Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 96 of 230
Found at i:27102414 original size:19 final size:19
Alignment explanation
Indices: 27102370--27102417 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
27102360 TTGATGTATA
* *
27102370 ATATTAAATATGATATATT
1 ATATTAAATATAATATAAT
*
27102389 ATATTAAATATAATGTAAT
1 ATATTAAATATAATATAAT
*
27102408 ATTTTAAATA
1 ATATTAAATA
27102418 CTTCGTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
ATATTAAATATAATATAAT
Found at i:27104209 original size:17 final size:18
Alignment explanation
Indices: 27104173--27104210 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27104163 TCAATTAAAA
27104173 TATTTTGAAGTTTGGGAC
1 TATTTTGAAGTTTGGGAC
27104191 TATTTTAGAA-TTT-GGAC
1 TATTTT-GAAGTTTGGGAC
27104208 TAT
1 TAT
27104211 AGTTCAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 9 0.47
19 3 0.16
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (18 bp):
TATTTTGAAGTTTGGGAC
Found at i:27110094 original size:62 final size:60
Alignment explanation
Indices: 27109983--27110100 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 60
27109973 ATCACTTTAA
** * *
27109983 TATTAAAATTAATCTAATTTTTATCAAGATAAATATTAGATTAATTTTAATATTAAATCT
1 TATTAAAATTAATAGAATTTTTATCAAGATAAACATTAGATTAAATTTAATATTAAATCT
27110043 TATTAAAA-TAATAGAATTTTTATCTACAAGATAAACATTCA-ATTAAATTTAATATTAA
1 TATTAAAATTAATAGAATTTTTA--T-CAAGATAAACATT-AGATTAAATTTAATATTAA
27110101 GATAATCACT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
59 12 0.24
60 8 0.16
61 1 0.02
62 28 0.56
63 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (60 bp):
TATTAAAATTAATAGAATTTTTATCAAGATAAACATTAGATTAAATTTAATATTAAATCT
Found at i:27114326 original size:7 final size:8
Alignment explanation
Indices: 27114301--27114329 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27114291 GTTCCAAAGG
27114301 TTTCACTT
1 TTTCACTT
27114309 TTTCACTT
1 TTTCACTT
27114317 TTTCACTT
1 TTTCACTT
27114325 TTTCA
1 TTTCA
27114330 TTACTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTCACTT
Found at i:27116253 original size:18 final size:18
Alignment explanation
Indices: 27116230--27116268 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
27116220 TACAGCTAAG
*
27116230 CCACACTAGCATGTGGGC
1 CCACACGAGCATGTGGGC
* *
27116248 CCACACGGGCATGTGTGC
1 CCACACGAGCATGTGGGC
27116266 CCA
1 CCA
27116269 TAGTTTTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.28, T:0.15
Consensus pattern (18 bp):
CCACACGAGCATGTGGGC
Found at i:27134974 original size:37 final size:35
Alignment explanation
Indices: 27134917--27134987 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
27134907 CGAGAATCAT
*
27134917 ATTAAATTAATAAAATACTATTAATATAAGTATTAA
1 ATTAAATTAATAAAATACTATTAAGATAA-TATTAA
*
27134953 ATTAAATTTAATATTAA-ACTATTAAGATAATATTA
1 ATTAAA-TTAATA-AAATACTATTAAGATAATATTA
27134988 CTTTTGGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 11 0.35
37 18 0.58
38 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAGATAATATTAA
Found at i:27138137 original size:15 final size:15
Alignment explanation
Indices: 27138113--27138144 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27138103 TATGCATGCA
*
27138113 AAATATAAAAGATAT
1 AAATACAAAAGATAT
27138128 AAATACAAAAGATAT
1 AAATACAAAAGATAT
27138143 AA
1 AA
27138145 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (15 bp):
AAATACAAAAGATAT
Found at i:27142630 original size:12 final size:12
Alignment explanation
Indices: 27142615--27142644 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
27142605 ATTTTTATTC
27142615 TTATAATTACAT
1 TTATAATTACAT
27142627 TTATAATTACAT
1 TTATAATTACAT
27142639 TTATAA
1 TTATAA
27142645 ATAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (12 bp):
TTATAATTACAT
Found at i:27142914 original size:73 final size:73
Alignment explanation
Indices: 27142795--27142939 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 73
27142785 AAACCTTACC
* *
27142795 AGGAAAACTTAATGGGACAAAACTTTGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCCC
1 AGGAAAACTCAATGGGACAAAACTTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCCC
27142860 TCATGAAT
66 TCATGAAT
27142868 AGGAAAACTCAATGGGACAAAA-TCTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCC
1 AGGAAAACTCAATGGGACAAAACT-TCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCC
27142932 CTCATGAA
65 CTCATGAA
27142940 AACATCACAT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
72 1 0.01
73 68 0.99
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (73 bp):
AGGAAAACTCAATGGGACAAAACTTCGGTTAAGGGAAAAAGAGTACAGTGTGTATTTACTCCCCC
TCATGAAT
Found at i:27149779 original size:14 final size:14
Alignment explanation
Indices: 27149760--27149799 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
27149750 TTGTTTGCCA
27149760 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
27149774 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
27149788 GGAAAATGTTTT
1 GTAAAATGTTTT
27149800 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:27149808 original size:20 final size:20
Alignment explanation
Indices: 27149783--27149822 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27149773 CGTAAAATGA
*
27149783 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
27149803 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
27149823 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:27149812 original size:34 final size:35
Alignment explanation
Indices: 27149768--27149834 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
27149758 CAGTAAAATG
*
27149768 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
27149802 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
27149835 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:27149838 original size:14 final size:15
Alignment explanation
Indices: 27149762--27149838 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
27149752 GTTTGCCAGT
* *
27149762 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
27149776 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
27149790 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
27149810 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
27149825 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
27149839 TGTTTGGATG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:27151752 original size:14 final size:14
Alignment explanation
Indices: 27151733--27151760 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27151723 CAGAAATTAA
27151733 GGAAAATATTTTCC
1 GGAAAATATTTTCC
27151747 GGAAAATATTTTCC
1 GGAAAATATTTTCC
27151761 ACCAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTCC
Found at i:27153909 original size:11 final size:11
Alignment explanation
Indices: 27153892--27153928 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
27153882 ATAGGTATAA
27153892 GAAGTATAAAT
1 GAAGTATAAAT
*
27153903 AAAGTAT-AA-
1 GAAGTATAAAT
27153912 GAAGTATAAAT
1 GAAGTATAAAT
27153923 GAAGTA
1 GAAGTA
27153929 GATGTCTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 6 0.27
10 4 0.18
11 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.19, T:0.24
Consensus pattern (11 bp):
GAAGTATAAAT
Found at i:27153911 original size:20 final size:20
Alignment explanation
Indices: 27153886--27153928 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
27153876 CTATTTATAG
27153886 GTATAAGAAGTATAAATAAA
1 GTATAAGAAGTATAAATAAA
*
27153906 GTATAAGAAGTATAAATGAA
1 GTATAAGAAGTATAAATAAA
27153926 GTA
1 GTA
27153929 GATGTCTACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (20 bp):
GTATAAGAAGTATAAATAAA
Found at i:27154187 original size:13 final size:13
Alignment explanation
Indices: 27154169--27154194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27154159 TACGCGTTTA
27154169 ATTTTTAATTATT
1 ATTTTTAATTATT
27154182 ATTTTTAATTATT
1 ATTTTTAATTATT
27154195 GTAATCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTTAATTATT
Found at i:27154800 original size:17 final size:18
Alignment explanation
Indices: 27154778--27154815 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
27154768 ATCACAAATT
27154778 TTATTAAA-TTATAAGTA
1 TTATTAAATTTATAAGTA
*
27154795 TTATTAAATTTATAATTA
1 TTATTAAATTTATAAGTA
27154813 TTA
1 TTA
27154816 AAAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTATTAAATTTATAAGTA
Found at i:27154846 original size:58 final size:58
Alignment explanation
Indices: 27154724--27154843 Score: 143
Period size: 58 Copynumber: 2.1 Consensus size: 58
27154714 ATAATAAATG
* * * **
27154724 TAAATTATAATTATTTTTAAATATATGATTATTAAATTATAATTATCACAAATTTTAT
1 TAAATTATAAGTATTATTAAATATATAATTATTAAAAAATAATTATCACAAATTTTAT
* * *
27154782 TAAATTATAAGTATTATTAAATTTATAATTATTAAAAAATTATTTTACATCAAATTTT-T
1 TAAATTATAAGTATTATTAAATATATAATTATTAAAAAATAATTAT-CA-CAAATTTTAT
27154841 TAA
1 TAA
27154844 TTAATAATTC
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
58 38 0.73
59 6 0.12
60 8 0.15
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (58 bp):
TAAATTATAAGTATTATTAAATATATAATTATTAAAAAATAATTATCACAAATTTTAT
Found at i:27157062 original size:16 final size:16
Alignment explanation
Indices: 27157041--27157072 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27157031 TATATTAGTG
27157041 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
27157057 CATATATATTTGAAAT
1 CATATAAATTTGAAAT
27157073 TTTTTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Found at i:27157177 original size:9 final size:9
Alignment explanation
Indices: 27157163--27157210 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
27157153 TATTATGGTA
27157163 TAATTTTTT
1 TAATTTTTT
27157172 TAATTTTTT
1 TAATTTTTT
**
27157181 TAACCTTTT
