Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 86 of 325
Found at i:27360895 original size:93 final size:93
Alignment explanation
Indices: 27360782--27360953 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
27360772 CGCCCATAAG
* * * * *
27360782 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTTACATCCATAAGTGAACTCGGACTCAACTCA
27360847 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
27360875 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTTACATCCATAAGTGAACTCGGACTCAACTCA
27360940 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
27360954 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTTACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:27362273 original size:27 final size:27
Alignment explanation
Indices: 27362242--27362296 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
27362232 AGGATATTAC
27362242 ATGTAAGTTATGATATGATATATATTT
1 ATGTAAGTTATGATATGATATATATTT
*
27362269 ATGTAAGTTATTATATGATATATATTT
1 ATGTAAGTTATGATATGATATATATTT
27362296 A
1 A
27362297 ACATTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (27 bp):
ATGTAAGTTATGATATGATATATATTT
Found at i:27362639 original size:14 final size:14
Alignment explanation
Indices: 27362620--27362666 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
27362610 CATGGAAAAT
27362620 ATTATTTTAATTAA
1 ATTATTTTAATTAA
27362634 ATTATTTTAATTAA
1 ATTATTTTAATTAA
* *
27362648 ATAATATTTAAATAA
1 ATTAT-TTTAATTAA
27362663 ATTA
1 ATTA
27362667 ATCCAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTATTTTAATTAA
Found at i:27362649 original size:177 final size:175
Alignment explanation
Indices: 27362458--27363104 Score: 813
Period size: 177 Copynumber: 3.7 Consensus size: 175
27362448 TGAAAAAAAT
* * *
27362458 TTATTTTTATTAAATAATATTTAAATAAATTAATCTAAATTATATAATTTAAAAAATTGTTTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* *
27362523 AAAATTTGAAAATCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAAGAAAAATAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAA-AAAAATAA
*
27362588 AATTTGACAATGCGAAAAATCACATGGAAAATATTATTTTAATTAAA
130 AATTTGACGATGCGAAAAATCACATGGAAAATATTATTTTAA-TAAA
*
27362635 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTTAAAAATTGTGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* * * * *
27362700 AAAAGTTGAAAACCGTATAAGTTAAAATTTTAACTTTGTTCCATGGAAAAAAAGAATAAAAATAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAA-AAAAATAA
* *
27362765 AATTTGACGATGCGGAAAATCAGATGGAAAAAAAATATTTTGATTAAATAATATTTAAATAAA
130 AATTTGACGATGCGAAAAATCACATGG-----AAA-A---T-A-T---T-AT-TTT-AATAAA
* *
27362828 TTATTTTAATTAAATAATATTTAAATAAATTAATTCAAATTATATAATTTAAAAATTTGTGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
*
27362893 AAAAGTTGAAAACTGTATAAGATGAAATGTCAACTTTGTTCCATGG-AAAAAAT---AAAATAAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAAAAAAATAAA
*
27362954 ATTTGATGATGCGAAAAATCACAT-G-AAA-A--A----AA-AAA
131 ATTTGACGATGCGAAAAATCACATGGAAAATATTATTTTAATAAA
*
27362989 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTATGTATA
1 TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
* *
27363054 AAAAGTTGAAAGCCGTATAAGATGAAA--TCAACTTTGTTCCATGAAAAAAAA
66 AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAA
27363105 AATTGAACCT
Statistics
Matches: 419, Mismatches: 33, Indels: 53
0.83 0.07 0.10
Matches are distributed among these distances:
159 16 0.04
160 6 0.01
161 90 0.21
162 2 0.00
168 1 0.00
175 1 0.00
177 142 0.34
180 1 0.00
181 2 0.00
182 3 0.01
183 1 0.00
186 1 0.00
187 2 0.00
188 30 0.07
191 1 0.00
192 8 0.02
193 110 0.26
194 2 0.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (175 bp):
TTATTTTAATTAAATAATATTTAAATAAATTAATCCAAATTATATAATTTAAAAAATTGTGTATA
AAAAGTTGAAAACCGTATAAGATGAAATGTCAACTTTGTTCCATGGAAAAAAATAAAAAAATAAA
ATTTGACGATGCGAAAAATCACATGGAAAATATTATTTTAATAAA
Found at i:27362813 original size:13 final size:13
Alignment explanation
Indices: 27362797--27362857 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 13
27362787 GATGGAAAAA
*
27362797 AAATATTTTGATT
1 AAATATTTTAATT
*
27362810 AAATAATATTTAAAT
1 AAAT-AT-TTTAATT
27362825 AAATTATTTTAATT
1 AAA-TATTTTAATT
*
27362839 AAATAATATTTAAAT
1 AAAT-AT-TTTAATT
27362854 AAAT
1 AAAT
27362858 TAATTCAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 5 0.13
14 13 0.33
15 20 0.51
16 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (13 bp):
AAATATTTTAATT
Found at i:27362817 original size:16 final size:16
Alignment explanation
Indices: 27362798--27362849 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 16
27362788 ATGGAAAAAA
*
27362798 AATATTTTGATTAAAT
1 AATATTTTAATTAAAT
*
27362814 AATA-TTTAAATAAAT
1 AATATTTTAATTAAAT
27362829 --TATTTTAATTAAAT
1 AATATTTTAATTAAAT
27362843 AATATTT
1 AATATTT
27362850 AAATAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 9 0.30
16 9 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
AATATTTTAATTAAAT
Found at i:27362832 original size:29 final size:29
Alignment explanation
Indices: 27362800--27362859 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
27362790 GGAAAAAAAA
*
27362800 TATTTTGATTAAATAATATTTAAATAAAT
1 TATTTTAATTAAATAATATTTAAATAAAT
27362829 TATTTTAATTAAATAATATTTAAATAAAT
1 TATTTTAATTAAATAATATTTAAATAAAT
27362858 TA
1 TA
27362860 ATTCAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TATTTTAATTAAATAATATTTAAATAAAT
Found at i:27362856 original size:15 final size:15
Alignment explanation
Indices: 27362809--27362857 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
27362799 ATATTTTGAT
27362809 TAAATAATATTTAAA
1 TAAATAATATTTAAA
* *
27362824 TAAATTAT-TTTAAT
1 TAAATAATATTTAAA
27362838 TAAATAATATTTAAA
1 TAAATAATATTTAAA
27362853 TAAAT
1 TAAAT
27362858 TAATTCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAATAATATTTAAA
Found at i:27367947 original size:7 final size:7
Alignment explanation
Indices: 27367935--27368090 Score: 84
Period size: 7 Copynumber: 21.7 Consensus size: 7
27367925 TTGATCTTCT
27367935 CTAAACC
1 CTAAACC
27367942 CTAAACC
1 CTAAACC
27367949 CTAAACC
1 CTAAACC
27367956 C-AAA-C
1 CTAAACC
27367961 CTCAAGACC
1 CT-AA-ACC
27367970 CTAAACC
1 CTAAACC
***
27367977 CTAATTT
1 CTAAACC
*
27367984 ATAAACC
1 CTAAACC
*
27367991 C-AAATCT
1 CTAAA-CC
* **
27367998 CGAGTCC
1 CTAAACC
27368005 CTAAACC
1 CTAAACC
27368012 CATAAACC
1 C-TAAACC
*
27368020 TCGAAACC
1 -CTAAACC
* *
27368028 ATAAACT
1 CTAAACC
*
27368035 CAAAACC
1 CTAAACC
*
27368042 ATAAACC
1 CTAAACC
27368049 CTAAAACC
1 CT-AAACC
*
27368057 CAGAAACC
1 C-TAAACC
*
27368065 CTAAACT
1 CTAAACC
27368072 CTAAACC
1 CTAAACC
*
27368079 ATAAACC
1 CTAAACC
27368086 CTAAA
1 CTAAA
27368091 TTACTTAGTT
Statistics
Matches: 108, Mismatches: 31, Indels: 20
0.68 0.19 0.13
Matches are distributed among these distances:
5 2 0.02
6 6 0.06
7 69 0.64
8 27 0.25
9 4 0.04
ACGTcount: A:0.46, C:0.35, G:0.03, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:27368047 original size:37 final size:36
Alignment explanation
Indices: 27368006--27368090 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 36
27367996 CTCGAGTCCC
27368006 TAAACCCATAAACCTC-GAAACCATAAACTCAAAACCA
1 TAAACCC-TAAACC-CAGAAACCATAAACTCAAAACCA
* *
27368043 TAAACCCTAAAACCCAGAAACCCTAAACTCTAAACCA
1 TAAACCCT-AAACCCAGAAACCATAAACTCAAAACCA
27368080 TAAACCCTAAA
1 TAAACCCTAAA
27368091 TTACTTAGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
36 5 0.11
37 39 0.89
ACGTcount: A:0.51, C:0.33, G:0.02, T:0.14
Consensus pattern (36 bp):
TAAACCCTAAACCCAGAAACCATAAACTCAAAACCA
Found at i:27368586 original size:41 final size:41
Alignment explanation
Indices: 27368530--27368645 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 41
27368520 TTAAATAATA
* * * *
27368530 AATGCTTGACTTTTTGCGGCGTTTGTTA-CATAAATGCCGCT
1 AATGCTGGACCTTTTGCGGTGTTT-TTATCATAAACGCCGCT
* *
27368571 AATTCTGGACCTTTTGCGGTGTTTTTATCATAAACGCTGCT
1 AATGCTGGACCTTTTGCGGTGTTTTTATCATAAACGCCGCT
*
27368612 AATGCTGGACCTTTTGCGGTGTTTTTCTCATAAA
1 AATGCTGGACCTTTTGCGGTGTTTTTATCATAAA
27368646 AGTTGCTATA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
40 3 0.05
41 63 0.95
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (41 bp):
AATGCTGGACCTTTTGCGGTGTTTTTATCATAAACGCCGCT
Found at i:27371922 original size:18 final size:18
Alignment explanation
Indices: 27371899--27371936 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
27371889 ACCAAAGAAA
27371899 AATTAATATG-ACAAAATT
1 AATTAATATGTA-AAAATT
27371917 AATTAATATGTAAAAATT
1 AATTAATATGTAAAAATT
27371935 AA
1 AA
27371937 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (18 bp):
AATTAATATGTAAAAATT
Found at i:27375147 original size:17 final size:17
Alignment explanation
Indices: 27375125--27375158 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27375115 TGACGACTCT
27375125 TGACAATTTGAATTGTG
1 TGACAATTTGAATTGTG
27375142 TGACAATTTGAATTGTG
1 TGACAATTTGAATTGTG
27375159 ATTTCATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (17 bp):
TGACAATTTGAATTGTG
Found at i:27378644 original size:41 final size:42
Alignment explanation
Indices: 27378556--27378658 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 42
27378546 AATACTCGAT
* * *
27378556 ATCTCGCACACTAAGTGCCAATACATAGCTGAAGTTATTATA
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTACA
*
27378598 ATCTCGCACACTAAGTGCC-TTACATAGCCGAAGCTATCT-CA
1 ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTAT-TACA
*
27378639 GTCTCGCACACTAAGTGCCA
1 ATCTCGCACACTAAGTGCCA
27378659 TATTGTTACA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 34 0.63
42 20 0.37
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (42 bp):
ATCTCGCACACTAAGTGCCAATACATAGCCGAAGCTATTACA
Found at i:27380188 original size:96 final size:95
Alignment explanation
Indices: 27380024--27380295 Score: 332
Period size: 96 Copynumber: 2.8 Consensus size: 95
27380014 AAATAAGGTA
* *
27380024 CCAATGCCATGTCCTC-GACATGGTCTTACA-TGAATCCACATATCATCGCCGTTGCCATGTCCC
1 CCAATGCCATGTCC-CAGACATGGTCTTACACTGAA--CACATATCATCACCGATGCCATGTCCC
* * *
27380087 AGACATGGTATTACACTGGCATACATATCATCG
63 AGACATGGTCTTACACAGGCACACATATCATCG
