAGGTTCAAGATTCAT
*
18942773 AAAGATTTCAAG-TTCAT
1 AAAG-GTTCAAGATTCAT
**
18942790 -AAGGATAAAAGATTCA-
1 AAAGG-TTCAAGATTCAT
* *
18942806 CAAGGTTTCAAGTTTCAT
1 AAAGG-TTCAAGATTCAT
* *
18942824 AAAGGTTCTAGATTCAC
1 AAAGGTTCAAGATTCAT
18942841 AAAG
1 AAAG
18942845 ATTTCAGGTT
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
16 7 0.13
17 38 0.70
18 9 0.17
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (17 bp):
AAAGGTTCAAGATTCAT
Found at i:18942819 original size:68 final size:68
Alignment explanation
Indices: 18942729--18942860 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 68
18942719 CGTAGGAAAG
** * ** *
18942729 AAAGATTTGCAAGATTTTAAGTTTTGCAAAGGTTCTAGATTCATAAAGATTTCAAGTTCATAAGG
1 AAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCTAGATTCACAAAGATTTCAAGTTCATAAGG
18942794 ATA
66 ATA
* * *
18942797 AAAGATTCACAAGGTTTCAAGTTTCATAAAGGTTCTAGATTCACAAAGATTTCAGGTTCATAAG
1 AAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCTAGATTCACAAAGATTTCAAGTTCATAAG
18942861 AATTTTTAGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (68 bp):
AAAGATTCACAAGATTTCAAGTTTCACAAAGGTTCTAGATTCACAAAGATTTCAAGTTCATAAGG
ATA
Found at i:18942837 original size:34 final size:33
Alignment explanation
Indices: 18942756--18942859 Score: 111
Period size: 34 Copynumber: 3.1 Consensus size: 33
18942746 TAAGTTTTGC
*
18942756 AAAGGTTCTAGATTCATAAAGATTTCAAGTTCAT
1 AAAGGTTCTAGATTCA-CAAGATTTCAAGTTCAT
*** *
18942790 -AAGGATAAAAGATTCACAAGGTTTCAAGTTTCAT
1 AAAGG-TTCTAGATTCACAAGATTTCAAG-TTCAT
*
18942824 AAAGGTTCTAGATTCACAAAGATTTCAGGTTCAT
1 AAAGGTTCTAGATTCAC-AAGATTTCAAGTTCAT
18942858 AA
1 AA
18942860 GAATTTTTAG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
33 14 0.25
34 29 0.52
35 13 0.23
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (33 bp):
AAAGGTTCTAGATTCACAAGATTTCAAGTTCAT
Found at i:18947810 original size:6 final size:6
Alignment explanation
Indices: 18947801--18947878 Score: 54
Period size: 6 Copynumber: 13.0 Consensus size: 6
18947791 TAGTAAAAGA
* ** *
18947801 AAAAAT AAAAAT AAAAATT GAAAAT AAAAA- AAACTT AAAATAT GAAAAT
1 AAAAAT AAAAAT AAAAA-T AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT
**
18947850 AGAAAA- AAATCT AAAAAT -AAAAT AAAAAT
1 A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT
18947879 GGAAAAGGGA
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
5 10 0.19
6 31 0.57
7 13 0.24
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:18947839 original size:24 final size:24
Alignment explanation
Indices: 18947812--18947877 Score: 84
Period size: 23 Copynumber: 2.8 Consensus size: 24
18947802 AAAATAAAAA
18947812 TAAAAATTGAAAATAAAAAAAA-C
1 TAAAAATTGAAAATAAAAAAAATC
*
18947835 TTAAAATATGAAAATAGAAAAAAATC
1 TAAAAAT-TGAAAATA-AAAAAAATC
18947861 TAAAAA-T-AAAATAAAAA
1 TAAAAATTGAAAATAAAAA
18947878 TGGAAAAGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 9 0.24
25 7 0.18
26 6 0.16
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.20
Consensus pattern (24 bp):
TAAAAATTGAAAATAAAAAAAATC
Found at i:18948805 original size:3 final size:3
Alignment explanation
Indices: 18948797--18948863 Score: 86
Period size: 3 Copynumber: 23.3 Consensus size: 3
18948787 GCTATAGTAC
*