1 TAATTTTTT
27157190 TATATATTTTT
1 TA-AT-TTTTT
27157201 TAGATTTTTT
1 TA-ATTTTTT
27157211 GAAAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
9 18 0.56
10 6 0.19
11 8 0.25
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (9 bp):
TAATTTTTT
Found at i:27157227 original size:30 final size:29
Alignment explanation
Indices: 27157161--27157229 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
27157151 ATTATTATGG
* **
27157161 TATAAT-TTTTTTAATTTTTTTAACCTTT
1 TATAATATTTTTTAATTTTTTGAAAATTT
27157189 T-TATATATTTTTTAGATTTTTTGAAAATTT
1 TATA-ATATTTTTTA-ATTTTTTGAAAATTT
27157219 TATAATATTTT
1 TATAATATTTT
27157230 AAAAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
28 3 0.09
29 7 0.21
30 20 0.59
31 2 0.06
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (29 bp):
TATAATATTTTTTAATTTTTTGAAAATTT
Found at i:27157229 original size:19 final size:19
Alignment explanation
Indices: 27157207--27157308 Score: 59
Period size: 18 Copynumber: 5.4 Consensus size: 19
27157197 TTTTTAGATT
27157207 TTTTGAAAATTTTATAATA
1 TTTTGAAAATTTTATAATA
***
27157226 TTTT-AAAAAAATATAA-A
1 TTTTGAAAATTTTATAATA
* *
27157243 TTTTGGAATTTTTATAGATA
1 TTTTGAAAATTTTATA-ATA
*
27157263 TTTTG--AATTTTAAAATTTA
1 TTTTGAAAATTTTATAA--TA
* * *
27157282 TTTTGAATATTTGAAAATTA
1 TTTTGAAAATTTTATAA-TA
27157302 TTTTGAA
1 TTTTGAA
27157309 CTTTGTTTCT
Statistics
Matches: 64, Mismatches: 12, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
17 6 0.09
18 22 0.34
19 12 0.19
20 16 0.25
21 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
TTTTGAAAATTTTATAATA
Found at i:27157304 original size:20 final size:19
Alignment explanation
Indices: 27157261--27157308 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
27157251 TTTTTATAGA
27157261 TATTTTGAATTTTAAAATT
1 TATTTTGAATTTTAAAATT
27157280 TATTTTGAATATTTGAAAA-T
1 TATTTTGAAT-TTT-AAAATT
27157300 TATTTTGAA
1 TATTTTGAA
27157309 CTTTGTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.37
20 13 0.48
21 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TATTTTGAATTTTAAAATT
Found at i:27157630 original size:20 final size:20
Alignment explanation
Indices: 27157593--27157631 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27157583 AATATAAAAA
* * *
27157593 TAACTAAGTTTTTTATTAAT
1 TAACTAAATTGTTAATTAAT
27157613 TAACTAAATTGTTAATTAA
1 TAACTAAATTGTTAATTAA
27157632 GTAGGAGTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TAACTAAATTGTTAATTAAT
Found at i:27160363 original size:87 final size:85
Alignment explanation
Indices: 27160182--27160579 Score: 286
Period size: 82 Copynumber: 4.7 Consensus size: 85
27160172 TTTGTTTCCA
* * *
27160182 AATTAAAAGTAAATAAAAT-TCGTTTCGGGATTTATTCCCGC------ACGGTTTTTATTTCATT
1 AATTAAAATTAAATAAAATCT-GTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTA-TTCATT
*
27160240 TTGTTATTTTATTTCCAAACAGGA-
64 TTG--ATTTTATTTCCAAA-ACGAG
* * *
27160264 AATTAAAGTTAAATAAGATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGGTTTTATTCCAATT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATT-C-ATT
27160329 TTGATTTTATTTCCAAAACGAG
64 TTGATTTTATTTCCAAAACGAG
* * ** * * **
27160351 TATTAAAATTAAAATAAAATATGTTTCAAGATTTATTCCCGCCGTTCAAGTGA-TTTATTACATT
1 AATTAAAATT-AAATAAAATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATT-CATT
* * *
27160415 TTGATTATGTTGCCAAAAACGAG
64 TTGATTTTATTTCC-AAAACGAG
* * * * * * *
27160438 AAATTAAAATTAAATACAATTTGTTTCGGGATTTAATCCC-ATCGTTTAATAAGATTATATTTTA
1 -AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCT-GTTTAA-CAGATTTTA-TTCA
**
27160502 TTTT-A-TTT-TTTCC-AAATTAG
62 TTTTGATTTTATTTCCAAAACGAG
* * * *
27160522 AATT-AAATGAAATAAAATCTATTTCGGGATTTATTCCCGTTGTTTAACATATTTTATT
1 AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATT
27160580 TTGATTTAAT
Statistics
Matches: 251, Mismatches: 47, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
80 2 0.01
81 6 0.02
82 71 0.28
83 6 0.02
84 5 0.02
86 21 0.08
87 70 0.28
88 54 0.22
89 14 0.06
90 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (85 bp):
AATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCTGTTTAACAGATTTTATTCATTTT
GATTTTATTTCCAAAACGAG
Found at i:27160385 original size:88 final size:87
Alignment explanation
Indices: 27160228--27160464 Score: 214
Period size: 87 Copynumber: 2.7 Consensus size: 87
27160218 CCCGCACGGT
* * * * * **
27160228 TTTTATTTCATTTTGTTATTTTATTTCCAAACAGGAAATTAAAGTTAAATAAGATCTGTTTCGGG
1 TTTTATTCCATTTTG-TATTTTATTTCCAAACACGAAATTAAAATTAAATAAAATATGTTTCAAG
27160293 ATTTATTCCCGCTGTTTAACAGG
65 ATTTATTCCCGCTGTTTAACAGG
*
27160316 TTTTATTCCAATTTTG-ATTTTATTTCCAAA-ACGAGTATTAAAATTAAAATAAAATATGTTTCA
1 TTTTATTCC-ATTTTGTATTTTATTTCCAAACACGA-AATTAAAATT-AAATAAAATATGTTTCA
* *
27160379 AGATTTATTCCCGCCG-TTCA-AGTG
63 AGATTTATTCCCGCTGTTTAACAG-G
* * * * * * * *
27160403 ATTTATTACATTTTG-ATTATGTTGCCAAAAACGAGAAATTAAAATTAAATACAATTTGTTTC
1 TTTTATTCCATTTTGTATTTTATTTCCAAACAC--GAAATTAAAATTAAATAAAATATGTTTC
27160465 GGGATTTAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
86 22 0.18
87 49 0.40
88 45 0.36
89 8 0.06
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (87 bp):
TTTTATTCCATTTTGTATTTTATTTCCAAACACGAAATTAAAATTAAATAAAATATGTTTCAAGA
TTTATTCCCGCTGTTTAACAGG
Found at i:27161104 original size:13 final size:14
Alignment explanation
Indices: 27161077--27161105 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
27161067 CGAGAAACCT
27161077 ACAAAATTCTCAAG
1 ACAAAATTCTCAAG
27161091 ACAAAATT-TCAAG
1 ACAAAATTCTCAAG
27161104 AC
1 AC
27161106 TTGGCAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
ACAAAATTCTCAAG
Found at i:27161359 original size:31 final size:31
Alignment explanation
Indices: 27161321--27161380 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
27161311 GAAAAGAATG
27161321 AAGGAATTATGGACATCGTTGGACCATAATT
1 AAGGAATTATGGACATCGTTGGACCATAATT
27161352 AAGGAATTATGGACATCGTTGGACCATAA
1 AAGGAATTATGGACATCGTTGGACCATAA
27161381 ATAATTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (31 bp):
AAGGAATTATGGACATCGTTGGACCATAATT
Found at i:27166927 original size:13 final size:13
Alignment explanation
Indices: 27166909--27166934 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27166899 TCAATATGAA
27166909 TTATTTTTTATAT
1 TTATTTTTTATAT
27166922 TTATTTTTTATAT
1 TTATTTTTTATAT
27166935 ATAAATAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTTATAT
Found at i:27166945 original size:22 final size:22
Alignment explanation
Indices: 27166920--27166967 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
27166910 TATTTTTTAT
27166920 ATTTATTT-TTTATATATAAATA
1 ATTT-TTTATTTATATATAAATA
*
27166942 ATTTTTTATTTATATTTAAAT-
1 ATTTTTTATTTATATATAAATA
27166963 ATTTT
1 ATTTT
27166968 GTTCGTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTTTTATTTATATATAAATA
Found at i:27170594 original size:18 final size:18
Alignment explanation
Indices: 27170571--27170606 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
27170561 TGCCAGGTGC
*
27170571 GTATCCTATCCCTTATAT
1 GTATCCTAACCCTTATAT
27170589 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
27170607 ATTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:27170826 original size:21 final size:21
Alignment explanation
Indices: 27170802--27170842 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27170792 CCCACAACTG
*
27170802 GAGCAACTACAACCCCCGTCA
1 GAGCAACCACAACCCCCGTCA
*
27170823 GAGCAACCAGAACCCCCGTC
1 GAGCAACCACAACCCCCGTC
27170843 GGAAGTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.44, G:0.17, T:0.07
Consensus pattern (21 bp):
GAGCAACCACAACCCCCGTCA
Found at i:27174316 original size:126 final size:125
Alignment explanation
Indices: 27174092--27174361 Score: 443
Period size: 126 Copynumber: 2.2 Consensus size: 125
27174082 GGCCAAACAT
* * *
27174092 GAACTACTGTAGAAAAAGAGTGTCGATGTGGGAGCTTTTTCATCAAATTTGCTGATAGTGCATCC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCATCAAATTTGCTGATAGTGCATCC
* *
27174157 TGCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATTATTTTTTCAG
66 TGCTTGAAGCATTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAG
* *
27174217 GAACTATTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAT-AATTTTGCTGATAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTC-ATCAAATTTGCTGATAGTGCAT
27174281 CCTGCTTGAAGCATTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAG
64 CCTGCTTGAAGCATTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAG
*
27174343 GAACTACTATAGAAAAAGA
1 GAACTACTGTAGAAAAAGA
27174362 ACGTGTGAGC
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
125 31 0.23
126 101 0.75
127 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCATCAAATTTGCTGATAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAG
Found at i:27174555 original size:216 final size:216
Alignment explanation
Indices: 27174168--27174577 Score: 669
Period size: 216 Copynumber: 1.9 Consensus size: 216
27174158 GCTTGAAGCG
* * *
27174168 TTTTTGACACTATTTGTTTAGAACCGTCTTCTCAAAATTATTTTTTCAGGAACTATTGTAGAAAA
1 TTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTATTGTAGAAAA
* * * * * *
27174233 AGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGATAGTGCATCCTGCTTGAAGCATTTT
66 AGAGCGTCCACATAGGAGCTTTTTCCAATAATTTTGCTAACAGTGCATCCTACTTGAAGCATTTT
*
27174298 TGACACTATTTGTTTAGAACCGTCTTCTCAAAATAATTTTTTCAGGAACTACTATAGAAAAAGAA
131 TGACACTATTTGTTTAGAACCGTATTCTCAAAATAATTTTTTCAGGAACTACTATAGAAAAAGAA
27174363 CGTGTGAGCTTTTTTGGAGCA
196 CGTGTGAGCTTTTTTGGAGCA
* *
27174384 TTTTTTACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTGTTGTAGAAAA
1 TTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTATTGTAGAAAA
*
27174449 AGAGCGTCCACATAGGAGCTTTTTCCAGTAATTTTGCTAACAGTGCATCCTACTTGAAGCATTTT