* *
27380120 CCAATGCCATGTCCCAGACATGGTCTTACACTGGAACACATATCATCATCGATGCCATGCCCCAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACT-GAACACATATCATCACCGATGCCATGTCCCAG
* *
27380185 ACATGGTCTTACACAGGCACATATATCATTG
65 ACATGGTCTTACACAGGCACACATATCATCG
* * * * * * *
27380216 TCGATGCCATGTCCCAAACATGGTCTTACACAAGCACATATATCATCACCGATGCCATGTCTCAG
1 CCAATGCCATGTCCCAGACATGGTCTTACAC-TGAACACATATCATCACCGATGCCATGTCCCAG
*
27380281 ACACGGTCTTACACA
65 ACATGGTCTTACACA
27380296 AAATCTCATT
Statistics
Matches: 153, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
95 1 0.01
96 148 0.97
97 1 0.01
98 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (95 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACTGAACACATATCATCACCGATGCCATGTCCCAGA
CATGGTCTTACACAGGCACACATATCATCG
Found at i:27380294 original size:48 final size:48
Alignment explanation
Indices: 27380027--27380296 Score: 301
Period size: 48 Copynumber: 5.6 Consensus size: 48
27380017 TAAGGTACCA
* *
27380027 ATGCCATGTCCTC-GACATGGTCTTACATGAATC-CACATATCATCGCCG
1 ATGCCATGTCC-CAGACATGGTCTTACA-CAAGCACACATATCATCGCCG
* * ** * *
27380075 TTGCCATGTCCCAGACATGGTATTACACTGGCATACATATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
** * **
27380123 ATGCCATGTCCCAGACATGGTCTTACACTGGAACACATATCATCATCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* * * * *
27380171 ATGCCATGCCCCAGACATGGTCTTACACAGGCACATATATCATTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* * *
27380219 ATGCCATGTCCCAAACATGGTCTTACACAAGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
* *
27380267 ATGCCATGTCTCAGACACGGTCTTACACAA
1 ATGCCATGTCCCAGACATGGTCTTACACAA
27380297 AATCTCATTT
Statistics
Matches: 190, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
47 2 0.01
48 188 0.99
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGCCG
Found at i:27390741 original size:27 final size:27
Alignment explanation
Indices: 27390711--27390866 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
27390701 TGCTATTCAC
* *
27390711 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
27390738 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
27390765 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
27390793 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
27390820 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
27390847 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
27390867 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:27390782 original size:55 final size:55
Alignment explanation
Indices: 27390716--27390867 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
27390706 TTCACTCAAC
* *
27390716 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
27390771 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
27390825 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
27390868 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:27398804 original size:27 final size:27
Alignment explanation
Indices: 27398774--27398929 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
27398764 TGCTATTCAC
* *
27398774 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
27398801 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
27398828 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
27398856 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
27398883 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
27398910 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
27398930 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:27398845 original size:55 final size:55
Alignment explanation
Indices: 27398779--27398930 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
27398769 TTCACTCAAC
* *
27398779 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
27398834 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
27398888 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
27398931 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:27403010 original size:52 final size:50
Alignment explanation
Indices: 27402932--27403220 Score: 235
Period size: 50 Copynumber: 5.7 Consensus size: 50
27402922 GTTGTGAGAA
* ** *
27402932 CACGTGTGTAGTACTACGTGTGGGCTACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-ACAGATTGATAGGT
* * *
27402984 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATTGATAGGT
* * * * * * * *
27403034 CGCTTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATTGA--TAGGT
* * * * * *
27403085 CACGTGTGTAGTATTAAGTGCAAGCTACTACGTGTATCAGATGGATAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATTGATAGGT
* * *
27403135 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-ACTAGATTGATGGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAAC-AGATTGATAGGT
* * * *
27403185 AACATGTGTAGTAGTAAATGCAGGCTACTATGTGTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA
27403221 CCAAAGAGCT
Statistics
Matches: 189, Mismatches: 41, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
48 2 0.01
49 7 0.04
50 113 0.60
51 35 0.19
52 32 0.17
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAACAGATTGATAGGT
Found at i:27403051 original size:50 final size:50
Alignment explanation
Indices: 27402979--27403223 Score: 267
Period size: 50 Copynumber: 4.9 Consensus size: 50
27402969 AAGACAGTTT
*
27402979 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * *
27403029 TAGGTCGCTTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * *
27403078 CTTCGATCACGTGTGTAGTATTAAGTGCAAGCTACTACGTGTATCAGATGGA
1 --TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * *
27403130 TAAGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
* * * * * *
27403180 TGGGTAACATGTGTAGTAGTAAATGCAGGCTACTATGTGTACCA
1 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
27403224 AAGAGCTTTG
Statistics
Matches: 156, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 3 0.02
50 116 0.74
51 35 0.22
52 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA
Found at i:27403112 original size:101 final size:101
Alignment explanation
Indices: 27402983--27403164 Score: 285
Period size: 101 Copynumber: 1.8 Consensus size: 101
27402973 CAGTTTTAGG
* * * * *
27402983 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGATAGGTCGCT-TGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGATAAGTC-ATGTGTGTAGTA
27403047 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
65 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
* *
27403084 TCACGTGTGTAGTATTAAGTGCAAGCTACTACGTGTATCAGATGGATAAGTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGATAAGTCATGTGTGTAGTAC
27403149 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
27403165 CGTGTACTAG
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 1 0.01
101 72 0.99
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGATAAGTCATGTGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGA
Found at i:27404037 original size:180 final size:181
Alignment explanation
Indices: 27403782--27404134 Score: 501
Period size: 180 Copynumber: 2.0 Consensus size: 181
27403772 CTGAGGTCAG
* * *
27403782 TACCATGAGATAAATAATTTTTATTGAAGAAAGATCAGAACTGTCGGATAGTGAAACAGGGGTAT
1 TACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTCGGATAGTGAAACAAGGGTAA
* * * *
27403847 TTTTAATGAATAAATTGTACTAATTGGCTAAACC-AAAAATTTTTAAAATTTTATGGTAAGAATA
66 CTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAAATTCTGAAAATTTTATGGTAAGAATA
* * * * * *
27403911 TACGTGAGTCTAGTTTCTGGGAAAATTAGCAGTTCTTAATTTCGTGTCCCA
131 TACATGAGCCTAATTTCTAGGAAAATTAACAGATCTTAATTTCGTGTCCCA
* * * ** *
27403962 TACCGTGAGATAAATAATTTTTAGTGAAGAGAGGTTGGAACTGTTGGATAGTGAAACAAGGGTAA
1 TACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTCGGATAGTGAAACAAGGGTAA
27404027 CTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAAAATTCTGAAAATTTTATGGTAAGAAT
66 CTTTAATGAATAAACTGTACTAATTGGCTAAACC-AAAAAATTCTGAAAATTTTATGGTAAGAAT
* *
27404092 ATATATGAGCCTAATTTCTAGGAAAATTAACGGATCTTAATTT
130 ATACATGAGCCTAATTTCTAGGAAAATTAACAGATCTTAATTT
27404135 GGAGTTCCAT
Statistics
Matches: 150, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
180 88 0.59
182 62 0.41
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (181 bp):
TACCATGAGATAAATAATTTTTAGTGAAGAAAGATCAGAACTGTCGGATAGTGAAACAAGGGTAA
CTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAAATTCTGAAAATTTTATGGTAAGAATA
TACATGAGCCTAATTTCTAGGAAAATTAACAGATCTTAATTTCGTGTCCCA
Found at i:27407506 original size:48 final size:48
Alignment explanation
Indices: 27407143--27407508 Score: 468
Period size: 48 Copynumber: 7.6 Consensus size: 48
27407133 TAAGGTATCA
* * **
27407143 ATGCCATGTCCCTGACATGGTCTTACATGAATC-CACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACACATATCATCACCG
27407191 ATGCCATGTCCCAGACATGGTCTTACACTA-GCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGGCACACATATCATCACCG
* * **
27407239 ATGCCATATCCCAAACATGGTCTTACATTGGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* ** * *
27407287 ATTCCATGTCTTAGACATGGTCTTACATAGGCACACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * * *
27407335 ATGCCATGTCCCAGACATTGTCTTACACAGGCATAGATATCATCACCA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
* * * * *
27407383 ATGCCATGTCCCAAACTTGGTCTTTCACATGG-ACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-GGCACACATATCATCACCG
* *
27407431 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
27407479 ATGCCATGTCCCAGACATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
27407509 AAGCTCATTT
Statistics
Matches: 277, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
47 3 0.01
48 272 0.98
49 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCACCG
Found at i:27409587 original size:41 final size:43
Alignment explanation
Indices: 27409529--27409650 Score: 142
Period size: 45 Copynumber: 2.8 Consensus size: 43
27409519 ATGCTATCTC
* *
27409529 ATATCGATGCCACTGTCCGAAACATGGTCTTACAC-GA-ATCAA
1 ATATCGATGCCAATGTCCCAAACATGGTCTTACACAGACA-CAA
* *
27409571 ATA-CGATGCCAATGTCCCATACATGGTCTTACACATGACCACAT
1 ATATCGATGCCAATGTCCCAAACATGGTCTTACACA-GA-CACAA
* *
27409615 ATATCGATGCCAACGTCCCAGACATGGTCTTACACA