18948797 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA T-G TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
18948843 T-A TAA AAA TAA TAC TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
18948864 GAAAATCGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 5 0.09
3 50 0.91
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:18950656 original size:3 final size:3
Alignment explanation
Indices: 18950531--18950637 Score: 123
Period size: 3 Copynumber: 36.3 Consensus size: 3
18950521 AAATAAAAAG
18950531 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
18950578 AAT AAT AGT AGT AGT ACT AAT -AT AAT ACACT -AT AGT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT
18950622 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
18950638 CTATCCTACT
Statistics
Matches: 93, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
2 6 0.06
3 85 0.91
4 1 0.01
5 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18950681 original size:17 final size:17
Alignment explanation
Indices: 18950647--18950692 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
18950637 ACTATCCTAC
18950647 TATAATA-A-TATACAA
1 TATAATATACTATACAA
* *
18950662 TATAATGTACTATACTA
1 TATAATATACTATACAA
*
18950679 TATACTATACTATA
1 TATAATATACTATA
18950693 ATAATACTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 6 0.24
16 1 0.04
17 18 0.72
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (17 bp):
TATAATATACTATACAA
Found at i:18950705 original size:12 final size:12
Alignment explanation
Indices: 18950685--18950713 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18950675 ACTATATACT
18950685 ATACT-ATAATA
1 ATACTAATAATA
18950696 ATACTAATAATA
1 ATACTAATAATA
18950708 ATACTA
1 ATACTA
18950714 TACTACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (12 bp):
ATACTAATAATA
Found at i:18950728 original size:13 final size:13
Alignment explanation
Indices: 18950644--18950772 Score: 73
Period size: 13 Copynumber: 9.5 Consensus size: 13
18950634 AATACTATCC
*
18950644 TACTATAATAATA
1 TACTATAATATTA
*
18950657 TACAATATAATGTACTA
1 TAC--TATAA--TATTA
*
18950674 TACTAT-ATACTA
1 TACTATAATATTA
*
18950686 TACTATAATAATA
1 TACTATAATATTA
* *
18950699 CTAATAATAATACTA
1 -TACT-ATAATATTA
*
18950714 TACTACAATATTA
1 TACTATAATATTA
* *
18950727 TACCATAACATTA
1 TACTATAATATTA
*
18950740 TACTATAATAATAA
1 TACTATAAT-ATTA
**
18950754 TA-TATAATAACA
1 TACTATAATATTA
18950766 TACTATA
1 TACTATA
18950773 CAATAGCAAT
Statistics
Matches: 92, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
12 15 0.16
13 42 0.46
14 12 0.13
15 16 0.17
17 7 0.08
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.36
Consensus pattern (13 bp):
TACTATAATATTA
Found at i:18950773 original size:31 final size:30
Alignment explanation
Indices: 18950680--18950795 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 30
18950670 ACTATACTAT
*
18950680 ATACTATACTATAATAATACTAATAAT-A-
1 ATACTATACTATAATAATAATAATAATAAC
* * **
18950708 ATACTATACTACAAT-ATTAT-ACCATAAC
1 ATACTATACTATAATAATAATAATAATAAC
18950736 AT--TATACTATAATAATAATATATAATAAC
1 ATACTATACTATAATAATAATA-ATAATAAC
* **
18950765 ATACTATACAATAGCAATAATAATAATAAC
1 ATACTATACTATAATAATAATAATAATAAC
18950795 A
1 A
18950796 AAGAAATCAA
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
