Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 136 of 187
Found at i:40995703 original size:2 final size:2
Alignment explanation
Indices: 40995696--40995728 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
40995686 TATAATTATT
40995696 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
40995729 CTTTTCTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:40998016 original size:24 final size:24
Alignment explanation
Indices: 40997988--40998040 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
40997978 GAGAGATTAG
*
40997988 AGCAAATGCAAATACAGATACAAA
1 AGCAAATGCAAATACAGAGACAAA
*
40998012 TGCAAATGCAAATACAGAGACAAA
1 AGCAAATGCAAATACAGAGACAAA
40998036 AGCAA
1 AGCAA
40998041 TTGACCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.17, G:0.15, T:0.11
Consensus pattern (24 bp):
AGCAAATGCAAATACAGAGACAAA
Found at i:40998026 original size:18 final size:18
Alignment explanation
Indices: 40997990--40998027 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
40997980 GAGATTAGAG
*
40997990 CAAATGCAAATACAGATA
1 CAAATGCAAATACAAATA
*
40998008 CAAATGCAAATGCAAATA
1 CAAATGCAAATACAAATA
40998026 CA
1 CA
40998028 GAGACAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.18, G:0.11, T:0.16
Consensus pattern (18 bp):
CAAATGCAAATACAAATA
Found at i:41000148 original size:18 final size:18
Alignment explanation
Indices: 41000125--41000166 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
41000115 CCTATGAGTT
41000125 TCAAAAAAAATAAAAAAA
1 TCAAAAAAAATAAAAAAA
**
41000143 TCAAAAAATTTAAAAAAA
1 TCAAAAAAAATAAAAAAA
*
41000161 TGAAAA
1 TCAAAA
41000167 TGGAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (18 bp):
TCAAAAAAAATAAAAAAA
Found at i:41001155 original size:47 final size:46
Alignment explanation
Indices: 41001086--41001177 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 46
41001076 AAGGAGAATG
*
41001086 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTTCTAAAAAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG-TCCAAAAAAAAA
41001133 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAAA
41001178 GTAAAAATGG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 10 0.23
47 34 0.77
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (46 bp):
GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAAAA
Found at i:41002625 original size:45 final size:45
Alignment explanation
Indices: 41002582--41003030 Score: 317
Period size: 45 Copynumber: 10.0 Consensus size: 45
41002572 TAGGTTGAAA
* * *
41002582 ATAGCAGATCTTGTCCTCCTGTATTGGCAGTGAAGTAGATTGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * *
41002627 ATAGCAGATCTTGTCTTCTTGTATTGGCAGCAAAGTAGATCGAGG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * *
41002672 ATAGCAGATCTTATCTTTCTGTGTTGGCAGCGAACTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* *
41002717 ATAGCAGATCTTGTCTTCCTATATTAGCAGCGAAGTAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * *
41002762 ATAGCAGATCTTGTCTCCCTAGGT-TT-GCAGCGGAGCAGA-CTGAAG
1 ATAGCAGATCTTGTCTTCCT--GTATTGGCAGCGAAGTAGATC-GAAG
* * * * *
41002807 ATAGAAGATTTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * * * *
41002852 ACACCA-A-CTT-TGCCTCCT-TAAGTTTGCAGCGGAGCAGA-CTGAAG
1 ATAGCAGATCTTGT-CTTCCTGT-A-TTGGCAGCGAAGTAGATC-GAAG
* * * * ** *
41002896 ATAGCAAACCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* * * * ** * * *
41002941 ACACCAG-CCTTG-CCTCACTGGGTTTGCAGCGGAGCAGA-CTGAAG
1 ATAGCAGATCTTGTCTTC-CTGTATTGGCAGCGAAGTAGATC-GAAG
* * ** *
41002985 ATAGCAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAG
1 ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
41003030 A
1 A
41003031 CACCAGCCTT
Statistics
Matches: 318, Mismatches: 66, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
42 2 0.01
43 15 0.05
44 52 0.16
45 230 0.72
46 17 0.05
47 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (45 bp):
ATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
Found at i:41002699 original size:90 final size:90
Alignment explanation
Indices: 41002582--41003297 Score: 376
Period size: 89 Copynumber: 8.0 Consensus size: 90
41002572 TAGGTTGAAA
* * * *
41002582 ATAGCAGATCTTGTCCTCCTGTATTGGCAGTGAAGTAGATTGAAGATAGCAGATCTTGTCTTCTT
1 ATAGCAGATCTTGTCTTCCTGTGTTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTTCCT
* *
41002647 GTATTGGCAGCAAAGTAGATCGAGG
66 GTATTGGCAGCGAAGTAGATCGAAG
* * * *
41002672 ATAGCAGATCTTATCTTTCTGTGTTGGCAGCGAACTAGATCGAAGATAGCAGATCTTGTCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTGTTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTTCCT
* *
41002737 ATATTAGCAGCGAAGTAGATCGAAG
66 GTATTGGCAGCGAAGTAGATCGAAG
* * * * * * *
41002762 ATAGCAGATCTTGTCTCCCTAG-GTTTGCAGCGGAGCAGACTGAAGATAGAAGATTTTGTCTTCC
1 ATAGCAGATCTTGTCTTCCT-GTGTTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTTCC
* * *
41002826 TGTACTGACAGCGAAGCAGATCGAAG
65 TGTATTGGCAGCGAAGTAGATCGAAG
* * * * * * * * * *
41002852 ACACCA-A-CTT-TGCCTCCT-TAAGTTTGCAGCGGAGCAGACTGAAGATAGCAAACCTTGCCTT
1 ATAGCAGATCTTGT-CTTCCTGT--GTTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTT
* ** *
41002913 CCTGTACTAACAGCGAAGCAGATCGAAG
63 CCTGTATTGGCAGCGAAGTAGATCGAAG
* * * * * * * * * *
41002941 ACACCAG-CCTTG-CCTCACTGGGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCC
1 ATAGCAGATCTTGTCTTC-CTGTGTTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTTCC
* ** *
41003004 TGTACTAACAGCGAAGCAGATCGAAG
65 TGTATTGGCAGCGAAGTAGATCGAAG
* * * ** * * ** * * * *
41003030 ACACCAG-CCTTCCCTCCCTGGGTTTACAGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCT
1 ATAGCAGATCTTGTCTTCCTGTGTTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTTCCT
* * * ** *
41003094 ATACTAGCAGAAAAGCAGATCGAAG
66 GTATTGGCAGCGAAGTAGATCGAAG
* * * * * * ** * * * * *
41003119 ACACCAG-CCTTG-CCTCTCTGGGTTTGCAGCGGGGTAGACTGAAGATAGAAGATTTTGCCTTCA
1 ATAGCAGATCTTGTCTTC-CTGTGTTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTTCC
* *
41003182 TGTACTGGCAGCGAAGCAGATCGAAG
65 TGTATTGGCAGCGAAGTAGATCGAAG
* ** * * * * * * * * *
41003208 ACATTAGCT-TTGCCTCCCTAG-GTTTGCAGCGGAGCAGACTGAAGATAGCAGATTTTGCCTTCC
1 ATAGCAGATCTTGTCTTCCT-GTGTTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTTCC
* * * * *
41003271 TATACTGACAGCAAAGCAGATCGAAG
65 TGTATTGGCAGCGAAGTAGATCGAAG
41003297 A
1 A
41003298 CACCAATCTC
Statistics
Matches: 537, Mismatches: 74, Indels: 31
0.84 0.12 0.05
Matches are distributed among these distances:
87 1 0.00
88 9 0.02
89 362 0.67
90 164 0.31
91 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (90 bp):
ATAGCAGATCTTGTCTTCCTGTGTTGGCAGCGAAGTAGATTGAAGATAGCAGATCTTGTCTTCCT
GTATTGGCAGCGAAGTAGATCGAAG
Found at i:41002889 original size:44 final size:43
Alignment explanation
Indices: 41002834--41003149 Score: 149
Period size: 44 Copynumber: 7.1 Consensus size: 43
41002824 CCTGTACTGA
*
41002834 CAGCGAAGCAGATCGAAGACACCAACTTTGCCTCCTTAAGTTTG
1 CAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCTT-AGTTTG
* * * * **
41002878 CAGCGGAGCAGA-CTGAAGATAGCAAACCTTGCCTTCCTGTA-CTAA
1 CAGCGAAGCAGATC-GAAGACA-CCAACCTTGCC-TCCT-TAGTTTG
* **
41002923 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCACTGGGTTTG
1 CAGCGAAGCAGATCGAAGACACCAACCTTGCCTC-CTTAGTTTG
* * * * * **
41002967 CAGCGGAGCAGA-CTGAAGATAGCAGATCTTGCCTTCCTGTA-CTAA
1 CAGCGAAGCAGATC-GAAGACACCA-ACCTTGCC-TCCT-TAGTTTG
* * ** *
41003012 CAGCGAAGCAGATCGAAGACACCAGCCTTCCCTCCCTGGGTTTA
1 CAGCGAAGCAGATCGAAGACACCAACCTTGCCT-CCTTAGTTTG
* * * * * *
41003056 CAGCGGAGCAGA-CTGAAGATAGCAGATCTTGCCTTCCTATA-CTAG
1 CAGCGAAGCAGATC-GAAGACACCA-ACCTTGCC-TCCT-TAGTTTG
** * **
41003101 CAGAAAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTTTG
1 CAGCGAAGCAGATCGAAGACACCAACCTTGCCTC-CTTAGTTTG
41003145 CAGCG
1 CAGCG
41003150 GGGTAGACTG
Statistics
Matches: 191, Mismatches: 60, Indels: 42
0.65 0.20 0.14
Matches are distributed among these distances:
43 8 0.04
44 90 0.47
45 81 0.42
46 11 0.06
47 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (43 bp):
CAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCTTAGTTTG
Found at i:41002914 original size:89 final size:89
Alignment explanation
Indices: 41002713--41003302 Score: 770
Period size: 89 Copynumber: 6.6 Consensus size: 89
41002703 GAACTAGATC
* * * * * * * *
