Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 63 of 333
Found at i:18735023 original size:19 final size:20
Alignment explanation
Indices: 18734981--18735023 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
18734971 ATATTAAAAT
* *
18734981 AAAAATAAAAATATAGAATC
1 AAAAATAAAAATAAAGAATA
*
18735001 AAAAAT-AAAATAAATAATA
1 AAAAATAAAAATAAAGAATA
18735020 AAAA
1 AAAA
18735024 TTAGATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAATAAAAATAAAGAATA
Found at i:18736690 original size:18 final size:19
Alignment explanation
Indices: 18736669--18736731 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
18736659 ACAAATATGT
18736669 TTATA-TCAAATTAAATAC
1 TTATATTCAAATTAAATAC
*
18736687 TTATATTTAAATT-AATAC
1 TTATATTCAAATTAAATAC
* *
18736705 TTACATTTAAATTAATATATC
1 TTATATTCAAATTAA-ATA-C
18736726 TTATAT
1 TTATAT
18736732 CATACTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 22 0.58
19 7 0.18
20 3 0.08
21 6 0.16
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (19 bp):
TTATATTCAAATTAAATAC
Found at i:18738255 original size:13 final size:13
Alignment explanation
Indices: 18738237--18738267 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
18738227 ATATATAATG
18738237 AACAGTTTGAATC
1 AACAGTTTGAATC
18738250 AACAGTTTGAATC
1 AACAGTTTGAATC
18738263 AACAG
1 AACAG
18738268 AAAAGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (13 bp):
AACAGTTTGAATC
Found at i:18739772 original size:17 final size:18
Alignment explanation
Indices: 18739739--18739772 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18739729 TATCTCTTAA
18739739 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
18739757 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
18739773 AAAATTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:18740232 original size:43 final size:43
Alignment explanation
Indices: 18740185--18740269 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
18740175 AACCACTATC
* * * *
18740185 CCCTAAACCCTAAATCATAAAACATAAATCTTAAACCCTAAAG
1 CCCTAAACCCTAAACCATAAAACACAAACCTTAAACCATAAAG
* * *
18740228 CCCTAACCCCTAAACCTTAAAACACAACCCTTAAACCATAAA
1 CCCTAAACCCTAAACCATAAAACACAAACCTTAAACCATAAA
18740270 TCATAATCCC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.19
Consensus pattern (43 bp):
CCCTAAACCCTAAACCATAAAACACAAACCTTAAACCATAAAG
Found at i:18740264 original size:8 final size:7
Alignment explanation
Indices: 18740159--18740248 Score: 54
Period size: 7 Copynumber: 12.6 Consensus size: 7
18740149 AAAATTAATA
18740159 TAAACCC
1 TAAACCC
*
18740166 TAAATCC
1 TAAACCC
*
18740173 TTAACCAC
1 TAAACC-C
**
18740181 TATCCCC
1 TAAACCC
18740188 TAAACCC
1 TAAACCC
* *
18740195 TAAATCA
1 TAAACCC
* *
18740202 TAAAACA
1 TAAACCC
* *
18740209 TAAATCT
1 TAAACCC
18740216 TAAACCC
1 TAAACCC
18740223 TAAAGCCC
1 TAAA-CCC
*
18740231 TAACCCC
1 TAAACCC
*
18740238 TAAACCT
1 TAAACCC
18740245 TAAA
1 TAAA
18740249 ACACAACCCT
Statistics
Matches: 63, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
7 53 0.84
8 10 0.16
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:18740274 original size:7 final size:7
Alignment explanation
Indices: 18740188--18740365 Score: 51
Period size: 7 Copynumber: 25.4 Consensus size: 7
18740178 CACTATCCCC
*
18740188 TAAACCC
1 TAAACCA
*
18740195 TAAATCA
1 TAAACCA
*
18740202 TAAAACA
1 TAAACCA
* *
18740209 TAAATCT
1 TAAACCA
*
18740216 TAAACCC
1 TAAACCA
*
18740223 TAAAGCCC
1 TAAA-CCA
* *
18740231 TAACCCC
1 TAAACCA
*
18740238 TAAACCT
1 TAAACCA
*
18740245 TAAAACA
1 TAAACCA
* * *
18740252 CAACCCT
1 TAAACCA
18740259 TAAACCA
1 TAAACCA
*
18740266 TAAATCA
1 TAAACCA
* *
18740273 TAATCCC
1 TAAACCA
*
18740280 TAACCCCA
1 TAA-ACCA
*
18740288 TAATCCA
1 TAAACCA
*
18740295 T-AACCT
1 TAAACCA
18740301 TAAA--A
1 TAAACCA
18740306 TAGTAACTCA
1 TA--AAC-CA
*
18740316 TAAAGCA
1 TAAACCA
18740323 --AACCA
1 TAAACCA
18740328 TAAACCA
1 TAAACCA
* *
18740335 TATACCC
1 TAAACCA
18740342 TAAACCA
1 TAAACCA
*
18740349 TAAACCC
1 TAAACCA
*
18740356 TAAACTA
1 TAAACCA
18740363 TAA
1 TAA
18740366 TGATAATTAA
Statistics
Matches: 123, Mismatches: 38, Indels: 20
0.68 0.21 0.11
Matches are distributed among these distances:
5 6 0.05
6 4 0.03
7 97 0.79
8 13 0.11
10 3 0.02
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:18740347 original size:14 final size:14
Alignment explanation
Indices: 18740322--18740365 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
18740312 CTCATAAAGC
*
18740322 AAACCATAAACCAT
1 AAACCCTAAACCAT
*
18740336 ATACCCTAAACCAT
1 AAACCCTAAACCAT
*
18740350 AAACCCTAAACTAT
1 AAACCCTAAACCAT
18740364 AA
1 AA
18740366 TGATAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.18
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:18749903 original size:47 final size:46
Alignment explanation
Indices: 18749654--18750016 Score: 172
Period size: 47 Copynumber: 7.7 Consensus size: 46
18749644 GTTAAGTTGT
* * *
18749654 CGATGCCATGTCCC-GACATGTTCTTACACTGGCTATCT-TCACCGAGGC
1 CGATG-CATGTCCCAGACACG-TCTTACACTGGC-ATCTATC-TCTAGGC
* * * * * *
18749702 CGATGCCATATCCCAGACATGGTCTTACACTAGC-TCTCGTGTATAAGTGC
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGCATCT-ATCTCT-AG-GC
* * * * * *
18749752 TGATGCATGTCCCAGACATGTCTTACATTAGCA-CGAAGCT-TA-GC
1 CGATGCATGTCCCAGACACGTCTTACACTGGCATC-TATCTCTAGGC
* * *
18749796 CGATGCATGTCCTAGACACGTCTTACACTGG-TTACCATCAT-TGAGGC
1 CGATGCATGTCCCAGACACGTCTTACACTGGCAT-CTATC-TCT-AGGC
* * *
18749843 TGATGCATATCCCAGACACGTCTTACACTGGCATCTATCTCTACGC
1 CGATGCATGTCCCAGACACGTCTTACACTGGCATCTATCTCTAGGC
* * * * *
18749889 CGATGCCATGTCCCAGACATGGCCTTACACTGGCTAT-TGTAATGT-GGC
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGC-ATCTAT-CTCTAGGC
* * * * * *
18749937 TGATGCATGTCTCAGACACGTCTTACACTAGC-CCTCATCTCAATGC
1 CGATGCATGTCCCAGACACGTCTTACACTGGCATCT-ATCTCTAGGC
*
18749983 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 CGATG-CATGTCCCAGACA-CGTCTTACACTGGC
18750017 TCTCACATAA
Statistics
Matches: 239, Mismatches: 52, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
44 30 0.13
45 5 0.02
46 28 0.12
47 75 0.31
48 60 0.25
49 34 0.14
50 7 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACACGTCTTACACTGGCATCTATCTCTAGGC
Found at i:18749941 original size:94 final size:92
Alignment explanation
Indices: 18749700--18750017 Score: 329
Period size: 94 Copynumber: 3.4 Consensus size: 92
18749690 CTTCACCGAG
* * * *
18749700 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTGTATAAGT-GCTGATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--TGTA-ATGTGGCTGATGCATGTCC
* * * *
18749764 CAGACATGTCTTACATTAGCACGAAGCT-TA
63 CAGACACGTCTTACACTAGCAC-TATCTCTA
* * * *** * * *
18749794 GCCGATG-CATGTCCTAGACA-CGTCTTACACTGGTTACCATCATTGAGGCTGATGCATATCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGT-AATGTGGCTGATGCATGTCCCA
*
18749857 GACACGTCTTACACTGGCATCTATCTCTA
65 GACACGTCTTACACTAGCA-CTATCTCTA
* *
18749886 CGCCGATGCCATGTCCCAGACATGGCCTTACACTGGCTATTGTAATGTGGCTGATGCATGTCTCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGTAATGTGGCTGATGCATGTCCCA
* *
18749951 GACACGTCTTACACTAGCCCTCATCTCAA
65 GACACGTCTTACACTAGCACT-ATCTCTA
18749980 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
18750018 CTCACATAAC
Statistics
Matches: 182, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
90 2 0.01
91 35 0.19
92 15 0.08
93 20 0.11
94 96 0.53
95 14 0.08
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGTAATGTGGCTGATGCATGTCCCAG
ACACGTCTTACACTAGCACTATCTCTA
Found at i:18756967 original size:71 final size:71
Alignment explanation
Indices: 18756851--18756993 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
18756841 AGAAAATAAA
18756851 AAGGAAAGAAAGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATACAACAACAGTTTCA
1 AAGGAAAGAAAGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATACAACAACAGTTTCA
*
18756916 CTATTT
66 CCATTT
18756922 AAGGAAAGAAAGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATACAACAACAGTTTCA
1 AAGGAAAGAAAGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATACAACAACAGTTTCA
18756987 CCATTT
66 CCATTT
18756993 A
1 A
18756994 TCATGATGCT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (71 bp):
AAGGAAAGAAAGTAAGCATAAAGCTTAGTAAGTTGCATATAAATAAATATACAACAACAGTTTCA
CCATTT
Found at i:18757383 original size:47 final size:45
Alignment explanation
Indices: 18757317--18757671 Score: 157
Period size: 47 Copynumber: 7.6 Consensus size: 45
18757307 AGCTTAGCCA
* **
18757317 ATGCATGTCCCAGGGACGTCTTACACTGGTTAC-CATCATTGAGGCTG
1 ATGCATATCCCAGACACGTCTTACACTGG-TACTCATC-TT-AGGCTG
* * * *
18757364 ATGCATATCCTAGACACGTCGTACACTGGCACTCATCTCTACGCTG
1 ATGCATATCCCAGACACGTCTTACACTGGTACTCATCT-TAGGCTG
* * * *
18757410 ATGCCATATCCCAGACATGGTCTTACACTAGCT-CTCGTGTATAAGTGCTG
1 ATG-CATATCCCAGACA-CGTCTTACACT-GGTACTCATCT-T-AG-GCTG
* * * * * ** * *
18757460 ATGCATGTCCCAGACATGTCTTACATTAGCACGAAGCTTA-GCCG
1 ATGCATATCCCAGACACGTCTTACACTGGTACTCATCTTAGGCTG
* * * *
18757504 ATGCATGTCCTAGACACGTATTACACTGGTTAC-CATCATTGAGGCCG
1 ATGCATATCCCAGACACGTCTTACACTGG-TACTCATC-TT-AGGCTG
* * * *
18757551 ATGCATATCCCAGACATGTCTTACACTGGCAC-CTATCTCTACGCCG
1 ATGCATATCCCAGACACGTCTTACACTGGTACTC-ATCT-TAGGCTG
* * * * * *
18757597 ATGCCATGTCCCAGACATGGCCTTACACTGGCTATTGTAAT-GT-GGCTG
1 ATG-CATATCCCAGACA-CGTCTTACACTGG-TA--CTCATCTTAGGCTG
* *
18757645 ATGCATGTCCCAAACACGTCTTACACT
1 ATGCATATCCCAGACACGTCTTACACT
18757672 AGCCCTCATC
Statistics
Matches: 234, Mismatches: 54, Indels: 41
0.71 0.16 0.12
Matches are distributed among these distances:
44 29 0.12
45 4 0.02
46 34 0.15
47 99 0.42
48 43 0.18
49 16 0.07
50 7 0.03
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (45 bp):
ATGCATATCCCAGACACGTCTTACACTGGTACTCATCTTAGGCTG
Found at i:18757481 original size:48 final size:48
Alignment explanation
Indices: 18757213--18757489 Score: 135
Period size: 47 Copynumber: 5.8 Consensus size: 48
18757203 AAACATTGGT
* * * *
18757213 TAAGATGCCGATGCCATCTCCCAGACATGGTCTTACAGTAGCTCTTGTGTA
1 TAAG-TGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTGTA
* * *
18757264 TAAGTGCTGATGCATGTCCCAGACTTGTCTTACACTAG--CACGAAGCT-
1 TAAGTGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-TG-TA
** ** * * * * *
18757311 T-A--GCCAATGCATGTCCCAGGGACGTCTTACACTGGTTAC-CAT-CA
1 TAAGTGCTGATGCATGTCCCAGACATGTCTTACACTAGCT-CTCGTGTA
* * * * * * * * * *
18757355 TTGAG-GCTGATGCATATCCTAGACACGTCGTACACTGGCACTCATCTC
1 -TAAGTGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTGTA
* *
18757403 T-A-CGCTGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTGTA
1 TAAGTGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTGTA
*
18757451 TAAGTGCTGATGCATGTCCCAGACATGTCTTACATTAGC
1 TAAGTGCTGATGCATGTCCCAGACATGTCTTACACTAGC
18757490 ACGAAGCTTA
Statistics
Matches: 171, Mismatches: 39, Indels: 35
0.70 0.16 0.14
Matches are distributed among these distances:
44 26 0.15
45 1 0.01
46 14 0.08
47 45 0.26
48 41 0.24
49 26 0.15
50 14 0.08
51 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (48 bp):
TAAGTGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTGTA
Found at i:18757537 original size:187 final size:186
Alignment explanation
Indices: 18757219--18757674 Score: 666
Period size: 187 Copynumber: 2.4 Consensus size: 186
18757209 TGGTTAAGAT
* *
18757219 GCCGATGCCATCTCCCAGACATGGTCTTACAGTAGCTCTTGTGTATAAGTGCTGATGCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTC-TGTGTATAAGTGCTGATGCATGTCCC
* ** *
18757284 AGACTTGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAGGGACGTCTTACACTGGTTA
65 AGACATGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAGACACGTATTACACTGGTTA
* *
18757349 CCATCATTGAGGCTGATGCATATCCTAGACACGTCGTACACTGGCA-CTCATCTCTAC
130 CCATCATTGAGGCCGATGCATATCCCAGACACGTCGTACACTGGCACCT-ATCTCTAC
*
18757406 GCTGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTGTATAAGTGCTGATGCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCT-GTGTATAAGTGCTGATGCATGTCCC
* * *
18757471 AGACATGTCTTACATTAGCACGAAGCTTAGCCGATGCATGTCCTAGACACGTATTACACTGGTTA
65 AGACATGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAGACACGTATTACACTGGTTA
* *
18757536 CCATCATTGAGGCCGATGCATATCCCAGACATGTCTTACACTGGCACCTATCTCTAC
130 CCATCATTGAGGCCGATGCATATCCCAGACACGTCGTACACTGGCACCTATCTCTAC
* * * * *
18757593 GCCGATGCCATGTCCCAGACATGGCCTTACACTGGCTAT-TGTA-ATGTGGCTGATGCATGTCCC
1 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTGTGTATAAGT-GCTGATGCATGTCCC
* *
18757656 AAACACGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
18757675 CCTCATCTCA
Statistics
Matches: 243, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
184 3 0.01
185 35 0.14
186 1 0.00
187 202 0.83
188 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (186 bp):
GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTGTGTATAAGTGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAGACACGTATTACACTGGTTAC
CATCATTGAGGCCGATGCATATCCCAGACACGTCGTACACTGGCACCTATCTCTAC
Found at i:18757562 original size:91 final size:91
Alignment explanation
Indices: 18757269--18757674 Score: 332
Period size: 91 Copynumber: 4.4 Consensus size: 91
18757259 GTGTATAAGT
* * * **
18757269 GCTGATGCATGTCCCAGACTTGTCTTACACTAGCACGAAGCTTAGCCAATGCATGTCCCAGGGAC
1 GCTGATGCATATCCCAGACATGTCTTACACTAGCACGAAGCTTAGCCGATGCATGTCCCAGACAC
18757334 GTCTTACACTGGTTACCATCATTGAG
66 GTCTTACACTGGTTACCATCATTGAG
* * * * ** * * *
18757360 GCTGATGCATATCCTAGACACGTCGTACACTGGCACTCATCTCTACGCTGATGCCATATCCCAGA
1 GCTGATGCATATCCCAGACATGTCTTACACTAGCACGAAGCT-TA-GCCGATG-CATGTCCCAGA
* * * * * *
18757425 CATGGTCTTACACTAGCT-CTCGT-GTATAAG
63 CA-CGTCTTACACTGGTTAC-CATCAT-TGAG
* * *
18757455 TGCTGATGCATGTCCCAGACATGTCTTACATTAGCACGAAGCTTAGCCGATGCATGTCCTAGACA
1 -GCTGATGCATATCCCAGACATGTCTTACACTAGCACGAAGCTTAGCCGATGCATGTCCCAGACA
*
18757520 CGTATTACACTGGTTACCATCATTGAG
65 CGTCTTACACTGGTTACCATCATTGAG
* * ** *
18757547 GCCGATGCATATCCCAGACATGTCTTACACTGGCACCTATCTCTACGCCGATGCCATGTCCCAGA
1 GCTGATGCATATCCCAGACATGTCTTACACTAGCACGAAGCT-TA-GCCGATG-CATGTCCCAGA
* * * *** * *
18757612 CATGGCCTTACACTGGCTATTGT-AATGTG
63 CA-CGTCTTACACTGGTTACCATCATTGAG
* * *
18757641 GCTGATGCATGTCCCAAACACGTCTTACACTAGC
1 GCTGATGCATATCCCAGACATGTCTTACACTAGC
18757675 CCTCATCTCA
Statistics
Matches: 241, Mismatches: 61, Indels: 23
0.74 0.19 0.07
Matches are distributed among these distances:
91 68 0.28
92 20 0.08
93 25 0.10
94 63 0.26
95 32 0.13
96 33 0.14
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (91 bp):
GCTGATGCATATCCCAGACATGTCTTACACTAGCACGAAGCTTAGCCGATGCATGTCCCAGACAC
GTCTTACACTGGTTACCATCATTGAG
Found at i:18757625 original size:48 final size:47
Alignment explanation
Indices: 18757547--18757722 Score: 146
Period size: 47 Copynumber: 3.7 Consensus size: 47
18757537 CATCATTGAG
* *
18757547 GCCGATGCATATCCCAGACAT-GTCTTACACTGGCACCTATCTCTAC
1 GCCGATGCATGTCCCAAACATGGTCTTACACTGGCACCTATCTCTAC
* * * * * * *
18757593 GCCGATGCCATGTCCCAGACATGGCCTTACACTGGCTA-TTGTAATGT-G
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTGGC-ACCTAT-CTCTAC
* * * * *
18757641 GCTGATGCATGTCCCAAACA-CGTCTTACACTAGC-CCTCATCTCAAT
1 GCCGATGCATGTCCCAAACATGGTCTTACACTGGCACCT-ATCTCTAC
18757687 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGC
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTGGC
18757723 TCTCACATAA
Statistics
Matches: 100, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
45 2 0.02
46 25 0.25
47 38 0.38
48 32 0.32
49 3 0.03
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAAACATGGTCTTACACTGGCACCTATCTCTAC
Found at i:18757649 original size:94 final size:93
Alignment explanation
Indices: 18757219--18757723 Score: 373
Period size: 94 Copynumber: 5.4 Consensus size: 93
18757209 TGGTTAAGAT
* * * * *
18757219 GCCGATGCCATCTCCCAGACATGGTCTTACAGTAGCTCTTGTGTATAAGT-GCTGATGCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-AT-TGTA-ATGTGGCTGATGCATGTCC
* ** *
18757283 CAGACTTGTCTTACACTAGCACGAAGCT-TA
63 CAGACATGTCTTACACTAGCACCTATCTCTA
* ** * * *** * * * *
18757313 GCCAATG-CATGTCCCAGGGA-CGTCTTACACTGGTTACCATCATTGAGGCTGATGCATATCCTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGT-AATGTGGCTGATGCATGTCCCA
* * *
18757376 GACACGTCGTACACTGGCA-CTCATCTCTA
65 GACATGTCTTACACTAGCACCT-ATCTCTA
* * * * *
18757405 CGCTGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTGTATAAGT-GCTGATGCATGTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTAT--TGTA-ATGTGGCTGATGCATGTC
* ** *
18757469 CCAGACATGTCTTACATTAGCACGAAGCT-TA
62 CCAGACATGTCTTACACTAGCACCTATCTCTA
* * * * *** * * * *
18757500 GCCGATG-CATGTCCTAGACA-CGTATTACACTGGTTACCATCATTGAGGCCGATGCATATCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGT-AATGTGGCTGATGCATGTCCCA
*
18757563 GACATGTCTTACACTGGCACCTATCTCTA
65 GACATGTCTTACACTAGCACCTATCTCTA
*
18757592 CGCCGATGCCATGTCCCAGACATGGCCTTACACTGGCTATTGTAATGTGGCTGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGTAATGTGGCTGATGCATGTCCCA
* * *
18757657 AACACGTCTTACACTAGC-CCTCATCTCAA
65 GACATGTCTTACACTAGCACCT-ATCTCTA
*
18757686 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
18757724 CTCACATAAC
Statistics
Matches: 305, Mismatches: 88, Indels: 36
0.71 0.21 0.08
Matches are distributed among these distances:
90 4 0.01
91 69 0.23
92 26 0.09
93 36 0.12
94 108 0.35
95 27 0.09
96 33 0.11
97 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGTAATGTGGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACCTATCTCTA
Found at i:18760497 original size:46 final size:46
Alignment explanation
Indices: 18760325--18760499 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
18760315 ATTTGGGCAT
* ** *
18760325 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAGTGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * *
18760371 CTGAGCTCGTTGAGTTGAGTCCGA---C-TTTGTGAGATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---GC
*
18760416 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
18760464 CCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18760500 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
45 1 0.01
46 56 0.54
47 23 0.22
48 2 0.02
50 5 0.05
51 7 0.07
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:18763470 original size:30 final size:29
Alignment explanation
Indices: 18763425--18763502 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
18763415 CATAGTATCG
*
18763425 TATCTTAGG-TTTCTTTATCCTGGATCTCTT
1 TATCTT-GGATTTCTTTATCC-GGATCTCTC
* *
18763455 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTA-TCCGGATCTCTC
18763485 TATCTTGGATTTCTTTAT
1 TATCTTGGATTTCTTTAT
18763503 TTGGTTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
29 4 0.10
30 33 0.80
31 4 0.10
ACGTcount: A:0.13, C:0.18, G:0.14, T:0.55
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATCCGGATCTCTC
Found at i:18763511 original size:14 final size:15
Alignment explanation
Indices: 18763434--18763513 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
18763424 GTATCTTAGG
*
18763434 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
18763449 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
18763464 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
18763479 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
18763494 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
18763508 TTTCTT
1 TTTCTT
18763514 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 11 0.21
15 41 0.77
16 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:18765949 original size:46 final size:46
Alignment explanation
Indices: 18765882--18766049 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
18765872 TATTTGGGCA
*
18765882 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAGCG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAGCG
* * * *
18765928 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGT---GA-GCG
* * *
18765975 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAGCG
*
18766021 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
18766050 GCTTATGGGC
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
43 5 0.05
45 2 0.02
46 58 0.56
47 32 0.31
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAGCG
Found at i:18766037 original size:93 final size:93
Alignment explanation
Indices: 18765878--18766050 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
18765868 GGGATATTTG
* * *
18765878 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTGAGCGTCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
18765943 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
18765971 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
18766036 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
18766051 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.19, C:0.22, G:0.32, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:18780463 original size:29 final size:29
Alignment explanation
Indices: 18780417--18780545 Score: 186
Period size: 29 Copynumber: 4.4 Consensus size: 29
18780407 TAGTACATAG
* *
18780417 CTCAGACGAGCAACCTGGTGTAATTTTGA
1 CTCAGACGAGCAATCTGGTGTAATTTTAA
18780446 CTCAGACGAGCAATCTGGTGTAATTTTAA
1 CTCAGACGAGCAATCTGGTGTAATTTTAA
**
18780475 CTTGGACGAGCAATCTGGTGTAATTTTAA
1 CTCAGACGAGCAATCTGGTGTAATTTTAA
** * *
18780504 CTTGGACGAGCAATCTGGTGTAAATTTAG
1 CTCAGACGAGCAATCTGGTGTAATTTTAA
18780533 CTCAGACGAGCAA
1 CTCAGACGAGCAA
18780546 CCACGTGTGG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 92 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (29 bp):
CTCAGACGAGCAATCTGGTGTAATTTTAA
Found at i:18782108 original size:49 final size:49
Alignment explanation
Indices: 18782036--18782229 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 49
18782026 GCCGAAGCTA
* *
18782036 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
18782085 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
* ** * ** *
18782135 TTTAATACACGTAGTAGCCTGCACTTAGTACTACACACATGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * * *
18782183 TTTTCGGGTACGCATAGTAGCCTGCACTTGGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
18782230 TCACAATAGA
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.32
50 39 0.33
51 37 0.32
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:18782220 original size:101 final size:99
Alignment explanation
Indices: 18782047--18782233 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
18782037 CTGGTACGCA
** * *
18782047 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
18782112 GTACTACACACGTGACCTCACCATTTAATACACG
66 GTACTACACACGCGACCTCACCATTTAATACACG
* * *
18782146 TAGTAGCCTGCACTTAGTACTACACACATGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
* *
18782210 TTGGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
18782234 AATAGATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
101 42 0.56
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATTTAATACACG
Found at i:18783902 original size:57 final size:58
Alignment explanation
Indices: 18783748--18783891 Score: 204
Period size: 57 Copynumber: 2.5 Consensus size: 58
18783738 GGATATTACA
* *
18783748 ATGT-CATTGAAATGAATTATGTGTAACTGGAATCACCTTATAGACTATTAATGGATT
1 ATGTCCATTGAAATGAATTATGTGTAATTGGAATCACCTTATAGACTACTAATGGATT
* * *
18783805 ATGTCC-TTAAAATGAATTATATGTAATTGGAATCACCTTATAGACTGCTAATGGATT
1 ATGTCCATTGAAATGAATTATGTGTAATTGGAATCACCTTATAGACTACTAATGGATT
* *
18783862 ATG-CCATTGAAATGAATAATGTATAATTGG
1 ATGTCCATTGAAATGAATTATGTGTAATTGG
18783892 TATAATCTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
56 2 0.03
57 73 0.96
58 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (58 bp):
ATGTCCATTGAAATGAATTATGTGTAATTGGAATCACCTTATAGACTACTAATGGATT
Found at i:18785275 original size:27 final size:27
Alignment explanation
Indices: 18785228--18785329 Score: 129
Period size: 27 Copynumber: 3.8 Consensus size: 27
18785218 CGAGGCTGCT
* *
18785228 AGATATTGTGAC-GAAGTCACCAGATAC
1 AGATATTGTGGCAG-AGCCACCAGATAC
18785255 AGATATTGTGGCAGAGCCACCAGA-AC
1 AGATATTGTGGCAGAGCCACCAGATAC
18785281 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAC
*
18785308 AGATAATTGTGGCATAGCCACC
1 AGAT-ATTGTGGCAGAGCCACC
18785330 TGGACGCTTC
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
26 8 0.12
27 57 0.84
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAC
Found at i:18785736 original size:8 final size:8
Alignment explanation
Indices: 18785720--18785749 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18785710 CTCAAAATAC
18785720 CGGCTTTT
1 CGGCTTTT
*
18785728 CGGCATTT
1 CGGCTTTT
18785736 CGGCTTTT
1 CGGCTTTT
18785744 CGGCTT
1 CGGCTT
18785750 GTACTGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:18788591 original size:29 final size:31
Alignment explanation
Indices: 18788549--18788626 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 31
18788539 ATTTGAGAAA
* * *
18788549 CCCTTGTTCGAGCATTTTCAAAAA-G-ATGT
1 CCCTTATTTGAGCATTTTCAAAAATGTATGG
*
18788578 CCCTTATTTGAGCATTTTCAAAAATGTTTGG
1 CCCTTATTTGAGCATTTTCAAAAATGTATGG
*
18788609 CCCTTATTTGACCATTTT
1 CCCTTATTTGAGCATTTT
18788627 GAAAGGGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (31 bp):
CCCTTATTTGAGCATTTTCAAAAATGTATGG
Found at i:18789145 original size:11 final size:11
Alignment explanation
Indices: 18789116--18789146 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
18789106 CAAAATAAAG
18789116 AAAAAAATAAC
1 AAAAAAATAAC
18789127 AAAAAAATAAC
1 AAAAAAATAAC
*
18789138 AACAAAATA
1 AAAAAAATA
18789147 GTAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAATAAC
Found at i:18790980 original size:44 final size:44
Alignment explanation
Indices: 18790911--18790996 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
18790901 ACTCTGTTTT
* *
18790911 TAGTTTCCCACTTAAACTTTGATTAGTGTAGGTTATTTTAATAG
1 TAGTTTCCCACTTAAACTCTAATTAGTGTAGGTTATTTTAATAG
18790955 TAGTTTCCCACTTCAAA-TCTAATTAGTGTAGGTTATTTTAAT
1 TAGTTTCCCACTT-AAACTCTAATTAGTGTAGGTTATTTTAAT
18790997 CTTATTTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 36 0.92
45 3 0.08
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (44 bp):
TAGTTTCCCACTTAAACTCTAATTAGTGTAGGTTATTTTAATAG
Found at i:18792964 original size:44 final size:44
Alignment explanation
Indices: 18792885--18792971 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
18792875 AACTTTGTTT
* * *
18792885 TTAGTTTCTCACTTAAACTCTTATTAGTGTCGGTTATATTAATA
1 TTAGTTTCCCACTTAAACTCTTATTAATGTAGGTTATATTAATA
*
18792929 TTAGTTTCCCACTTAAACT-TTGATTAATGTAGGTTATTTTAAT
1 TTAGTTTCCCACTTAAACTCTT-ATTAATGTAGGTTATATTAAT
18792972 TTATTTGACC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTTATTAATGTAGGTTATATTAATA
Found at i:18793633 original size:21 final size:22
Alignment explanation
Indices: 18793609--18793653 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
18793599 GTTTAATCTC
*
18793609 TCTACTTATTAAATT-TATA-AA
1 TCTACTT-TCAAATTATATATAA
18793630 TCTACTTTCAAATTATATATAA
1 TCTACTTTCAAATTATATATAA
18793652 TC
1 TC
18793654 ACGTTACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 11 0.52
22 4 0.19
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (22 bp):
TCTACTTTCAAATTATATATAA
Found at i:18793842 original size:20 final size:21
Alignment explanation
Indices: 18793806--18793848 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
18793796 GCATACTAGG
18793806 ACCAAAATTGAAAAAAAAACC
1 ACCAAAATTGAAAAAAAAACC
18793827 ACCAAAATTG-AAAAAAAACC
1 ACCAAAATTGAAAAAAAAACC
18793847 AC
1 AC
18793849 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.65, C:0.21, G:0.05, T:0.09
Consensus pattern (21 bp):
ACCAAAATTGAAAAAAAAACC
Found at i:18794250 original size:19 final size:20
Alignment explanation
Indices: 18794228--18794281 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
18794218 ATATAAATGG
18794228 TAAAAAAATATAAAAAAT-A
1 TAAAAAAATATAAAAAATCA
***
18794247 TAAAATTTTAT-AAAAATCA
1 TAAAAAAATATAAAAAATCA
18794266 TAAAAAAATTATAAAA
1 TAAAAAAA-TATAAAA
18794282 TGCATCAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
18 6 0.23
19 14 0.54
20 3 0.12
21 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAAAATATAAAAAATCA
Found at i:18794281 original size:9 final size:9
Alignment explanation
Indices: 18794121--18794281 Score: 54
Period size: 9 Copynumber: 17.4 Consensus size: 9
18794111 ACATGTGACA
18794121 AAAAATTAT
1 AAAAATTAT
18794130 AAAAA--AT
1 AAAAATTAT
18794137 AAAAA-TA-
1 AAAAATTAT
18794144 AATAAAGTTAT
1 AA-AAA-TTAT
18794155 -AAAATTACT
1 AAAAATTA-T
*
18794164 AAAATTTAAT
1 AAAAATT-AT
18794174 AATAAA-TAT
1 AA-AAATTAT
18794183 AGAAATATT-T
1 A-AAA-ATTAT
*
18794193 AAAATTTACT
1 AAAAATTA-T
18794203 -AAAATTA-
1 AAAAATTAT
*
18794210 AAATATATAT
1 AAAAAT-TAT
*
18794220 ATAAATGGTA-
1 AAAAAT--TAT
*
18794230 AAAAAATAT
1 AAAAATTAT
*
18794239 AAAAAATAT
1 AAAAATTAT
*
18794248 AAAATTTTAT
1 AAAA-ATTAT
*
18794258 AAAAATCATAA
1 AAAAAT--TAT
18794269 AAAAATTAT
1 AAAAATTAT
18794278 AAAA
1 AAAA
18794282 TGCATCAAAA
Statistics
Matches: 115, Mismatches: 15, Indels: 44
0.66 0.09 0.25
Matches are distributed among these distances:
7 9 0.08
8 15 0.13
9 45 0.39
10 32 0.28
11 14 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:18794282 original size:19 final size:19
Alignment explanation
Indices: 18794228--18794292 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
18794218 ATATAAATGG
*
18794228 TAAAAAAA-TATAAAA-AA
1 TAAAAAAATTATAAAATCA
**
18794245 TATAAAATTTTATAAAAATCA
1 TA-AAAAAATTAT-AAAATCA
18794266 TAAAAAAATTATAAAATGCA
1 TAAAAAAATTATAAAAT-CA
18794286 TCAAAAA
1 T-AAAAA
18794293 GGCCCTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
17 2 0.05
18 4 0.11
19 8 0.22
20 15 0.41
21 8 0.22
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAAAATTATAAAATCA
Found at i:18794292 original size:20 final size:20
Alignment explanation
Indices: 18794228--18794281 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
18794218 ATATAAATGG
18794228 TAAAAAAA-TATAAAAA--A
1 TAAAAAAATTATAAAAATCA
**
18794245 TATAAAATTTTATAAAAATCA
1 TA-AAAAAATTATAAAAATCA
18794266 TAAAAAAATTATAAAA
1 TAAAAAAATTATAAAA
18794282 TGCATCAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 2 0.07
18 4 0.14
19 8 0.28
20 12 0.41
21 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAAAATTATAAAAATCA
Found at i:18794545 original size:20 final size:19
Alignment explanation
Indices: 18794520--18794559 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18794510 TTCTTACGAC
18794520 TCTATAAAATTTTATATATT
1 TCTATAAAATTTTA-ATATT
* *
18794540 TCTATATATTTTTAATATT
1 TCTATAAAATTTTAATATT
18794559 T
1 T
18794560 TTTATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TCTATAAAATTTTAATATT
Found at i:18794618 original size:29 final size:30
Alignment explanation
Indices: 18794569--18794646 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 30
18794559 TTTTATAATT
* *
18794569 ATTTTTCTAA-TTTTAAATAAAAATTAAAT-
1 ATTTTTATAACTTTT-ATTAAAAATTAAATA
* *
18794598 ATTTCTTAT-ATTTTTATT-AAAATTTAATA
1 ATTT-TTATAACTTTTATTAAAAATTAAATA
18794627 ATTTTTATAACTTTTATTAA
1 ATTTTTATAACTTTTATTAA
18794647 TTTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
28 13 0.32
29 19 0.47
30 8 0.20
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (30 bp):
ATTTTTATAACTTTTATTAAAAATTAAATA
Found at i:18794634 original size:28 final size:29
Alignment explanation
Indices: 18794588--18794646 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
18794578 ATTTTAAATA
*
18794588 AAAATTAAATATTTCTTAT-ATTTTTATT
1 AAAATTAAATATTTCTTATAACTTTTATT
*
18794616 AAAATTTAATAATTT-TTATAACTTTTATT
1 AAAATTAAAT-ATTTCTTATAACTTTTATT
18794645 AA
1 AA
18794647 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (29 bp):
AAAATTAAATATTTCTTATAACTTTTATT
Found at i:18794659 original size:16 final size:15
Alignment explanation
Indices: 18794638--18794667 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
18794628 TTTTTATAAC
18794638 TTTTATTAATTTTTTT
1 TTTTATT-ATTTTTTT
18794654 TTTTATTATTTTTT
1 TTTTATTATTTTTT
18794668 GACTTATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTATTATTTTTTT
Found at i:18822867 original size:41 final size:41
Alignment explanation
Indices: 18822817--18822911 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
18822807 ATTTTAATAT
*
18822817 AATTAATTTTTATTTTATTTTTAATTTGTGTATTATTTTAAG
1 AATT-ATTTTTATCTTATTTTTAATTTGTGTATTATTTTAAG
* * * * *
18822859 AATTA-TTTTAGTCTTATTTTTTATTTGTTTTTTGTTTTAAT
1 AATTATTTTTA-TCTTATTTTTAATTTGTGTATTATTTTAAG
*
18822900 ATTTATTTTTAT
1 AATTATTTTTAT
18822912 GTTTTAAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
40 5 0.11
41 30 0.68
42 9 0.20
ACGTcount: A:0.24, C:0.01, G:0.06, T:0.68
Consensus pattern (41 bp):
AATTATTTTTATCTTATTTTTAATTTGTGTATTATTTTAAG
Found at i:18822908 original size:19 final size:20
Alignment explanation
Indices: 18822880--18822918 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
18822870 TCTTATTTTT
*
18822880 TATTTGTTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
18822899 TATTTATTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
18822919 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:18822925 original size:19 final size:19
Alignment explanation
Indices: 18822886--18822926 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18822876 TTTTTATTTG
*
18822886 TTTTTTGTTTTAATATTTA
1 TTTTTTGTTTTAATATGTA
18822905 TTTTTATGTTTTAA-ATGTA
1 TTTTT-TGTTTTAATATGTA
18822924 TTT
1 TTT
18822927 GATTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTTGTTTTAATATGTA
Found at i:18822936 original size:25 final size:23
Alignment explanation
Indices: 18822899--18822944 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
18822889 TTTGTTTTAA
*
18822899 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
18822922 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
18822945 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:18823548 original size:13 final size:13
Alignment explanation
Indices: 18823530--18823554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18823520 AAAAAGAAAA
18823530 ACAAATTTTCTTC
1 ACAAATTTTCTTC
18823543 ACAAATTTTCTT
1 ACAAATTTTCTT
18823555 ACCAACTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
ACAAATTTTCTTC
Found at i:18841356 original size:30 final size:30
Alignment explanation
Indices: 18841320--18841477 Score: 230
Period size: 30 Copynumber: 5.3 Consensus size: 30
18841310 GACGCAAATA
18841320 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
*
18841350 GGGAGACCTGCTCCTGCTTCTTCGGTTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
18841380 GGGAGACCTGCTCCTGCTTCTAT-GATTTCT
1 GGGAGACCTGCTCCTGCTTCT-TCGATTTCT
* * *
18841410 AGGAGACCTGCTCCTACTTCTACGATTTCT
1 GGGAGACCTGCTCCTGCTTCTTCGATTTCT
* *
18841440 GGGAGACCTGCTTCTGCTTC-TCTGGTTTCT
1 GGGAGACCTGCTCCTGCTTCTTC-GATTTCT
18841470 GGGAGACC
1 GGGAGACC
18841478 AACTAAAACA
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
29 1 0.01
30 113 0.98
31 1 0.01
ACGTcount: A:0.12, C:0.28, G:0.25, T:0.35
Consensus pattern (30 bp):
GGGAGACCTGCTCCTGCTTCTTCGATTTCT
Found at i:18842426 original size:20 final size:22
Alignment explanation
Indices: 18842387--18842428 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
18842377 AATTCTAAAC
18842387 TTGCTAAACATACAACAGATAA
1 TTGCTAAACATACAACAGATAA
*
18842409 TTGC-AAAC-TACAAGAGATAA
1 TTGCTAAACATACAACAGATAA
18842429 AGACTCGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (22 bp):
TTGCTAAACATACAACAGATAA
Found at i:18846499 original size:8 final size:8
Alignment explanation
Indices: 18846486--18846516 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
18846476 TTACATTTTA
*
18846486 AATATTTT
1 AATATTAT
18846494 AATATTAT
1 AATATTAT
18846502 AATATTAT
1 AATATTAT
18846510 AATATTA
1 AATATTA
18846517 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
AATATTAT
Found at i:18846539 original size:25 final size:25
Alignment explanation
Indices: 18846498--18846545 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
18846488 TATTTTAATA
*
18846498 TTATAATATTATAATATTAATTTAT
1 TTATAATATTATAATATGAATTTAT
18846523 TTATAATA-TATATATATGAATTT
1 TTATAATATTATA-ATATGAATTT
18846546 GAAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTATAATATTATAATATGAATTTAT
Found at i:18850730 original size:18 final size:18
Alignment explanation
Indices: 18850707--18850765 Score: 118
Period size: 18 Copynumber: 3.3 Consensus size: 18
18850697 GTCCTAAAGC
18850707 ATCAAAATTCTTATCTTA
1 ATCAAAATTCTTATCTTA
18850725 ATCAAAATTCTTATCTTA
1 ATCAAAATTCTTATCTTA
18850743 ATCAAAATTCTTATCTTA
1 ATCAAAATTCTTATCTTA
18850761 ATCAA
1 ATCAA
18850766 CTTCCACTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.42
Consensus pattern (18 bp):
ATCAAAATTCTTATCTTA
Found at i:18852275 original size:13 final size:13
Alignment explanation
Indices: 18852257--18852287 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
18852247 GTAACACACT
18852257 TCGCCCGTATCCC
1 TCGCCCGTATCCC
18852270 TCGCCCGTATCCC
1 TCGCCCGTATCCC
18852283 TCGCC
1 TCGCC
18852288 AGAACAGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.55, G:0.16, T:0.23
Consensus pattern (13 bp):
TCGCCCGTATCCC
Found at i:18853933 original size:28 final size:28
Alignment explanation
Indices: 18853865--18853943 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
18853855 GAATCATTCG
* *
18853865 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
18853893 ATATCTCCCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
18853921 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
18853944 ATTGATTGCC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:18858718 original size:16 final size:17
Alignment explanation
Indices: 18858692--18858729 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
18858682 TTTGCAACGT
18858692 TTTTTTAAGGTTTAAGG
1 TTTTTTAAGGTTTAAGG
*
18858709 TTTTTT-AGGTTTAGGG
1 TTTTTTAAGGTTTAAGG
18858725 TTTTT
1 TTTTT
18858730 AGGGTTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.61
Consensus pattern (17 bp):
TTTTTTAAGGTTTAAGG
Found at i:18858729 original size:33 final size:33
Alignment explanation
Indices: 18858693--18858780 Score: 97
Period size: 32 Copynumber: 2.7 Consensus size: 33
18858683 TTGCAACGTT
**
18858693 TTTTTAAGGTTTAAGGTTTTTTA-GGTTTAGGG
1 TTTTTAAGGTTTAAGGTTTTAGATGGTTTAGGG
* * * *
18858725 TTTTTAGGGTTTTAGGGTTTAGATTGTTTAGGG
1 TTTTTAAGGTTTAAGGTTTTAGATGGTTTAGGG
*
18858758 TTTTTAGTGGTTTAAGGTTTTAG
1 TTTTTA-AGGTTTAAGGTTTTAG
18858781 GGTTTTTAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 18 0.40
33 14 0.31
34 13 0.29
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (33 bp):
TTTTTAAGGTTTAAGGTTTTAGATGGTTTAGGG
Found at i:18858735 original size:16 final size:16
Alignment explanation
Indices: 18858693--18858785 Score: 82
Period size: 17 Copynumber: 5.8 Consensus size: 16
18858683 TTGCAACGTT
* *
18858693 TTTTTAAGGTTTAAGGT
1 TTTTTAGGGTTT-AGGG
18858710 TTTTTA-GGTTTAGGG
1 TTTTTAGGGTTTAGGG
18858725 TTTTTAGGGTTTTAGGG
1 TTTTTAGGG-TTTAGGG
** **
18858742 TTTAGATTGTTTAGGG
1 TTTTTAGGGTTTAGGG
*
18858758 TTTTTAGTGGTTTAAGG
1 TTTTTAG-GGTTTAGGG
18858775 -TTTTAGGGTTT
1 TTTTTAGGGTTT
18858786 TTAAGGAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
15 14 0.22
16 24 0.38
17 25 0.40
ACGTcount: A:0.16, C:0.00, G:0.30, T:0.54
Consensus pattern (16 bp):
TTTTTAGGGTTTAGGG
Found at i:18858739 original size:8 final size:8
Alignment explanation
Indices: 18858718--18858786 Score: 61
Period size: 8 Copynumber: 8.4 Consensus size: 8
18858708 GTTTTTTAGG
18858718 TTTAGGGTT
1 TTTAGGG-T
18858727 TTTAGGGT
1 TTTAGGGT
18858735 TTTAGGG-
1 TTTAGGGT
**
18858742 TTTAGATT
1 TTTAGGGT
18858750 GTTTAGGGTT
1 -TTTAGGG-T
18858760 TTTAGTGG-
1 TTTAG-GGT
*
18858768 TTTAAGGT
1 TTTAGGGT
18858776 TTTAGGGT
1 TTTAGGGT
18858784 TTT
1 TTT
18858787 TAAGGAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
7 7 0.14
8 22 0.45
9 17 0.35
10 3 0.06
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (8 bp):
TTTAGGGT
Found at i:18858743 original size:24 final size:23
Alignment explanation
Indices: 18858711--18858786 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 23
18858701 GTTTAAGGTT
18858711 TTTTA-GGTTTAGGGTTTTTAGGG
1 TTTTAGGGTTTA-GGTTTTTAGGG
*
18858734 TTTTAGGGTTTAGATTGTTTAGGG
1 TTTTAGGGTTTAGGTT-TTTAGGG