26 13 0.19
27 8 0.12
28 16 0.23
29 8 0.12
30 9 0.13
31 15 0.22
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (30 bp):
ATACTATACTATAATAATAATAATAATAAC
Found at i:18955444 original size:50 final size:52
Alignment explanation
Indices: 18955322--18955445 Score: 144
Period size: 52 Copynumber: 2.4 Consensus size: 52
18955312 AGATTTTTTA
* * ** *
18955322 GATTTAATTCCAGAATCAATTGGCATTAAAAATGATATGGAGAGATTGTCGG
1 GATTTAATTACAAAATCAATTCACATTAAAAATGATAGGGAGAGATTGTCGG
* * *
18955374 GATTTAATTACATAATCAATTCACATT-AAATTGATAGGGAGAGATT-TTGG
1 GATTTAATTACAAAATCAATTCACATTAAAAATGATAGGGAGAGATTGTCGG
* *
18955424 GATTTGATTTCAAAATCAATTC
1 GATTTAATTACAAAATCAATTC
18955446 TCATAGATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 22 0.35
51 17 0.27
52 23 0.37
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (52 bp):
GATTTAATTACAAAATCAATTCACATTAAAAATGATAGGGAGAGATTGTCGG
Found at i:18956013 original size:16 final size:16
Alignment explanation
Indices: 18955994--18956032 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18955984 ATTTATTTTA
18955994 TATTTTAAACTTATTT
1 TATTTTAAACTTATTT
* * *
18956010 TATTTTGAATTTCTTT
1 TATTTTAAACTTATTT
18956026 TATTTTA
1 TATTTTA
18956033 TAATTTATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (16 bp):
TATTTTAAACTTATTT
Found at i:18956074 original size:18 final size:19
Alignment explanation
Indices: 18956051--18956095 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
18956041 TCTACCTCTT
* *
18956051 TAAAAAAATAAAA-TAAGA
1 TAAAAAAATAAAACAAAAA
18956069 T-AAAAAATAAAACAAAAA
1 TAAAAAAATAAAACAAAAA
18956087 TAAAAAAAT
1 TAAAAAAAT
18956096 CTTTTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 11 0.48
18 5 0.22
19 7 0.30
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (19 bp):
TAAAAAAATAAAACAAAAA
Found at i:18959487 original size:22 final size:24
Alignment explanation
Indices: 18959435--18959482 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18959425 TGAAAGTATT
18959435 CATCTTTAAAATGAGAAATGGCCA
1 CATCTTTAAAATGAGAAATGGCCA
18959459 CATCTTTAAAATGAGAAATGGCCA
1 CATCTTTAAAATGAGAAATGGCCA
18959483 TCTTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (24 bp):
CATCTTTAAAATGAGAAATGGCCA
Found at i:18960085 original size:9 final size:8
Alignment explanation
Indices: 18960032--18960159 Score: 55
Period size: 8 Copynumber: 14.9 Consensus size: 8
18960022 AAGTGTGAGC
*
18960032 AAAAGAGA
1 AAAAGAAA
18960040 AAAAGAAA
1 AAAAGAAA
18960048 AAATGAGAAA
1 AAA--AGAAA
*
18960058 AAAGGTATACA
1 AAAAG-A-A-A
18960069 AAAAGAAA
1 AAAAGAAA
18960077 AAGAAGAAA
1 AA-AAGAAA
*
18960086 AAAAGTAA
1 AAAAGAAA
**
18960094 AAATCAAA
1 AAAAGAAA
*
18960102 AATCAAAAATCA
1 AA--AAGAA--A
*
18960114 AAAACAAA
1 AAAAGAAA
18960122 AAAA-AAA
1 AAAAGAAA
18960129 CAAAA-AAA
1 -AAAAGAAA
18960137 AAAA-AAA
1 AAAAGAAA
18960144 CAAAAGAAA
1 -AAAAGAAA
*
18960153 CAAAGAA
1 AAAAGAA
18960160 GGAAAATGGA
Statistics
Matches: 96, Mismatches: 11, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
7 10 0.10
8 48 0.50
9 13 0.14
10 17 0.18
11 5 0.05
12 3 0.03
ACGTcount: A:0.78, C:0.06, G:0.10, T:0.05
Consensus pattern (8 bp):
AAAAGAAA
Found at i:18960102 original size:7 final size:6
Alignment explanation
Indices: 18960092--18960148 Score: 59