41002713 GAAGATAGCAGATCTTGTCTTCCTATA-TTAGCAGCGAAGTAGATCGAAGATAGCAGATCTTGTC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGA-CAGCGAAGCAGATCGAAGACACCAG-CCTTGCC
41002777 TCCCTAGGTTTGCAGCGGAGCAGACT
64 TCCCTAGGTTTGCAGCGGAGCAGACT
* * * * *
41002803 GAAGATAGAAGATTTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAACTTTGCCTC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* *
41002868 CTTAAGTTTGCAGCGGAGCAGACT
66 CCTAGGTTTGCAGCGGAGCAGACT
* * *
41002892 GAAGATAGCAAACCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* *
41002957 ACTGGGTTTGCAGCGGAGCAGACT
66 CCTAGGTTTGCAGCGGAGCAGACT
* *
41002981 GAAGATAGCAGATCTTGCCTTCCTGTACTAACAGCGAAGCAGATCGAAGACACCAGCCTTCCCTC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
* *
41003046 CCTGGGTTTACAGCGGAGCAGACT
66 CCTAGGTTTGCAGCGGAGCAGACT
* **
41003070 GAAGATAGCAGATCTTGCCTTCCTATACT-AGCAGAAAAGCAGATCGAAGACACCAGCCTTGCCT
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGA-CAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
41003134 CTCTGGGTTTGCAGCGGGGTAGACT
65 CCCTAGGTTTGCAGCGGAGCAGACT
* * * * ** *
41003159 GAAGATAGAAGATTTTGCCTTCATGTACTGGCAGCGAAGCAGATCGAAGACATTAGCTTTGCCTC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
41003224 CCTAGGTTTGCAGCGGAGCAGACT
66 CCTAGGTTTGCAGCGGAGCAGACT
* * *
41003248 GAAGATAGCAGATTTTGCCTTCCTATACTGACAGCAAAGCAGATCGAAGACACCA
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCA
41003303 ATCTCATTTC
Statistics
Matches: 438, Mismatches: 59, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
88 1 0.00
89 390 0.89
90 45 0.10
91 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (89 bp):
GAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTC
CCTAGGTTTGCAGCGGAGCAGACT
Found at i:41003208 original size:45 final size:45
Alignment explanation
Indices: 41003159--41003297 Score: 106
Period size: 45 Copynumber: 3.1 Consensus size: 45
41003149 GGGGTAGACT
41003159 GAAGATAGAAGATTTTGCCTTCATGTACTGGCAGCGAAGCAGATC
1 GAAGATAGAAGATTTTGCCTTCATGTACTGGCAGCGAAGCAGATC
* ** * * * * *
41003204 GAAGACATTAG-CTTTGCCTCCCTAGGT--TTGCAGCGGAGCAGA-C
1 GAAGATAGAAGATTTTGCCT-TC-ATGTACTGGCAGCGAAGCAGATC
* * * * *
41003247 TGAAGATAGCAGATTTTGCCTTCCTATACTGACAGCAAAGCAGATC
1 -GAAGATAGAAGATTTTGCCTTCATGTACTGGCAGCGAAGCAGATC
41003293 GAAGA
1 GAAGA
41003298 CACCAATCTC
Statistics
Matches: 67, Mismatches: 20, Indels: 14
0.66 0.20 0.14
Matches are distributed among these distances:
43 2 0.03
44 29 0.43
45 32 0.48
46 4 0.06
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (45 bp):
GAAGATAGAAGATTTTGCCTTCATGTACTGGCAGCGAAGCAGATC
Found at i:41003452 original size:51 final size:50
Alignment explanation
Indices: 41003302--41003459 Score: 164
Period size: 51 Copynumber: 3.2 Consensus size: 50
41003292 CGAAGACACC
*
41003302 AATCTCATTTCCGTGGCGTTGCAGTGGAATAGATTGAAGCTGAGGGA-AGCG
1 AATCTCATTTCCATGGC-TTGCAGTGGAATAGATTGAAGCTGA-GGACAGCG
* * * * * *
41003353 AATCTCATTACCATGGCGT-C-GT--AGTAGATTAAAGTTGAGGCCAGCG
1 AATCTCATTTCCATGGCTTGCAGTGGAATAGATTGAAGCTGAGGACAGCG
* *
41003399 AATCTCATTTCCTTGGCATTGCAGTGGAATAAATTGAAGCTGAGGACAGCG
1 AATCTCATTTCCATGGC-TTGCAGTGGAATAGATTGAAGCTGAGGACAGCG
*
41003450 AATCTTATTT
1 AATCTCATTT
41003460 TCCTGGCGTC
Statistics
Matches: 85, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 32 0.38
47 1 0.01
48 3 0.04
49 3 0.04
50 1 0.01
51 43 0.51
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (50 bp):
AATCTCATTTCCATGGCTTGCAGTGGAATAGATTGAAGCTGAGGACAGCG
Found at i:41003468 original size:97 final size:97
Alignment explanation
Indices: 41003302--41003482 Score: 276
Period size: 97 Copynumber: 1.9 Consensus size: 97
41003292 CGAAGACACC
* *
41003302 AATCTCATTTCCGTGGCGTTGCAGTGGAATAGATTGAAGCTGAGGGAAGCGAATCTCATTACCAT
1 AATCTCATTTCCGTGGCATTGCAGTGGAATAAATTGAAGCTGAGGGAAGCGAATCTCATTACCAT
*
41003367 GGCGTCGTAGTAGATTAAAGTTGAGGCCAGCG
66 GGCGTCATAGTAGATTAAAGTTGAGGCCAGCG
* * *
41003399 AATCTCATTTCCTTGGCATTGCAGTGGAATAAATTGAAGCTGA-GGACAGCGAATCTTATTTTCC
1 AATCTCATTTCCGTGGCATTGCAGTGGAATAAATTGAAGCTGAGGGA-AGCGAATCTCA-TTACC
41003463 -TGGCGTCATAGTAGATTAAA
64 ATGGCGTCATAGTAGATTAAA
41003483 ACGGATAGCA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
96 3 0.04
97 69 0.91
98 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (97 bp):
AATCTCATTTCCGTGGCATTGCAGTGGAATAAATTGAAGCTGAGGGAAGCGAATCTCATTACCAT
GGCGTCATAGTAGATTAAAGTTGAGGCCAGCG
Found at i:41003495 original size:97 final size:97
Alignment explanation
Indices: 41003302--41003535 Score: 271
Period size: 97 Copynumber: 2.4 Consensus size: 97
41003292 CGAAGACACC
* *
41003302 AATCTCATTTCCGTGGCGTTGCAGTGGAATAGATTGAAGCTGAGGGAAGCGAATCTCATTACCAT
1 AATCTCATTTCCTTGGCATTGCAGTGGAATAGATTGAAGCTGAGGGAAGCGAATCTCATTACCAT
* *** *
41003367 GGCGTCGTAGTAGATTAAAGTTGAGGCCAGCG
66 GGCGTCATAGTAGATTAAAACGGAAGCCAGCG
* * *
41003399 AATCTCATTTCCTTGGCATTGCAGTGGAATAAATTGAAGCTGA-GGACAGCGAATCTTATTTTCC
1 AATCTCATTTCCTTGGCATTGCAGTGGAATAGATTGAAGCTGAGGGA-AGCGAATCTCA-TTACC
41003463 -TGGCGTCATAGTAGATTAAAACGGATAG-CAGCG
64 ATGGCGTCATAGTAGATTAAAACGGA-AGCCAGCG
* * * *
41003496 AATC-CTATCTCTTTGGCATTACAGT-GAATAGATTAAAGCT
1 AATCTC-ATTTCCTTGGCATTGCAGTGGAATAGATTGAAGCT
41003536 AAAGGTAGCG
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
96 17 0.14
97 96 0.81
98 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (97 bp):
AATCTCATTTCCTTGGCATTGCAGTGGAATAGATTGAAGCTGAGGGAAGCGAATCTCATTACCAT
GGCGTCATAGTAGATTAAAACGGAAGCCAGCG
Found at i:41009052 original size:21 final size:22
Alignment explanation
Indices: 41009011--41009056 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
41009001 TTTCTTAAAA
41009011 TAATAGTTATATTTAAAATATT
1 TAATAGTTATATTTAAAATATT
41009033 TAATAGTTATATTT-AAATATT
1 TAATAGTTATATTTAAAATATT
41009054 TAA
1 TAA
41009057 AATGTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TAATAGTTATATTTAAAATATT
Found at i:41020875 original size:16 final size:16
Alignment explanation
Indices: 41020836--41020876 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
41020826 AGAGTTAAAA
41020836 TATAATTTTATCATTT
1 TATAATTTTATCATTT
41020852 TA-ATATTTTAT-ATCTT
1 TATA-ATTTTATCAT-TT
41020868 TATAATTTT
1 TATAATTTT
41020877 TGAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.14
16 18 0.82
17 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATCATTT
Found at i:41021225 original size:20 final size:20
Alignment explanation
Indices: 41021200--41021239 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
41021190 TTATTTTTAA
*
41021200 TTAAAA-AATTCAAAATAATT
1 TTAAAATAATT-AAAAAAATT
41021220 TTAAAATAATTAAAAAAATT
1 TTAAAATAATTAAAAAAATT
41021240 AATAGTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TTAAAATAATTAAAAAAATT
Found at i:41025102 original size:12 final size:12
Alignment explanation
Indices: 41025085--41025123 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
41025075 AGAAAGGAAG
41025085 AATAAAATTAAA
1 AATAAAATTAAA
41025097 AAT--AA--AAA
1 AATAAAATTAAA
41025105 AATAAAATTAAA
1 AATAAAATTAAA
41025117 AATAAAA
1 AATAAAA
41025124 AAATAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 6 0.26
10 4 0.17
12 13 0.57
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAAAATTAAA
Found at i:41025108 original size:20 final size:20
Alignment explanation
Indices: 41025085--41025136 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
41025075 AGAAAGGAAG
41025085 AATAAAATTAAAAATAAAAA
1 AATAAAATTAAAAATAAAAA
41025105 AATAAAATTAAAAATAAAAA
1 AATAAAATTAAAAATAAAAA
41025125 AATAAAATTAAA
1 AATAAAATTAAA
41025137 TAAAATAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (20 bp):
AATAAAATTAAAAATAAAAA
Found at i:41025110 original size:14 final size:14
Alignment explanation
Indices: 41025094--41025144 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
41025084 GAATAAAATT
41025094 AAAAATAAAAA-AA
1 AAAAATAAAAATAA
*
41025107 TAAAATTAAAAATAA
1 -AAAAATAAAAATAA
*
41025122 AAAAATAAAATTAA
1 AAAAATAAAAATAA
41025136 ATAAAATAA
1 A-AAAATAA
41025145 TATCCTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 23 0.72
15 9 0.28
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:41030617 original size:28 final size:28
Alignment explanation
Indices: 41030571--41030659 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