18858758 TTTTTAGTGGTTTAAGG-TTTTAGGG
1 -TTTTAG-GGTTT-AGGTTTTTAGGG
18858783 TTTT
1 TTTT
18858787 TAAGGAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
23 8 0.17
24 17 0.37
25 13 0.28
26 6 0.13
27 2 0.04
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (23 bp):
TTTTAGGGTTTAGGTTTTTAGGG
Found at i:18858973 original size:162 final size:162
Alignment explanation
Indices: 18858759--18859137 Score: 627
Period size: 162 Copynumber: 2.4 Consensus size: 162
18858749 TGTTTAGGGT
* * * *
18858759 TTTTAGTGGTTTAAGG-TTTTAG-GGTTTTTAAGGAAAAAATTAATGTACACTTAGAGTTGAGGG
1 TTTTAGTGGTTTAGGGTTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGG
18858822 TTAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTCGAGTTTTTTAA
66 TTAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTCGAGTTTTTTAA
*
18858887 GGTTAGGGTTTTTGATTGTTTTAGAGTTACGA
131 AGTTAGGGTTTTTGATTGTTTTAGAGTTACGA
*
18858919 TTTTAGTGGTTTAGGGTTTTTAGTGATTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGG
1 TTTTAGTGGTTTAGGGTTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGG
* *
18858984 TTAATTAATTAAATTAAGTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTTGAGTTTTTTAA
66 TTAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTCGAGTTTTTTAA
* * *
18859049 AGTTAGGGTTTTTGATTGTTTTAGGGTTAGGG
131 AGTTAGGGTTTTTGATTGTTTTAGAGTTACGA
* *
18859081 TTTTAGTGGTTTAGGGTTTTTAGTGGTTTTTAAGGGAGAAATTAATAAACGCTTAGA
1 TTTTAGTGGTTTAGGGTTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGA
18859138 AATTAATGAA
Statistics
Matches: 203, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
160 15 0.07
161 6 0.03
162 182 0.90
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (162 bp):
TTTTAGTGGTTTAGGGTTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACACTTAGAGTTGAGGG
TTAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTCGAGTTTTTTAA
AGTTAGGGTTTTTGATTGTTTTAGAGTTACGA
Found at i:18859070 original size:24 final size:24
Alignment explanation
Indices: 18859023--18859084 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
18859013 AAAAAATCAA
18859023 TTAAA-TTAGGG-TTTTGAGTTTT
1 TTAAAGTTAGGGTTTTTGAGTTTT
18859045 TTAAAGTTAGGGTTTTTGA-TTGTT
1 TTAAAGTTAGGGTTTTTGAGTT-TT
**
18859069 TTAGGGTTAGGGTTTT
1 TTAAAGTTAGGGTTTT
18859085 AGTGGTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 5 0.14
23 8 0.23
24 22 0.63
ACGTcount: A:0.19, C:0.00, G:0.27, T:0.53
Consensus pattern (24 bp):
TTAAAGTTAGGGTTTTTGAGTTTT
Found at i:18859092 original size:23 final size:22
Alignment explanation
Indices: 18859028--18859098 Score: 70
Period size: 24 Copynumber: 3.1 Consensus size: 22
18859018 ATCAATTAAA
* **
18859028 TTAGGGTTTTGAGTTTTTTAAAG
1 TTAGGGTTTT-AGTGTTTTAGGG
*
18859051 TTAGGGTTTTTGATTGTTTTAGGG
1 TTAGGG-TTTT-AGTGTTTTAGGG
*
18859075 TTAGGGTTTTAGTGGTTTAGGG
1 TTAGGGTTTTAGTGTTTTAGGG
18859097 TT
1 TT
18859099 TTTAGTGGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 12 0.29
23 10 0.24
24 19 0.46
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.52
Consensus pattern (22 bp):
TTAGGGTTTTAGTGTTTTAGGG
Found at i:18859103 original size:17 final size:16
Alignment explanation
Indices: 18859066--18859109 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
18859056 GTTTTTGATT
18859066 GTTTTAG-GG-TTAGG
1 GTTTTAGTGGTTTAGG
18859080 GTTTTAGTGGTTTAGG
1 GTTTTAGTGGTTTAGG
18859096 GTTTTTAGTGGTTT
1 G-TTTTAGTGGTTT
18859110 TTAAGGGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.26
15 2 0.07
16 6 0.22
17 12 0.44
ACGTcount: A:0.11, C:0.00, G:0.36, T:0.52
Consensus pattern (16 bp):
GTTTTAGTGGTTTAGG
Found at i:18859357 original size:126 final size:125
Alignment explanation
Indices: 18859152--18859486 Score: 447
Period size: 126 Copynumber: 2.7 Consensus size: 125
18859142 AATGAACACA
* * * * * * **
18859152 TTCAAGAATGATGCACTTTCAGCAAAATTTCAGAAAAAAGCTTCCACGTGGATGCTCTTTTATTA
1 TTCAAGAAGGATGCACTTTCAGTAAAATTTCGGAAAAAAGCTCCCATGT-GACGCTCTTTTGCTA
* * * *
18859217 TAGTGATATTTGATAAAATAATTTTGAGAAGATATTTCTGAATAAATAGTGTCAAAAACGC
65 TAGTGGTATCTGATAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAACGC
* * *
18859278 TTCAAGAAGGATGCACTTTCAGTAAAATTTTGGAAAAAACCTCCCATGTGAACGCTGTTTTGCTA
1 TTCAAGAAGGATGCACTTTCAGTAAAATTTCGGAAAAAAGCTCCCATGTG-ACGCTCTTTTGCTA
* * *
18859343 CAGTGGTCTCTGATAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGC
65 TAGTGGTATCTGATAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAACGC
*
18859404 TTCAAGAAGGATGCATTTTCAGTAAAATTTCGGAAAAAAGCTCCCACAT-TGACGCTCTTTTGCT
1 TTCAAGAAGGATGCACTTTCAGTAAAATTTCGGAAAAAAGCT-CC-CATGTGACGCTCTTTTGCT
*
18859468 ATAGTGGTATCTGAAAAAA
64 ATAGTGGTATCTGATAAAA
18859487 CCTTAGACTA
Statistics
Matches: 181, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
125 1 0.01
126 173 0.96
127 4 0.02
128 3 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (125 bp):
TTCAAGAAGGATGCACTTTCAGTAAAATTTCGGAAAAAAGCTCCCATGTGACGCTCTTTTGCTAT
AGTGGTATCTGATAAAATAATTTTGAGAAGATATTTCTAAACAAATAGTGTCAAAAACGC
Found at i:18862689 original size:21 final size:21
Alignment explanation
Indices: 18862664--18862710 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18862654 TGGTTCAGCT
*
18862664 TCCGGCGAGGG-TTGTGGTTGC
1 TCCGGCG-GGGATTGTGGTTCC
*
18862685 TCCGGTGGGGATTGTGGTTCC
1 TCCGGCGGGGATTGTGGTTCC
18862706 TCCGG
1 TCCGG
18862711 TAGGGGATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.04, C:0.21, G:0.45, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGGATTGTGGTTCC
Found at i:18862711 original size:21 final size:22
Alignment explanation
Indices: 18862675--18862718 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
18862665 CCGGCGAGGG
*
18862675 TTGTGGTTGCTCCGGT-GGGGA
1 TTGTGGTTCCTCCGGTAGGGGA
18862696 TTGTGGTTCCTCCGGTAGGGGA
1 TTGTGGTTCCTCCGGTAGGGGA
18862718 T
1 T
18862719 CTGGTTGTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.07, C:0.16, G:0.43, T:0.34
Consensus pattern (22 bp):
TTGTGGTTCCTCCGGTAGGGGA
Found at i:18862723 original size:21 final size:21
Alignment explanation
Indices: 18862678--18862724 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
18862668 GCGAGGGTTG
* *
18862678 TGGTTGCTCCGGTGGGGATTG
1 TGGTTCCTCCGGTGGGGATTC
18862699 TGGTTCCTCCGGTAGGGGA-TC
1 TGGTTCCTCCGGT-GGGGATTC
18862720 TGGTT
1 TGGTT
18862725 GTGGGTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.06, C:0.17, G:0.43, T:0.34
Consensus pattern (21 bp):
TGGTTCCTCCGGTGGGGATTC
Found at i:18863636 original size:7 final size:7
Alignment explanation
Indices: 18863624--18863656 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
18863614 TTATATAGGC
18863624 AATACTA
1 AATACTA
18863631 AATACTA
1 AATACTA
18863638 AATACTA
1 AATACTA
18863645 AATACTA
1 AATACTA
18863652 AATAC
1 AATAC
18863657 GAAACGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:18864836 original size:22 final size:21
Alignment explanation
Indices: 18864808--18864849 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
18864798 GCTTTTTTGC
18864808 AAAAATT-AGAGACAACTTTGAT
1 AAAAATTGAGAGA-AA-TTTGAT
18864830 AAAAATTGAGAGAAATTTGA
1 AAAAATTGAGAGAAATTTGA
18864850 GAGAATTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.52, C:0.05, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAAATTGAGAGAAATTTGAT
Found at i:18868164 original size:26 final size:26
Alignment explanation
Indices: 18868135--18868242 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
18868125 TGGTACAAAT
18868135 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18868161 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18868187 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18868213 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18868239 TGAT
1 TGAT
18868243 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18869921 original size:54 final size:54
Alignment explanation
Indices: 18869838--18869978 Score: 241
Period size: 54 Copynumber: 2.6 Consensus size: 54
18869828 AGGAAGCGTC
18869838 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
18869891 CTTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 C-TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
18869946 CTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
18869979 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
53 7 0.08
54 75 0.89
55 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:18869989 original size:27 final size:27
Alignment explanation
Indices: 18869838--18869996 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
18869828 AGGAAGCGTC
*
18869838 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
18869865 CTGGTGGCTCTGCCACATATATCTGTCT
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
18869893 -TGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
18869919 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
18869946 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
18869973 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
18869997 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 11 0.09
27 103 0.88
28 3 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:18869990 original size:81 final size:80
Alignment explanation
Indices: 18869838--18869996 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 80
18869828 AGGAAGCGTC
* *
18869838 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCTTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTATTGGTGACTAT
18869903 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
18869919 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGTAT-TGGTGACT
*
18869982 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
18869997 GCAGCCTCGC
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
80 18 0.26
81 52 0.74
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTATTGGTGACTAT
GCCACAATATCTGAT
Found at i:18875206 original size:11 final size:11
Alignment explanation
Indices: 18875187--18875235 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
18875177 CCTTTTATAC
*
18875187 TAAATAAATAA
1 TAAAAAAATAA
18875198 TAAAAAAATAA