66 AGAGCGTCCACATAGGAGCTTTTTCCAATAATTTTGCTAACAGTGCATCCTACTTGAAGCATTTT
* *
27174514 TGACACTATTT-TTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAGAAAAAGA
131 TGACACTATTTGTTT-AGAACCGTATTCTCAAAATAATTTTTTCAGGAACTACTATAGAAAAAGA
27174578 GCGTCCACGT
Statistics
Matches: 178, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
215 3 0.02
216 175 0.98
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (216 bp):
TTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTATTGTAGAAAA
AGAGCGTCCACATAGGAGCTTTTTCCAATAATTTTGCTAACAGTGCATCCTACTTGAAGCATTTT
TGACACTATTTGTTTAGAACCGTATTCTCAAAATAATTTTTTCAGGAACTACTATAGAAAAAGAA
CGTGTGAGCTTTTTTGGAGCA
Found at i:27174701 original size:126 final size:126
Alignment explanation
Indices: 27174380--27174700 Score: 473
Period size: 126 Copynumber: 2.6 Consensus size: 126
27174370 GCTTTTTTGG
* * * **
27174380 AGCATTTTTTACACTATTTGTTCAGAACCGTCTTCTCAAAATAATTTTTTCAAGAACTGTTGTAG
1 AGCATTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
*
27174445 AAAAAGAGCGTCCACATAGGAGCTTTTTCCAGTAATTTTGCTAACAGTGCATCCTACTTGA
66 AAAAAGAGCGTCCACATAGGAGCTTTTTCCAGTAATTTTGCTAACAATGCATCCTACTTGA
* *
27174506 AGCATTTTTGACACTATTTTTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
1 AGCATTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
* * * ** * * * *
27174571 AAAAAGAGCGTCCACGTGGGTGCTTTTTTTAGTAATTTTGCTGACAATGTATCTTGCTTGA
66 AAAAAGAGCGTCCACATAGGAGCTTTTTCCAGTAATTTTGCTAACAATGCATCCTACTTGA
*
27174632 AGCGTTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTT-AGGAACTACTGTAG
1 AGCATTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
27174696 AAAAA
66 AAAAA
27174701 AAATCCTTAT
Statistics
Matches: 175, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
125 19 0.11
126 156 0.89
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
AGCATTTTTTACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAGGAACTACTGTAG
AAAAAGAGCGTCCACATAGGAGCTTTTTCCAGTAATTTTGCTAACAATGCATCCTACTTGA
Found at i:27174796 original size:34 final size:34
Alignment explanation
Indices: 27174756--27174859 Score: 140
Period size: 34 Copynumber: 3.1 Consensus size: 34
27174746 CACAATATTA
* *
27174756 TTTTAAAAAAACTAAACCCTAATTTAATTTATTT
1 TTTTAAAAACACTAAACCCTAATTTAATTAATTT
*
27174790 TTTTAAAAACACTAAACCCTTATTTAATTAATTT
1 TTTTAAAAACACTAAACCCTAATTTAATTAATTT
*
27174824 ATTTT--AAACCCTTAAACCCTAATTTAATTAATTT
1 -TTTTAAAAACAC-TAAACCCTAATTTAATTAATTT
27174858 TT
1 TT
27174860 AAAAAAGAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
33 7 0.11
34 52 0.83
35 4 0.06
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.45
Consensus pattern (34 bp):
TTTTAAAAACACTAAACCCTAATTTAATTAATTT
Found at i:27176550 original size:38 final size:40
Alignment explanation
Indices: 27176483--27176568 Score: 131
Period size: 38 Copynumber: 2.2 Consensus size: 40
27176473 AAAAATATTT
*
27176483 ATATTAAAAACACTACCATAAATATAATAAATATTTTATC
1 ATATTAAAAACACTACAATAAATATAATAAATATTTTATC
*
27176523 ATATTAAAAACAC-A-AATAAATATAATAAATATTTTATT
1 ATATTAAAAACACTACAATAAATATAATAAATATTTTATC
*
27176561 GTATTAAA
1 ATATTAAA
27176569 TATAAATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 29 0.67
39 1 0.02
40 13 0.30
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (40 bp):
ATATTAAAAACACTACAATAAATATAATAAATATTTTATC
Found at i:27178645 original size:3 final size:3
Alignment explanation
Indices: 27178637--27178664 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27178627 GAAAAGAGCC
27178637 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
27178665 GCAAAGACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27178940 original size:30 final size:30
Alignment explanation
Indices: 27178904--27178971 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
27178894 ACTATTAATC
* *
27178904 AGTGACTGTTTTGTCATTTTTTATAACGTT-
1 AGTGACTGTTTTATCATTTTTTA-AAAGTTG
*
27178934 AGTGACTGTTTTATTATTTTTTAAAAGTTG
1 AGTGACTGTTTTATCATTTTTTAAAAGTTG
27178964 AGTGACTG
1 AGTGACTG
27178972 AAATGAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.50
Consensus pattern (30 bp):
AGTGACTGTTTTATCATTTTTTAAAAGTTG
Found at i:27180127 original size:14 final size:15
Alignment explanation
Indices: 27180104--27180134 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
27180094 AGGTCTGGTG
27180104 TATAAGTTTAGAGTT
1 TATAAGTTTAGAGTT
27180119 TATAA-TTTAGAGTT
1 TATAAGTTTAGAGTT
27180133 TA
1 TA
27180135 GCGTCTAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (15 bp):
TATAAGTTTAGAGTT
Found at i:27184130 original size:88 final size:87
Alignment explanation
Indices: 27183982--27184148 Score: 262
Period size: 88 Copynumber: 1.9 Consensus size: 87
27183972 AAAATTTAAC
* * * * *
27183982 TTCTTCTGTGCCTAAAAACATTGCTCATAAATTGATTTTTCCAATAATTGCTATTAGACCAGGTT
1 TTCTTCTATACCTAAAAACACTGCTCATAAATTAATTTTTCCAATAATTGCTATAAGACCAGGTT
*
27184047 GTGTTATGTTTATAGTATAAAA
66 GTGCTATGTTTATAGTATAAAA
*
27184069 TTCTTCTATACCTAAAAACACTGCTCACTAAATTAATTTTTCCAATAATTGGTATAAGACCAGGT
1 TTCTTCTATACCTAAAAACACTGCTCA-TAAATTAATTTTTCCAATAATTGCTATAAGACCAGGT
27184134 TGTGCTATGTTTATA
65 TGTGCTATGTTTATA
27184149 ATAAATTGAA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 24 0.33
88 48 0.67
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (87 bp):
TTCTTCTATACCTAAAAACACTGCTCATAAATTAATTTTTCCAATAATTGCTATAAGACCAGGTT
GTGCTATGTTTATAGTATAAAA
Found at i:27185603 original size:27 final size:27
Alignment explanation
Indices: 27185573--27185645 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
27185563 GGGGGTGGTG
*
27185573 CCTATCTGATAGGCGGTACCAGTGACC
1 CCTATCTGATAGGCGGCACCAGTGACC
* ***
27185600 CCTATCTGGTAGGCGGCATTGGTGACC
1 CCTATCTGATAGGCGGCACCAGTGACC
*
27185627 CCTATCTAATAGGCGGCAC
1 CCTATCTGATAGGCGGCAC
27185646 GCACCAGTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACCAGTGACC
Found at i:27187348 original size:20 final size:20
Alignment explanation
Indices: 27187293--27187349 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
27187283 GGTGAAGAAC
*
27187293 ATGGAGCTCAAGAAACGTGT
1 ATGGAGCTCAAGAACCGTGT
* *
27187313 ATGGTGGCTTAAGAACCGTGT
1 ATGG-AGCTCAAGAACCGTGT
27187334 ATGGAGCTCAAGAACC
1 ATGGAGCTCAAGAACC
27187350 ATTGATAGTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.21
Consensus pattern (20 bp):
ATGGAGCTCAAGAACCGTGT
Found at i:27188483 original size:8 final size:8
Alignment explanation
Indices: 27188470--27188508 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
27188460 TCTTTGTTAT
27188470 GAAATGTG
1 GAAATGTG
27188478 GAAATGTG
1 GAAATGTG
27188486 GAAATGTG
1 GAAATGTG
*
27188494 G-AATATG
1 GAAATGTG
27188501 GAAATGTG
1 GAAATGTG
27188509 CTCCTGATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (8 bp):
GAAATGTG
Found at i:27188504 original size:15 final size:16
Alignment explanation
Indices: 27188470--27188508 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
27188460 TCTTTGTTAT
*
27188470 GAAATGTGGAAATGTG
1 GAAATGTGGAAATATG
27188486 GAAATGTGG-AATATG
1 GAAATGTGGAAATATG
27188501 GAAATGTG
1 GAAATGTG
27188509 CTCCTGATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (16 bp):
GAAATGTGGAAATATG
Found at i:27189793 original size:49 final size:49
Alignment explanation
Indices: 27189673--27189909 Score: 338
Period size: 49 Copynumber: 4.9 Consensus size: 49
27189663 AATTTAAACT
* * *
27189673 ACAAAGTTTGTTCCTCA-TTTTAATGTTGTAATGCATCTAATTTAT-ATT
1 ACAAAGTTTGTTCC-AAGTTTTAATGTTGTAATGTATCTAATTTATGATC
* *
27189721 ACAAATTTTTTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGATC
1 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGATC
* *
27189770 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGAATCTAATTTATGACC
1 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGATC
27189819 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATG-TCC
1 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGAT-C
* *
27189868 ACAAAGTTTGTTCCAAGTTTTAATATTGCAAT-TAATCTAATT
1 ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT-ATCTAATT
27189910 AAATAAATAC
Statistics
Matches: 172, Mismatches: 13, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
47 1 0.01
48 40 0.23
49 131 0.76
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (49 bp):
ACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATCTAATTTATGATC
Found at i:27190219 original size:33 final size:33
Alignment explanation
Indices: 27190167--27190229 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
27190157 CGATGAACTT
* *
27190167 GAGCCGGGACGAGTGGAGTACTGCGGTGGATTC
1 GAGCCGGGACGACTGGAGTAATGCGGTGGATTC
* * *
27190200 GAGCCGGGAGGACTTGAGTAATGTGGTGGA
1 GAGCCGGGACGACTGGAGTAATGCGGTGGA
27190230 CATGGGCCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.21, C:0.14, G:0.46, T:0.19
Consensus pattern (33 bp):
GAGCCGGGACGACTGGAGTAATGCGGTGGATTC
Found at i:27192726 original size:16 final size:16
Alignment explanation
Indices: 27192707--27192778 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
27192697 ATAACATGCC
27192707 AAATAAATTACATAAA
1 AAATAAATTACATAAA
27192723 AAATAAATCTA-AT-AA
1 AAATAAAT-TACATAAA
** **
27192738 ACCTAAAACACATATGAA
1 AAATAAATTACATA--AA
27192756 AAATAAATTACATAAA
1 AAATAAATTACATAAA
*
27192772 AATTAAA
1 AAATAAA
27192779 ACTAATAAAC
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
14 1 0.02
15 9 0.21
16 18 0.43
17 2 0.05
18 12 0.29
ACGTcount: A:0.65, C:0.10, G:0.01, T:0.24
Consensus pattern (16 bp):
AAATAAATTACATAAA
Found at i:27192745 original size:49 final size:49
Alignment explanation
Indices: 27192700--27192828 Score: 213
Period size: 49 Copynumber: 2.6 Consensus size: 49
27192690 AATAAAAATA
* *
27192700 ACATGCCAAATAAATTACATAAAAAATAAATCTAATAAACCTAAAACAC