41030561 TCATTCAGTA
* *
41030571 ACAGT-ACAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
41030598 ACAGTAACAATGTGGGCCTTAGCCTAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
41030626 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
41030654 ACAGTA
1 ACAGTA
41030660 TCAGTACAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 5 0.09
28 52 0.91
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:41031043 original size:27 final size:26
Alignment explanation
Indices: 41030991--41031060 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
41030981 ATATAAGGCC
* *
41030991 ATAACAGTCATTTTATCTCTTAGGGGT
1 ATAATAGTCATTTTA-CCCTTAGGGGT
*
41031018 ATAATAGTCATTTTACCCTATGGGGGT
1 ATAATAGTCATTTTACCCT-TAGGGGT
*
41031045 A-ATTTAGTCATTTTAC
1 ATA-ATAGTCATTTTAC
41031061 TTTGTGGGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.11
27 33 0.89
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (26 bp):
ATAATAGTCATTTTACCCTTAGGGGT
Found at i:41031059 original size:54 final size:54
Alignment explanation
Indices: 41030995--41031111 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
41030985 AAGGCCATAA
*
41030995 CAGTCATTTTATCTCT-TAGGGGTATAAT-AGTCATTTTACCCTATGGGGGTAATT
1 CAGTCATTTTA-CTCTGTAGGGGTA-AATCAGTCATTTTACCCTATAGGGGTAATT
* * * * * * *
41031049 TAGTCATTTTACTTTGTGGGGGTAATTCGGTCATTTTACCTTGTAGGGGTAATT
1 CAGTCATTTTACTCTGTAGGGGTAAATCAGTCATTTTACCCTATAGGGGTAATT
41031103 CAGTCATTT
1 CAGTCATTT
41031112 ATTGACATCT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 5 0.10
54 47 0.90
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.43
Consensus pattern (54 bp):
CAGTCATTTTACTCTGTAGGGGTAAATCAGTCATTTTACCCTATAGGGGTAATT
Found at i:41031068 original size:27 final size:27
Alignment explanation
Indices: 41031023--41031111 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
41031013 GGGGTATAAT
* * *
41031023 AGTCATTTTACCCTATGGGGGTAATTT
1 AGTCATTTTACCTTGTGGGGGTAATTC
*
41031050 AGTCATTTTACTTTGTGGGGGTAATTC
1 AGTCATTTTACCTTGTGGGGGTAATTC
* *
41031077 GGTCATTTTACCTTGTAGGGGTAATTC
1 AGTCATTTTACCTTGTGGGGGTAATTC
41031104 AGTCATTT
1 AGTCATTT
41031112 ATTGACATCT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCTTGTGGGGGTAATTC
Found at i:41035090 original size:194 final size:194
Alignment explanation
Indices: 41034759--41035140 Score: 631
Period size: 194 Copynumber: 2.0 Consensus size: 194
41034749 CAAAATTGAG
* *
41034759 GAAATTGATTAAAAGACTATTATGCTGTTTCTCAAGTCCAATTGGTGAGATAACTTTTACCGTGT
1 GAAATTGATTAAAAGACTATTATGCTGTCTATCAAGTCCAATTGGTGAGATAACTTTTACCGTGT
*
41034824 TTCGGACTAGATGACTCTTAAAAGATAGAGACATAGATGTGATTGTTTGGACTGACAATACATTG
66 TTCGGACTAGATGACTCTTAAAAGATAGAGACATAGATCTGATTGTTTGGACTGACAATACATTG
* ** *
41034889 AACATGACCCAAGTAAAATAAATCTTGTATCTGTTTATGGATTTATTCGCTTGTGACAATCAAA
131 AACATGACCCAAGTAAAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACAATCAAA
*
41034953 GAAATTGATTGAAAGACTATTATG-TCGTCTATCAAGTCCAATTGGTGAGATAACTTTTACCGTG
1 GAAATTGATTAAAAGACTATTATGCT-GTCTATCAAGTCCAATTGGTGAGATAACTTTTACCGTG
* * *
41035017 TTTCGGACTGGATGACTCTTAGAAGATAGAGACATAGATCTGATTTTTTGGACTGACAATACATT
65 TTTCGGACTAGATGACTCTTAAAAGATAGAGACATAGATCTGATTGTTTGGACTGACAATACATT
* *
41035082 GGACATGACCCAAGTAGAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACA
130 GAACATGACCCAAGTAAAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACA
41035141 TTCATAGTGT
Statistics
Matches: 174, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
193 1 0.01
194 173 0.99
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (194 bp):
GAAATTGATTAAAAGACTATTATGCTGTCTATCAAGTCCAATTGGTGAGATAACTTTTACCGTGT
TTCGGACTAGATGACTCTTAAAAGATAGAGACATAGATCTGATTGTTTGGACTGACAATACATTG
AACATGACCCAAGTAAAATAAATCCTGTATCCATTTATGAATTTATTCGCTTGTGACAATCAAA
Found at i:41044997 original size:16 final size:16
Alignment explanation
Indices: 41044976--41045006 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41044966 ATACTTTTTT
*
41044976 TATAAATTTATTATAC
1 TATAAATTAATTATAC
41044992 TATAAATTAATTATA
1 TATAAATTAATTATA
41045007 ATTTATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAAATTAATTATAC
Found at i:41047995 original size:15 final size:15
Alignment explanation
Indices: 41047971--41048004 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
41047961 AAAAGTATAA
*
41047971 TAAATATTTTTTTTT
1 TAAATATTTTTATTT
*
41047986 TAAATTTTTTTATTT
1 TAAATATTTTTATTT
41048001 TAAA
1 TAAA
41048005 ATACTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TAAATATTTTTATTT
Found at i:41048020 original size:27 final size:27
Alignment explanation
Indices: 41047980--41048033 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
41047970 ATAAATATTT
*
41047980 TTTTTTTAAATTTTTTTATTTTAAAATAC
1 TTTTTTT-AATTTTTAT-TTTTAAAATAC
41048009 TTTTTTT-ATTTTTATTTTTAAAATA
1 TTTTTTTAATTTTTATTTTTAAAATA
41048034 AATTTTTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
27 7 0.29
29 7 0.29
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTTTTAATTTTTATTTTTAAAATAC
Found at i:41048039 original size:25 final size:25
Alignment explanation
Indices: 41047992--41048040 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
41047982 TTTTTAAATT
**
41047992 TTTTTATTTTAAAATACTTTTTTTA
1 TTTTTATTTTAAAATACAATTTTTA
41048017 TTTTTATTTTTAAAATA-AATTTTT
1 TTTTTA-TTTTAAAATACAATTTTT
41048041 GGTGTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTTATTTTAAAATACAATTTTTA
Found at i:41048039 original size:26 final size:25
Alignment explanation
Indices: 41047992--41048040 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
41047982 TTTTTAAATT
**
41047992 TTTTTATTTTAAAATACTTTTTTTA
1 TTTTTATTTTAAAATAAATTTTTTA
41048017 TTTTTATTTTTAAAATAAATTTTT
1 TTTTTA-TTTTAAAATAAATTTTT
41048041 GGTGTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTTATTTTAAAATAAATTTTTTA
Found at i:41072687 original size:12 final size:12
Alignment explanation
Indices: 41072672--41072702 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
41072662 TTCTAGTTTT
41072672 CACACGGCCTAG
1 CACACGGCCTAG
*
41072684 CACACGGCTTAG
1 CACACGGCCTAG
41072696 CACACGG
1 CACACGG
41072703 GCGAGTGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.39, G:0.26, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:41079208 original size:19 final size:18
Alignment explanation
Indices: 41079184--41079222 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
41079174 AAGACTAAGA
41079184 AATAATTATAAAGAAAAAT
1 AATAATT-TAAAGAAAAAT
* *
41079203 AATAATTTCATGAAAAAT
1 AATAATTTAAAGAAAAAT
41079221 AA
1 AA
41079223 AGACAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
AATAATTTAAAGAAAAAT
Found at i:41080307 original size:23 final size:24
Alignment explanation
Indices: 41080281--41080327 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
41080271 GAGGAGATTC
*
41080281 ATTGAATAGATTAAGGAAT-TAAT
1 ATTGAATAGATTAAGCAATCTAAT
41080304 ATTGAATAGATTAAGCAATCTAAT
1 ATTGAATAGATTAAGCAATCTAAT
41080328 CCCAATTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (24 bp):
ATTGAATAGATTAAGCAATCTAAT
Found at i:41084568 original size:47 final size:47
Alignment explanation
Indices: 41084497--41084590 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
41084487 GTGATTGGTG
* *
41084497 AAACTATATTTGGTGATCAGGAATTATATATTGTCTCATTAAATGTT
1 AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCATTAAATGTT
*
41084544 AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCTTTAAATGTT
1 AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCATTAAATGTT
41084591 TACTTTGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (47 bp):
AAACTATATTTGGTGATCAAGAATTATAGATTGTCTCATTAAATGTT
Found at i:41084979 original size:20 final size:20
Alignment explanation
Indices: 41084942--41085019 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
41084932 TTGTACGGGA
* **
41084942 TTGCACTTTGGTTTCTCTAT
1 TTGCACTTTGATGCCTCTAT
*
41084962 TTGCACTTTGATGCCTCTAA
1 TTGCACTTTGATGCCTCTAT
* * *
41084982 TTGCA-TAATCATGCCTCTGT
1 TTGCACT-TTGATGCCTCTAT
* *
41085002 TTGCACTTCGGTGCCTCT
1 TTGCACTTTGATGCCTCT
41085020 GTTACACATA
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.95
21 1 0.02
ACGTcount: A:0.14, C:0.26, G:0.17, T:0.44
Consensus pattern (20 bp):
TTGCACTTTGATGCCTCTAT