1 ATATCGATGCCAATGTCCCAAACATGGTCTTACACA
27409651 AAAACACATA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
41 28 0.41
42 3 0.04
43 2 0.03
44 5 0.07
45 31 0.45
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
ATATCGATGCCAATGTCCCAAACATGGTCTTACACAGACACAA
Found at i:27410263 original size:15 final size:15
Alignment explanation
Indices: 27410240--27410270 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27410230 TCAAAAATTC
27410240 CAATACAAAACATAT
1 CAATACAAAACATAT
*
27410255 CAATCCAAAACATAT
1 CAATACAAAACATAT
27410270 C
1 C
27410271 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:27413271 original size:13 final size:13
Alignment explanation
Indices: 27413253--27413300 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
27413243 AAATTGAAGT
*
27413253 CACACGGCTAATG
1 CACACGGCCAATG
27413266 CACACGGCCAATG
1 CACACGGCCAATG
27413279 CACACGGCCAATG
1 CACACGGCCAATG
*
27413292 CACATGGCC
1 CACACGGCC
27413301 GTGTGCTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.29, C:0.38, G:0.23, T:0.10
Consensus pattern (13 bp):
CACACGGCCAATG
Found at i:27414379 original size:43 final size:42
Alignment explanation
Indices: 27414317--27414470 Score: 211
Period size: 42 Copynumber: 3.6 Consensus size: 42
27414307 TACTGTACCA
*
27414317 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* * *
27414359 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
* * *
27414402 ATTCCATATCCCAGATATGGTCTTACATGTAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
*
27414444 ATGCCATATCCCAGATATGATCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
27414471 CGTAGTCTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
42 62 0.64
43 35 0.36
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:27414447 original size:85 final size:84
Alignment explanation
Indices: 27414320--27414478 Score: 246
Period size: 85 Copynumber: 1.9 Consensus size: 84
27414310 TGTACCAATG
* * *
27414320 CCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCCAGCTATGGTCTTA
1 CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCC-ATAGCCCAGATATGATCTTA
27414385 CACGAAGTCTCATATCGATT
65 CACGAAGTCTCATATCGATT
* * *
27414405 CCATATCCCAGATATGGTCTTACATGTAGTCTCATATTGATGCCATATCCCAGATATGATCTTAC
1 CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCATAGCCCAGATATGATCTTAC
*
27414470 ACGTAGTCT
66 ACGAAGTCT
27414479 TAATAACCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
84 26 0.39
85 41 0.61
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (84 bp):
CCATATCCCAGATATGGTCTTACATGTAATCTCATATCGATGCCATAGCCCAGATATGATCTTAC
ACGAAGTCTCATATCGATT
Found at i:27422014 original size:41 final size:40
Alignment explanation
Indices: 27421943--27422080 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 40
27421933 GATATCTCCT
* *
27421943 ACACTAAGTGCCAATACATAGCTGAAGCTATTATAATCTCAC
1 ACACTAAGTGCC-ATACATAGCCGAAGCTATT-TAATCTCGC
* * * *
27421985 ACACTAAGTGCCTTACATAGCCAAAGCTATCTCAGTCTCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTAT-TTAATCTCGC
*
27422026 ACACTAAGTGCCATATATAGCCGAAGCTATTCTGAA--TCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATT-T-AATCTCGC
27422066 ACACTAAGTGCCATA
1 ACACTAAGTGCCATA
27422081 TATATATCTG
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
40 20 0.24
41 48 0.59
42 14 0.17
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATTTAATCTCGC
Found at i:27426096 original size:47 final size:46
Alignment explanation
Indices: 27425917--27426126 Score: 176
Period size: 46 Copynumber: 4.5 Consensus size: 46
27425907 TGTGAGAGCT
* * * * *
27425917 AGTGTAAGACCATGTTTGGGACATGGCGTCGGCATTGAGATG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCGTCGAC-TCGAGATGTA-AGCC
* * * *
27425965 AGTGTAAGA-CATGTCTGGGAAATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCGTC-GACTCGAGATGTAAGCC
* *
27426011 AGTGTAAGA-CATGTCTGAGACATGCGTCGACTACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCGTCGACT-CGAGATGTA-AGCC
* * * *
27426057 AGTGTAAGACCATGTTTGGGACATGGCTTCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCGTCGACTCGAGATGTAAGCC
* *
27426104 AGTGTAAGACCGTGTCTAGGACA
1 AGTGTAAGACCATGTCTGGGACA
27426127 CGACATCGGC
Statistics
Matches: 132, Mismatches: 23, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
45 4 0.03
46 55 0.42
47 55 0.42
48 18 0.14
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCGTCGACTCGAGATGTAAGCC
Found at i:27433125 original size:30 final size:30
Alignment explanation
Indices: 27433067--27433125 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
27433057 ATTTTTGAGC
* * **
27433067 CTAAAGGTAAATTGATCATTTTGTCAAGGT
1 CTAAAGGCAAAATGATCATTTTACCAAGGT
*
27433097 CTAAAGGCAAAATGGTCATTTTACCAAGG
1 CTAAAGGCAAAATGATCATTTTACCAAGG
27433126 AAGTGAAGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (30 bp):
CTAAAGGCAAAATGATCATTTTACCAAGGT
Found at i:27433178 original size:13 final size:13
Alignment explanation
Indices: 27433156--27433188 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
27433146 AATTTTATTT
27433156 AGTG-ATTAAATA
1 AGTGTATTAAATA
27433168 AGTGTATTAAATA
1 AGTGTATTAAATA
27433181 AGTGTATT
1 AGTGTATT
27433189 TTGCTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (13 bp):
AGTGTATTAAATA
Found at i:27433554 original size:46 final size:47
Alignment explanation
Indices: 27433486--27433601 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 47
27433476 TGAGAGCTAG
*
27433486 TGTAAAACCATGTCTGGGACATGCATCAGCCT-CGAGA-CATAAGCCAA
1 TGTAAGACCATGTCTGGGACATGCATC-GCCTACGAGATCAT-AGCCAA
* * * * *
27433533 TGTAAGA-CATGTCTGGGACATGCGTCGGCTACGAGATGATAGTCAG
1 TGTAAGACCATGTCTGGGACATGCATCGCCTACGAGATCATAGCCAA
27433579 TGTAAGACCATGTCTGGGACATG
1 TGTAAGACCATGTCTGGGACATG
27433602 GCTTCGACTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
45 3 0.05
46 34 0.57
47 23 0.38
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGCATCGCCTACGAGATCATAGCCAA
Found at i:27433601 original size:47 final size:47
Alignment explanation
Indices: 27433484--27433644 Score: 150
Period size: 47 Copynumber: 3.4 Consensus size: 47
27433474 TGTGAGAGCT
*
27433484 AGTGTAAAACCATGTCTGGGACATGCATCAGCCTCGAGACATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGACATAAGCC
* * * * *
27433531 AATGTAAGA-CATGTCTGGGACATGCGTC-GGCTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCCT-CGAGA-CATAAGCC
* * * *
27433577 AGTGTAAGACCATGTCTGGGACATGGCTTC-GACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTCGAGACATAAGCC
* **
27433624 AGTGCAAGACTGTGTCTGGGA
1 AGTGTAAGACCATGTCTGGGA
27433645 TACAGCGTCA
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
45 3 0.03
46 36 0.38
47 48 0.51
48 7 0.07
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGACATAAGCC
Found at i:27440079 original size:11 final size:12
Alignment explanation
Indices: 27440040--27440091 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
27440030 TATAAAATTC
27440040 ATTAAGGTTAAAT
1 ATTAA-GTTAAAT
*
27440053 ATGTAAATTAAAT
1 AT-TAAGTTAAAT
27440066 ATTAAGTT-AAT
1 ATTAAGTTAAAT
27440077 ATTAAGTTAATAT
1 ATTAAGTTAA-AT
27440090 AT
1 AT
27440092 GTTATATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 11 0.32
12 6 0.18
13 14 0.41
14 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (12 bp):
ATTAAGTTAAAT
Found at i:27443343 original size:47 final size:49
Alignment explanation
Indices: 27443270--27443398 Score: 140
Period size: 49 Copynumber: 2.7 Consensus size: 49
27443260 AGGGTATAAT
* * * *
27443270 GTCGATGCCATGTCCCTA-ACAGGGTCTTACACTGGATCATC-CATC-AA
1 GTCGATGCCATGTCTC-AGACATGGTCTTACACTGGACCATCAAATCGAA
* *
27443317 GTCGATGCCATGTCTCAGACATGGTCTTACA-TTGACCATCAAAATCGAG
1 GTCGATGCCATGTCTCAGACATGGTCTTACACTGGACCATC-AAATCGAA
* *
27443366 GCCGATGCCATGTCTGAGACATGGTCTTACACT
1 GTCGATGCCATGTCTCAGACATGGTCTTACACT
27443399 AGCTCTCACA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
46 8 0.12
47 27 0.39
48 3 0.04
49 30 0.43
50 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (49 bp):
GTCGATGCCATGTCTCAGACATGGTCTTACACTGGACCATCAAATCGAA
Found at i:27443436 original size:50 final size:46
Alignment explanation
Indices: 27443382--27443534 Score: 161
Period size: 46 Copynumber: 3.3 Consensus size: 46
27443372 GCCATGTCTG
*
27443382 AGACATGGTCTTACACTAGCTCTCACATATCTGTGCCAATGCCATGTCCC
1 AGACAT-GTCTTACACTAGCT-TCACATCTC-GTGCCAATG-CATGTCCC
*
27443432 AGACATAGTCTTACACTAG---CACATCTCGTAGCCGATGCATGTCCC
1 AGACAT-GTCTTACACTAGCTTCACATCTCGT-GCCAATGCATGTCCC
* * * *
27443477 AAACATGTCTTACACTGGCTT-ACATCTCGAGGCCAATGGATGTCCC
1 AGACATGTCTTACACTAGCTTCACATCTCG-TGCCAATGCATGTCCC
27443523 AGACATGTCTTA
1 AGACATGTCTTA
27443535 AACTGGCACA
Statistics
Matches: 89, Mismatches: 9, Indels: 14
0.79 0.08 0.12
Matches are distributed among these distances:
44 11 0.12
45 15 0.17
46 45 0.51
50 18 0.20
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
AGACATGTCTTACACTAGCTTCACATCTCGTGCCAATGCATGTCCC
Found at i:27451379 original size:5 final size:5
Alignment explanation
Indices: 27451369--27451394 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
27451359 TGAAAACACT
27451369 AAAGG AAAGG AAAGG AAAGG AAAGG A
1 AAAGG AAAGG AAAGG AAAGG AAAGG A
27451395 GTAAGCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:27452538 original size:47 final size:48
Alignment explanation
Indices: 27452467--27452653 Score: 202
Period size: 49 Copynumber: 3.9 Consensus size: 48
27452457 AGGGTATAAT
*
27452467 GCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCATC-CATCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCACATCAG
* ** *
27452514 GTCGATGCCACATCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC-ACATC-AG
* * *
27452563 GCCGACGCCATTTCCCAGACATGGTCTTACACT-AGCTC-TCACATATCCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATCAC--ATCAG
* *
27452612 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACATC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC
27452654 TTGTAGCCTA
Statistics
Matches: 115, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
46 3 0.03
47 33 0.29
48 5 0.04
49 36 0.31
50 35 0.30
51 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.24