1 ACATGACAAATAAATTACATAAAAAATAAAACTAATAAACCTAAAACAC
* * *
27192749 ATATGAAAAATAAATTACATAAAAATTAAAACTAATAAACCTAAAACAC
1 ACATGACAAATAAATTACATAAAAAATAAAACTAATAAACCTAAAACAC
27192798 ACATGACAAATAAATTACATAAAAAATAAAA
1 ACATGACAAATAAATTACATAAAAAATAAAA
27192829 TATTCTTTCT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.63, C:0.14, G:0.02, T:0.21
Consensus pattern (49 bp):
ACATGACAAATAAATTACATAAAAAATAAAACTAATAAACCTAAAACAC
Found at i:27193986 original size:16 final size:17
Alignment explanation
Indices: 27193958--27193991 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27193948 TTAGAATTGG
*
27193958 ATTGAGAAAATTATTTT
1 ATTGAGAAAATTAATTT
27193975 ATTGAG-AAATTAATTT
1 ATTGAGAAAATTAATTT
27193991 A
1 A
27193992 GTTTAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTGAGAAAATTAATTT
Found at i:27195921 original size:17 final size:18
Alignment explanation
Indices: 27195901--27195942 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
27195891 TCAAAAATAA
27195901 TAATATTTTAA-TAAATT
1 TAATATTTTAATTAAATT
*
27195918 TAATA-TTTAATTTAATT
1 TAATATTTTAATTAAATT
27195935 TAATATTT
1 TAATATTT
27195943 ATCTTGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 5 0.23
17 15 0.68
18 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATATTTTAATTAAATT
Found at i:27204534 original size:16 final size:15
Alignment explanation
Indices: 27204513--27204543 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
27204503 TAATAGATTA
27204513 TTGGAAGCTCAATCAG
1 TTGGAAGCTC-ATCAG
27204529 TTGGAAGCTCATCAG
1 TTGGAAGCTCATCAG
27204544 GGACCTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (15 bp):
TTGGAAGCTCATCAG
Found at i:27205064 original size:30 final size:30
Alignment explanation
Indices: 27205024--27205096 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
27205014 ACGGGCTATC
* *
27205024 ACACGGCCGTGTGACACACACGGCTTGGTG
1 ACACGGCCGTGTGACACACACGACCTGGTG
* *
27205054 ACACGACCGTGTGACACGCACGACCTGGTG
1 ACACGGCCGTGTGACACACACGACCTGGTG
27205084 ACACGGCCGTGTG
1 ACACGGCCGTGTG
27205097 TCATTTGAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.21, C:0.32, G:0.33, T:0.15
Consensus pattern (30 bp):
ACACGGCCGTGTGACACACACGACCTGGTG
Found at i:27205075 original size:17 final size:17
Alignment explanation
Indices: 27205055--27205088 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
27205045 GGCTTGGTGA
27205055 CACGACC-GTGTGACACG
1 CACGACCTG-GTGACACG
27205072 CACGACCTGGTGACACG
1 CACGACCTGGTGACACG
27205089 GCCGTGTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.94
18 1 0.06
ACGTcount: A:0.24, C:0.35, G:0.29, T:0.12
Consensus pattern (17 bp):
CACGACCTGGTGACACG
Found at i:27207831 original size:5 final size:5
Alignment explanation
Indices: 27207813--27207843 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
27207803 TAAAAAAGTT
27207813 AATAA AAGTAA AATAA AATAA AATAA AATAA
1 AATAA AA-TAA AATAA AATAA AATAA AATAA
27207844 TATATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:27208936 original size:33 final size:33
Alignment explanation
Indices: 27208888--27208951 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
27208878 ATAAAATTAG
*
27208888 AGTGGCCGTTGTCCTTAACCCTAGTTCAGCTGC
1 AGTGGCCATTGTCCTTAACCCTAGTTCAGCTGC
*
27208921 AGTGGCCATTTTCCTTAACCCTAGTTCAGCT
1 AGTGGCCATTGTCCTTAACCCTAGTTCAGCT
27208952 ATGGTTCACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (33 bp):
AGTGGCCATTGTCCTTAACCCTAGTTCAGCTGC
Found at i:27213134 original size:16 final size:17
Alignment explanation
Indices: 27213109--27213144 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
27213099 GAATTTGGTC
27213109 GAGAAAAAAATTTAATT
1 GAGAAAAAAATTTAATT
27213126 GAGAAAAAAATTTAATT
1 GAGAAAAAAATTTAATT
27213143 GA
1 GA
27213145 AGTTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (17 bp):
GAGAAAAAAATTTAATT
Found at i:27215055 original size:68 final size:68
Alignment explanation
Indices: 27214861--27215259 Score: 449
Period size: 68 Copynumber: 5.9 Consensus size: 68
27214851 AGTTTAATGA
*** * * *
27214861 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCAATAGAGA-ATTAAATATGTGGTTACA
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAG-GACGTTAAACATGGGGTTACA
*
27214925 AAGT
65 AGGT
* ** ** *
27214929 GTAAGACCATAGCTCGACTATGACAATAAAATAGAGTCCGCCAAAATGTTAAACATGGGGTTACA
1 GTAAGACCATAGCTCGACTATGGCAA-CCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACA
27214994 AGGT
65 AGGT
* *
27214998 GTAAGACCATAGCTCGGCTATAGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
27215063 GGT
66 GGT
* ** ** * *
27215066 GTAAGTCCATAGCTCGGTTATGGCAACCAATAGAGTCCTTCAGGAAGTTAAACATGAGGTTACAA
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
27215131 GGT
66 GGT
* * ** * * * *
27215134 GTAAAACCATTGCTCGGTTATGGAAACCAATAAAGTCCTCCAGGATGTTAAACATGGGGTTACAA
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
27215199 GGT
66 GGT
* * * * * *
27215202 GTAAGACCATAGCTCAACTCTGACAACCAATAGAGTTCGTCAGAACGTTAAACATGGG
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGG
27215260 TTCAAATTGT
Statistics
Matches: 280, Mismatches: 49, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
68 228 0.81
69 52 0.19
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (68 bp):
GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGGGTTACAA
GGT
Found at i:27215231 original size:204 final size:205
Alignment explanation
Indices: 27214861--27215259 Score: 520
Period size: 204 Copynumber: 2.0 Consensus size: 205
27214851 AGTTTAATGA
* *
27214861 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCAATAGAGAATTAAATATGTGGTTACAA
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCAATAGAGAATTAAACATGAGGTTACAA
* *
27214926 AGTGTAAGACCATAGCTCGACTATGACAATAAAATAGAGTCCGCCAAAATGTTAAACATGGGGTT
66 AGTGTAAAACCATAGCTCGACTATGACAATAAAATAAAGTCCGCCAAAATGTTAAACATGGGGTT
** *
27214991 ACAAGGTGTAAGACCATAGCTCGGCTATAGCAACCAATAGAGTCCGCCAGGACGTTAAACATGGG
131 ACAAGGTGTAAGACCATAGCTCAACTATAGCAACCAATAGAGTCCGCCAGAACGTTAAACATGGG
27215056 GTTACAAGGT
196 GTTACAAGGT
* ** *
27215066 GTAAGTCCATAGCTCGGTTATGGCAACCAATAGAGTCC-TTCAG-GAAGTTAAACATGAGGTTAC
1 GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCAAT-AGAGAA-TTAAACATGAGGTTAC
* * ** ** * **
27215129 AAGGTGTAAAACCATTGCTCGGTTATGGA-AA-CCAATAAAGTCCTCCAGGATGTTAAACATGGG
64 AAAGTGTAAAACCATAGCTCGACTAT-GACAATAAAATAAAGTCCGCCAAAATGTTAAACATGGG
* * *
27215192 GTTACAAGGTGTAAGACCATAGCTCAACTCT-GACAACCAATAGAGTTCGTCAGAACGTTAAACA
128 GTTACAAGGTGTAAGACCATAGCTCAACTATAG-CAACCAATAGAGTCCGCCAGAACGTTAAACA
27215256 TGGG
192 TGGG
27215260 TTCAAATTGT
Statistics
Matches: 167, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
203 1 0.01
204 90 0.54
205 74 0.44
206 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (205 bp):
GTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCAATAGAGAATTAAACATGAGGTTACAA
AGTGTAAAACCATAGCTCGACTATGACAATAAAATAAAGTCCGCCAAAATGTTAAACATGGGGTT
ACAAGGTGTAAGACCATAGCTCAACTATAGCAACCAATAGAGTCCGCCAGAACGTTAAACATGGG
GTTACAAGGT
Found at i:27216784 original size:30 final size:29
Alignment explanation
Indices: 27216750--27216812 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
27216740 CAATGGGTAT
*
27216750 TTTACTAAAAAAAGCCCATTTACAACATTA
1 TTTAC-AAAAAAAGCCCATTTAAAACATTA
* * *
27216780 TTTACGAAAATAGGCCATTTAAAACATTA
1 TTTACAAAAAAAGCCCATTTAAAACATTA
27216809 TTTA
1 TTTA
27216813 TCTGAATGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 24 0.83
30 5 0.17
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (29 bp):
TTTACAAAAAAAGCCCATTTAAAACATTA
Found at i:27217792 original size:32 final size:32
Alignment explanation
Indices: 27217751--27217812 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
27217741 CATCTATTTT
27217751 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
* *
27217783 CATTGTTCAACTCTTTGACTACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
27217813 ACCAAAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.31
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:27219377 original size:15 final size:15
Alignment explanation
Indices: 27219357--27219425 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
27219347 ATTATTTAAA
27219357 TTATTTTATTAAATT
1 TTATTTTATTAAATT
*
27219372 TTATTTTATTACAATA
1 TTATTTTATTA-AATT
* *
27219388 TCAATTT-TT-AATT
1 TTATTTTATTAAATT
* *
27219401 GTATTGTTATTAAGTT
1 TTATT-TTATTAAATT
27219417 TT-TTTTATT
1 TTATTTTATT
27219426 TTAAAATATT
Statistics
Matches: 41, Mismatches: 9, Indels: 9
0.69 0.15 0.15
Matches are distributed among these distances:
13 5 0.12
14 7 0.17
15 17 0.41
16 12 0.29
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (15 bp):
TTATTTTATTAAATT
Found at i:27220534 original size:14 final size:14
Alignment explanation
Indices: 27220517--27220555 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
27220507 TTAAAAGAAT
27220517 TTTTATGTTTTTCC
1 TTTTATGTTTTTCC
*
27220531 TTTTAT-TTTATCC
1 TTTTATGTTTTTCC
27220544 TTTGTATGTTTT
1 TTT-TATGTTTT
27220556 CTCTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 9 0.43
14 9 0.43
15 3 0.14
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (14 bp):
TTTTATGTTTTTCC
Found at i:27220668 original size:41 final size:37
Alignment explanation
Indices: 27220594--27220665 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
27220584 AAAGAACAAA
*
27220594 AAAAAAAGAGTGGTAAAGGTTATCTAAGTAAGAAACT
1 AAAAAAAGAGTGGTAAAGGTTATATAAGTAAGAAACT
27220631 AAAAAAAGAGTGGTAAAGGTTATATAAGTAAGAAA
1 AAAAAAAGAGTGGTAAAGGTTATATAAGTAAGAAA
27220666 GAACATGGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.54, C:0.03, G:0.22, T:0.21
Consensus pattern (37 bp):
AAAAAAAGAGTGGTAAAGGTTATATAAGTAAGAAACT
Found at i:27227226 original size:801 final size:802