Found at i:41087442 original size:23 final size:24
Alignment explanation
Indices: 41087416--41087476 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
41087406 ATTAAAAGAA
*
41087416 TAAAATACTATTAATA-TAAGTT-T
1 TAAAATA-TATTAATATTAAATTAT
*
41087439 TAAATTATATTTAATATTAAATTAT
1 TAAAATATA-TTAATATTAAATTAT
41087464 TAAAATAATATTA
1 TAAAAT-ATATTA
41087477 TTTTTGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 2 0.06
23 12 0.39
24 5 0.16
25 9 0.29
26 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
TAAAATATATTAATATTAAATTAT
Found at i:41090188 original size:9 final size:9
Alignment explanation
Indices: 41090174--41090207 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
41090164 TTTGGTTAAA
41090174 AATTACCCG
1 AATTACCCG
41090183 AATTACCCG
1 AATTACCCG
*
41090192 AATTAACCG
1 AATTACCCG
41090201 AATTACC
1 AATTACC
41090208 AAAAAATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.38, C:0.29, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:41095920 original size:25 final size:25
Alignment explanation
Indices: 41095892--41095944 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
41095882 ACACCTTCTG
41095892 TGTGGTGTATTATGTATGTTGACTT
1 TGTGGTGTATTATGTATGTTGACTT
* * *
41095917 TGTGTTGTATTCTGTATGTTGCCTT
1 TGTGGTGTATTATGTATGTTGACTT
41095942 TGT
1 TGT
41095945 AGTGAGTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.11, C:0.08, G:0.26, T:0.55
Consensus pattern (25 bp):
TGTGGTGTATTATGTATGTTGACTT
Found at i:41096991 original size:15 final size:15
Alignment explanation
Indices: 41096963--41096994 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
41096953 GGAGTCTGTC
41096963 TGTAGCAAAATTTTT
1 TGTAGCAAAATTTTT
41096978 TGTAG-AAAATTTTT
1 TGTAGCAAAATTTTT
41096992 TGT
1 TGT
41096995 TGTAATGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (15 bp):
TGTAGCAAAATTTTT
Found at i:41099741 original size:21 final size:21
Alignment explanation
Indices: 41099717--41099766 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
41099707 CAAATAAAGT
*
41099717 GAAAGGAAAAGAGAAAAGAAG
1 GAAAGCAAAAGAGAAAAGAAG
41099738 GAAAGCAAAAGAGAAAAGAAG
1 GAAAGCAAAAGAGAAAAGAAG
41099759 GAAAGCAA
1 GAAAGCAA
41099767 GTGTTACTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.66, C:0.04, G:0.30, T:0.00
Consensus pattern (21 bp):
GAAAGCAAAAGAGAAAAGAAG
Found at i:41115144 original size:9 final size:9
Alignment explanation
Indices: 41115132--41115163 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
41115122 TTTTAAATTG
41115132 TTTAATAAT
1 TTTAATAAT
41115141 TTTAATAAT
1 TTTAATAAT
41115150 TTTAATAAT
1 TTTAATAAT
41115159 TTTAA
1 TTTAA
41115164 ATACAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAATAAT
Found at i:41115145 original size:18 final size:17
Alignment explanation
Indices: 41115122--41115165 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
41115112 TTTGTTTTTC
41115122 TTTTAAATTGTTTAATAA
1 TTTTAAATT-TTTAATAA
*
41115140 TTTTAATAATTTTAATAA
1 TTTTAA-ATTTTTAATAA
41115158 TTTTAAAT
1 TTTTAAAT
41115166 ACAAATAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 20 0.87
19 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TTTTAAATTTTTAATAA
Found at i:41121909 original size:94 final size:94
Alignment explanation
Indices: 41121748--41121936 Score: 369
Period size: 94 Copynumber: 2.0 Consensus size: 94
41121738 TGCTCTGGCT
41121748 TTGCCCTTGGTTTTAGCGCACTCGAACTTATGTCCTCCTGCACTGGCAACAATGCCCATGCCAAT
1 TTGCCCTTGGTTTTAGCGCACTCGAACTTATGTCCTCCTGCACTGGCAACAATGCCCATGCCAAT
41121813 TGAGTTAAGGGTCAATTTAACATTGCTTC
66 TGAGTTAAGGGTCAATTTAACATTGCTTC
41121842 TTGCCCTTGGTTTTAGCGCACTCGAACTTATGTCCTCCTGCACTGGCAACAATGCCCATGCCAAT
1 TTGCCCTTGGTTTTAGCGCACTCGAACTTATGTCCTCCTGCACTGGCAACAATGCCCATGCCAAT
*
41121907 TGAGTTAATGGTCAATTTAACATTGCTTC
66 TGAGTTAAGGGTCAATTTAACATTGCTTC
41121936 T
1 T
41121937 CAAAAGCATT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (94 bp):
TTGCCCTTGGTTTTAGCGCACTCGAACTTATGTCCTCCTGCACTGGCAACAATGCCCATGCCAAT
TGAGTTAAGGGTCAATTTAACATTGCTTC
Found at i:41121978 original size:6 final size:6
Alignment explanation
Indices: 41121967--41121992 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
41121957 AACTATAATT
41121967 TTCTGC TTCTGC TTCTGC TTCTGC TT
1 TTCTGC TTCTGC TTCTGC TTCTGC TT
41121993 TTGGTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.31, G:0.15, T:0.54
Consensus pattern (6 bp):
TTCTGC
Found at i:41124520 original size:18 final size:17
Alignment explanation
Indices: 41124490--41124523 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
41124480 CTGATTACCT
41124490 AATTAAATTTTAAATAA
1 AATTAAATTTTAAATAA
*
41124507 AATTTAATTATTAAATA
1 AATTAAATT-TTAAATA
41124524 TAACAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAAATTTTAAATAA
Found at i:41126821 original size:23 final size:23
Alignment explanation
Indices: 41126793--41126838 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
41126783 TAGATTTTTC
41126793 TTAAATATTATCACTAAATAATT
1 TTAAATATTATCACTAAATAATT
41126816 TTAAATATTATCACTAAATAATT
1 TTAAATATTATCACTAAATAATT
41126839 CAAAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAAATATTATCACTAAATAATT
Found at i:41126844 original size:23 final size:23
Alignment explanation
Indices: 41126795--41126844 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
41126785 GATTTTTCTT
**
41126795 AAATATTATCACTAAATAATTTT
1 AAATATTATCACTAAATAATTCA
41126818 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATTCA
41126841 AAAT
1 AAAT
41126845 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATTATCACTAAATAATTCA
Found at i:41127927 original size:20 final size:20
Alignment explanation
Indices: 41127902--41127969 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
41127892 TTCATTTTAA
41127902 CTTCTCATTTTGCATCCATT
1 CTTCTCATTTTGCATCCATT
* *
41127922 CTTCTCAAAATTT-CAT--TTT
1 CTTCTC--ATTTTGCATCCATT
41127941 AACTTCTCATTTTGCATCCATT
1 --CTTCTCATTTTGCATCCATT
41127963 CTTCTCA
1 CTTCTCA
41127970 GCACCTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
19 6 0.16
20 16 0.43
21 9 0.24
22 6 0.16
ACGTcount: A:0.21, C:0.28, G:0.03, T:0.49
Consensus pattern (20 bp):
CTTCTCATTTTGCATCCATT
Found at i:41127933 original size:41 final size:41
Alignment explanation
Indices: 41127887--41127969 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
41127877 TTCACTTTTT
41127887 AAAATTTCATTTTAACTTCTCATTTTGCATCCATTCTTCTC
1 AAAATTTCATTTTAACTTCTCATTTTGCATCCATTCTTCTC
41127928 AAAATTTCATTTTAACTTCTCATTTTGCATCCATTCTTCTC
1 AAAATTTCATTTTAACTTCTCATTTTGCATCCATTCTTCTC
41127969 A
1 A
41127970 GCACCTTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.24, G:0.02, T:0.48
Consensus pattern (41 bp):
AAAATTTCATTTTAACTTCTCATTTTGCATCCATTCTTCTC
Found at i:41128010 original size:40 final size:40
Alignment explanation
Indices: 41127955--41128037 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
41127945 TCTCATTTTG
41127955 CATCCATTCTTCTCAGCACCTTATTGCATCCATAACTTCT
1 CATCCATTCTTCTCAGCACCTTATTGCATCCATAACTTCT
41127995 CATCCATTCTTCTCAGCACCTTATTGCATCCATAACTTCT
1 CATCCATTCTTCTCAGCACCTTATTGCATCCATAACTTCT
41128035 CAT
1 CAT
41128038 TTTGCTGGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.37
Consensus pattern (40 bp):
CATCCATTCTTCTCAGCACCTTATTGCATCCATAACTTCT
Found at i:41132779 original size:28 final size:28
Alignment explanation
Indices: 41132748--41132807 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
41132738 AAAAGCCCTT
41132748 TTTTTTAA-AATTTATCGAAATAGGCCGA
1 TTTTTTAATAATTTATCGAAATAGGCC-A
* * *
41132776 TTTTTTAATTATTTATCGGAATGGGCCA
1 TTTTTTAATAATTTATCGAAATAGGCCA
41132804 TTTT
1 TTTT
41132808 CCCCGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (28 bp):
TTTTTTAATAATTTATCGAAATAGGCCA
Found at i:41133032 original size:52 final size:52
Alignment explanation
Indices: 41132971--41133075 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
41132961 GGGTTTTAGG
**
41132971 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTGTCGAAAAAAATTATTTC
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCCGAAAAAAATTATTTC
41133023 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCCGAAAAAAATTATTTC
1 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCCGAAAAAAATTATTTC
41133075 G
1 G