1 TAAAAAAATAA
**
18875209 TAATGAAATAA
1 TAAAAAAATAA
18875220 TAAAAAAATAA
1 TAAAAAAATAA
18875231 TAAAA
1 TAAAA
18875236 TATCTCATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:18875220 original size:22 final size:22
Alignment explanation
Indices: 18875192--18875233 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
18875182 TATACTAAAT
18875192 AAATAATAAAAAAATAATAATG
1 AAATAATAAAAAAATAATAATG
18875214 AAATAATAAAAAAATAATAA
1 AAATAATAAAAAAATAATAA
18875234 AATATCTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAATAATAAAAAAATAATAATG
Found at i:18875224 original size:19 final size:19
Alignment explanation
Indices: 18875196--18875237 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18875186 CTAAATAAAT
* *
18875196 AATAAAAAAATAATAATGA
1 AATAAAAAAAAAATAATAA
*
18875215 AATAATAAAAAAATAATAA
1 AATAAAAAAAAAATAATAA
18875234 AATA
1 AATA
18875238 TCTCATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAAAAAAATAATAA
Found at i:18880414 original size:17 final size:18
Alignment explanation
Indices: 18880392--18880439 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
18880382 CAAATAAAAA
18880392 TATATAATAATATAAAT-
1 TATATAATAATATAAATG
*
18880409 TATATAAT-ATAAAAATG
1 TATATAATAATATAAATG
18880426 TATAT-ATAATATAA
1 TATATAATAATATAA
18880440 TATATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
TATATAATAATATAAATG
Found at i:18880417 original size:14 final size:16
Alignment explanation
Indices: 18880384--18880446 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
18880374 ATAATTTACA
*
18880384 AATAAAAATATATAAT
1 AATATAAATATATAAT
18880400 AATATAAATTATATAAT
1 AATATAAA-TATATAAT
* *
18880417 -ATAAAAATGTATATAT
1 AATATAAATATATA-AT
18880433 AATAT-AATATATAA
1 AATATAAATATATAA
18880447 AAAATATTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 6 0.15
16 22 0.56
17 11 0.28
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AATATAAATATATAAT
Found at i:18880417 original size:24 final size:24
Alignment explanation
Indices: 18880383--18880448 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
18880373 CATAATTTAC
18880383 AAATAA-A-AATATATAATAA-TAT
1 AAATAATATAATATATAA-AAGTAT
*
18880405 AAATTATATAATATA-AAAATGTAT
1 AAATAATATAATATATAAAA-GTAT
*
18880429 ATATAATATAATATATAAAA
1 AAATAATATAATATATAAAA
18880449 AATATTATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 7 0.19
23 3 0.08
24 22 0.61
25 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAATATAATATATAAAAGTAT
Found at i:18882751 original size:173 final size:173
Alignment explanation
Indices: 18882473--18882856 Score: 524
Period size: 176 Copynumber: 2.2 Consensus size: 173
18882463 CGTAAACGCG
* * * * * *
18882473 TGAAAGCCAAATCTGTTGTGTCTTCGATTTGCTCCTTGTGAACATAAGGATGCCAAATCATCTTG
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTTCTTGTAAACATAAGAATGCCAAATCATCTTG
* * * *
18882538 GATCTGCTTCAGTAAAATCGTCTGAAAGTTAGATCTGCTATGTA-GCTCTCTATTGAAATGGAGA
66 GATCTGCTTCAGTAAAATCCTCTGAAAGTTAGACCTGCTATGTACGCTCTCCATCGAAATGGAGA
* * *
18882602 TGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACAT-
131 TGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATC
*
18882644 TCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTTCTTGTAAACATAAGAATGCCCAAATCATCT
1 T-GAAAGTCAAATCTGCTATGTCTTCGATTTGCTTCTTGTAAACATAAGAATG-CCAAATCATCT
* *
18882709 TGGATCTGCTTCAGTATAAA-CACT-TGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAA
64 TGGATCTGCTTCAGTA-AAATC-CTCTGAAAGTTAGACCTGCTATGTA-C-GCTCTCCATCGAAA
18882772 TGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATC
125 TGGAGATGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATC
* *
18882821 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTTCT
1 TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTTCT
18882857 CATCGAAGAT
Statistics
Matches: 186, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
171 1 0.01
172 44 0.24
173 48 0.26
174 4 0.02
176 88 0.47
177 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (173 bp):
TGAAAGTCAAATCTGCTATGTCTTCGATTTGCTTCTTGTAAACATAAGAATGCCAAATCATCTTG
GATCTGCTTCAGTAAAATCCTCTGAAAGTTAGACCTGCTATGTACGCTCTCCATCGAAATGGAGA
TGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATC
Found at i:18882880 original size:176 final size:172
Alignment explanation
Indices: 18882474--18882934 Score: 507
Period size: 176 Copynumber: 2.6 Consensus size: 172
18882464 GTAAACGCGT
* * * * * ** * *
18882474 GAAAGCCAAATCTGTTGTGTCTTCGATTTGCTCCTTGTGAACATAAGGATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCAATTTGCTTCTCATAAACATAAGAATGCCAAATCATCTTGG
* * * *
18882539 ATCTGCTTCAGTA-AAATC-GTCTGAAAGTTAGATCTGCTATGTAGCTCTCTATTGAAATGGAGA
66 ATCTGCTTCAGTATAAA-CACT-TGAAGGTTAGATCTGCTATGTAGCTCTCCATCGAAATGGAGA
* * *
18882602 TGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATTC
129 TGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATTC
* * **
18882646 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTTCTTGTAAACATAAGAATGCCCAAATCATCTTG
1 GAAAGTCAAATCTGCTATGTCTTCAATTTGCTTCTCATAAACATAAGAATG-CCAAATCATCTTG
* *
18882711 GATCTGCTTCAGTATAAACACTTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGA
65 GATCTGCTTCAGTATAAACACTTGAAGGTTAGATCTGCTATGTA---GCTCTCCATCGAAATGGA
18882776 GATGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACA-TC
127 GATGCCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATTC
* * *
18882821 TGAAAGTCAGATCTGCTATGTCTTCAATTTGCTTCTCATCGAAGATAGAGAA-GCCAAATCTTGT
1 -GAAAGTCAAATCTGCTATGTCTTCAATTTGCTTCTCAT-AAACATA-AGAATGCCAAATC----
* * * *
18882885 TATCTTGGACCTGCTTCAGTGTAAACACGTGAAGGCTAGATCTGCTATGT
59 -ATCTTGGATCTGCTTCAGTATAAACACTTGAAGGTTAGATCTGCTATGT
18882935 TTTGGTCTGT
Statistics
Matches: 247, Mismatches: 28, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
172 44 0.18
173 48 0.19
174 4 0.02
175 2 0.01
176 95 0.38
177 6 0.02
178 4 0.02
181 44 0.18
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (172 bp):
GAAAGTCAAATCTGCTATGTCTTCAATTTGCTTCTCATAAACATAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACACTTGAAGGTTAGATCTGCTATGTAGCTCTCCATCGAAATGGAGATG
CCAGATCTGTTATCTTGGATCTGCTTTGATATGAAAACATTC
Found at i:18894996 original size:16 final size:16
Alignment explanation
Indices: 18894975--18895044 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
18894965 CAACATAATT
18894975 TAAAAATAAAAATATA
1 TAAAAATAAAAATATA
*
18894991 TAAAAATATAAAT-TA
1 TAAAAATAAAAATATA
* *
18895006 TATAATATAAAAATGTA
1 TA-AAAATAAAAATATA
* *
18895023 TATATAAT-ATAATATA
1 TA-AAAATAAAAATATA
18895039 TAAAAA
1 TAAAAA
18895045 ATATTATGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
15 7 0.16
16 29 0.66
17 8 0.18
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (16 bp):
TAAAAATAAAAATATA
Found at i:18895012 original size:24 final size:24
Alignment explanation
Indices: 18894978--18895044 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
18894968 CATAATTTAA
18894978 AAATAA-A-AATATATAAAAATAT
1 AAATAATATAATATATAAAAATAT
* *
18895000 AAATTATATAATATA-AAAATGTAT
1 AAATAATATAATATATAAAA-ATAT
*
18895024 ATATAATATAATATATAAAAA
1 AAATAATATAATATATAAAAA
18895045 ATATTATGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 5 0.14
23 5 0.14
24 22 0.61
25 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (24 bp):
AAATAATATAATATATAAAAATAT
Found at i:18895200 original size:101 final size:102
Alignment explanation
Indices: 18894975--18895210 Score: 247
Period size: 101 Copynumber: 2.3 Consensus size: 102
18894965 CAACATAATT
*
18894975 TAAAAATAAAAATATATAAAAAT-ATAAATTATATAATATAAAAATGTATATATAATATAATATA
1 TAAAAATAAAAATATATAAATATAATAAA--ATATAATATAAAAATGTATATATAATATAATATA
*
18895039 TAAAAAATATTATGACAGATAGTAAAATATAATATGTAA
64 TAAAAAATATTATGACAGATAGTAAAATATAATATGAAA
* * *
18895078 TAAAAAT--ACATAAATAAATATAATAAAATATAATATGAAATATGTATA-ATAATAATAATAAT
1 TAAAAATAAAAATATATAAATATAATAAAATATAATAT-AAAAATGTATATATAAT-ATAAT-AT
* * * * *
18895140 GTAACAAATATT-TTACATATA-T-GAATAT-A-ATGAAA
63 ATAAAAAATATTATGACAGATAGTAAAATATAATATGAAA
*
18895175 TAAATAATAAAAATATATAACATATAATAATATATA
1 TAAA-AATAAAAATATATAA-ATATAATAAAATATA
18895211 TTGTTACAAG
Statistics
Matches: 112, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
97 9 0.08
98 4 0.04
99 5 0.04
100 23 0.21
101 47 0.42
102 17 0.15
103 7 0.06
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (102 bp):
TAAAAATAAAAATATATAAATATAATAAAATATAATATAAAAATGTATATATAATATAATATATA
AAAAATATTATGACAGATAGTAAAATATAATATGAAA
Found at i:18905834 original size:40 final size:40
Alignment explanation
Indices: 18905754--18905835 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
18905744 AACATAAGTA
* * *
18905754 ATAAGTAATAACTAACCCAAAAGTCTGGAAATCTGTTTTT
1 ATAAGTAACAACTAACCCAAAAGTCTAGAAATCTGCTTTT
* * *
18905794 ATAAGTAACAAGTAATCCAAAAGTC-AGAAGGTCTGCTTTT
1 ATAAGTAACAACTAACCCAAAAGTCTAGAA-ATCTGCTTTT
18905834 AT
1 AT
18905836 TTTCTAAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.09
40 32 0.91
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (40 bp):
ATAAGTAACAACTAACCCAAAAGTCTAGAAATCTGCTTTT
Found at i:18908553 original size:66 final size:66
Alignment explanation
Indices: 18908446--18908580 Score: 225
Period size: 66 Copynumber: 2.0 Consensus size: 66
18908436 TGAGTGTCAA
* * *
18908446 AAAATTACATGAAGACCATCTCAACAAGTTTTGTAATTATCTCCAAAGAACATTACTTCCTATAA
1 AAAATTACATGAAGACAATCTCAACAAGTTTTGTAACTATCTCCAAAGAACATTAATTCCTATAA
18908511 C
66 C
* *
18908512 AAAATTACATGAAGACAATCTCAACGAGTTTTGTGACTATCTCCAAAGAACATTAATTCCTATAA
1 AAAATTACATGAAGACAATCTCAACAAGTTTTGTAACTATCTCCAAAGAACATTAATTCCTATAA
18908577 C
66 C
18908578 AAA
1 AAA
18908581 CTTAAAAGGG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (66 bp):
AAAATTACATGAAGACAATCTCAACAAGTTTTGTAACTATCTCCAAAGAACATTAATTCCTATAA
C
Found at i:18921387 original size:69 final size:69
Alignment explanation
Indices: 18921275--18921567 Score: 304
Period size: 69 Copynumber: 4.2 Consensus size: 69
18921265 TTTCGTCTGT
* * * * * * **
18921275 AAACCTTAATTGTACAGTTGGGAGCTTTTCTCTCGCTAACTATTTTGGAGGTCGCGGCTCTTCAC