Alignment explanation
Indices: 27225654--27227255 Score: 2936
Period size: 801 Copynumber: 2.0 Consensus size: 802
27225644 TGAGATGCAA
*
27225654 ATTTTAGTGAGAAGATTCATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
1 ATTTTAGTGAGAAGATTAATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
*
27225719 GGATTTCATTTGTCAACCCAAAGGTTGTAATGGCCTTGAAATGAGGAAATTAAGGGACCAAAATA
66 GGATTTCATTTGTCAACCCAAAGGTTGTAACGGCCTTGAAATGAGGAAATTAAGGGACCAAAATA
*
27225784 TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAATGAGGCTCTATGGGTCCAAGTA
131 TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAAGGAGGCTCTATGGGTCCAAGTA
* *
27225849 GTTAGGTCGAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATCGGGATAGGAGCTTCTT
196 GTTAGGTCAAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATCGGGATAGAAGCTTCTT
*
27225914 TCTTTGGAAATCTCTCACTAAGGTCTAGCCTTTATTAAATAAAAACTTAATTTGGTCTGTAGGCA
261 TCTTTGGAAATCTCTCACTAAGGTCTAGCCTTTATTAAATAAAAACTTAATCTGGTCTGTAGGCA
*
27225979 ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGTGGGGGGGGGGTTTGATTAA
326 ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGT---GGGGGGATTTGATTAA
27226044 TCTTATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAG
388 TCTTATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAG
27226109 GATTGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGT
453 GATTGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGT
* *
27226174 GTTCCCCCCACCCTTCTGAGGGGACTGACATAATAGCTTGGTGTGATACTTCGATAGTGGCTTTT
518 GTTCCCCCCACCCCTCTGAGGGGACTGACAGAATAGCTTGGTGTGATACTTCGATAGTGGCTTTT
*
27226239 TCGGTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTGCAGTACAGATGATGACAAATGGAA
583 TCGGTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTACAGTACAGATGATGACAAATGGAA
*
27226304 ATGTGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGACAAAAA
648 ATGTGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGAAAAAAA
* **
27226369 TTTCTTAGCAATGCAGAAAGAGTTAGACGGGGACTAGTGGTTGATCCTTCTTTTCCTATTTGTGG
713 CTTCTTAGCAATGCAGAAAGAGTTAGACGGGGACTAGCAGTTGATCCTTCTTTTCCTATTTGTGG
27226434 ATATGACTTGGAAGATACCCTACAT
778 ATATGACTTGGAAGATACCCTACAT
27226459 ATTTTAGTGAGAAGATTAATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
1 ATTTTAGTGAGAAGATTAATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
*
27226524 GGATTTCATTTGTCAACCCAAAGGTTGTAGCGGCCTTGAAATGAGGAAATTAAGGGACCAAAATA
66 GGATTTCATTTGTCAACCCAAAGGTTGTAACGGCCTTGAAATGAGGAAATTAAGGGACCAAAATA
*
27226589 TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAAGGAGGCTTTATGGGTCCAAGTA
131 TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAAGGAGGCTCTATGGGTCCAAGTA
*
27226654 GTTAGGTCAAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATTGGGATAGAAGCTTCTT
196 GTTAGGTCAAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATCGGGATAGAAGCTTCTT
* *
27226719 TCTTTGGAAATCTCTCGCTAAGGTCTAGCCTTTATTAAATGAAAACTTAATCTGGTCTGTAGGCA
261 TCTTTGGAAATCTCTCACTAAGGTCTAGCCTTTATTAAATAAAAACTTAATCTGGTCTGTAGGCA
27226784 ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGT-GGGGGATTTGATTAATCT
326 ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGTGGGGGGATTTGATTAATCT
27226848 TATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAGGAT
391 TATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAGGAT
27226913 TGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGTGTT
456 TGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGTGTT
* *
27226978 CCCCCCACCCCTCTGAGGGGACTGATAGAGTAGCTTGGTGTGATACTTCGATAGTGGCTTTTTCG
521 CCCCCCACCCCTCTGAGGGGACTGACAGAATAGCTTGGTGTGATACTTCGATAGTGGCTTTTTCG
*
27227043 GTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTACAGTGCAGATGATGACAAATGGAAATG
586 GTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTACAGTACAGATGATGACAAATGGAAATG
27227108 TGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGAAAAAAACTT
651 TGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGAAAAAAACTT
* * *
27227173 CTTAGTAATGCGGAAAGAGTTAGACGGGGATTAGCAGTTGATCCTTCTTTTCCTATTTGTGGATA
716 CTTAGCAATGCAGAAAGAGTTAGACGGGGACTAGCAGTTGATCCTTCTTTTCCTATTTGTGGATA
*
27227238 TGACTTTGAAGATACCCT
781 TGACTTGGAAGATACCCT
27227256 GTGTATTATC
Statistics
Matches: 771, Mismatches: 26, Indels: 4
0.96 0.03 0.00
Matches are distributed among these distances:
801 411 0.53
805 360 0.47
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (802 bp):
ATTTTAGTGAGAAGATTAATTTGGAGTTCTTTTGATGGTAATAAGAAGATGTCACTAGTTGGGTA
GGATTTCATTTGTCAACCCAAAGGTTGTAACGGCCTTGAAATGAGGAAATTAAGGGACCAAAATA
TTTCGTTCTTACTGAAGCTTAGTTTCAATATTGTGTTTGAGAAGGAGGCTCTATGGGTCCAAGTA
GTTAGGTCAAAATATTGTTTGAATGATGTTTTACTAGATTGTATTAATCGGGATAGAAGCTTCTT
TCTTTGGAAATCTCTCACTAAGGTCTAGCCTTTATTAAATAAAAACTTAATCTGGTCTGTAGGCA
ATGGGAACAAAATTAGATGTTGGAATGATAGTTGGGTTCCAGAAGTGGGGGGATTTGATTAATCT
TATTCCTGTTAATATCAATCTTGTTTCTGATTGTCTACTCAAATAAATGGTTACAGAGGAAGGAT
TGTGGAACCTTGATCTTTTCAAAAATTGGTTATCAAATGATGTGGTTCAGAGTATTATGGGTGTT
CCCCCCACCCCTCTGAGGGGACTGACAGAATAGCTTGGTGTGATACTTCGATAGTGGCTTTTTCG
GTCAAAAGTGCTTACAAGGTTTTGAATGAAGAGTCTTACAGTACAGATGATGACAAATGGAAATG
TGTAGAAGCTGTCTGGCCCACAAAGGGTCCGTTTCTTTTTATGGACTATTCTGAGAAAAAAACTT
CTTAGCAATGCAGAAAGAGTTAGACGGGGACTAGCAGTTGATCCTTCTTTTCCTATTTGTGGATA
TGACTTGGAAGATACCCTACAT
Found at i:27257874 original size:33 final size:33
Alignment explanation
Indices: 27257832--27257894 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
27257822 TTTATATTTA
27257832 AAATAATTAAAGA-ATTATAAAAATTATAAATAT
1 AAATAATTAAA-ATATTATAAAAATTATAAATAT
* * *
27257865 AAATTATTAAAATATTTTTAAAATTATAAA
1 AAATAATTAAAATATTATAAAAATTATAAA
27257895 AAAAATTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (33 bp):
AAATAATTAAAATATTATAAAAATTATAAATAT
Found at i:27257910 original size:13 final size:13
Alignment explanation
Indices: 27257892--27257923 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
27257882 TTAAAATTAT
27257892 AAAAAAAATTTGC
1 AAAAAAAATTTGC
27257905 -AAAAAAATTTGC
1 AAAAAAAATTTGC
27257917 AAAAAAA
1 AAAAAAA
27257924 TTATAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (13 bp):
AAAAAAAATTTGC
Found at i:27257998 original size:26 final size:27
Alignment explanation
Indices: 27257941--27257997 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
27257931 AGAAACTAGC
27257941 AAAATAAAAAATTATATAAATTAAGAA
1 AAAATAAAAAATTATATAAATTAAGAA
* *
27257968 AAAATAAAAAATTGTA-AATATTATGAA
1 AAAATAAAAAATTATATAA-ATTAAGAA
27257995 AAA
1 AAA
27257998 TGTTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (27 bp):
AAAATAAAAAATTATATAAATTAAGAA
Found at i:27266503 original size:14 final size:15
Alignment explanation
Indices: 27266470--27266534 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
27266460 AATTTTGTTT
*
27266470 TTTATTTATTTTTTA
1 TTTATTTAATTTTTA
*
27266485 CTATTATTTGATTTTTA
1 -T-TTATTTAATTTTTA
*
27266502 TTTATTTAATTTTGA
1 TTTATTTAATTTTTA
*
27266517 ATTA--T-ATTTTTA
1 TTTATTTAATTTTTA
27266529 TTTATT
1 TTTATT
27266535 GCTTACTATT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
12 9 0.23
13 1 0.03
15 15 0.38
16 2 0.05
17 12 0.31
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.71
Consensus pattern (15 bp):
TTTATTTAATTTTTA
Found at i:27266527 original size:28 final size:28
Alignment explanation
Indices: 27266441--27266534 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 28
27266431 ATCAATTGGG
* *
27266441 TTTATTTTATTTAATTTTGAATTTTGTTT
1 TTTA-TTTATTTAATTTTGAATTATATTT
*** *
27266470 TTTATTTATTT--TTTACTATTATTTGATT
1 TTTATTTATTTAATTTTGAATTATAT--TT
27266498 TTTATTTATTTAATTTTGAATTATA-TT
1 TTTATTTATTTAATTTTGAATTATATTT
27266525 TTTATTTATT
1 TTTATTTATT
27266535 GCTTACTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
26 8 0.15
27 12 0.23
28 20 0.38
29 4 0.08
30 8 0.15
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.71
Consensus pattern (28 bp):
TTTATTTATTTAATTTTGAATTATATTT
Found at i:27266550 original size:55 final size:56
Alignment explanation
Indices: 27266441--27266568 Score: 186
Period size: 55 Copynumber: 2.3 Consensus size: 56
27266431 ATCAATTGGG
* * **
27266441 TTTATTTTATTTAATTTTGAATTTTGTTTTTTATTTATTTTTTACTATTATTTGATT
1 TTTA-TTTATTTAATTTTGAATTATGATTTTTATTTATTGCTTACTATTATTTGATT
*
27266498 TTTATTTATTTAATTTTGAATTAT-ATTTTTATTTATTGCTTACTATTCTTTGATT
1 TTTATTTATTTAATTTTGAATTATGATTTTTATTTATTGCTTACTATTATTTGATT
*
27266553 TTTATATATTTAATTT
1 TTTATTTATTTAATTT
27266569 CGTATTACTT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 42 0.65
56 19 0.29
57 4 0.06
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (56 bp):
TTTATTTATTTAATTTTGAATTATGATTTTTATTTATTGCTTACTATTATTTGATT
Found at i:27266554 original size:28 final size:26
Alignment explanation
Indices: 27266463--27266563 Score: 80
Period size: 28 Copynumber: 3.7 Consensus size: 26
27266453 AATTTTGAAT
*
27266463 TTTGTTTTTTATTTATTTTTTACTATTA
1 TTTGATTTTTATTTA--TTTTACTATTA
* *
27266491 TTTGATTTTTATTTA-TTTAATTTTGAA
1 TTTGATTTTTATTTATTTTACTATT--A
*
27266518 TTAT-ATTTTTATTTATTGCTTACTATTC
1 TT-TGATTTTTATTTATT--TTACTATTA
*
27266546 TTTGATTTTTATATATTT
1 TTTGATTTTTATTTATTT
27266564 AATTTCGTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
25 7 0.12
26 1 0.02
27 15 0.25
28 30 0.51
30 6 0.10
ACGTcount: A:0.22, C:0.04, G:0.05, T:0.69
Consensus pattern (26 bp):
TTTGATTTTTATTTATTTTACTATTA
Found at i:27282601 original size:33 final size:33
Alignment explanation
Indices: 27282554--27282707 Score: 116
Period size: 33 Copynumber: 4.6 Consensus size: 33
27282544 GTTTATATGT
27282554 AAGACCATAGCTGGGCTATGGCATTTTAATGAA
1 AAGACCATAGCTGGGCTATGGCATTTTAATGAA
* * * *
27282587 AAGACCATAACTGGGTTATGGCACTTTGAATG-T
1 AAGACCATAGCTGGGCTATGGCA-TTTTAATGAA
* * * *
27282620 AAGACCATGGTTGGACCATGGCAATATTT-AT-AA