41133076 AGTTGACGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.37
Consensus pattern (52 bp):
GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCCGAAAAAAATTATTTC
Found at i:41133309 original size:126 final size:124
Alignment explanation
Indices: 41133078--41133358 Score: 424
Period size: 126 Copynumber: 2.2 Consensus size: 124
41133068 TTATTTCGAG
**
41133078 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATCAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGT
* *
41133142 GAAATCGTGCCCTCGTGGACTCTATTTCAGCACAGTTGGTCATGTAAGAAATAAATTTTTT
65 GAAATCGTGCCCTCGTGGACGCGATTTCAGCACAGTTGGTCATGTAAGAAAT-AATTTTTT
41133203 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTAT-ATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCA-GAGAAGAAATTG
* * *
41133267 TGAAATCGTGCCTTTGTGGACGCGATTTC-GCTACAGTTGGTCATGTAGGAAATAATTTTTT
64 TGAAATCGTGCCCTCGTGGACGCGATTTCAGC-ACAGTTGGTCATGTAAGAAATAATTTTTT
*
41133328 TTGACGTTTCTGAGCAAATAGTGTAAAATCG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCG
41133359 TGCCCTCGTG
Statistics
Matches: 144, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
124 24 0.17
125 23 0.16
126 96 0.67
127 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATCAGAGAAGAAATTGTG
AAATCGTGCCCTCGTGGACGCGATTTCAGCACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:41134361 original size:18 final size:17
Alignment explanation
Indices: 41134331--41134383 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
41134321 GTCATTGCAG
*
41134331 AAAATATTAAAAATTTT
1 AAAATATTTAAAATTTT
** *
41134348 AAAATTATTTAAAAAAATA
1 AAAA-TATTT-AAAATTTT
41134367 AAAATATTTAAAATTTT
1 AAAATATTTAAAATTTT
41134384 CTTTAAAAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
17 9 0.33
18 9 0.33
19 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATTTAAAATTTT
Found at i:41134365 original size:30 final size:30
Alignment explanation
Indices: 41134331--41134393 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
41134321 GTCATTGCAG
41134331 AAAATATTAAAAAT-TTTAAAA-TTATTTAA
1 AAAATA-TAAAAATATTTAAAATTTATTTAA
*
41134360 AAAA-ATAAAAATATTTAAAATTTTCTTTAA
1 AAAATATAAAAATATTTAAAA-TTTATTTAA
41134390 AAAA
1 AAAA
41134394 ATGAAATTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.23
28 8 0.27
29 4 0.13
30 11 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (30 bp):
AAAATATAAAAATATTTAAAATTTATTTAA
Found at i:41134376 original size:28 final size:28
Alignment explanation
Indices: 41134338--41134395 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
41134328 CAGAAAATAT
41134338 TAAAAATTTTAAAA-TTATTTAAAAAAA
1 TAAAAATTTTAAAATTTATTTAAAAAAA
*
41134365 TAAAAATATTTAAAATTTTCTTTAAAAAAA
1 TAAAAAT-TTTAAAA-TTTATTTAAAAAAA
41134395 T
1 T
41134396 GAAATTGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.26
28 7 0.26
30 13 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (28 bp):
TAAAAATTTTAAAATTTATTTAAAAAAA
Found at i:41134504 original size:52 final size:51
Alignment explanation
Indices: 41134426--41134531 Score: 140
Period size: 52 Copynumber: 2.1 Consensus size: 51
41134416 ATTTAATATG
* * * *
41134426 GAGTTTAGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTCGA
1 GAGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
* * *
41134477 GAGTTTAAGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGACTTTGA
1 GAGTTT-AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
41134529 GAG
1 GAG
41134532 AATTTTTGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 6 0.13
52 41 0.87
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.33
Consensus pattern (51 bp):
GAGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
Found at i:41134511 original size:22 final size:22
Alignment explanation
Indices: 41134484--41134552 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
41134474 CGAGAGTTTA
*
41134484 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
**
41134506 AGAGAATTTTTGAAGGACTTTG
1 AGAGAATTTTTGAAGGAAATTG
*
41134528 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTTGAAGGAAATTG
41134550 AGA
1 AGA
41134553 TAGGATTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.39, C:0.01, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:41135841 original size:28 final size:28
Alignment explanation
Indices: 41135776--41135846 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
41135766 TTCTCTTGAA
*
41135776 TAGGGTTTAAAATTTTAAGATTTAGTGT
1 TAGGGTTTACAATTTTAAGATTTAGTGT
* * *
41135804 TAAGGCTTACAATTTTATGATTTTA-TGT
1 TAGGGTTTACAATTTTAAGA-TTTAGTGT
*
41135832 TTGGGTTTACAATTT
1 TAGGGTTTACAATTT
41135847 AAACCTTTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.49
Consensus pattern (28 bp):
TAGGGTTTACAATTTTAAGATTTAGTGT
Found at i:41138042 original size:53 final size:53
Alignment explanation
Indices: 41137962--41138066 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
41137952 TAGCTTATTA
* *
41137962 CCCGCTCCAAAGTTTCCCTATATGAACTGTCTAACAATGCGTTCAATCTCCTC
1 CCCGCTCCAAAGTTTCCCCATATGAACTGTCTAACAATGCATTCAATCTCCTC
41138015 CCCGCTCCAAAGTTTCCCCATATGAACTGTCTAACAATGCATTCAATCTCCT
1 CCCGCTCCAAAGTTTCCCCATATGAACTGTCTAACAATGCATTCAATCTCCT
41138067 AAAAAATGCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.26, C:0.34, G:0.10, T:0.30
Consensus pattern (53 bp):
CCCGCTCCAAAGTTTCCCCATATGAACTGTCTAACAATGCATTCAATCTCCTC
Found at i:41142273 original size:18 final size:19
Alignment explanation
Indices: 41142236--41142274 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
41142226 AAAATATAAT
*
41142236 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTGACTTG
*
41142255 ATTAA-TTTAATTTACTTG
1 ATTAATTTTAATTGACTTG
41142273 AT
1 AT
41142275 CAAAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
ATTAATTTTAATTGACTTG
Found at i:41149004 original size:20 final size:20
Alignment explanation
Indices: 41148981--41149029 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
41148971 GAACCACTCT
41148981 ATTTACTTACTTACCATTCC
1 ATTTACTTACTTACCATTCC
* **
41149001 ATTTACTTACTTTCCATTTT
1 ATTTACTTACTTACCATTCC
41149021 ATTTACTTA
1 ATTTACTTA
41149030 GCATAAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:41149017 original size:15 final size:16
Alignment explanation
Indices: 41148987--41149019 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
41148977 CTCTATTTAC
41148987 TTACTTACCATTCCAT
1 TTACTTACCATTCCAT
*
41149003 TTACTTA-CTTTCCAT
1 TTACTTACCATTCCAT
41149018 TT
1 TT
41149020 TATTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACTTACCATTCCAT
Found at i:41151205 original size:20 final size:20
Alignment explanation
Indices: 41151164--41151206 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
41151154 TTCAATTATG
41151164 ATTAAATTTAATCACTTTAAT
1 ATTAAATTTAATCAC-TTAAT
41151185 ATTAAATTTAATCTA-TTAAT
1 ATTAAATTTAATC-ACTTAAT
41151205 AT
1 AT
41151207 ATCTTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 13 0.62
22 1 0.05
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAAATTTAATCACTTAAT
Found at i:41151305 original size:68 final size:70
Alignment explanation
Indices: 41151172--41151309 Score: 185
Period size: 68 Copynumber: 2.0 Consensus size: 70
41151162 TGATTAAATT
* * *
41151172 TAATCACTTTAATATTAAATTTAATCTATTAATATATCTTGATAAATATTAAATTAAATTTAATA
1 TAATCACTTTAATATTAAATTTAA-CTATAAATATATCTAGATAAATATTAAATTAAATTGAATA
41151237 TTAAAA
65 TTAAAA
*
41151243 TAATCACTTTAATATTAAA-TTAA-TA-AAATATTAT-TAAGATAAGTATTAAATTAAATTGAAT
1 TAATCACTTTAATATTAAATTTAACTATAAATA-TATCT-AGATAAATATTAAATTAAATTGAAT
41151304 ATTAAA
64 ATTAAA
41151310 CTATTAAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
67 5 0.08
68 33 0.54
70 4 0.07
71 19 0.31
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (70 bp):
TAATCACTTTAATATTAAATTTAACTATAAATATATCTAGATAAATATTAAATTAAATTGAATAT
TAAAA
Found at i:41157222 original size:20 final size:20
Alignment explanation
Indices: 41157197--41157236 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
41157187 TTCACCTCAT
*
41157197 GCATCGTATCATATGCATTA
1 GCATCGCATCATATGCATTA
41157217 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
41157237 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:41165609 original size:88 final size:88
Alignment explanation