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCACATCAG
Found at i:27453854 original size:3 final size:3
Alignment explanation
Indices: 27453846--27453932 Score: 58
Period size: 3 Copynumber: 29.3 Consensus size: 3
27453836 AATATATTAA
* *
27453846 ATT ATT ATT CTT ATT ATTT ATT ATT ATA ATT -TT A-T ACTT AATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT A-TT -ATT ATT
* * *
27453892 ATT GTT ATT GTT ATT ATT ATT -TA ATT GA-T ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT A
27453933 AATTAGATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
2 8 0.12
3 49 0.75
4 7 0.11
5 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:27453880 original size:27 final size:28
Alignment explanation
Indices: 27453840--27453925 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 28
27453830 TGTTAAAATA
*
27453840 TATTA-AATTATTATTCTT-ATTATTTAT
1 TATTATAATTATTATACTTAATTA-TTAT
27453867 TATTATAATT-TTATACTTAATTATTAT
1 TATTATAATTATTATACTTAATTATTAT
* ** *
27453894 TGTTATTGTTATTATTATTTAATTGA-TAT
1 TATTATAATTATTA-TACTTAATT-ATTAT
27453923 TAT
1 TAT
27453926 ATTATTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
27 23 0.48
28 11 0.23
29 13 0.27
30 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (28 bp):
TATTATAATTATTATACTTAATTATTAT
Found at i:27453930 original size:40 final size:39
Alignment explanation
Indices: 27453839--27453932 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 39
27453829 GTGTTAAAAT
*
27453839 ATATTAAATTATTATTCTTATTATTTATTATTATAATTTT
1 ATATT-AATTATTATTCTTATTATTTATTATTATAATTTG
* *
27453879 ATACTTAATTATTATTGTTATT-GTTATTATTATTTAA-TTG
1 ATA-TTAATTATTATTCTTATTATTTATTATTA--TAATTTG
27453919 ATATTATATTATTA
1 ATATTA-ATTATTA
27453933 AATTAGATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
39 12 0.26
40 30 0.64
41 5 0.11
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (39 bp):
ATATTAATTATTATTCTTATTATTTATTATTATAATTTG
Found at i:27465359 original size:46 final size:44
Alignment explanation
Indices: 27465216--27465359 Score: 98
Period size: 46 Copynumber: 3.1 Consensus size: 44
27465206 CCCGCCCATA
* *
27465216 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * * *
27465265 --CGAACTCGGACTCAACTCAACGAGTTTAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAG-TTCG-GATGCCCAAATCC-T
27465308 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
27465355 AGTGA
1 AGTGA
27465360 CATGTCACTT
Statistics
Matches: 73, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
45 3 0.04
46 28 0.38
47 24 0.33
48 6 0.08
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:27467588 original size:40 final size:40
Alignment explanation
Indices: 27467526--27467782 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
27467516 AAACCAAGTA
* * *
27467526 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
27467565 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
27467605 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
27467645 CCTTCGGGACTAAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
27467685 CCTTTGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
27467725 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
27467765 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
27467783 TTATCATCCG
Statistics
Matches: 202, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.07
40 188 0.93
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:27470948 original size:46 final size:46
Alignment explanation
Indices: 27470898--27471070 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
27470888 TGGTTGAGCA
*
27470898 TCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
27470944 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
27470989 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
27471037 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
27471071 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.56
47 29 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27471054 original size:93 final size:93
Alignment explanation
Indices: 27470895--27471065 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
27470885 GGATGGTTGA
* * *
27470895 GCATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
27470960 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
27470988 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
27471053 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
27471066 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:27476887 original size:46 final size:44
Alignment explanation
Indices: 27476744--27476887 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 44
27476734 CCCGCCCATA
* *
27476744 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
27476793 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
27476836 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
27476883 AGTGA
1 AGTGA
27476888 CATGTCACTT
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 28 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:27495743 original size:47 final size:47
Alignment explanation
Indices: 27495680--27496166 Score: 722
Period size: 47 Copynumber: 10.3 Consensus size: 47
27495670 AGAGTGTATG
*
27495680 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
27495727 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
27495774 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
27495821 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTA
*
27495872 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
27495919 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
27495966 TATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* *
27496013 TATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
27496060 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * * * *
27496107 TATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
27496154 TAAATGTGATAAG
1 TATATGTGATAAG
27496167 TCCCGAAAGG
Statistics
Matches: 410, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 364 0.89
49 2 0.00
51 44 0.11
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:27496007 original size:192 final size:192
Alignment explanation
Indices: 27495672--27496166 Score: 750
Period size: 192 Copynumber: 2.6 Consensus size: 192
27495662 CAGCCAAGAG
27495672 AGTGTATG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
1 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
* *
27495735 ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
66 ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGA
* *
27495800 CGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
131 CGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGCGATGAATGTGAA
* *
27495862 AGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
1 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
* *
27495927 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGA
66 ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGA
* *
27495992 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
131 CGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGCGATGAATGTGAA
*
27496054 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
* * * * * * * * * * *
27496115 ACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCATAAATGTGATAAG
66 ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTAATAAG
27496167 TCCCGAAAGG
Statistics
Matches: 278, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
188 96 0.35
190 9 0.03
192 173 0.62
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (192 bp):
AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTG
ATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATAGCCGA
CGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGCGATGAATGTGAA
Found at i:27496354 original size:37 final size:37
Alignment explanation
Indices: 27496285--27496364 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
27496275 CCGAGCTCTA
* * * *
27496285 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
27496322 AGGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
27496359 AAGACT
1 AAGACT
27496365 TCGTAATAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:27506236 original size:19 final size:19
Alignment explanation
Indices: 27506191--27506250 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
27506181 AAAAAACCCT
*
27506191 AAACCTTACTTAAAAAAAC
1 AAACCCTACTTAAAAAAAC
* *
27506210 CAATCCTACTT-AAAAAAC
1 AAACCCTACTTAAAAAAAC
*
27506228 AAAACCCTAACCCTAAAAAAAC
1 -AAACCCT-A-CTTAAAAAAAC
27506250 A
1 A
27506251 CAAAGAAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
18 7 0.23
19 13 0.42
20 1 0.03
21 3 0.10
22 7 0.23
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.17
Consensus pattern (19 bp):
AAACCCTACTTAAAAAAAC
Found at i:27512379 original size:21 final size:20
Alignment explanation
Indices: 27512350--27512388 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27512340 TAGTAAGTTA
27512350 AGTTAGT-AAATCAATAATTT
1 AGTTAGTAAAAT-AATAATTT
27512370 AGTTAAGTAAAATAATAAT
1 AGTT-AGTAAAATAATAAT
27512389 ATGGTATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (20 bp):
AGTTAGTAAAATAATAATTT
Found at i:27534838 original size:42 final size:43
Alignment explanation
Indices: 27534736--27534885 Score: 112
Period size: 43 Copynumber: 3.5 Consensus size: 43
27534726 TAGGATTCCA
* * * *
27534736 ATATGTGATTTCGTGTAAGACCA-CATCTGGAAC-GTTTGCATTG
1 ATATTTGATTTCGTGTAAGACCATC-TCTGGGACAG-TGGCATCG
* *
27534779 AT-TTGAGATTTACGTGTAAGACCATCTCTTGGACA-TCGGCATCG
1 ATATT-TGATTT-CGTGTAAGACCATCTCTGGGACAGT-GGCATCG
* ** * *
27534823 -TATTTGATTTCGTGTACGACTTTGTCTGGGACAGTGGCATTG
1 ATATTTGATTTCGTGTAAGACCATCTCTGGGACAGTGGCATCG
*
27534865 ATATTTGATTTCATGTAAGAC
1 ATATTTGATTTCGTGTAAGAC
27534886 TACGTCTAGG
Statistics
Matches: 84, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
42 25 0.30
43 33 0.39
44 25 0.30
45 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (43 bp):
ATATTTGATTTCGTGTAAGACCATCTCTGGGACAGTGGCATCG
Found at i:27537001 original size:43 final size:42
Alignment explanation