Period size: 7 Copynumber: 9.7 Consensus size: 6
18960082 GAAAAAAAGT
18960092 AAAAATC AAAAATC AAAAATC AAAAAC AAAAA- AAAAAC -AAAA- AAAAA-
1 AAAAA-C AAAAA-C AAAAA-C AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
18960139 AAAAAC AAAA
1 AAAAAC AAAA
18960149 GAAACAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
5 18 0.38
6 10 0.21
7 19 0.40
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (6 bp):
AAAAAC
Found at i:18960136 original size:14 final size:15
Alignment explanation
Indices: 18960114--18960148 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
18960104 TCAAAAATCA
18960114 AAAACAAAAAAAAAAC
1 AAAA-AAAAAAAAAAC
18960130 AAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAC
18960145 AAAA
1 AAAA
18960149 GAAACAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:18961128 original size:17 final size:17
Alignment explanation
Indices: 18961077--18961135 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
18961067 TATTTCATTC
*
18961077 TTATGAATCTAAAAATCT
1 TTATGAATCT-AGAATCT
* * * *
18961095 TTACGAATATTGCATCT
1 TTATGAATCTAGAATCT
18961112 TTATGAATCTAGAATCT
1 TTATGAATCTAGAATCT
*
18961129 TTGTGAA
1 TTATGAA
18961136 ACTTGGAGTC
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
17 23 0.74
18 8 0.26
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
TTATGAATCTAGAATCT
Found at i:18961187 original size:86 final size:86
Alignment explanation
Indices: 18961042--18961360 Score: 275
Period size: 86 Copynumber: 3.7 Consensus size: 86
18961032 TTATTAAACT
* ** * * * * * *
18961042 TTTGTGAAACTTGAAACCTTGTAAATATTTCATTCTTATGAATCTAAAAATCTTTACGAATATTG
1 TTTGTGAAACTTGGAGTCTTGCAAATATTTCTTTCTTACGAACCTAAAAATCCTTACGAATATTA
18961107 CATCTTTATGAATCTAGAATC
66 CATCTTTATGAATCTAGAATC
* *
18961128 TTTGTGAAACTTGGAGTCTTGCGAATATTTCTTTCTTACGAACCTAAAAATCCTTACGAATTTTA
1 TTTGTGAAACTTGGAGTCTTGCAAATATTTCTTTCTTACGAACCTAAAAATCCTTACGAATATTA
*
18961193 CATCTTT-TCGAATCTA-AAAC
66 CATCTTTAT-GAATCTAGAATC
* * * * * * * * * * *
18961213 TTTTTCTAAATTTAGAGTCTTCCAAATCTTTCTTTCTTGCGAACCTAAAAACCCTTGCAAATCTT
1 TTTGT-GAAACTTGGAGTCTTGCAAATATTTCTTTCTTACGAACCTAAAAATCCTTACGAATATT
*
18961278 ACATCTTTACGAATCTAGAATC
65 ACATCTTTATGAATCTAGAATC
*** * ** * * * * *
18961300 TTTACAAAACTTGGA-ACTTTTAGAATCTTTCTTTCTTGCGAACTTAAAAGTCCTTATGAAT
1 TTTGTGAAACTTGGAGTCTTGCA-AATATTTCTTTCTTACGAACCTAAAAATCCTTACGAAT
18961361 CTAGAATCTT
Statistics
Matches: 188, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
85 12 0.06
86 170 0.90
87 6 0.03
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (86 bp):
TTTGTGAAACTTGGAGTCTTGCAAATATTTCTTTCTTACGAACCTAAAAATCCTTACGAATATTA
CATCTTTATGAATCTAGAATC
Found at i:18961399 original size:69 final size:66
Alignment explanation
Indices: 18961288--18961486 Score: 237
Period size: 62 Copynumber: 3.0 Consensus size: 66
18961278 ACATCTTTAC
* * * *
18961288 GAATCTAGAATCTTTACAAAACTTGGAACTTTTAGAATCTTTCTTTCTTGCGAACTTAAAAGTCC
1 GAATCTAGAATCTTTGCGAAACTTGGAACTTTTA-AATCTTTCTTTCTTGCGAACCTAAAA-ACC
*
18961353 TTAT
64 CT-T
* *
18961357 GAATCTAGAATCTTTGCGAAACTTGAAACTTTATAAATCTTTCTTTCTTGCAAACCTAAAAACCC
1 GAATCTAGAATCTTTGCGAAACTTGGAACTTT-TAAATCTTTCTTTCTTGCGAACCTAAAAACCC
18961422 TT
65 TT
* *
18961424 --A-C-A-AATCTTTGCGAAACTTGGAACTTTGTCAATCTTTCTTTCTTGCGAACCTGAAAACCC