Indices: 41165460--41165631 Score: 245
Period size: 88 Copynumber: 2.0 Consensus size: 88
41165450 GAAAAAAGCT
* * * * *
41165460 GATCTTGCCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTGATGTACTG
1 GATCTTGCCTCCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCGTGTCTTCATGTACTG
41165525 GCGTGAAGTAGATCAAAGAAACA
66 GCGTGAAGTAGATCAAAGAAACA
* * * * * *
41165548 GATCTTGTCTCCCCGTACTGGTGGTGGAGTAGGTCGAAGAAAACAGATCGTGTCTTCATGTACTG
1 GATCTTGCCTCCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCGTGTCTTCATGTACTG
41165613 GCGTGAAGTAGATCAAAGA
66 GCGTGAAGTAGATCAAAGA
41165632 TAGTAGGTCC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 73 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (88 bp):
GATCTTGCCTCCCCATACTGGTGGCGAAGTAGATCAAAGAAAACAGATCGTGTCTTCATGTACTG
GCGTGAAGTAGATCAAAGAAACA
Found at i:41165648 original size:44 final size:44
Alignment explanation
Indices: 41165485--41165631 Score: 188
Period size: 44 Copynumber: 3.3 Consensus size: 44
41165475 TATTGGTGGC
* *
41165485 GAAGTAGATCAAAGAAAGCAGATCTTGTCTTGATGTACTGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
* ** *
41165529 GAAGTAGATCAAAG-AAACAGATCTTGTCTCCCCGTACTGGTGGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGG-CGT
* * * *
41165573 GGAGTAGGTCGAAGAAAACAGATCGTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
41165617 GAAGTAGATCAAAGA
1 GAAGTAGATCAAAGA
41165632 TAGTAGGTCC
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
43 21 0.25
44 41 0.49
45 22 0.26
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (44 bp):
GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
Found at i:41171404 original size:15 final size:15
Alignment explanation
Indices: 41171384--41171413 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
41171374 AATAGATATC
41171384 TACTTGAATAATTAT
1 TACTTGAATAATTAT
41171399 TACTTGAATAATTAT
1 TACTTGAATAATTAT
41171414 GACTATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
TACTTGAATAATTAT
Found at i:41178033 original size:30 final size:30
Alignment explanation
Indices: 41177999--41178061 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
41177989 ACTTATTTTA
41177999 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
41178029 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
41178059 TTG
1 TTG
41178062 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:41190611 original size:27 final size:26
Alignment explanation
Indices: 41190565--41190618 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
41190555 GTTATAAAAT
41190565 AAAGAAAAATGAAGAGAATAAAGAAC
1 AAAGAAAAATGAAGAGAATAAAGAAC
*
41190591 AAAGAAAATATGAA-AGCAATAGAGAAC
1 AAAGAAAA-ATGAAGAG-AATAAAGAAC
41190618 A
1 A
41190619 TGCTTTATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.09
Consensus pattern (26 bp):
AAAGAAAAATGAAGAGAATAAAGAAC
Found at i:41192048 original size:14 final size:14
Alignment explanation
Indices: 41192010--41192036 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41192000 TATTTGTTTT
41192010 TATATTGATATTAC
1 TATATTGATATTAC
41192024 TATATTGATATTA
1 TATATTGATATTA
41192037 TATTATTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
TATATTGATATTAC
Found at i:41192209 original size:2 final size:2
Alignment explanation
Indices: 41192202--41192235 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
41192192 ATTGTTTTAT
41192202 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41192236 CTTTTATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:41195501 original size:36 final size:37
Alignment explanation
Indices: 41195451--41195540 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
41195441 GTTCCACATT
* * * *
41195451 TGTGGTGTGTAGGGTGAATGGCCTATTATGGTCTT-A
1 TGTGGTGTGCAGGGTGAATGGCCTACTATAGCCTTAA
* * *
41195487 TGTGGTTTGCAGGGTGGATTGGCCTACTGTAGCCTTAA
1 TGTGGTGTGCAGGGT-GAATGGCCTACTATAGCCTTAA
41195525 TGTGGTGTGCAGGGTG
1 TGTGGTGTGCAGGGTG
41195541 GACGAAGTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 13 0.30
37 16 0.36
38 15 0.34
ACGTcount: A:0.14, C:0.11, G:0.39, T:0.36
Consensus pattern (37 bp):
TGTGGTGTGCAGGGTGAATGGCCTACTATAGCCTTAA
Found at i:41199875 original size:487 final size:487
Alignment explanation
Indices: 41198962--41199939 Score: 1938
Period size: 487 Copynumber: 2.0 Consensus size: 487
41198952 TGTAATAGAG
41198962 GATTCTGAGTAGTGGATGTGTAGTGGGAATTAGGGGAGAAGATTAAGGGATTTTGGGAGTTATAG
1 GATTCTGAGTAGTGGATGTGTAGTGGGAATTAGGGGAGAAGATTAAGGGATTTTGGGAGTTATAG
41199027 GGATTTTATTTTATTTTTTTCCCATAACCGAATTTTGACTCTCTTTTCTAAAAAAATGTTGCCAT
66 GGATTTTATTTTATTTTTTTCCCATAACCGAATTTTGACTCTCTTTTCTAAAAAAATGTTGCCAT
41199092 CTATTATTCTCTCTCTCCTCTTGTCAAAATTCTTTGAGTTTTTCCATCTTTCTCTTCTTTTTCTT
131 CTATTATTCTCTCTCTCCTCTTGTCAAAATTCTTTGAGTTTTTCCATCTTTCTCTTCTTTTTCTT
41199157 CTTCTTGATTTTTCCCTAATCCATTTATTTTCCTTTATTTTCACATGCGGTTAGTGCTAGCTTAG
196 CTTCTTGATTTTTCCCTAATCCATTTATTTTCCTTTATTTTCACATGCGGTTAGTGCTAGCTTAG
41199222 TTTCAGTAAGTGTTTCTCTTCATTTCTATCATAAATCTCTTAGCGACTGAAGTGGTAATGTTTTT
261 TTTCAGTAAGTGTTTCTCTTCATTTCTATCATAAATCTCTTAGCGACTGAAGTGGTAATGTTTTT
41199287 TGTCTATGGTTTGGGCATATGAGGAGGCTCGGACTTGTGAATTCAGTCTTCTCGTCTTAACAATA
326 TGTCTATGGTTTGGGCATATGAGGAGGCTCGGACTTGTGAATTCAGTCTTCTCGTCTTAACAATA
41199352 GTTAAACGGAGGGTTATCGTTGATGGTAAGATGGGTTTCTTTTCGTTCTTGATTGTCAATTCGCT
391 GTTAAACGGAGGGTTATCGTTGATGGTAAGATGGGTTTCTTTTCGTTCTTGATTGTCAATTCGCT
41199417 TGTAAATCCGTTAAATTGATGTTGAGTATCTT
456 TGTAAATCCGTTAAATTGATGTTGAGTATCTT
41199449 GATTCTGAGTAGTGGATGTGTAGTGGGAATTAGGGGAGAAGATTAAGGGATTTTGGGAGTTATAG
1 GATTCTGAGTAGTGGATGTGTAGTGGGAATTAGGGGAGAAGATTAAGGGATTTTGGGAGTTATAG
41199514 GGATTTTATTTTATTTTTTTCCCATAACCGAATTTTGACTCTCTTTTCTAAAAAAATGTTGCCAT
66 GGATTTTATTTTATTTTTTTCCCATAACCGAATTTTGACTCTCTTTTCTAAAAAAATGTTGCCAT
41199579 CTATTATTCTCTCTCTCCTCTTGTCAAAATTCTTTGAGTTTTTCCATCTTTCTCTTCTTTTTCTT
131 CTATTATTCTCTCTCTCCTCTTGTCAAAATTCTTTGAGTTTTTCCATCTTTCTCTTCTTTTTCTT
41199644 CTTCTTGATTTTTCCCTAATCCATTTATTTTCCTTTATTTTCACATGCGGTTAGTGCTAGCTTAG
196 CTTCTTGATTTTTCCCTAATCCATTTATTTTCCTTTATTTTCACATGCGGTTAGTGCTAGCTTAG
*
41199709 TTTCGGTAAGTGTTTCTCTTCATTTCTATCATAAATCTCTTAGCGACTGAAGTGGTAATGTTTTT
261 TTTCAGTAAGTGTTTCTCTTCATTTCTATCATAAATCTCTTAGCGACTGAAGTGGTAATGTTTTT
*
41199774 TGTCTATGGTTTGGGTATATGAGGAGGCTCGGACTTGTGAATTCAGTCTTCTCGTCTTAACAATA
326 TGTCTATGGTTTGGGCATATGAGGAGGCTCGGACTTGTGAATTCAGTCTTCTCGTCTTAACAATA
41199839 GTTAAACGGAGGGTTATCGTTGATGGTAAGATGGGTTTCTTTTCGTTCTTGATTGTCAATTCGCT
391 GTTAAACGGAGGGTTATCGTTGATGGTAAGATGGGTTTCTTTTCGTTCTTGATTGTCAATTCGCT
41199904 TGTAAATCCGTTAAATTGATGTTGAGTATCTT
456 TGTAAATCCGTTAAATTGATGTTGAGTATCTT
41199936 GATT
1 GATT
41199940 ATAGGCTTTG
Statistics
Matches: 489, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
487 489 1.00
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.44
Consensus pattern (487 bp):
GATTCTGAGTAGTGGATGTGTAGTGGGAATTAGGGGAGAAGATTAAGGGATTTTGGGAGTTATAG
GGATTTTATTTTATTTTTTTCCCATAACCGAATTTTGACTCTCTTTTCTAAAAAAATGTTGCCAT
CTATTATTCTCTCTCTCCTCTTGTCAAAATTCTTTGAGTTTTTCCATCTTTCTCTTCTTTTTCTT
CTTCTTGATTTTTCCCTAATCCATTTATTTTCCTTTATTTTCACATGCGGTTAGTGCTAGCTTAG
TTTCAGTAAGTGTTTCTCTTCATTTCTATCATAAATCTCTTAGCGACTGAAGTGGTAATGTTTTT
TGTCTATGGTTTGGGCATATGAGGAGGCTCGGACTTGTGAATTCAGTCTTCTCGTCTTAACAATA
GTTAAACGGAGGGTTATCGTTGATGGTAAGATGGGTTTCTTTTCGTTCTTGATTGTCAATTCGCT
TGTAAATCCGTTAAATTGATGTTGAGTATCTT
Found at i:41210221 original size:26 final size:26
Alignment explanation
Indices: 41210192--41210244 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
41210182 AATCAATAAT
41210192 TCGGGGAAT-TAACACTTAGCAACCCC
1 TCGGGGAATCT-ACACTTAGCAACCCC
*
41210218 TCGGGGAATCTTCACTTAGCAACCCC
1 TCGGGGAATCTACACTTAGCAACCCC
41210244 T
1 T
41210245 TATATTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (26 bp):
TCGGGGAATCTACACTTAGCAACCCC
Found at i:41214674 original size:16 final size:16
Alignment explanation
Indices: 41214653--41214686 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
41214643 TTTGAGCACC
41214653 ATAGTCTTGTTATACA
1 ATAGTCTTGTTATACA
41214669 ATAGTCTTGTTATACA
1 ATAGTCTTGTTATACA
41214685 AT
1 AT
41214687 TGAACTAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
ATAGTCTTGTTATACA
Found at i:41216376 original size:35 final size:35
Alignment explanation
Indices: 41216337--41216424 Score: 113