Indices: 27536954--27537109 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 42
27536944 GTTTTCTCGT
27536954 GTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTCGA
1 GTAAGACCACGTCTGGGACGTTGGCATCG-TATGTGATTTCGA
* * *
27536997 GTAAGACCATGTCTGGGACATTGGCATCGTAATTGTGA-TTCGT
1 GTAAGACCACGTCTGGGACGTTGGCATCGT-A-TGTGATTTCGA
** * * *
27537040 GTAAGACCTTGTCTGGGTCAG-TGGCATCGGCATGTGATTAC-A
1 GTAAGACCACGTCTGGGAC-GTTGGCATC-GTATGTGATTTCGA
27537082 TGTAAGACCACGTCTGGGACGTTGGCAT
1 -GTAAGACCACGTCTGGGACGTTGGCAT
27537110 TGTACGATAT
Statistics
Matches: 94, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
42 7 0.07
43 81 0.86
44 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (42 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGTATGTGATTTCGA
Found at i:27537054 original size:86 final size:86
Alignment explanation
Indices: 27536950--27537109 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 86
27536940 ATATGTTTTC
* * *
27536950 TCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATGTGATTTCGA-GTAAGACCATGTCTGG
1 TCGTGTAAGACCACGTCTGGGACAG-TGGCATCGACATGTGATTAC-ATGTAAGACCACGTCTGG
27537013 GACATTGGCATCGTAATTGTGAT
64 GACATTGGCATCGTAATTGTGAT
** * *
27537036 TCGTGTAAGACCTTGTCTGGGTCAGTGGCATCGGCATGTGATTACATGTAAGACCACGTCTGGGA
1 TCGTGTAAGACCACGTCTGGGACAGTGGCATCGACATGTGATTACATGTAAGACCACGTCTGGGA
*
27537101 CGTTGGCAT
66 CATTGGCAT
27537110 TGTACGATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.02
86 62 0.97
87 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (86 bp):
TCGTGTAAGACCACGTCTGGGACAGTGGCATCGACATGTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCGTAATTGTGAT
Found at i:27541981 original size:30 final size:30
Alignment explanation
Indices: 27541947--27542007 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27541937 TCCTTAACTC
27541947 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27541977 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27542007 A
1 A
27542008 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27547836 original size:43 final size:43
Alignment explanation
Indices: 27547788--27547937 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
27547778 ATTATCGAGA
*
27547788 TGTGATTACATGTAAGACTATGTCTGAGACATTGACATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGACATTGTAT
*
27547831 TGTGATTACATGTAAGACCATGTCTGGGACATTGACATTGT-T
1 TGTGATTACATGTAAGACCATGTCTGAGACATTGACATTGTAT
* * * * * * *
27547873 ATATGATTTCGTATAAGACCTTGTCT-AGGACAGTGGCATTG-AT
1 -TGTGATTACATGTAAGACCATGTCTGA-GACATTGACATTGTAT
* *
27547916 ATATGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
27547938 ATCCGAGATA
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.01
43 88 0.99
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGAGACATTGACATTGTAT
Found at i:27557935 original size:40 final size:40
Alignment explanation
Indices: 27557876--27557984 Score: 175
Period size: 40 Copynumber: 2.7 Consensus size: 40
27557866 TATTCGGATG
*
27557876 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
27557916 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
27557956 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
27557985 AGCAAGTAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 61 0.97
41 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:27558284 original size:22 final size:21
Alignment explanation
Indices: 27558243--27558286 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
27558233 GAATGTGCAT
27558243 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
27558265 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
27558287 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:27560302 original size:22 final size:23
Alignment explanation
Indices: 27560277--27560319 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
27560267 AAAGCCGAGG
27560277 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
27560299 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
27560320 GTTTTGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:27565849 original size:40 final size:41
Alignment explanation
Indices: 27565790--27565898 Score: 170
Period size: 40 Copynumber: 2.7 Consensus size: 41
27565780 TATTCGGATG
*
27565790 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
27565830 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
27565870 ATAAT-CGGGCTAAGTCCCGAAGGCATTTG
1 ATAATCCGGGCTAAGTCCCGAAGGCATTTG
27565899 AGCAAGTAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 60 0.95
41 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:27566198 original size:22 final size:21
Alignment explanation
Indices: 27566157--27566200 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
27566147 GAATGTGCAT
27566157 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
27566179 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
27566201 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:27580841 original size:43 final size:43
Alignment explanation
Indices: 27580791--27580940 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
27580781 ATTATTGATA
* *
27580791 TGTGATTACATGTAAGACCTTGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
27580834 TGTGATTA-AGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
1 TGTGATTACA-TGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* *** * * * *
27580878 T-CGATTTTGTGTAAGACCTTGTTTGGGAGAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
27580919 ATGTGATAACATGTAAGACCAT
1 -TGTGATTACATGTAAGACCAT
27580941 ATCTAGGATA
Statistics
Matches: 85, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 79 0.93
44 3 0.04
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:27581233 original size:16 final size:17
Alignment explanation
Indices: 27581202--27581234 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27581192 GATATGCAAA
27581202 TATTTATATGATGGCTT
1 TATTTATATGATGGCTT
*
27581219 TATTTGTAT-ATGGCTT
1 TATTTATATGATGGCTT
27581235 ACTAAGCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.21, C:0.06, G:0.18, T:0.55
Consensus pattern (17 bp):
TATTTATATGATGGCTT
Found at i:27587207 original size:6 final size:6
Alignment explanation
Indices: 27587196--27587230 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
27587186 AAATCTGCTA
27587196 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
27587231 GTAGCTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:27589113 original size:24 final size:25
Alignment explanation
Indices: 27589073--27589155 Score: 125
Period size: 25 Copynumber: 3.4 Consensus size: 25
27589063 CTGGAGGCCT
27589073 AGCCTCTTTTAAT-AACTAGGGC-AA
1 AGCC-CTTTTAATAAACTAGGGCAAA
* *
27589097 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTAGGGCAAA
27589122 AGCCCTTTTAATAAACTAGGGCAAA
1 AGCCCTTTTAATAAACTAGGGCAAA
27589147 AGCCCTTTT
1 AGCCCTTTT
27589156 CAGTAAATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
23 7 0.13
24 12 0.23
25 34 0.64
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTAGGGCAAA
Found at i:27589129 original size:25 final size:24
Alignment explanation
Indices: 27589073--27589180 Score: 119
Period size: 25 Copynumber: 4.4 Consensus size: 24
27589063 CTGGAGGCCT
27589073 AGCCTCTTTTAAT-AACTAGGGCAA
1 AGCC-CTTTTAATAAACTAGGGCAA
* *
27589097 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTAGGGC-AA
27589122 AGCCCTTTTAATAAACTAGGGCAAA
1 AGCCCTTTTAATAAACTAGGGC-AA
* * * *
27589147 AGCCCTTTTCAGTAAATTGGGGCAT
1 AGCCCTTTT-AATAAACTAGGGCAA
27589172 AGCCCTTTT
1 AGCCCTTTT
27589181 TGCACTTCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
23 7 0.10
24 12 0.16
25 44 0.60
26 10 0.14
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTAGGGCAA
Found at i:27589176 original size:50 final size:48
Alignment explanation
Indices: 27589050--27589180 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 48
27589040 AGCATAGCTG
*
27589050 CTTTATCATATAACTGGAGGC-CTAGCCTCTTTTAATAACTAGGGCAAAGCC
1 CTTT-TCATA-AACTGG-GGCAATAGCC-CTTTTAATAACTAGGGCAAAGCC
* *
27589101 CTTTTGATAAACTGGGGCAAAAGCCCTTTTAATAAACTAGGGCAAAAGCC
1 CTTTTCATAAACTGGGGCAATAGCCCTTTTAAT-AACTAGGGC-AAAGCC
*
27589151 CTTTTCAGTAAATTGGGGC-ATAGCCCTTTT
1 CTTTTCA-TAAACTGGGGCAATAGCCCTTTT
27589181 TGCACTTCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
48 11 0.16
49 19 0.27
50 26 0.37
51 14 0.20
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (48 bp):
CTTTTCATAAACTGGGGCAATAGCCCTTTTAATAACTAGGGCAAAGCC
Found at i:27589251 original size:20 final size:20
Alignment explanation
Indices: 27589228--27589274 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
27589218 TTATGAATAC
27589228 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
27589247 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
27589268 ATCATGT
1 ATCATGT
27589275 ACATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:27596120 original size:31 final size:31
Alignment explanation
Indices: 27596082--27596141 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
27596072 TTCATGTTTC
*
27596082 ATATTTCATAACACTGGGCCGAAGCCTTTTT
1 ATATTTCATAACACTGGACCGAAGCCTTTTT
**
27596113 ATATTTCATATTACTGGACCGAAGCCTTT
1 ATATTTCATAACACTGGACCGAAGCCTTT
27596142 ATTGTAGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTGGACCGAAGCCTTTTT
Found at i:27596436 original size:26 final size:25
Alignment explanation
Indices: 27596363--27596447 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
27596353 CTCTTTTAAT
*
27596363 AAGCCCTTTTGATAAACTGGAGCAA
1 AAGCCCTTTTGATAAACTGGGGCAA
* *
27596388 AAGCCATTTTAATAAACTGGGGCAA
1 AAGCCCTTTTGATAAACTGGGGCAA
* *
27596413 AAGCCCTTTTCGGTAAATTGGGGC-A
1 AAGCCCTTTT-GATAAACTGGGGCAA
*
27596438 TAGCCCTTTT
1 AAGCCCTTTT
27596448 TGCACTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
25 41 0.80
26 10 0.20
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (25 bp):
AAGCCCTTTTGATAAACTGGGGCAA
Found at i:27596554 original size:11 final size:11
Alignment explanation
Indices: 27596502--27596556 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
27596492 TACATCATGT
27596502 TCATGTGCATA