1 AAGACCATAGCTGGGCTATGGC-AT-TTTAATGAA
* * * *
27282653 GTAAGACCATAGCTAGGCTATGGCATTCTGATGAT
1 --AAGACCATAGCTGGGCTATGGCATTTTAATGAA
* *
27282688 AAGACCATAACTGGGTTATG
1 AAGACCATAGCTGGGCTATG
27282708 ACACTACGAA
Statistics
Matches: 91, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
33 59 0.65
34 14 0.15
35 18 0.20
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (33 bp):
AAGACCATAGCTGGGCTATGGCATTTTAATGAA
Found at i:27282703 original size:101 final size:101
Alignment explanation
Indices: 27282528--27282745 Score: 319
Period size: 101 Copynumber: 2.2 Consensus size: 101
27282518 GGATAAGACC
* * * * *
27282528 GTTGGACCATGGAAATGTTTATATGTAAGACCATAGCTGGGCTATGGCATTTTAATGAAAAGACC
1 GTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTAGGCTATGGCATTCTAATGAAAAGACC
* **
27282593 ATAACTGGGTTATGGCACTTTGAATGTAAGACCATG
66 ATAACTGGGTTATGACACTACGAATGTAAGACCATG
* *
27282629 GTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTAGGCTATGGCATTCTGATGATAAGACC
1 GTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTAGGCTATGGCATTCTAATGAAAAGACC
*
27282694 ATAACTGGGTTATGACACTACGAATGTAAGACCTTG
66 ATAACTGGGTTATGACACTACGAATGTAAGACCATG
* *
27282730 GCTGGGCCATGGCAAT
1 GTTGGACCATGGCAAT
27282746 GCATGTGTAA
Statistics
Matches: 104, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 104 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (101 bp):
GTTGGACCATGGCAATATTTATAAGTAAGACCATAGCTAGGCTATGGCATTCTAATGAAAAGACC
ATAACTGGGTTATGACACTACGAATGTAAGACCATG
Found at i:27283088 original size:215 final size:217
Alignment explanation
Indices: 27282715--27283153 Score: 765
Period size: 215 Copynumber: 2.0 Consensus size: 217
27282705 ATGACACTAC
* *
27282715 GAATGTAAGACCTTGGCTGGGCCATGGCAATGCATGTGTAAAACCATAGTTGGATTATGGCACAA
1 GAATGTAAGACCATGGCTGGGCCATGGCAATGCATGTGTAAAACCATAGTTGGACTATGGCACAA
*
27282780 AAAAAAACGATGTACTCATACCCGTAAGTCGTTCCTCGATTCAGTAAGAATTGGTAAAAGACCTA
66 AAAAAAACGATGTACTCATACCCGTAAGTCGTTCCTCAATTCAGTAAGAATTGGTAAAAGACCTA
*
27282845 TGTGAATGAATTGAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTCTGTTCATTGA
131 TGTGAATGAATTAAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTCTGTTCATTGA
* *
27282910 CTTATGTTGTATTTGACAGGGA
196 CATATGTTGTATTTGACAGCGA
* * *
27282932 GAATGTAAGACCATGGCTGGGTCATGGCAATGC-TGTGTAAGACCATAGTTGGACTATGGC-CCA
1 GAATGTAAGACCATGGCTGGGCCATGGCAATGCATGTGTAAAACCATAGTTGGACTATGGCACAA
*
27282995 AAAAAAACGATGTACTCATACCCGTAAGTCGTTCCTCAATTCAGTAAGAATTGGTAAAAGATCTA
66 AAAAAAACGATGTACTCATACCCGTAAGTCGTTCCTCAATTCAGTAAGAATTGGTAAAAGACCTA
*
27283060 TGTGAATGAATTAAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTTTGTTCATTGA
131 TGTGAATGAATTAAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTCTGTTCATTGA
27283125 CATATGTTGTATTTGACAGCGA
196 CATATGTTGTATTTGACAGCGA
27283147 GAATGTA
1 GAATGTA
27283154 TGATTTATTT
Statistics
Matches: 211, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
215 155 0.73
216 25 0.12
217 31 0.15
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (217 bp):
GAATGTAAGACCATGGCTGGGCCATGGCAATGCATGTGTAAAACCATAGTTGGACTATGGCACAA
AAAAAAACGATGTACTCATACCCGTAAGTCGTTCCTCAATTCAGTAAGAATTGGTAAAAGACCTA
TGTGAATGAATTAAAAGATATATTGATTATTAATGATATTGATCTAAAGGAAGTCTGTTCATTGA
CATATGTTGTATTTGACAGCGA
Found at i:27287104 original size:42 final size:42
Alignment explanation
Indices: 27287052--27287151 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
27287042 GCTCTCGGTA
*
27287052 TCGCACACTTAGTGCCCGTTATACAACATCATCATTTTAATT
1 TCGCACACTTAGTGCCCATTATACAACATCATCATTTTAATT
* * *
27287094 TCGCACACTTAGTACCCATTATCCAACATCATTATTTTAATT
1 TCGCACACTTAGTGCCCATTATACAACATCATCATTTTAATT
*
27287136 TCTCACACTTAGTGCC
1 TCGCACACTTAGTGCC
27287152 GTTCATATAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCATTATACAACATCATCATTTTAATT
Found at i:27287303 original size:27 final size:29
Alignment explanation
Indices: 27287246--27287305 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
27287236 AACTAAAATG
* *
27287246 CATTTAGCTATATATATAATTGCATATTT
1 CATTTAGCTATATATATAATTGAACATTT
27287275 CATTTCAGC-ATATATATAATT-AACA-TT
1 CATTT-AGCTATATATATAATTGAACATTT
27287302 CATT
1 CATT
27287306 CAGAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.21
28 2 0.07
29 17 0.61
30 3 0.11
ACGTcount: A:0.37, C:0.13, G:0.05, T:0.45
Consensus pattern (29 bp):
CATTTAGCTATATATATAATTGAACATTT
Found at i:27288055 original size:16 final size:17
Alignment explanation
Indices: 27288022--27288055 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27288012 TATAAAGTTA
*
27288022 ATATTTACCTTATTACT
1 ATATTAACCTTATTACT
27288039 ATATTAACCTT-TTACT
1 ATATTAACCTTATTACT
27288055 A
1 A
27288056 ATAATTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAACCTTATTACT
Found at i:27289459 original size:41 final size:41
Alignment explanation
Indices: 27289399--27289499 Score: 166
Period size: 41 Copynumber: 2.5 Consensus size: 41
27289389 TTTAACATAT
* *
27289399 TCACCGGCACTTAGTCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
27289440 TCACCAGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
27289481 TCACCGGCACTTAGCCTGC
1 TCACCGGCACTTAGCCTGC
27289500 CAGACTTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:27289526 original size:41 final size:42
Alignment explanation
Indices: 27289481--27289666 Score: 220
Period size: 41 Copynumber: 4.5 Consensus size: 42
27289471 CTGATTCAGA
* * * *
27289481 TCACCGGCACTT-AGCCTGCCAGACTTAAAGTCCGAATTATT
1 TCACCGGCACTTAAGCCTGCTAGACATAAAGTCCGAAATAAT
* * *
27289522 TCACCGGC-CTTAAGCCTGCTAGACTTAAAGTCCGAATTATT
1 TCACCGGCACTTAAGCCTGCTAGACATAAAGTCCGAAATAAT
* * *
27289563 TCACCAGC-CTTAAGCCTGCTAGACATGAAGTCTGAAATAAT
1 TCACCGGCACTTAAGCCTGCTAGACATAAAGTCCGAAATAAT
* *
27289604 TCACCGGCA-TTAAGCTTGCTAGACATAAAGTCTGAAATAAT
1 TCACCGGCACTTAAGCCTGCTAGACATAAAGTCCGAAATAAT
*
27289645 TCACCGGCA-TTAACCCTGCTAG
1 TCACCGGCACTTAAGCCTGCTAG
27289667 GCATCGAGCC
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.02
41 128 0.98
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
TCACCGGCACTTAAGCCTGCTAGACATAAAGTCCGAAATAAT
Found at i:27290162 original size:63 final size:61
Alignment explanation
Indices: 27289998--27290181 Score: 171
Period size: 63 Copynumber: 3.0 Consensus size: 61
27289988 AATTCAATAC
* * * *
27289998 ATACATTCGGCTAACATATATGT--AATTCATTA-AATTTCA-TTCAACTTACAAAACTCAACAT
1 ATACATTCGACTAA-ATATATATACAATTCA-TACAATTT-ATTTTAACTTATAAAACTCAA-AT
* * * * *
27290059 ATATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAAACTCAAAT
1 ATACATTCGACTAAATATATATACAATTCATACAATTTATTTTAACTTATAAAACTCAAAT
* *
27290120 ATACATT-GACTCACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAA
1 ATACATTCGACT-A-A-ATATATATACAATTCATACAATTTATTTTAACTTATAAAACTCAAA
27290182 ACATATATAT
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
60 10 0.10
61 24 0.23
62 28 0.27
63 41 0.40
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (61 bp):
ATACATTCGACTAAATATATATACAATTCATACAATTTATTTTAACTTATAAAACTCAAAT
Found at i:27298081 original size:23 final size:23
Alignment explanation
Indices: 27298037--27298081 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
27298027 AAATTTATTA
***
27298037 AAAATAAAAAGAAATTGTATAAC
1 AAAATAAAAAGAAATAAAATAAC
*
27298060 AAAATAAAAAGAAGTAAAATAA
1 AAAATAAAAAGAAATAAAATAA
27298082 AGCAGGCATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.71, C:0.02, G:0.09, T:0.18
Consensus pattern (23 bp):
AAAATAAAAAGAAATAAAATAAC
Found at i:27299732 original size:38 final size:38
Alignment explanation
Indices: 27299685--27299763 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
27299675 TTTGGTTTTG
* * * *
27299685 ATACAAAATTGAATATTGAAATTAAATTTAGGTATCAA
1 ATACAAAATTGAACATTAAAATTAAATTTAAGTATAAA
*
27299723 ATACTAAATTGAACATTAAAATTAAATTTAAGTATAAA
1 ATACAAAATTGAACATTAAAATTAAATTTAAGTATAAA
27299761 ATA
1 ATA
27299764 ATATATTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (38 bp):
ATACAAAATTGAACATTAAAATTAAATTTAAGTATAAA
Found at i:27299760 original size:18 final size:18
Alignment explanation
Indices: 27299703--27299762 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
27299693 TTGAATATTG
*
27299703 AAATTAAATTTAGGTATCA
1 AAATTAAATTTAAGTAT-A
* * *
27299722 AATACTAAATTGAA-CATTA
1 AA-ATTAAATTTAAGTA-TA
27299741 AAATTAAATTTAAGTATA
1 AAATTAAATTTAAGTATA
27299759 AAAT
1 AAAT
27299763 AATATATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
18 15 0.48
19 7 0.23
20 9 0.29
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (18 bp):
AAATTAAATTTAAGTATA
Found at i:27313567 original size:21 final size:21
Alignment explanation
Indices: 27313541--27313580 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27313531 GTGTTATATA
27313541 TTATAAAAAAAATACATTTAT
1 TTATAAAAAAAATACATTTAT
*
27313562 TTATAAAAAAAATATATTT
1 TTATAAAAAAAATACATTT
27313581 TTTGCCATAA
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
TTATAAAAAAAATACATTTAT
Found at i:27315296 original size:25 final size:25
Alignment explanation
Indices: 27315266--27315323 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
27315256 GCTCTCTCTC
*
27315266 GAGCCATATAATGGGAAACTCATGT-
1 GAGCCATATAACGGGAAACTCAT-TA
* *
27315291 GAGCCATGTAACGGGAAGCTCATTA
1 GAGCCATATAACGGGAAACTCATTA
27315316 GAGCCATA
1 GAGCCATA
27315324 ATTAGGAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACGGGAAACTCATTA
Found at i:27315382 original size:25 final size:25
Alignment explanation
Indices: 27315351--27315434 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
27315341 GCCATATCAG
*
27315351 GAAGCTCTAGAGAGCCATTAATTAA
1 GAAGCTCTAGAGAGCCATTAATTGA
* * *
27315376 GAAGCTCATAAAAGAGCCTTTAATTGG
1 GAAGCTC-T-AGAGAGCCATTAATTGA
*