Period size: 35 Copynumber: 2.5 Consensus size: 35
41216327 CGCAAGAGCC
41216337 AATCCATCCGAAACACACTAACGCTCATAAAAGCT
1 AATCCATCCGAAACACACTAACGCTCATAAAAGCT
* * * * *
41216372 AATCCCTCCAAAACACACTAATGTTCATAAGAGCT
1 AATCCATCCGAAACACACTAACGCTCATAAAAGCT
* *
41216407 AGTCCAACCGAAACACAC
1 AATCCATCCGAAACACAC
41216425 AAAAATATAG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.42, C:0.32, G:0.09, T:0.17
Consensus pattern (35 bp):
AATCCATCCGAAACACACTAACGCTCATAAAAGCT
Found at i:41218963 original size:15 final size:15
Alignment explanation
Indices: 41218943--41218980 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
41218933 TTAATCAGAA
*
41218943 TGAGGTATTTAAAAT
1 TGAGGTACTTAAAAT
41218958 TGAGGTACTTAAAAT
1 TGAGGTACTTAAAAT
41218973 TGAGGTAC
1 TGAGGTAC
41218981 CAAATTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (15 bp):
TGAGGTACTTAAAAT
Found at i:41222297 original size:28 final size:23
Alignment explanation
Indices: 41222266--41222320 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 23
41222256 TCTTGAGTTC
*
41222266 TTTTTCTTTTTCATTTACTTACTTTTA
1 TTTTTATTTTT-ATTT--TTAC-TTTA
41222293 TTTTTATTTTTATTTTTACTTTA
1 TTTTTATTTTTATTTTTACTTTA
41222316 TTTTT
1 TTTTT
41222321 TGAGTTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 9 0.33
24 4 0.15
26 4 0.15
27 10 0.37
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTATTTTTATTTTTACTTTA
Found at i:41222299 original size:6 final size:6
Alignment explanation
Indices: 41222288--41222320 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
41222278 ATTTACTTAC
*
41222288 TTTTAT TTTTAT TTTTAT TTTTA- CTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
41222321 TGAGTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:41222321 original size:12 final size:12
Alignment explanation
Indices: 41222284--41222320 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
41222274 TTTCATTTAC
41222284 TTACTTTTATTT
1 TTACTTTTATTT
*
41222296 TTATTTTTATTT
1 TTACTTTTATTT
41222308 TTAC-TTTATTT
1 TTACTTTTATTT
41222319 TT
1 TT
41222321 TGAGTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (12 bp):
TTACTTTTATTT
Found at i:41223735 original size:72 final size:71
Alignment explanation
Indices: 41223591--41223792 Score: 234
Period size: 72 Copynumber: 2.8 Consensus size: 71
41223581 TAAACATTAC
* *
41223591 CGGCG-TTTTAGGTACAGCGCCGCAAAAAACCT-AGCGCAACGACGCCGTTTCAAGAGCATTTGG
1 CGGCGTTTTTAAGTA-AGCGCCGCAAAAAACCTAAGCGCAACGACGCCGTTTC-TGAGCATTTGG
*
41223654 TGATTTAG
64 GGATTTAG
* * *
41223662 CGGCGTTTTTAAGTAAGCGCCGCTAAAAACCCTAAGCCCAACGACACCGTTTCTGAG-ATTTTGG
1 CGGCGTTTTTAAGTAAGCGCCGC-AAAAAACCTAAGCGCAACGACGCCGTTTCTGAGCA-TTTGG
41223726 GGATTTAG
64 GGATTTAG
*
41223734 CGGCGTTTGTATAA--AAGCGCCGCAAAAAAAACTAAGCGCAACGACGCCGTTTCTCGAGC
1 CGGCGTTT-T-TAAGTAAGCGCCGC-AAAAAACCTAAGCGCAACGACGCCGTTTCT-GAGC
41223793 TATTCACGGA
Statistics
Matches: 112, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
71 14 0.12
72 74 0.66
73 21 0.19
74 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (71 bp):
CGGCGTTTTTAAGTAAGCGCCGCAAAAAACCTAAGCGCAACGACGCCGTTTCTGAGCATTTGGGG
ATTTAG
Found at i:41223946 original size:113 final size:114
Alignment explanation
Indices: 41223729--41224006 Score: 278
Period size: 113 Copynumber: 2.4 Consensus size: 114
41223719 ATTTTGGGGA
* *** * * * *
41223729 TTTAGCGGCGTTTGTATAAAAGCGCCGCAAAAAAAACTAAGCGCAACGACGCCGTTTCTCGAGCT
1 TTTAGCGGCGTTTCTGGGAAAGCGCCGCAAAAAAAACTAAGCGCAACGACACCGTCTCGCCAGCT
*
41223794 ATTCACGGAATTAGCGGCGCTTCCTATAAAGCGCCGCTAATGCTCAGG-T
66 ATTCACGGAATTAGCGGCGCTT-CTATAAAGCGCCGCTAATGATCAGGCT
* * *
41223843 CTTTAGCGGTGTTTCTGGGAAAGCGCCGCAAAAAAATCT-AGCGCAACGACATCGTCTCGCCAGC
1 -TTTAGCGGCGTTTCTGGGAAAGCGCCGCAAAAAAAACTAAGCGCAACGACACCGTCTCGCCAGC
* * * *
41223907 T-TTCAGGGATTTAGTGGCGCTT-TATAGGAAGCGCCGCTAATTATCAGGCT
65 TATTCACGGAATTAGCGGCGCTTCTATA--AAGCGCCGCTAATGATCAGGCT
* ** * * *
41223957 TTTAGCGGCGTTTTTTGTAAAAGCGCCGC-TAAAAACCTAAGCCCAACGAC
1 TTTAGCGGCG-TTTCTGGGAAAGCGCCGCAAAAAAAACTAAGCGCAACGAC
41224007 GTTGTCTCCT
Statistics
Matches: 135, Mismatches: 23, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
111 4 0.03
113 52 0.39
114 47 0.35
115 32 0.24
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (114 bp):
TTTAGCGGCGTTTCTGGGAAAGCGCCGCAAAAAAAACTAAGCGCAACGACACCGTCTCGCCAGCT
ATTCACGGAATTAGCGGCGCTTCTATAAAGCGCCGCTAATGATCAGGCT
Found at i:41224380 original size:15 final size:15
Alignment explanation
Indices: 41224356--41224385 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41224346 ATTTAAGAGC
*
41224356 TAGGATTTAGGGGTT
1 TAGGAGTTAGGGGTT
41224371 TAGGAGTTAGGGGTT
1 TAGGAGTTAGGGGTT
41224386 AGGGGTTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (15 bp):
TAGGAGTTAGGGGTT
Found at i:41224395 original size:15 final size:15
Alignment explanation
Indices: 41224361--41224410 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
41224351 AGAGCTAGGA
*
41224361 TTTAGGGGTTTAGGAG
1 TTTAGGGG-TTAGGGG
41224377 -TTAGGGGTTAGGGG
1 TTTAGGGGTTAGGGG
* *
41224391 TTTAGGGATTTGGGG
1 TTTAGGGGTTAGGGG
41224406 TTTAG
1 TTTAG
41224411 AGTTTGAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 6 0.20
15 24 0.80
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (15 bp):
TTTAGGGGTTAGGGG
Found at i:41224407 original size:22 final size:22
Alignment explanation
Indices: 41224334--41224396 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
41224324 TTATGCTTTT
* *
41224334 GGGGTTATGGGGATTTAAGAGCTA
1 GGGGTTA-GGGG-TTTAGGAGTTA
**
41224358 GGATTTAGGGGTTTAGGAGTTA
1 GGGGTTAGGGGTTTAGGAGTTA
41224380 GGGGTTAGGGGTTTAGG
1 GGGGTTAGGGGTTTAGG
41224397 GATTTGGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 24 0.73
23 4 0.12
24 5 0.15
ACGTcount: A:0.21, C:0.02, G:0.46, T:0.32
Consensus pattern (22 bp):
GGGGTTAGGGGTTTAGGAGTTA
Found at i:41227208 original size:33 final size:31
Alignment explanation
Indices: 41227144--41227216 Score: 94
Period size: 33 Copynumber: 2.3 Consensus size: 31
41227134 GGTTTTTGCA
* *
41227144 GCTAAGATGGTACCTTCTACTGGTTTTTGCT
1 GCTAAGATGGTACCTTCTACTGATTTCTGCT
*
41227175 GCTAAGATGGTACCGCTTCTATTGATTTCTGCT
1 GCTAAGATGGTA-C-CTTCTACTGATTTCTGCT
41227208 GCTAA-ATGG
1 GCTAAGATGG
41227217 GAAATAGCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 12 0.32
32 5 0.14
33 20 0.54
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GCTAAGATGGTACCTTCTACTGATTTCTGCT
Found at i:41228394 original size:25 final size:25
Alignment explanation
Indices: 41228360--41228564 Score: 320
Period size: 25 Copynumber: 8.0 Consensus size: 25
41228350 NNNNNNNNNN
*
41228360 ATACACTTAACTTACAACTTACATA
1 ATACATTTAACTTACAACTTACATA
41228385 ATACATTTAACTTACAACTTACATA
1 ATACATTTAACTTACAACTTACATA
*
41228410 ATACATAATAACTTACAACTTACATA
1 ATACAT-TTAACTTACAACTTACATA
* *
41228436 ATACATAATAACTTACAACTTACATT
1 ATACAT-TTAACTTACAACTTACATA
*
41228462 ATACACTTAACTTACAACTTACATA
1 ATACATTTAACTTACAACTTACATA
*
41228487 ATACATTTAACTTACAACTTACATT
1 ATACATTTAACTTACAACTTACATA
41228512 ATACATTTAACTTACAACTTACATA
1 ATACATTTAACTTACAACTTACATA
41228537 ATACATTTAACTTACATAACTTACATA
1 ATACATTTAACTTAC--AACTTACATA
41228564 A
1 A
41228565 CTTACATAAT
Statistics
Matches: 168, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
25 109 0.65
26 48 0.29
27 11 0.07
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (25 bp):
ATACATTTAACTTACAACTTACATA
Found at i:41228475 original size:18 final size:17
Alignment explanation
Indices: 41228452--41228527 Score: 54
Period size: 18 Copynumber: 4.5 Consensus size: 17
41228442 AATAACTTAC
41228452 AACTTACATTATACACTT
1 AACTTACATT-TACACTT
*
41228470 AACTTACAACTTACA--T
1 AACTTAC-ATTTACACTT
41228486 AA--TACATTTA-ACTT
1 AACTTACATTTACACTT
*
41228500 ACAACTTACATTATACATTT
1 --AACTTACATT-TACACTT
41228520 AACTTACA
1 AACTTACA
41228528 ACTTACATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 18
0.69 0.04 0.27
Matches are distributed among these distances:
12 1 0.02
13 4 0.09
14 4 0.09
16 5 0.11
18 25 0.54
19 4 0.09
20 3 0.07
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (17 bp):
AACTTACATTTACACTT
Found at i:41228548 original size:18 final size:18
Alignment explanation
Indices: 41228527--41228600 Score: 80
Period size: 18 Copynumber: 3.9 Consensus size: 18