1 TCATGTGCATA
*
27596513 TCA--TACATA
1 TCATGTGCATA
*
27596522 CCATGTGCATA
1 TCATGTGCATA
*
27596533 TCA--TACATA
1 TCATGTGCATA
27596542 TCATGTGCATA
1 TCATGTGCATA
27596553 TCAT
1 TCAT
27596557 ATCAATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:27596564 original size:20 final size:20
Alignment explanation
Indices: 27596502--27596567 Score: 107
Period size: 20 Copynumber: 3.3 Consensus size: 20
27596492 TACATCATGT
27596502 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
27596522 CCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
27596542 TCATGTGCATATCATATCA-A
1 TCATGTGCATATCATA-CATA
27596562 TCATGT
1 TCATGT
27596568 ATATCAAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:27602736 original size:27 final size:27
Alignment explanation
Indices: 27602702--27602878 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
27602692 TAAATTGTAC
*
27602702 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
27602729 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
27602755 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
27602783 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
27602810 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
27602837 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
27602864 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27602879 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:27602763 original size:54 final size:55
Alignment explanation
Indices: 27602702--27602878 Score: 225
Period size: 54 Copynumber: 3.3 Consensus size: 55
27602692 TAAATTGTAC
* **
27602702 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * ** *
27602757 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
* * *
27602810 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
*
27602864 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27602879 GACTTAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:27602842 original size:81 final size:81
Alignment explanation
Indices: 27602703--27602857 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
27602693 AAATTGTACA
* * *
27602703 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
27602768 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
27602784 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTG
*
27602848 TGCGAGTTGA
65 TGCGAATTGA
27602858 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27602869 original size:81 final size:81
Alignment explanation
Indices: 27602699--27602878 Score: 227
Period size: 81 Copynumber: 2.2 Consensus size: 81
27602689 GGTTAAATTG
* * *
27602699 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27602764 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27602780 TGCGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTA
* **
27602844 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
27602861 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27602879 GACTTAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 1 0.01
81 82 0.99
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27610806 original size:27 final size:27
Alignment explanation
Indices: 27610772--27610949 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27610762 TAAATTGTAC
27610772 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27610799 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27610825 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27610853 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27610881 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27610908 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27610935 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27610950 GACTTAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:27610886 original size:82 final size:81
Alignment explanation
Indices: 27610773--27610928 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27610763 AAATTGTACA
* *
27610773 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27610837 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27610854 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27610919 TGCGAGTTGA
65 TGCGAATTGA
27610929 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:27610940 original size:82 final size:81
Alignment explanation
Indices: 27610769--27610949 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27610759 GGTTAAATTG
* *
27610769 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27610834 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27610850 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27610914 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27610932 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27610950 GACTTAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:27634872 original size:49 final size:50
Alignment explanation
Indices: 27634790--27635035 Score: 298
Period size: 49 Copynumber: 4.9 Consensus size: 50
27634780 AGCTATTGTG
* * *
27634790 AGGTCACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* ** *
27634840 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * * **
27634890 CGATCACGTGTGTAGCACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
**
27634940 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
27634990 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
27635036 GCTTTAGCTA
Statistics
Matches: 164, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 82 0.50
50 46 0.28
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:27639879 original size:30 final size:30
Alignment explanation
Indices: 27639843--27639902 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
27639833 TTCCCGAGCC
27639843 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
27639873 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
27639903 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:27640629 original size:49 final size:50
Alignment explanation
Indices: 27640549--27640793 Score: 289
Period size: 49 Copynumber: 4.9 Consensus size: 50
27640539 AGCTATTGTG
*
27640549 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ***
27640599 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATACGTACCTA-ATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGATAA-TT
* * * * **
27640649 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
** * *
27640699 AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
27640749 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
27640794 TGCTTCGACT
Statistics
Matches: 161, Mismatches: 30, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
49 78 0.48
50 48 0.30
51 35 0.22
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:27644398 original size:36 final size:36
Alignment explanation
Indices: 27644351--27644426 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
27644341 CATACGTCTT
27644351 CAGTTGTTTCCCTTTTCATTGAGAAATAAAGCTAAA
1 CAGTTGTTTCCCTTTTCATTGAGAAATAAAGCTAAA
27644387 CAGTTGTTTCCCTTTTCATTGAGAAATAAAGCTAAA
1 CAGTTGTTTCCCTTTTCATTGAGAAATAAAGCTAAA
27644423 CAGT
1 CAGT
27644427 GGTTGAACTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (36 bp):
CAGTTGTTTCCCTTTTCATTGAGAAATAAAGCTAAA
Found at i:27647628 original size:21 final size:21
Alignment explanation
Indices: 27647599--27647638 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27647589 TTCGAATTTG
27647599 TTTACCTATTATTATTATTCA
1 TTTACCTATTATTATTATTCA
*
27647620 TTTATCTATTATTATTATT
1 TTTACCTATTATTATTATT
27647639 GTTTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTACCTATTATTATTATTCA
Found at i:27654880 original size:22 final size:21
Alignment explanation
Indices: 27654834--27654882 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
27654824 GGGGTTCGAT
*
27654834 ACTCTAATAAAAAATTCAGTT
1 ACTCTAATAAAAAATTCAGTG
*
27654855 ACTCTAATAAAAAATTTAGTAG
1 ACTCTAATAAAAAATTCAGT-G
27654877 ACTCTA
1 ACTCTA
27654883 CAGGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (21 bp):
ACTCTAATAAAAAATTCAGTG
Found at i:27658351 original size:47 final size:47
Alignment explanation
Indices: 27658297--27658490 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
27658287 TTAGGATTTT
** * *
27658297 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
27658344 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
27658391 ATGCGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
27658438 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
27658485 ATGTGA
1 ATGTGA
27658491 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:27658848 original size:37 final size:37
Alignment explanation
Indices: 27658697--27658841 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
27658687 GGAAATATAT
27658697 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
27658734 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
27658771 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
27658808 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
27658842 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:27660259 original size:27 final size:27
Alignment explanation
Indices: 27660229--27660314 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
27660219 ATTACCAAAG
* *
27660229 TACCCTCAATTTATAGAATTATTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
**
27660256 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACTGTTT
* * *
27660283 TACCCTCGATTGT-GA-AATTACAGTTT
1 TACCCTCAATT-TACAGAATTACTGTTT
27660309 TACCCT
1 TACCCT
27660315 TGATTGTGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 16 0.31
27 34 0.67
28 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACTGTTT
Found at i:27660308 original size:26 final size:26
Alignment explanation
Indices: 27660272--27660329 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
27660262 TGATTTACAG
*
27660272 AATTACTGTTTTACCCTCGATTGTGA
1 AATTACAGTTTTACCCTCGATTGTGA
*
27660298 AATTACAGTTTTACCCTTGATTGTGA
1 AATTACAGTTTTACCCTCGATTGTGA
27660324 AATTAC
1 AATTAC
27660330 TGAAATACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (26 bp):