27315403 GAAGCTCTAGAGAGCCATTAATCGA
1 GAAGCTCTAGAGAGCCATTAATTGA
27315428 GAAGCTC
1 GAAGCTC
27315435 ATGAAAGAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
25 27 0.55
26 2 0.04
27 20 0.41
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (25 bp):
GAAGCTCTAGAGAGCCATTAATTGA
Found at i:27315398 original size:27 final size:26
Alignment explanation
Indices: 27315351--27315451 Score: 107
Period size: 27 Copynumber: 3.9 Consensus size: 26
27315341 GCCATATCAG
* *
27315351 GAAGCTC-TAGAGAGCCATTAATTAA
1 GAAGCTCATAAAGAGCCATTAATTGA
* *
27315376 GAAGCTCATAAAAGAGCCTTTAATTGG
1 GAAGCTCAT-AAAGAGCCATTAATTGA
* *
27315403 GAAGCTC-TAGAGAGCCATTAATCGA
1 GAAGCTCATAAAGAGCCATTAATTGA
*
27315428 GAAGCTCATGAAAGAGCCTTTAAT
1 GAAGCTCAT-AAAGAGCCATTAAT
27315452 CGGGAAGTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
25 27 0.44
26 3 0.05
27 32 0.52
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (26 bp):
GAAGCTCATAAAGAGCCATTAATTGA
Found at i:27315407 original size:52 final size:52
Alignment explanation
Indices: 27315350--27315458 Score: 182
Period size: 52 Copynumber: 2.1 Consensus size: 52
27315340 AGCCATATCA
* *
27315350 GGAAGCTCTAGAGAGCCATTAATTAAGAAGCTCATAAAAGAGCCTTTAATTG
1 GGAAGCTCTAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATCG
* *
27315402 GGAAGCTCTAGAGAGCCATTAATCGAGAAGCTCATGAAAGAGCCTTTAATCG
1 GGAAGCTCTAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATCG
27315454 GGAAG
1 GGAAG
27315459 TTTCGAAGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (52 bp):
GGAAGCTCTAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATCG
Found at i:27315469 original size:52 final size:52
Alignment explanation
Indices: 27315350--27315490 Score: 169
Period size: 52 Copynumber: 2.7 Consensus size: 52
27315340 AGCCATATCA
* * *
27315350 GGAAGCTCTAGAGAGCCATTAATTAAGAAGCTCATAAAAGAGCCTTTAATTG
1 GGAAGCTCGAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATCG
* * *
27315402 GGAAGCTCTAGAGAGCCATTAATCGAGAAGCTCATGAAAGAGCCTTTAATCG
1 GGAAGCTCGAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATCG
* * *
27315454 GGAAGTTTCGA-AGAGCCA-TATATCTAGATGCTCATAA
1 GGAAG-CTCGAGAGAGCCATTA-ATCAAGAAGCTCATAA
27315491 GAGCTACGGT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.03
52 73 0.94
53 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (52 bp):
GGAAGCTCGAGAGAGCCATTAATCAAGAAGCTCATAAAAGAGCCTTTAATCG
Found at i:27315566 original size:24 final size:24
Alignment explanation
Indices: 27315533--27315616 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
27315523 CACAACCAAT
*
27315533 CGGGATGCTCTGAAGAGCTATTAA
1 CGGGAAGCTCTGAAGAGCTATTAA
*
27315557 CGGGAAGCTC-GCAAGAACTATATAA
1 CGGGAAGCTCTG-AAGAGCTAT-TAA
*
27315582 CGGGAAGCTCATG-AGAGCTAATAA
1 CGGGAAGCTC-TGAAGAGCTATTAA
*
27315606 CGGGACGCTCT
1 CGGGAAGCTCT
27315617 TTCAAGCTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.04
24 29 0.57
25 19 0.37
27 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (24 bp):
CGGGAAGCTCTGAAGAGCTATTAA
Found at i:27315588 original size:25 final size:24
Alignment explanation
Indices: 27315545--27315591 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
27315535 GGATGCTCTG
*
27315545 AAGAGCTATTAACGGGAAGCTCGC
1 AAGAACTATTAACGGGAAGCTCGC
27315569 AAGAACTATATAACGGGAAGCTC
1 AAGAACTAT-TAACGGGAAGCTC
27315592 ATGAGAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (24 bp):
AAGAACTATTAACGGGAAGCTCGC
Found at i:27315782 original size:22 final size:21
Alignment explanation
Indices: 27315757--27315811 Score: 51
Period size: 22 Copynumber: 2.5 Consensus size: 21
27315747 TATACATGGC
27315757 ATATACATAATTC-ACATATACA
1 ATATACA-AATTCAACATATA-A
*
27315779 ATATTC-AATTCAAACATATAA
1 ATATACAAATTC-AACATATAA
27315800 ATATACACAATT
1 ATATACA-AATT
27315812 TAGTTACACG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
20 5 0.19
21 6 0.22
22 12 0.44
23 4 0.15
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATACAAATTCAACATATAA
Found at i:27315788 original size:20 final size:20
Alignment explanation
Indices: 27315765--27315803 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
27315755 GCATATACAT
27315765 AATTC-ACATATACAATATTC
1 AATTCAACATATA-AATATTC
27315785 AATTCAAACATATAAATAT
1 AATTC-AACATATAAATAT
27315804 ACACAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCAACATATAAATATTC
Found at i:27317854 original size:10 final size:10
Alignment explanation
Indices: 27317807--27317858 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
27317797 GAGCAATTTA
27317807 CTTTTTTTTT
1 CTTTTTTTTT
* *
27317817 CTTTTATATT
1 CTTTTTTTTT
* *
27317827 CTTTTAGCTTTC
1 CTTTT--TTTTT
27317839 CTTTTTTTTT
1 CTTTTTTTTT
27317849 CTTTTTTTTT
1 CTTTTTTTTT
27317859 TCATTCTCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
10 26 0.79
12 7 0.21
ACGTcount: A:0.06, C:0.13, G:0.02, T:0.79
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:27318704 original size:26 final size:27
Alignment explanation
Indices: 27318675--27318727 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
27318665 ATAGTTTAGT
*
27318675 ATTGCTTTTGAGAAGGAC-TTTGAAAA
1 ATTGATTTTGAGAAGGACTTTTGAAAA
*
27318701 ATTGATTTTGAGAAGTACTTTTGAAAA
1 ATTGATTTTGAGAAGGACTTTTGAAAA
27318728 GTTTAGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.38
Consensus pattern (27 bp):
ATTGATTTTGAGAAGGACTTTTGAAAA
Found at i:27330905 original size:27 final size:27
Alignment explanation
Indices: 27330878--27330939 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
27330868 CTTATAAATT
*
27330878 ATAATATA-TATTTATTATTAAAATATTA
1 ATAATA-AGTATTT-TTAATAAAATATTA
27330906 ATAGA-AAGTATTTTTAATAAAATATTA
1 ATA-ATAAGTATTTTTAATAAAATATTA
27330933 ATAATAA
1 ATAATAA
27330940 AAAGTATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 1 0.03
27 19 0.63
28 9 0.30
29 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (27 bp):
ATAATAAGTATTTTTAATAAAATATTA
Found at i:27330924 original size:16 final size:15
Alignment explanation
Indices: 27330901--27330953 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
27330891 ATTATTAAAA
27330901 TATTAATAGAAAGTAT
1 TATTAATA-AAAGTAT
*
27330917 TTTTAATAAAA-TAT
1 TATTAATAAAAGTAT
*
27330931 TAATAATAAAAAGTAT
1 TATTAAT-AAAAGTAT
*
27330947 AATTAAT
1 TATTAAT
27330954 GTTAAAACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 8 0.27
15 7 0.23
16 15 0.50
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (15 bp):
TATTAATAAAAGTAT
Found at i:27330996 original size:16 final size:18
Alignment explanation
Indices: 27330963--27331003 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
27330953 TGTTAAAACT
27330963 TATTATTAAAATAAAATTG
1 TATTATTAAAAT-AAATTG
27330982 TATTATT-AAAT-AATTG
1 TATTATTAAAATAAATTG
*
27330998 AATTAT
1 TATTAT
27331004 AGTAATAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (18 bp):
TATTATTAAAATAAATTG
Found at i:27338227 original size:56 final size:56
Alignment explanation
Indices: 27338136--27338311 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
27338126 ACAAGGGATG
27338136 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
27338192 ATGGGCAAAACATGTCATGAAACATGTTGTATTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
27338248 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
27338304 ATGGGCAA
1 ATGGGCAA
27338312 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:27338399 original size:13 final size:13
Alignment explanation
Indices: 27338381--27338408 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27338371 ATGCATGACC
27338381 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
27338394 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
27338407 AA
1 AA
27338409 GAAGAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:27339654 original size:40 final size:40
Alignment explanation
Indices: 27339458--27339659 Score: 225
Period size: 40 Copynumber: 5.1 Consensus size: 40
27339448 GAATGATGTT
* * * *
27339458 CGGGCTAAGTCCCGAAGG-TTTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATC
*
27339498 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TC
* *
27339538 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
27339577 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAGC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* **
27339617 CGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
27339657 CGG
1 CGG
27339660 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
39 37 0.27
40 94 0.68
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:27339662 original size:79 final size:79
Alignment explanation
Indices: 27339509--27339673 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
27339499 GGACTAAGAT
* **
27339509 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATGCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
27339574 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
27339588 CCGAAGGCATTTGTGCGAGTTACT-ATAGCCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-GCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
27339651 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
27339667 CCGAAGG
1 CCGAAGG
27339674 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATGCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:27346201 original size:56 final size:56
Alignment explanation
Indices: 27346115--27346290 Score: 352
Period size: 56 Copynumber: 3.1 Consensus size: 56
27346105 ACAAGGGATG
27346115 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
27346171 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
27346227 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
27346283 ATGGGCAA
1 ATGGGCAA