1 AAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCGCTAACTATTTTAGAGGTCGCGGCTCTTTGC
*
18921340 ATAC
66 CTAC
* * * *
18921344 GAACCTTGATTTTATAGCTGAGAGCTTTGCTCTCGCTAACTATTTTGGAGGTCGCAGCTCTTTGC
1 AAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCGCTAACTATTTTAGAGGTCGCGGCTCTTTGC
*
18921409 CTAT
66 CTAC
* * * * *
18921413 AAACCTTGATTTTACATCTGGGAGCTTTGCTCTCACTAACTATTTTAGAGGTCGTGGCTTTTTGC
1 AAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCGCTAACTATTTTAGAGGTCGCGGCTCTTTGC
18921478 CTAC
66 CTAC
* * * ** **
18921482 AAACCTTGATTTTACAGCT-AGGAGCTTTGCTCTTGCTAGCTGTTTTAGAGGTTACAACT-TTT-
1 AAACCTTGATTTTACAGCTGA-GAGCTTTGCTCTCGCTAACTATTTTAGAGGTCGCGGCTCTTTG
18921544 CATCTAC
65 C--CTAC
18921551 AAACCTTGATTTTACAG
1 AAACCTTGATTTTACAG
18921568 TTGGAAGCTT
Statistics
Matches: 188, Mismatches: 33, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
67 1 0.01
68 3 0.02
69 184 0.98
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (69 bp):
AAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCGCTAACTATTTTAGAGGTCGCGGCTCTTTGC
CTAC
Found at i:18921555 original size:138 final size:138
Alignment explanation
Indices: 18921275--18921579 Score: 357
Period size: 138 Copynumber: 2.2 Consensus size: 138
18921265 TTTCGTCTGT
* * * * *
18921275 AAACCTTAATTGTACAGTTGGGAGCTTTTCTCTCGCTAACTATTTTGGAGGTCGCGGCTCTTCAC
1 AAACCTTGATTTTACAGTTGGGAGCTTTGCTCTCACTAACTATTTTAGAGGTCGCGGCTCTTCAC
* * * * *
18921340 ATACGAACCTTGATTTTATAGCTGAGAGCTTTGCTCTCGCTAACTATTTTGGAGGTCGCAGCTCT
66 ATACAAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCGCTAACTATTTTAGAGGTCACAACTCT
*
18921405 TTGCCTAT
131 TTGCCTAC
* * **
18921413 AAACCTTGATTTTACA-TCTGGGAGCTTTGCTCTCACTAACTATTTTAGAGGTCGTGGCTTTTTG
1 AAACCTTGATTTTACAGT-TGGGAGCTTTGCTCTCACTAACTATTTTAGAGGTCGCGGCTCTTCA
* * * * *
18921477 CCTACAAACCTTGATTTTACAGCT-AGGAGCTTTGCTCTTGCTAGCTGTTTTAGAGGTTACAACT
65 CATACAAACCTTGATTTTACAGCTGA-GAGCTTTGCTCTCGCTAACTATTTTAGAGGTCACAACT
18921541 -TTT-CATCTAC
129 CTTTGC--CTAC
*
18921551 AAACCTTGATTTTACAGTTGGAAGCTTTG
1 AAACCTTGATTTTACAGTTGGGAGCTTTG
18921580 GAGGTTACAA
Statistics
Matches: 141, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
136 1 0.01
137 5 0.04
138 134 0.95
139 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (138 bp):
AAACCTTGATTTTACAGTTGGGAGCTTTGCTCTCACTAACTATTTTAGAGGTCGCGGCTCTTCAC
ATACAAACCTTGATTTTACAGCTGAGAGCTTTGCTCTCGCTAACTATTTTAGAGGTCACAACTCT
TTGCCTAC
Found at i:18921589 original size:51 final size:51
Alignment explanation
Indices: 18921529--18921630 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
18921519 AGCTGTTTTA
18921529 GAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGCTTTG
1 GAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGCTTTG
18921580 GAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGCTTTG
1 GAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGCTTTG
18921631 CTCTAGCTAA
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:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (51 bp):
GAGGTTACAACTTTTCATCTACAAACCTTGATTTTACAGTTGGAAGCTTTG
Found at i:18930651 original size:13 final size:13
Alignment explanation
Indices: 18930618--18930651 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
18930608 ATCAAATAAT
18930618 ATTGAAGAAAACA
1 ATTGAAGAAAACA
*
18930631 ACTTGAAGAAAACC
1 A-TTGAAGAAAACA
18930645 ATTGAAG
1 ATTGAAG
18930652 TCGACTCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.18
Consensus pattern (13 bp):
ATTGAAGAAAACA
Found at i:18931168 original size:19 final size:19
Alignment explanation
Indices: 18931144--18931181 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18931134 TACTCTCGAA
*
18931144 AGAGATGTTAGTATAATTT
1 AGAGATATTAGTATAATTT
18931163 AGAGATATTAGTATAATTT
1 AGAGATATTAGTATAATTT
18931182 TACATTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (19 bp):
AGAGATATTAGTATAATTT
Found at i:18931740 original size:28 final size:28
Alignment explanation
Indices: 18931697--18931753 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
18931687 GCTAAACAAA
18931697 TTTCGGAAAGACCACAAGGTAGTTTGCC
1 TTTCGGAAAGACCACAAGGTAGTTTGCC
*
18931725 TTTCGGAAAGATCACAAGGTAGTTTGCC
1 TTTCGGAAAGACCACAAGGTAGTTTGCC
18931753 T
1 T
18931754 AGCAATACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (28 bp):
TTTCGGAAAGACCACAAGGTAGTTTGCC
Found at i:18934000 original size:25 final size:25
Alignment explanation
Indices: 18933972--18934022 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
18933962 GCTAGGGACC
*
18933972 TATATATAAATT-GGTCAAGCATGGG
1 TATATAT-AATTCGATCAAGCATGGG
18933997 TATATATAATTCGATCAAGCATGGG
1 TATATATAATTCGATCAAGCATGGG
18934022 T
1 T
18934023 TTTGTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (25 bp):
TATATATAATTCGATCAAGCATGGG
Found at i:18938035 original size:15 final size:16
Alignment explanation
Indices: 18938015--18938046 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18938005 AATAAAACAT
18938015 AAAAAC-AAAAAGAAA
1 AAAAACTAAAAAGAAA
18938030 AAAAACTAAAAAGAAA
1 AAAAACTAAAAAGAAA
18938046 A
1 A
18938047 GAAATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.84, C:0.06, G:0.06, T:0.03
Consensus pattern (16 bp):
AAAAACTAAAAAGAAA
Found at i:18941220 original size:22 final size:23
Alignment explanation
Indices: 18941195--18941239 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
18941185 ACTTTAGCCA
18941195 TTTTTATTTCAATT-TAATTTTG
1 TTTTTATTTCAATTATAATTTTG
*
18941217 TTTTTATTTTAATTACTAATTTT
1 TTTTTATTTCAATTA-TAATTTT
18941240 TCTTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTTATTTCAATTATAATTTTG
Found at i:18944989 original size:15 final size:16
Alignment explanation
Indices: 18944955--18944994 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
18944945 TATCCCTCCA
*
18944955 AATTATTATTATTATG
1 AATTATTATTATTAGG
18944971 -ATTATTATTATT-GG
1 AATTATTATTATTAGG
18944985 AATTATTATT
1 AATTATTATT
18944995 TTGTTATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (16 bp):
AATTATTATTATTAGG
Found at i:18953699 original size:27 final size:27
Alignment explanation
Indices: 18953669--18953846 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
18953659 ATATCGAGTC
* * * *
18953669 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
18953696 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18953723 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
18953751 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
18953778 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
18953805 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
18953832 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
18953847 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:18953808 original size:82 final size:81
Alignment explanation
Indices: 18953690--18953845 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
18953680 TGCTATATAA
*
18953690 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
18953755 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
18953772 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
18953836 CACTTAGTGC
65 CACTTAGTGC
18953846 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:18954689 original size:20 final size:21
Alignment explanation
Indices: 18954651--18954690 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
18954641 AAATTTTATC
*
18954651 TTATAATCATTTTTGTAAAAT
1 TTATAATCATTTTTCTAAAAT
*
18954672 TTATAATGA-TTTTCTAAAA
1 TTATAATCATTTTTCTAAAA
18954691 ACAGAACAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
TTATAATCATTTTTCTAAAAT
Found at i:18956284 original size:15 final size:15
Alignment explanation
Indices: 18956261--18956296 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
18956251 AAAACAAATA
18956261 ATAAT-AAACTAAGG
1 ATAATAAAACTAAGG
18956275 ATAATAAAACTAAGG
1 ATAATAAAACTAAGG
18956290 ATAATAA
1 ATAATAA
18956297 GAGAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (15 bp):
ATAATAAAACTAAGG
Found at i:18963500 original size:35 final size:35
Alignment explanation
Indices: 18963454--18963523 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
18963444 GAGTTAGAAC
18963454 ACAAAGCATTCTGGGCTATAAAATTTCTAAACTTT
1 ACAAAGCATTCTGGGCTATAAAATTTCTAAACTTT
18963489 ACAAAGCATTCTGGGCTATAAAATTTCTAAACTTT
1 ACAAAGCATTCTGGGCTATAAAATTTCTAAACTTT
18963524 GATCCCAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (35 bp):
ACAAAGCATTCTGGGCTATAAAATTTCTAAACTTT
Found at i:19001372 original size:24 final size:25
Alignment explanation
Indices: 19001340--19001387 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
19001330 AATTATATTA
19001340 TTATCTAAAAAATTA-ATAGATAATT
1 TTATCTAAAAAATTATAT-GATAATT
*
19001365 TTAT-TAAAATATTATATGATAAT
1 TTATCTAAAAAATTATATGATAAT
19001388 AAGTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (25 bp):
TTATCTAAAAAATTATATGATAATT
Found at i:19001639 original size:54 final size:54
Alignment explanation
Indices: 19001555--19001671 Score: 148
Period size: 54 Copynumber: 2.1 Consensus size: 54
19001545 TCCAAGCTCG
*
19001555 TGTGCTTGAAGAGGTAAAACCTATAAAGGCTT-AACTTCACTAAAATGTGA-TCTA
1 TGTGCTTGAAGAGGTAAAACCTATAAAGGCTTGAA-TTCACTAAAAAGTGAGTC-A
* * * *
19001609 TGTGCTTGAAGAGGTGAGACCTATAGAGGCTTGAATTCAGTAAAAAGTGAGTCA
1 TGTGCTTGAAGAGGTAAAACCTATAAAGGCTTGAATTCACTAAAAAGTGAGTCA
19001663 TCGTGCTTG
1 T-GTGCTTG
19001672 GAAAGTCTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
54 44 0.80
55 11 0.20
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (54 bp):
TGTGCTTGAAGAGGTAAAACCTATAAAGGCTTGAATTCACTAAAAAGTGAGTCA
Found at i:19008456 original size:29 final size:29
Alignment explanation
Indices: 19008355--19008460 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 29
19008345 CTCAGATTAC
* *
19008355 ATTTTAGTCACTTATGTTTGAAATGTTAC
1 ATTTTAGTCACTTATGTTTGAAATGCTAT
* *
19008384 ATTTTAGCCACTTAT-TGTT-AACGTGC--T
1 ATTTTAGTCACTTATGT-TTGAA-ATGCTAT
* * *
19008411 ATGTTAGCCTGATTTATGTTTGAAATGCTAT
1 ATTTTAG--TCACTTATGTTTGAAATGCTAT
19008442 ATTTTAGTCACTTATGTTT
1 ATTTTAGTCACTTATGTTT