AATTACAGTTTTACCCTCGATTGTGA
Found at i:27660338 original size:26 final size:26
Alignment explanation
Indices: 27660283--27660475 Score: 69
Period size: 27 Copynumber: 7.2 Consensus size: 26
27660273 ATTACTGTTT
***
27660283 TACCCTCGATTGTGAAATTACAGTTT
1 TACCCTCGATTGTGAAATTACAGAAA
* *
27660309 TACCCTTGATTGTGAAATTACTGAAA
1 TACCCTCGATTGTGAAATTACAGAAA
* *
27660335 TACCC-CTATAG-GATAGAATTACCA-AAA
1 TACCCTCGATTGTG--A-AATTA-CAGAAA
* *
27660362 TACCC-CTAGTTCGTAAAATTACCA-AAA
1 TACCCTCGA-TT-GTGAAATTA-CAGAAA
* * * *
27660389 TACCACTGGTTTGTGAAATTACTGATA
1 TACC-CTCGATTGTGAAATTACAGAAA
* *
27660416 TACCCTCAATTTGTAAAATTACCA-AAA
1 TACCCTCGA-TTGTGAAATTA-CAGAAA
*
27660443 TACCC-CTGATT-TACAAAATTACAGAAA
1 TACCCTC-GATTGT--GAAATTACAGAAA
27660470 TACCCT
1 TACCCT
27660476 TAACTTTCTA
Statistics
Matches: 126, Mismatches: 24, Indels: 32
0.69 0.13 0.18
Matches are distributed among these distances:
24 1 0.01
25 4 0.03
26 35 0.28
27 78 0.62
28 7 0.06
29 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (26 bp):
TACCCTCGATTGTGAAATTACAGAAA
Found at i:27660381 original size:27 final size:27
Alignment explanation
Indices: 27660351--27660474 Score: 110
Period size: 27 Copynumber: 4.6 Consensus size: 27
27660341 TATAGGATAG
*
27660351 AATTACCAAAATACCCCTAGTTCGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
27660378 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
** * *
27660405 AATTACTGATATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
**
27660432 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
27660459 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
27660475 TTAACTTTCT
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
26 5 0.07
27 67 0.88
28 4 0.05
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:27660461 original size:81 final size:80
Alignment explanation
Indices: 27660318--27660473 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 80
27660308 TTACCCTTGA
* *
27660318 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGTTCGTAAAATTA
1 TTGTGAAATTACTGAAATACCCCAATAGGATAAAATTACCAAAATACCCCTAGTTCG-AAAATTA
27660383 CCA-AAATACCACTGGT
65 -CAGAAATACCACTGGT
* ** *
27660399 TTGTGAAATTACTGATATACCCTCAATTTG-TAAAATTACCAAAATACCCCTGATTTAC-AAAAT
1 TTGTGAAATTACTGAAATACCC-CAATAGGATAAAATTACCAAAATACCCCT-AGTT-CGAAAAT
27660462 TACAGAAATACC
63 TACAGAAATACC
27660474 CTTAACTTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
80 2 0.03
81 55 0.85
82 7 0.11
83 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (80 bp):
TTGTGAAATTACTGAAATACCCCAATAGGATAAAATTACCAAAATACCCCTAGTTCGAAAATTAC
AGAAATACCACTGGT
Found at i:27660462 original size:54 final size:55
Alignment explanation
Indices: 27660374--27660531 Score: 176
Period size: 54 Copynumber: 2.9 Consensus size: 55
27660364 CCCCTAGTTC
*** *
27660374 GTAAAATTACCAAAATACCACTGGTTTGTGAAATTACTGATATACCCTCAA-TTT
1 GTAAAATTACCAAAATACCACTGGTTTACAAAATTACTGAAATACCCTCAACTTT
* * * *
27660428 GTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTAACTTT
1 GTAAAATTACCAAAATACCACTGGTTTACAAAATTACTGAAATACCCTCAACTTT
* * * *
27660483 CTAAAAATTA-TAGAAATACCATTGGTTAACAAAATTACTGAAATACCCT
1 GT-AAAATTACCA-AAATACCACTGGTTTACAAAATTACTGAAATACCCT
27660532 TGGTTTGTAG
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
54 43 0.50
55 5 0.06
56 38 0.44
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (55 bp):
GTAAAATTACCAAAATACCACTGGTTTACAAAATTACTGAAATACCCTCAACTTT
Found at i:27660629 original size:27 final size:27
Alignment explanation
Indices: 27660578--27660655 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
27660568 AAATGACTAA
* *
27660578 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
* *
27660605 AA-AGCCCTTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
*
27660632 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
27660656 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:27661531 original size:25 final size:25
Alignment explanation
Indices: 27661464--27661533 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
27661454 AGGAAGTGCT
* * *
27661464 AAAAGGGCTATGCCCCAATTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
27661489 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
27661514 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
27661534 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:27661546 original size:24 final size:23
Alignment explanation
Indices: 27661463--27661560 Score: 88
Period size: 25 Copynumber: 4.0 Consensus size: 23
27661453 GAGGAAGTGC
*
27661463 TAAAAGGGCTATGCCCCAATTTAT
1 TAAAAGGGCTATGCCCC-AGTTAT
* *
27661487 CGAAAAGGGCTTTGCCCCAGTTTAT
1 -TAAAAGGGCTATGCCCCAG-TTAT
* *
27661512 CAAAAAGGGCTTTGCCCCAGTTAT
1 -TAAAAGGGCTATGCCCCAGTTAT
*
27661536 TAAAAGAGGCTAGGCCTCCAGTTAT
1 TAAAAG-GGCTATGCC-CCAGTTAT
27661561 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
23 5 0.08
24 12 0.19
25 46 0.73
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
TAAAAGGGCTATGCCCCAGTTAT
Found at i:27661557 original size:50 final size:50
Alignment explanation
Indices: 27661464--27661558 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
27661454 AGGAAGTGCT
* **
27661464 AAAAGGGCTATGCCCCAATTTATCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAAGTTATCGAAAAGGGCTAGGCCCCAGTTTATCA
* *
27661514 AAAAGGGCTTTGCCCC-AGTTAT-TAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAAGTTATCGAAAAG-GGCTAGGCC-CCAGTT
27661559 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 12 0.32
50 21 0.55
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAAGTTATCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:27661787 original size:30 final size:31
Alignment explanation
Indices: 27661753--27661835 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
27661743 CGCTTATAGT
27661753 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
27661783 AAAGGCTTCGGCCCTGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
27661814 AAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
27661836 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 16 0.33
31 33 0.67
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:27665348 original size:42 final size:45
Alignment explanation
Indices: 27665289--27665412 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 45
27665279 TTGTTATCAA
* * *
27665289 ATATCGATGCCACTGTCCCAAACAAGGTCTTACACGA-AAT-T-AT
1 ATAT-GATGCCAATGTCCCAGACATGGTCTTACACGATAATCTCAT
*
27665332 ATATGATGCCAATGTCCCAGACATTGTCTTACAC-ATAATCTCAT
1 ATATGATGCCAATGTCCCAGACATGGTCTTACACGATAATCTCAT
*
27665376 ATCA--ATGCCAATGTCCTAGACATGGTCTTACACGATA
1 AT-ATGATGCCAATGTCCCAGACATGGTCTTACACGATA
27665413 TCACATCTCA
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.41
43 32 0.46
44 7 0.10
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (45 bp):
ATATGATGCCAATGTCCCAGACATGGTCTTACACGATAATCTCAT
Found at i:27684006 original size:49 final size:47
Alignment explanation
Indices: 27683908--27684183 Score: 435
Period size: 47 Copynumber: 5.8 Consensus size: 47
27683898 ATTTAGGATT
*
27683908 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
27683955 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
27684004 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
27684053 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
27684100 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
27684147 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
27684184 TCCCGAAGGG
Statistics
Matches: 216, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
47 121 0.56
49 95 0.44
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:27684082 original size:96 final size:94
Alignment explanation
Indices: 27683908--27684183 Score: 435
Period size: 96 Copynumber: 2.9 Consensus size: 94
27683898 ATTTAGGATT
*
27683908 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
27683973 AGTGTATATATATGTGATAAGGCCTAATGGC
66 AGTG--TATATATGTGATAAGGCCTAATGGC
27684004 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
27684069 AAAGTGTATATATGTGATAAGGCCTAATGGC
64 AAAGTGTATATATGTGATAAGGCCTAATGGC
* * * * * * *
27684100 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
27684165 AGTGTATAAATGTGATAAG
66 AGTGTATATATGTGATAAG
27684184 TCCCGAAGGG
Statistics
Matches: 169, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 54 0.32
96 69 0.41
98 46 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGTGATAAGGCCTAATGGC
Found at i:27684358 original size:37 final size:37
Alignment explanation
Indices: 27684302--27684380 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
27684292 CCGAGCTCTA
* * * *
27684302 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGTT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
27684339 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
27684376 AAGAC
1 AAGAC
27684381 TTCGTAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:27685994 original size:40 final size:40
Alignment explanation
Indices: 27685593--27685982 Score: 631
Period size: 40 Copynumber: 9.8 Consensus size: 40
27685583 AGAATTGAGG
*
27685593 GTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
27685633 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
*
27685673 GTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
*
27685713 GTGATGTATCCGGGCTAAGTCTCGAAGAACATTCGTGCTA
1 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
27685753 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
*
27685793 GTAATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
27685833 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
*
27685873 GTGATGTATCCGGACTAAGT-TCCGAAGAGCATTCGTGCTA
1 GTGATGTATCCGGGCTAAGTCT-CGAAGAGCATTCGTGCTA
* * * * *
27685913 GTGATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTG
1 GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
* * * *
27685952 GTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GTGATGTATCCGGGCTAAGTCTCGAAGAGCA
27685983 ATCATGCTGG
Statistics
Matches: 329, Mismatches: 18, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
39 33 0.10
40 296 0.90