1 GAATCTAGAATCTTTGCGAAACTTGGAACTTT-TAAATCTTTCTTTCTTGCGAACCTAAAAACCC
18961484 TT
65 TT
18961486 G
1 G
18961487 CGAATCTTGC
Statistics
Matches: 116, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
62 54 0.47
63 1 0.01
64 1 0.01
65 1 0.01
67 1 0.01
68 3 0.03
69 53 0.46
70 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (66 bp):
GAATCTAGAATCTTTGCGAAACTTGGAACTTTTAAATCTTTCTTTCTTGCGAACCTAAAAACCCT
T
Found at i:18961509 original size:17 final size:17
Alignment explanation
Indices: 18961487--18961531 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
18961477 AAAACCCTTG
* *
18961487 CGAATCTTGCATCTTTA
1 CGAATCTTGAACCTTTA
*
18961504 CGAATCTAGAACCTTTA
1 CGAATCTTGAACCTTTA
*
18961521 CGAAACTTGAA
1 CGAATCTTGAA
18961532 ATCTTATGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (17 bp):
CGAATCTTGAACCTTTA
Found at i:18961663 original size:35 final size:34
Alignment explanation
Indices: 18961603--18961673 Score: 88
Period size: 35 Copynumber: 2.1 Consensus size: 34
18961593 GCAAAACTTG
* * * *
18961603 AAATCTTGTGAATCTTTCTTTTTTGCAAATCTAA
1 AAATCTTGTGAATCTTGCATCTTTGCAAATCCAA
*
18961637 AAATCTTTGTGAATCTTGCATCTTTGCTAATCCAA
1 AAATC-TTGTGAATCTTGCATCTTTGCAAATCCAA
18961672 AA
1 AA
18961674 CCTTTTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
34 5 0.16
35 26 0.84
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (34 bp):
AAATCTTGTGAATCTTGCATCTTTGCAAATCCAA
Found at i:18962050 original size:119 final size:121
Alignment explanation
Indices: 18961924--18962147 Score: 326
Period size: 119 Copynumber: 1.9 Consensus size: 121
18961914 TGGTCATTTA
* * * *
18961924 ATCTTGGCTCAGTCCAGATAATTTCTTATGACTCGTGGTTTTATCCCAGTCATTTATTTTCGATC
1 ATCTTGGCTCAGTCCAGATAATTTCTTATGACTCATGGATTCATCCCAGTCATTTATTTTCGACC
* ** *
18961989 TCGACTTGGTCTTGGTCACTTCAT-TTT-GACTCATGGTTTCTTCTTGATCACTCG
66 TCAACTCAGTCATGGTCACTTCATCTTTAGACTCATGGTTTCTTCTTGATCACTCG
* * * *
18962043 ATCTTGGCTTAGTCCAGATCATTTCTTTTGACTCATGGATTCATCCTAGTCATTTATTTTCGACC
1 ATCTTGGCTCAGTCCAGATAATTTCTTATGACTCATGGATTCATCCCAGTCATTTATTTTCGACC
18962108 TCAACTCAGTCATGGTCACTTCATCTTTAGACTCATGGTT
66 TCAACTCAGTCATGGTCACTTCATCTTTAGACTCATGGTT
18962148 CATTCTTTGT
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
119 77 0.85
120 3 0.03
121 11 0.12
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (121 bp):
ATCTTGGCTCAGTCCAGATAATTTCTTATGACTCATGGATTCATCCCAGTCATTTATTTTCGACC
TCAACTCAGTCATGGTCACTTCATCTTTAGACTCATGGTTTCTTCTTGATCACTCG
Found at i:18968540 original size:17 final size:16
Alignment explanation
Indices: 18968515--18968567 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
18968505 AAATAATATG
* *
18968515 AAAATTGAAGATAAAA
1 AAAAATGAAAATAAAA
*
18968531 TAAAAATGAAAATACACA
1 -AAAAATGAAAATA-AAA
18968549 AAAAATGAAAATAAAA
1 AAAAATGAAAATAAAA
18968565 AAA
1 AAA
18968568 TAGAATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 5 0.16
17 24 0.77
18 2 0.06
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.15
Consensus pattern (16 bp):
AAAAATGAAAATAAAA
Found at i:18968871 original size:51 final size:51
Alignment explanation
Indices: 18968795--18968891 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 51
18968785 AGAACAGCAC
* *
18968795 CGAAAAGTTCAACCGAAAACTAGAAAACCCATTAGTTTTTGGAAAACTCAT