27346291 TAAACTAATA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 120 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:27346376 original size:11 final size:11
Alignment explanation
Indices: 27346360--27346384 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27346350 ATGCATGACC
27346360 AAAAAAAAGAG
1 AAAAAAAAGAG
27346371 AAAAAAAAGAG
1 AAAAAAAAGAG
27346382 AAA
1 AAA
27346385 GAAGAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:27347653 original size:40 final size:39
Alignment explanation
Indices: 27347433--27347654 Score: 265
Period size: 40 Copynumber: 5.7 Consensus size: 39
27347423 TCGAATGATG
* * *
27347433 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
27347473 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
27347512 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
27347551 TTCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
27347589 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
27347629 GCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27347655 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
37 24 0.15
38 21 0.13
39 27 0.17
40 81 0.50
41 8 0.05
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:27351834 original size:27 final size:27
Alignment explanation
Indices: 27351804--27351857 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
27351794 ATACACCACC
27351804 AAGGCGATT-CGACCAGAGTATGCCATA
1 AAGGC-ATTCCGACCAGAGTATGCCATA
** *
27351831 AAGGCATTCCTTCCAGAGTGTGCCATA
1 AAGGCATTCCGACCAGAGTATGCCATA
27351858 GAGATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (27 bp):
AAGGCATTCCGACCAGAGTATGCCATA
Found at i:27365484 original size:29 final size:27
Alignment explanation
Indices: 27365426--27365628 Score: 97
Period size: 29 Copynumber: 7.0 Consensus size: 27
27365416 AATTTTTGTA
* * *
27365426 AAAGTGAA-CCTTTGTGGATATCTTTGTT
1 AAAG-GAAGCCTTTGT-GCTATCTCTATT
27365454 AAAGGAAGCCTTTGTGTCTAATCTCTATT
1 AAAGGAAGCCTTTGTG-CT-ATCTCTATT
* * * *
27365483 AAATGAAGCTTTTGTGGTGATCTCTCTT
1 AAAGGAAGCCTTTGTGCT-ATCTCTATT
*
27365511 AAAGGAATCCCTTATG-GCTATCTCTATT
1 AAAGGAA-GCCTT-TGTGCTATCTCTATT
* * *
27365539 AAAAAGGATGCCCTTGTGGCTATCTCTGTT
1 --AAAGGAAGCCTTTGT-GCTATCTCTATT
* * *
27365569 AAAAAGGATGCATTTATGACTATCTCTATT
1 --AAAGGAAGCCTTTGTG-CTATCTCTATT
* *
27365599 AAAAAGATA-CCTTTGTGGCTATCTCAATT
1 -AAAGGA-AGCCTTTGT-GCTATCTCTATT
27365628 A
1 A
27365629 CATGAATGCC
Statistics
Matches: 137, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
27 4 0.03
28 38 0.28
29 51 0.37
30 44 0.32
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (27 bp):
AAAGGAAGCCTTTGTGCTATCTCTATT
Found at i:27365533 original size:28 final size:28
Alignment explanation
Indices: 27365502--27365645 Score: 94
Period size: 30 Copynumber: 5.0 Consensus size: 28
27365492 TTTTGTGGTG
*
27365502 ATCTCTCTTAAAGGAAT-CCCTTATGGCT
1 ATCTCTATTAAAGG-ATGCCCTTATGGCT
*
27365530 ATCTCTATTAAAAAGGATGCCCTTGTGGCT
1 ATCTCTATT--AAAGGATGCCCTTATGGCT
* ** *
27365560 ATCTCTGTTAAAAAGGATGCATTTATGACT
1 ATCTCTATT--AAAGGATGCCCTTATGGCT
* * * *
27365590 ATCTCTATTAAAAAGATACCTTTGTGGCT
1 ATCTCTATT-AAAGGATGCCCTTATGGCT
* * *
27365619 ATCTCAATTACATGAATG-CCTTATGGC
1 ATCTCTATTA-AAGGATGCCCTTATGGC
27365646 GAAGTATTTT
Statistics
Matches: 92, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
28 16 0.17
29 28 0.30
30 48 0.52
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (28 bp):
ATCTCTATTAAAGGATGCCCTTATGGCT
Found at i:27365553 original size:30 final size:30
Alignment explanation
Indices: 27365511--27365628 Score: 132
Period size: 30 Copynumber: 4.0 Consensus size: 30
27365501 GATCTCTCTT
27365511 AAAGGAAT-CCCTTATGGCTATCTCTATTAA
1 AAAGG-ATGCCCTTATGGCTATCTCTATTAA
* *
27365541 AAAGGATGCCCTTGTGGCTATCTCTGTTAA
1 AAAGGATGCCCTTATGGCTATCTCTATTAA
** *
27365571 AAAGGATGCATTTATGACTATCTCTATTAA
1 AAAGGATGCCCTTATGGCTATCTCTATTAA
* * * *
27365601 AAA-GATACCTTTGTGGCTATCTCAATTA
1 AAAGGATGCCCTTATGGCTATCTCTATTA
27365629 CATGAATGCC
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
29 22 0.29
30 53 0.71
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (30 bp):
AAAGGATGCCCTTATGGCTATCTCTATTAA
Found at i:27366974 original size:16 final size:17
Alignment explanation
Indices: 27366943--27366984 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 17
27366933 ATGAGTATGC
27366943 GAACCTTATTTTGTTTTAA
1 GAACCTTA--TTGTTTTAA
27366962 G-ACCTTATTGTTTTAA
1 GAACCTTATTGTTTTAA
27366978 GAACCTT
1 GAACCTT
27366985 GTTCGCAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 10 0.45
17 5 0.23
18 6 0.27
19 1 0.05
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (17 bp):
GAACCTTATTGTTTTAA
Found at i:27368731 original size:8 final size:8
Alignment explanation
Indices: 27368714--27368753 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
27368704 TTAGAGTAGG
*
27368714 CCCATTAT
1 CCCATGAT
27368722 CCCATGAT
1 CCCATGAT
27368730 CCCATGAT
1 CCCATGAT
*
27368738 CTCATGAT
1 CCCATGAT
27368746 CCCATGAT
1 CCCATGAT
27368754 TTTTTCCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.25, C:0.35, G:0.10, T:0.30
Consensus pattern (8 bp):
CCCATGAT
Found at i:27375412 original size:17 final size:17
Alignment explanation
Indices: 27375382--27375414 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27375372 TGACCCTGTC
27375382 TCACTAAAATTAAAATA
1 TCACTAAAATTAAAATA
27375399 TCAC-AAAATATAAAAT
1 TCACTAAAAT-TAAAAT
27375415 TCTTTTGCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (17 bp):
TCACTAAAATTAAAATA
Found at i:27376360 original size:50 final size:50
Alignment explanation
Indices: 27376306--27376401 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
27376296 AGTTTTCATA
* *
27376306 TCGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTAATC
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTAATC
* * *
27376356 TCGGTGCCAACGCCATGTCCCAGACATTGTCTTATGTGGGACCTCT
1 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCT
27376402 CATAACCTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (50 bp):
TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTAATC
Found at i:27380722 original size:41 final size:41
Alignment explanation
Indices: 27380677--27380770 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 41
27380667 AATGATGCTT
*
27380677 AAATGTGATATG-TTATGTGA-TGTATATTGATATGACA-ATGA
1 AAATGTGATATGTTTA-G-GATTGAATA-TGATATGACACATGA
* * * *
27380718 AAATGTTATGTGTTTAGGATTGAATATGATATGAGACTTGA
1 AAATGTGATATGTTTAGGATTGAATATGATATGACACATGA
27380759 AAATGTGATATG
1 AAATGTGATATG
27380771 AACATGAGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
40 11 0.26
41 29 0.67
42 3 0.07
ACGTcount: A:0.36, C:0.02, G:0.23, T:0.38
Consensus pattern (41 bp):
AAATGTGATATGTTTAGGATTGAATATGATATGACACATGA
Found at i:27380866 original size:23 final size:23
Alignment explanation
Indices: 27380833--27380928 Score: 117
Period size: 23 Copynumber: 4.2 Consensus size: 23
27380823 TTTAAGAGGA
*
27380833 TGTGTTTGGAGGGTATATTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
*
27380856 TGTGTTGGGAGGCTATATTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
* *
27380879 TGTGTTTGGAGGGTAAATTAT--T
1 TGTGTTTGGAGGCTATATT-TGGT
27380901 TGTGTTTGGAGGCTATGA-TTGGT
1 TGTGTTTGGAGGCTAT-ATTTGGT
27380924 TGTGT
1 TGTGT
27380929 GGGTGATAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
21 1 0.02
22 16 0.26
23 44 0.71
24 1 0.02
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.46
Consensus pattern (23 bp):
TGTGTTTGGAGGCTATATTTGGT
Found at i:27380915 original size:45 final size:45
Alignment explanation
Indices: 27380833--27380928 Score: 133
Period size: 45 Copynumber: 2.1 Consensus size: 45
27380823 TTTAAGAGGA
*
27380833 TGTGTTTGGAGGGTATATTTGGTTGTGTTGGGAGGCTAT-ATTTGGT
1 TGTGTTTGGAGGGTAAATTT-GTTGTGTTGGGAGGCTATGA-TTGGT
*
27380879 TGTGTTTGGAGGGTAAATTAT-TTGTGTTTGGAGGCTATGATTGGT
1 TGTGTTTGGAGGGTAAATT-TGTTGTGTTGGGAGGCTATGATTGGT
27380924 TGTGT
1 TGTGT
27380929 GGGTGATAGC
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
45 26 0.57
46 19 0.41
47 1 0.02
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.46
Consensus pattern (45 bp):
TGTGTTTGGAGGGTAAATTTGTTGTGTTGGGAGGCTATGATTGGT
Found at i:27381710 original size:135 final size:134
Alignment explanation
Indices: 27381468--27381738 Score: 515
Period size: 135 Copynumber: 2.0 Consensus size: 134
27381458 ACTAGCTTAT
*
27381468 ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTGTGAT
1 ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTATGAT
*
27381533 ACGTCTCTGACCGAATCCGACCTCCGAGCTCTTAACACTACAAAACAGGGGAAAAAGAAACAGGG
66 ACGTCTCTGACCGAATCCGACCTCCAAGCTCTTAACACTACAAAACA-GGGAAAAAGAAACAGGG
27381598 TAAGC
130 TAAGC
27381603 ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTATGAT
1 ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTATGAT
27381668 ACGTCTCTGACCGAATCCGACCTCCAAGCTCTTAACACTACAAAACAGGGAAAAAGAAACAGGGT
66 ACGTCTCTGACCGAATCCGACCTCCAAGCTCTTAACACTACAAAACAGGGAAAAAGAAACAGGGT
27381733 AAGC
131 AAGC
27381737 AC
1 AC
27381739 TTTGTGCTTA
Statistics
Matches: 134, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
134 24 0.18
135 110 0.82
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (134 bp):
ACATGCCATTGATTTCCAAAATAAAGTTTCTTTATATACCGAGATCTTGAGGTTGATAGTATGAT
ACGTCTCTGACCGAATCCGACCTCCAAGCTCTTAACACTACAAAACAGGGAAAAAGAAACAGGGT
AAGC
Found at i:27385177 original size:18 final size:19
Alignment explanation
Indices: 27385156--27385191 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27385146 TCAAGTACTT
27385156 TTTCTTCT-TATTTTTCTG
1 TTTCTTCTGTATTTTTCTG
*
27385174 TTTCTTTTGTATTTTTCT
1 TTTCTTCTGTATTTTTCT
27385192 TTTGCTTGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (19 bp):
TTTCTTCTGTATTTTTCTG
Done.