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
GTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTA
Found at i:27689920 original size:49 final size:47
Alignment explanation
Indices: 27689826--27690189 Score: 578
Period size: 47 Copynumber: 7.8 Consensus size: 47
27689816 ATTTAGGATT
27689826 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
27689873 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
* *
27689922 CGATGTGATGAATGTGAAAGTGTATATATATG-T---G-AT-ATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
27689963 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
27690012 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
27690059 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
27690106 CGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* *
27690153 CGATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
27690190 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 12, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
41 27 0.09
42 1 0.00
43 10 0.03
44 1 0.00
46 1 0.00
47 180 0.61
48 1 0.00
49 74 0.25
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:27690364 original size:37 final size:37
Alignment explanation
Indices: 27690308--27690386 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
27690298 CTGAGCTCTA
* * *
27690308 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
27690345 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
27690382 AAGAC
1 AAGAC
27690387 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:27697938 original size:39 final size:40
Alignment explanation
Indices: 27697751--27698012 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
27697741 TTGAATGCTG
* * * * * *
27697751 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
27697791 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27697831 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27697871 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
27697911 TCCGGGTTAAGT-CCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27697950 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27697989 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27698013 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 71 0.36
40 118 0.60
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27697964 original size:79 final size:79
Alignment explanation
Indices: 27697790--27698010 Score: 302
Period size: 79 Copynumber: 2.8 Consensus size: 79
27697780 AAGTGAATAT
* * * *
27697790 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAG
27697854 TCGTGCGAGTTATTAA
64 TCGTGCGAGTTATTAA
*
27697870 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAGT
*
27697934 CGTGCGAGTTGTTAA
65 CGTGCGAGTTATTAA
* * * * *
27697949 ATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
27698011 TTTGAACGAG
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 22 0.17
79 61 0.48
80 43 0.34
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAGTC
GTGCGAGTTATTAA
Found at i:27698032 original size:79 final size:79
Alignment explanation
Indices: 27697790--27698047 Score: 218
Period size: 79 Copynumber: 3.3 Consensus size: 79
27697780 AAGTGAATAT
* * * * * * *
27697790 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGGCAG
** * *
27697854 TCGTGCGAGTTA-TTAA
64 TCGAACGAG-GAGCTAA
* * *
27697870 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCAGTC
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCAGTC
** ** *
27697935 GTGCGAGTTGTTAA
66 GAACGAGGAGCTAA
* * * *
27697949 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGGCAGT
* *
27698013 TGAACGAGGAGCTAT
65 CGAACGAGGAGCTAA
*
27698028 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
27698048 TACGTGATTT
Statistics
Matches: 152, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
78 37 0.24
79 69 0.45
80 46 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCAGTC
GAACGAGGAGCTAA
Found at i:27705767 original size:40 final size:40
Alignment explanation
Indices: 27705684--27705946 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
27705674 TTGAATGCTG
* * * * * *
27705684 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
27705724 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
27705764 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
27705804 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
27705844 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27705884 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
27705923 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27705947 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:27705966 original size:79 final size:80
Alignment explanation
Indices: 27705723--27705981 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
27705713 AAGTGAATAT
* * * * * * *
27705723 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
27705787 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
27705803 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
27705868 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
27705883 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
27705947 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
27705962 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
27705982 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:27713141 original size:26 final size:26
Alignment explanation
Indices: 27713112--27713161 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
27713102 ACACCAATAT
*
27713112 CGCAACAAAGCTGCCAGTAACAGTAA
1 CGCAACAAAGCTACCAGTAACAGTAA
* *
27713138 CGCAGCAAAGCTACCAGTATCAGT
1 CGCAACAAAGCTACCAGTAACAGT
27713162 GTATGTGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.20, T:0.14
Consensus pattern (26 bp):
CGCAACAAAGCTACCAGTAACAGTAA
Found at i:27728461 original size:46 final size:46
Alignment explanation
Indices: 27728411--27728567 Score: 244
Period size: 46 Copynumber: 3.4 Consensus size: 46
27728401 TCACTATAAC
*
27728411 GTAGCCGAAGCTACCACTGTATTGTAGTCGAAGCTACCACTGAGAT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
27728457 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
* * * * *
27728503 GTAGCTGAAGCTACCATTATATTATAGCCGAAGCTACCACTGTA-TT
1 GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTG-AGAT
27728549 GTAGCCGAAGCTACCACTG
1 GTAGCCGAAGCTACCACTG
27728568 AGATGTAGTT
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 100 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (46 bp):
GTAGCCGAAGCTACCACTGTATTGTAGCCGAAGCTACCACTGAGAT
Found at i:27728506 original size:69 final size:70
Alignment explanation
Indices: 27728411--27728576 Score: 250
Period size: 69 Copynumber: 2.4 Consensus size: 70
27728401 TCACTATAAC
* *
27728411 GTAGCCGAAGCTACCACTGTA-TTGTAGTC-GAAGCTACCACTGAGA-TGTAGCCGAAGCTACCA
1 GTAGCCGAAGCTACCACTG-AGATGTAGTCTGAAGCTACCA-TGAGATTATAGCCGAAGCTACCA
27728473 CTGTATT
64 CTGTATT
* *
27728480 GTAGCCGAAGCTACCACTGAGATGTAG-CTGAAGCTACCATTATATTATAGCCGAAGCTACCACT
1 GTAGCCGAAGCTACCACTGAGATGTAGTCTGAAGCTACCATGAGATTATAGCCGAAGCTACCACT
27728544 GTATT
66 GTATT
27728549 GTAGCCGAAGCTACCACTGAGATGTAGT
1 GTAGCCGAAGCTACCACTGAGATGTAGT
27728577 TGATAGATTC
Statistics
Matches: 89, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
68 5 0.06
69 84 0.94
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (70 bp):
GTAGCCGAAGCTACCACTGAGATGTAGTCTGAAGCTACCATGAGATTATAGCCGAAGCTACCACT
GTATT
Found at i:27728567 original size:23 final size:23
Alignment explanation
Indices: 27728411--27728567 Score: 219
Period size: 23 Copynumber: 6.8 Consensus size: 23
27728401 TCACTATAAC
27728411 GTAGCCGAAGCTACCACTGTATT
1 GTAGCCGAAGCTACCACTGTATT
* *
27728434 GTAGTCGAAGCTACCACTG-AGAT
1 GTAGCCGAAGCTACCACTGTA-TT
27728457 GTAGCCGAAGCTACCACTGTATT
1 GTAGCCGAAGCTACCACTGTATT
*
27728480 GTAGCCGAAGCTACCACTG-AGAT
1 GTAGCCGAAGCTACCACTGTA-TT
* * *
27728503 GTAGCTGAAGCTACCATTATATT
1 GTAGCCGAAGCTACCACTGTATT
*
27728526 ATAGCCGAAGCTACCACTGTATT
1 GTAGCCGAAGCTACCACTGTATT
27728549 GTAGCCGAAGCTACCACTG
1 GTAGCCGAAGCTACCACTG
27728568 AGATGTAGTT
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
22 2 0.02
23 112 0.97
24 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (23 bp):
GTAGCCGAAGCTACCACTGTATT
Found at i:27733872 original size:6 final size:6
Alignment explanation
Indices: 27733856--27733967 Score: 50
Period size: 6 Copynumber: 18.0 Consensus size: 6
27733846 TAACCCATTA
* * * * *
27733856 CAGAAT AAGAAT CAGAAT CGGAAT TAG-GT GACAGAAT CAAAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT
* * * *
27733905 CAGTAT CAGGTAA- CAGAAT CAAAAT CAAAAT CAGTAT CAGGTAA- CAGAAT
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT
*
27733955 CAAAAAT CAGAAT
1 C-AGAAT CAGAAT
27733968 GTGAATGAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
5 5 0.06
6 57 0.73
7 13 0.17
8 3 0.04
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
CAGAAT
Found at i:27733900 original size:31 final size:31
Alignment explanation
Indices: 27733855--27733967 Score: 156
Period size: 31 Copynumber: 3.6 Consensus size: 31
27733845 TTAACCCATT
* * * *
27733855 ACAGAAT-AAGAATCAGAATCGGAATTAGGTG
1 ACAGAATCAA-AATCAGAATCAGTATCAGGTA
27733886 ACAGAATCAAAATCAGAATCAGTATCAGGTA
1 ACAGAATCAAAATCAGAATCAGTATCAGGTA
*
27733917 ACAGAATCAAAATCAAAATCAGTATCAGGTA
1 ACAGAATCAAAATCAGAATCAGTATCAGGTA
27733948 ACAGAATCAAAAATCAGAAT
1 ACAGAATC-AAAATCAGAAT
27733968 GTGAATGAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
31 62 0.84
32 12 0.16
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
ACAGAATCAAAATCAGAATCAGTATCAGGTA
Found at i:27734146 original size:27 final size:26
Alignment explanation
Indices: 27734104--27734205 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
27734094 GCTCAGTTAT
* *
27734104 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
27734131 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
27734157 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
27734185 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
27734206 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Done.