1 CGAAAAGTTCAACCAAAAACTAGAAAACCCATTAGTTTCTGGAAAACTCAT
*
18968846 CGAAAAGTTCAACTAAAAACTAGAAAACCCATTAGTTTCTGGAAAA
1 CGAAAAGTTCAACCAAAAACTAGAAAACCCATTAGTTTCTGGAAAA
18968892 GTCACTAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (51 bp):
CGAAAAGTTCAACCAAAAACTAGAAAACCCATTAGTTTCTGGAAAACTCAT
Found at i:18969477 original size:3 final size:3
Alignment explanation
Indices: 18969461--18969656 Score: 103
Period size: 3 Copynumber: 67.7 Consensus size: 3
18969451 GAATAAAAAG
*
18969461 AAT AA- AAT -AT AAT AAT AAT AAT AAT AAT ACT AAT -AT AAT ACACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T
* * *
18969505 -AT AAT -AT AAT AAT AAT AAT AAT AAT AAG AAG AAT AAT AAT ACT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
18969550 CAT ACT -AT AAT AAT ATAC AAT -AT AAT -GT ACT -AT ACT ATAT ACT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * * * *
18969593 -AT ACT -AT AAT AAT AAT ATAT AAT AA- CAT ACT ATAC AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT
18969637 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
18969657 CAAAGAAAAT
Statistics
Matches: 146, Mismatches: 28, Indels: 38
0.69 0.13 0.18
Matches are distributed among these distances:
2 18 0.12
3 118 0.81
4 9 0.06
5 1 0.01
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18969589 original size:17 final size:17
Alignment explanation
Indices: 18969537--18969600 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
18969527 AATAAGAAGA
18969537 ATAATAATACTAT-CATACT
1 ATAAT-ATACTATACA-A-T
18969556 ATAATA-A-TATACAAT
1 ATAATATACTATACAAT
* *
18969571 ATAATGTACTATACTAT
1 ATAATATACTATACAAT
*
18969588 ATACTATACTATA
1 ATAATATACTATA
18969601 ATAATAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 6 0.16
16 5 0.13
17 21 0.55
18 1 0.03
19 5 0.13
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAATATACTATACAAT
Found at i:18969624 original size:31 final size:30
Alignment explanation
Indices: 18969588--18969647 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
18969578 ACTATACTAT
*
18969588 ATACTATACTATAATAATAATATATAATAAC
1 ATACTATACAATAATAATAATA-ATAATAAC
*
18969619 ATACTATACAATAGTAATAATAATAATAA
1 ATACTATACAATAATAATAATAATAATAA
18969648 TAATAATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (30 bp):
ATACTATACAATAATAATAATAATAATAAC
Found at i:18973659 original size:18 final size:18
Alignment explanation
Indices: 18973636--18973671 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18973626 AATGAAAAAT
18973636 GATAATAAAATAAATTAA
1 GATAATAAAATAAATTAA
18973654 GATAATAAAATAAATTAA
1 GATAATAAAATAAATTAA
18973672 AAAAGAAAAA
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:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
GATAATAAAATAAATTAA
Found at i:18973836 original size:3 final size:3
Alignment explanation
Indices: 18973830--18973892 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
18973820 GGGATTATTA
* * *
18973830 AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT AA- ATT AAT AGT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
18973875 AA- ATT AAT AATT AAT AAT
1 AAT AAT AAT AA-T AAT AAT
18973893 TAAAAAGAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
2 2 0.04
3 41 0.85