19008461 TAATGTACAT
Statistics
Matches: 57, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
27 6 0.11
28 3 0.05
29 38 0.67
30 3 0.05
31 7 0.12
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (29 bp):
ATTTTAGTCACTTATGTTTGAAATGCTAT
Found at i:19017833 original size:31 final size:30
Alignment explanation
Indices: 19017798--19017864 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 30
19017788 AATGACTTCA
19017798 AGACT-CAAATGCAGGAAGTGTTTGATATGAC
1 AGACTGCAAAT-CAGG-AGTGTTTGATATGAC
** *
19017829 AGACTTGGGAATCATGAGTGTTTGATATGAC
1 AGAC-TGCAAATCAGGAGTGTTTGATATGAC
19017860 AGACT
1 AGACT
19017865 TGGGAATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 1 0.03
31 23 0.74
32 4 0.13
33 3 0.10
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (30 bp):
AGACTGCAAATCAGGAGTGTTTGATATGAC
Found at i:19017865 original size:31 final size:31
Alignment explanation
Indices: 19017814--19017876 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
19017804 AAATGCAGGA
19017814 AGTGTTTGATATGACAGACTTGGGAATCATG
1 AGTGTTTGATATGACAGACTTGGGAATCATG
19017845 AGTGTTTGATATGACAGACTTGGGAATCATG
1 AGTGTTTGATATGACAGACTTGGGAATCATG
19017876 A
1 A
19017877 CATACTTCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.32
Consensus pattern (31 bp):
AGTGTTTGATATGACAGACTTGGGAATCATG
Found at i:19031478 original size:21 final size:20
Alignment explanation
Indices: 19031454--19031503 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
19031444 GAATTTTATT
19031454 TAATATTTTTATAAATTTTAA
1 TAAT-TTTTTATAAATTTTAA
*
19031475 TAATGTTTTTATATA-TTT-A
1 TAAT-TTTTTATAAATTTTAA
19031494 TAATTTTTTA
1 TAATTTTTTA
19031504 AAAAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 6 0.22
19 5 0.19
20 3 0.11
21 13 0.48
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TAATTTTTTATAAATTTTAA
Found at i:19044681 original size:30 final size:29
Alignment explanation
Indices: 19044647--19044704 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
19044637 CTTCTAAAAA
* *
19044647 TATTTACAAAAAGAGACACCTAATTTTTAT
1 TATTTACAAAAAGAG-CAACTAAATTTTAT
**
19044677 TATTTATGAAAAGAGCAACTAAATTTTA
1 TATTTACAAAAAGAGCAACTAAATTTTA
19044705 AAAATAATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (29 bp):
TATTTACAAAAAGAGCAACTAAATTTTAT
Found at i:19058768 original size:27 final size:27
Alignment explanation
Indices: 19058738--19058915 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
19058728 ATATTGAGCC
* *
19058738 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19058765 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
19058792 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
19058820 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
19058847 CGCACACTTAGTGC-ATCATATTCTTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
19058874 CGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTACATAATCAACT
19058901 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19058916 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19067000 original size:27 final size:27
Alignment explanation
Indices: 19066970--19067147 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
19066960 ATATTGAGCC
* *
19066970 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19066997 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
19067024 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
19067052 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
19067079 CGCACACTTAGTGC-ATCATATTCTTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
19067106 CGCACACTTAGTGCAACATAGTTAAAT
1 CGCACACTTAGTGCTACATAATCAACT
19067133 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19067148 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19079847 original size:107 final size:108
Alignment explanation
Indices: 19079656--19079871 Score: 328
Period size: 107 Copynumber: 2.0 Consensus size: 108
19079646 TTTATGGTAT
* *
19079656 TTGAAAATTTTGTATAATATAAAAGGATTATGATAAACATAAATTCTTAACTACAACTTTATTAA
1 TTGAAAATTTTGTATAATATAAAAGGATTATGATAAACATAAACTCTTAACTACAACTTTATAAA
* *
19079721 AGATGGGTATAATTTTC-TTTCTTTTCATTGAA-TTTGTTTAGG
66 AAATGGGTAGAATTTTCTTTTCTTTTCATT-AATTTTGTTTAGG
* * * * *
19079763 TTGACAATTTTGTATAATATACAAGTATTATGATAAATATCAACTCTTAACTACAACTTTATAAA
1 TTGAAAATTTTGTATAATATAAAAGGATTATGATAAACATAAACTCTTAACTACAACTTTATAAA
19079828 AAATGGGTAGAATTTTCTTTTCTTTTCATTAATTTTGTTTAGG
66 AAATGGGTAGAATTTTCTTTTCTTTTCATTAATTTTGTTTAGG
19079871 T
1 T
19079872 AGGGATGCTT
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
107 75 0.77
108 23 0.23
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (108 bp):
TTGAAAATTTTGTATAATATAAAAGGATTATGATAAACATAAACTCTTAACTACAACTTTATAAA
AAATGGGTAGAATTTTCTTTTCTTTTCATTAATTTTGTTTAGG
Found at i:19091350 original size:21 final size:22
Alignment explanation
Indices: 19091305--19091350 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
19091295 TTAAGTTTTA
19091305 AAATTTTAAAAATAGAAAGATT
1 AAATTTTAAAAATAGAAAGATT
19091327 AAATTCTTAAAAATA-AAA-ATT
1 AAATT-TTAAAAATAGAAAGATT
19091348 AAA
1 AAA
19091351 AAATTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
AAATTTTAAAAATAGAAAGATT
Found at i:19100788 original size:29 final size:29
Alignment explanation
Indices: 19100756--19100850 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
19100746 CTACAAGCAT
19100756 CAACCAAAGCATAATTCATGACCAAATAA
1 CAACCAAAGCATAATTCATGACCAAATAA
** * ** *
19100785 CAACCAAAAAGGGTCATCTC-T-A-CAAGCAT
1 CAACC--AAAGCATAAT-TCATGACCAAATAA
*
19100814 CAACCAAAGCATAATTCATGACCAAATAG
1 CAACCAAAGCATAATTCATGACCAAATAA
19100843 CAACCAAA
1 CAACCAAA
19100851 ACCATACCCA
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
26 2 0.04
27 8 0.17
28 1 0.02
29 26 0.54
30 1 0.02
31 8 0.17
32 2 0.04
ACGTcount: A:0.48, C:0.26, G:0.09, T:0.16
Consensus pattern (29 bp):
CAACCAAAGCATAATTCATGACCAAATAA
Found at i:19100800 original size:58 final size:58
Alignment explanation
Indices: 19100730--19100851 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
19100720 AACATGCCAC
19100730 CCAAAAAGGGTCATCTCTACAAGCATCAACCAAAGCATAATTCATGACCAAATAACAA
1 CCAAAAAGGGTCATCTCTACAAGCATCAACCAAAGCATAATTCATGACCAAATAACAA
*
19100788 CCAAAAAGGGTCATCTCTACAAGCATCAACCAAAGCATAATTCATGACCAAATAGCAA
1 CCAAAAAGGGTCATCTCTACAAGCATCAACCAAAGCATAATTCATGACCAAATAACAA
19100846 CCAAAA
1 CCAAAA
19100852 CCATACCCAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.47, C:0.26, G:0.11, T:0.16
Consensus pattern (58 bp):
CCAAAAAGGGTCATCTCTACAAGCATCAACCAAAGCATAATTCATGACCAAATAACAA
Found at i:19101723 original size:43 final size:43
Alignment explanation
Indices: 19101658--19101821 Score: 134
Period size: 43 Copynumber: 3.9 Consensus size: 43
19101648 AACTCGTACA
* * * **
19101658 ATGCC-ATATCCCAAATATGGTCTTACATGTTATCAAATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCG
* * * * *
19101700 ATGCCACTGTCCCAAACAGGGTCTTACACAAAATCATATA-CT
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCG
* * ** *
19101742 ATGCCAATGTCCCACACATGGTCTTACACGTAATCTCAGATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCG
* * * * *
19101785 ATGTCAATGTCCTAGACATGGTCTTACATGATATCAA
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAA
19101822 TCTCGGAATC
Statistics
Matches: 93, Mismatches: 27, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
42 38 0.41
43 55 0.59
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCG
Found at i:19105135 original size:18 final size:18
Alignment explanation
Indices: 19105112--19105146 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19105102 TGTAAGGACT
19105112 AAATTGAAGGCAAAAAGA
1 AAATTGAAGGCAAAAAGA
**
19105130 AAATTGGGGGCAAAAAG
1 AAATTGAAGGCAAAAAG
19105147 CATGAATTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.06, G:0.29, T:0.11
Consensus pattern (18 bp):
AAATTGAAGGCAAAAAGA
Found at i:19131054 original size:20 final size:20
Alignment explanation
Indices: 19131001--19131055 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
19130991 CACTGTGATC
*
19131001 AGCAATCAAGGGCACAAAAG
1 AGCAATCAAGGGTACAAAAG
*
19131021 AGAAATCACA-GGTACAAAAG
1 AGCAATCA-AGGGTACAAAAG
* *
19131041 TGCAATCAGGGGTAC
1 AGCAATCAAGGGTAC
19131056 CGGAGTGTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AGCAATCAAGGGTACAAAAG
Found at i:19133191 original size:15 final size:15
Alignment explanation
Indices: 19133171--19133203 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
19133161 TTTGAAATCT
19133171 TTTATTT-TATTTTAC
1 TTTATTTATATTTT-C
19133186 TTTATTTATATTTTC
1 TTTATTTATATTTTC
19133201 TTT
1 TTT
19133204 CTTTCTCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTATATTTTC
Found at i:19133295 original size:58 final size:58
Alignment explanation
Indices: 19133228--19133340 Score: 190
Period size: 58 Copynumber: 1.9 Consensus size: 58
19133218 CCAAAATCCC
* *
19133228 CAAAATTCTTACGTCATATTTCTTTTCCATTCTTTTCTTTGACATCTTTCTCTTTGTA
1 CAAAATTCTTACGTCAAATTTCTTTTCCATTCATTTCTTTGACATCTTTCTCTTTGTA
* *
19133286 CAAAATTCTTATGTCAAATTTCTTTTCCATTCATTTCTTTGATATCTTTCTCTTT
1 CAAAATTCTTACGTCAAATTTCTTTTCCATTCATTTCTTTGACATCTTTCTCTTT
19133341 TCGGTAAACC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.20, C:0.21, G:0.04, T:0.54
Consensus pattern (58 bp):
CAAAATTCTTACGTCAAATTTCTTTTCCATTCATTTCTTTGACATCTTTCTCTTTGTA
Found at i:19137217 original size:40 final size:40
Alignment explanation
Indices: 19137171--19137310 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
19137161 TTAATCTCGT
* * * *
19137171 ACACTAAGTGCCATACATAGCTGAAGCTATTC-CAAATTGT
1 ACACTAAGTGCCATACATAGCCGAAGCTA-TCACGAATCGC
*
19137211 ACACTAAGTGCCATACATAGCCGAAGCTATCACGAATCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCACGAATCGC
* * *
19137251 ACATTAAGTGCCATACATAGCCGAAACTATCTCGAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCACGAATCGC
*
19137291 ACATTAAGTGCCATACATAG
1 ACACTAAGTGCCATACATAG
19137311 TCGATTTGTC
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.02
40 88 0.98
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCACGAATCGC
Done.