4 5 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18973853 original size:15 final size:15
Alignment explanation
Indices: 18973828--18973898 Score: 63
Period size: 15 Copynumber: 4.4 Consensus size: 15
18973818 AAGGGATTAT
18973828 TAAATAATAATAATAA
1 TAAA-AATAATAATAA
18973844 TAAAAATAATAATAA
1 TAAAAATAATAATAA
* *
18973859 T-AAATTAATAGTAAA
1 TAAAAATAATAAT-AA
18973874 TAAATTAATAATTAATAA
1 TAAA--AATAA-TAATAA
18973892 TTAAAAA
1 -TAAAAA
18973899 GAAAATACAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
14 9 0.20
15 15 0.33
16 6 0.13
17 2 0.04
18 6 0.13
19 7 0.16
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (15 bp):
TAAAAATAATAATAA
Found at i:18973873 original size:11 final size:11
Alignment explanation
Indices: 18973828--18973892 Score: 50
Period size: 11 Copynumber: 6.1 Consensus size: 11
18973818 AAGGGATTAT
18973828 TAAA-TAATAA
1 TAAATTAATAA
18973838 T-AA-TAATAA
1 TAAATTAATAA
18973847 -AAATAATAATAA
1 TAAAT--TAATAA
*
18973859 TAAATTAATAG
1 TAAATTAATAA
*
18973870 TAAATAAATTAA
1 TAAATTAA-TAA
18973882 T-AATTAATAA
1 TAAATTAATAA
18973892 T
1 T
18973893 TAAAAAGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
9 10 0.22
10 5 0.11
11 17 0.38
12 9 0.20
13 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:18973905 original size:30 final size:30
Alignment explanation
Indices: 18973850--18973919 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
18973840 ATAATAAAAA
* *
18973850 TAATAA-TAATAAATTAATAGTAAATAAAT
1 TAATAATTAATAAATTAAAAGAAAATAAAT
*
18973879 TAATAATTAAT-AATTAAAAAGAAAATACAT
1 TAATAATTAATAAATT-AAAAGAAAATAAAT
* *
18973909 GAAAAATTAAT
1 TAATAATTAAT
18973920 TTTTGCATAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (30 bp):
TAATAATTAATAAATTAAAAGAAAATAAAT
Found at i:18974058 original size:14 final size:14
Alignment explanation
Indices: 18974041--18974080 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18974031 ACCCTAAATT
18974041 TCAAAATCCTAAAA
1 TCAAAATCCTAAAA
*
18974055 TCAAAGTCCTAAAA
1 TCAAAATCCTAAAA
* *
18974069 TCTAAACCCTAA
1 TCAAAATCCTAA
18974081 GCTCCAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.23
Consensus pattern (14 bp):
TCAAAATCCTAAAA
Found at i:18980100 original size:24 final size:24
Alignment explanation
Indices: 18980070--18980121 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
18980060 ATTTCTATTA
18980070 AATAATATATATT-AATA-AGATAAT
1 AATAATAT-TATTAAATACA-ATAAT
18980094 AATAATATTATTAAATACAATAAT
1 AATAATATTATTAAATACAATAAT
18980118 AATA
1 AATA
18980122 TGAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.15
24 21 0.81
25 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AATAATATTATTAAATACAATAAT
Found at i:18980254 original size:30 final size:29
Alignment explanation
Indices: 18980191--18980272 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
18980181 CCACCCTCTA
**
18980191 TTCACCCTTGCATACACTATCACCACCTG
1 TTCACCCTTGCATACACTGCCACCACCTG
* *
18980220 TTCACCCTTGTATACACTGCCACCCCCATG
1 TTCACCCTTGCATACACTGCCACCACC-TG
* *
18980250 TTCACCCCTGCATACATTGCCAC
1 TTCACCCTTGCATACACTGCCAC
18980273 ATCTCTATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 23 0.51
30 22 0.49
ACGTcount: A:0.22, C:0.43, G:0.09, T:0.27
Consensus pattern (29 bp):
TTCACCCTTGCATACACTGCCACCACCTG
Done.