41228517 TTTAACTTAC
41228527 AACTTACATAATACATTT
1 AACTTACATAATACATTT
41228545 AACTTACATAACTTACA--T
1 AACTTACATAA--TACATTT
*
41228563 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
41228582 AACTTACATTACATACATT
1 AACTTACA-TA-ATACATT
41228601 ACTTTCATAG
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
16 4 0.08
18 23 0.48
19 9 0.19
20 6 0.12
21 6 0.12
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:41228549 original size:43 final size:38
Alignment explanation
Indices: 41228513--41228592 Score: 105
Period size: 36 Copynumber: 2.2 Consensus size: 38
41228503 ACTTACATTA
*
41228513 TACATTTAACTT--ACAACTTACATAATACAT-TTAACT
1 TACA-TTAACTTACACAACTTACATAATACATAATAACT
*
41228549 TACA-TAACTTACATAACTTACATAATACATAATAACT
1 TACATTAACTTACACAACTTACATAATACATAATAACT
41228586 TACATTA
1 TACATTA
41228593 CATACATTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
34 6 0.16
36 21 0.55
37 9 0.24
38 2 0.05
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (38 bp):
TACATTAACTTACACAACTTACATAATACATAATAACT
Found at i:41228558 original size:102 final size:102
Alignment explanation
Indices: 41228360--41228562 Score: 347
Period size: 102 Copynumber: 2.0 Consensus size: 102
41228350 NNNNNNNNNN
41228360 ATACACTTAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAACTTA
1 ATACACTTAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAACTTA
41228425 CAACTTACATAATACATAATAACTTACAACTTACATT
66 CAACTTACATAATACATAATAACTTACAACTTACATT
* *
41228462 ATACACTTAACTTACAACTTACATAATACATTTAACTTACAACTTACATTATACAT-TTAACTTA
1 ATACACTTAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAACTTA
*
41228526 CAACTTACATAATACAT-TTAACTTACATAACTTACAT
66 CAACTTACATAATACATAATAACTTAC--AACTTACAT
41228563 AACTTACATA
Statistics
Matches: 96, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
100 8 0.08
101 24 0.25
102 64 0.67
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (102 bp):
ATACACTTAACTTACAACTTACATAATACATTTAACTTACAACTTACATAATACATAATAACTTA
CAACTTACATAATACATAATAACTTACAACTTACATT
Found at i:41228599 original size:37 final size:36
Alignment explanation
Indices: 41228527--41228609 Score: 112
Period size: 37 Copynumber: 2.3 Consensus size: 36
41228517 TTTAACTTAC
* *
41228527 AACTTACATAATACATTTAACTTACATAACTTACAT
1 AACTTACATAATACATATAACTTACATAACATACAT
*
41228563 AACTTACATAATACATAATAACTTACATTACATACAT
1 AACTTACATAATACAT-ATAACTTACATAACATACAT
* *
41228600 TACTTTCATA
1 AACTTACATA
41228610 GATTTAGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 16 0.39
37 25 0.61
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (36 bp):
AACTTACATAATACATATAACTTACATAACATACAT
Found at i:41229668 original size:21 final size:21
Alignment explanation
Indices: 41229642--41229708 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
41229632 CTACAACTTA
*
41229642 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
*
41229663 AAGCAGCGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGGG
* * *
41229684 AAGCGGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGGG
41229705 AAGC
1 AAGC
41229709 GGAGCAGAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.49, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGGG
Found at i:41230072 original size:43 final size:43
Alignment explanation
Indices: 41230019--41230137 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
41230009 TTTTTTGTAT
*
41230019 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGC-ATTTGTAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGT-AA
* *
41230062 AAAAACGCCACTAAAGACCATGTTCTTTAGCGGCGCTTAGTAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGTAA
* *
41230105 AAAAACGCCGCTAAAGAACATGATCTTTAGCGG
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGG
41230138 TTGTTTTTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
43 65 0.94
44 4 0.06
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (43 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGTAA
Found at i:41231119 original size:75 final size:76
Alignment explanation
Indices: 41230971--41231125 Score: 244
Period size: 75 Copynumber: 2.0 Consensus size: 76
41230961 TAAATATCTT
41230971 TTTAAAAAAAATTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATG
1 TTTAAAAAAAATTCAAAATAA-GCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATG
41231036 TGCTGGTTTTCGA
65 TGCTGG-TTTCGA
* *
41231049 TTTAAAAAAATTTCAAAAT-A-CAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGT
1 TTTAAAAAAAATTCAAAATAAGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGT
41231111 GCTGGGTTTCGA
66 GCT-GGTTTCGA
41231123 TTT
1 TTT
41231126 CTCGTTTAAC
Statistics
Matches: 74, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
74 27 0.36
75 28 0.38
77 1 0.01
78 18 0.24
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (76 bp):
TTTAAAAAAAATTCAAAATAAGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGT
GCTGGTTTCGA
Found at i:41233500 original size:41 final size:41
Alignment explanation
Indices: 41233415--41233556 Score: 223
Period size: 41 Copynumber: 3.5 Consensus size: 41
41233405 CTTTCGAGGC
* * *
41233415 TTTAGCGGCGTTTTTGAAAAAGCGTCGCTAATGCTC-GGGC
1 TTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGCTCGGGGT
* *
41233455 TTTAGCGGCATTTTTTAAAATGCGCCGCTAATGCTCGGGGT
1 TTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGCTCGGGGT
*
41233496 TTTAGCGGTGTTTTTGAAAATGCGCCGCTAATGCTCGGGGT
1 TTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGCTCGGGGT
41233537 TTTAGCGGCGTTTTTGAAAA
1 TTTAGCGGCGTTTTTGAAAA
41233557 AGCACAGCTA
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 32 0.35
41 60 0.65
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAATGCGCCGCTAATGCTCGGGGT
Found at i:41233939 original size:15 final size:15
Alignment explanation
Indices: 41233919--41233965 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
41233909 TATTTTAAGG
*
41233919 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
41233934 TTTAGGGATTAT-GA
1 TTTAGGGATTATGGA
*
41233948 ATTAGGGATTATGG-
1 TTTAGGGATTATGGA
41233962 TTTA
1 TTTA
41233966 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:41233986 original size:21 final size:20
Alignment explanation
Indices: 41233952--41233992 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
41233942 TTATGAATTA
*
41233952 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
41233972 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
41233993 AGGGGTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:41234004 original size:7 final size:7
Alignment explanation
Indices: 41233984--41234039 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
41233974 GATTTAAGGT
41233984 TTAGGGG
1 TTAGGGG
41233991 TTAGGGG
1 TTAGGGG
41233998 TTAGGGG
1 TTAGGGG
41234005 TTTAGGGG
1 -TTAGGGG
**
41234013 TTAGACG
1 TTAGGGG
41234020 TTAGGGG
1 TTAGGGG
* *
41234027 TTAAGAG
1 TTAGGGG
41234034 TTAGGG
1 TTAGGG
41234040 ATTTAGGATT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 33 0.82
8 7 0.17
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (7 bp):
TTAGGGG
Found at i:41234007 original size:22 final size:22
Alignment explanation
Indices: 41233981--41234028 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
41233971 TGGGATTTAA
**
41233981 GGTTTAGGGGTTAGGGGTTAGG
1 GGTTTAGGGGTTAGACGTTAGG
41234003 GGTTTAGGGGTTAGACGTTAGG
1 GGTTTAGGGGTTAGACGTTAGG
41234025 GGTT
1 GGTT
41234029 AAGAGTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.02, G:0.50, T:0.33
Consensus pattern (22 bp):
GGTTTAGGGGTTAGACGTTAGG
Found at i:41234474 original size:19 final size:18
Alignment explanation
Indices: 41234445--41234489 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
41234435 GGACCAAATT
* *
41234445 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAAATAAA
*
41234463 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAAATAAA
41234482 ATAAAAAA
1 ATAAAAAA
41234490 AAACTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (18 bp):
ATAAAAAATAAAAATAAA
Found at i:41234490 original size:19 final size:19
Alignment explanation
Indices: 41234450--41234490 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
41234440 AAATTATAAG
* *
41234450 AAATAAAATTAAAATACAA
1 AAATAAAAATAAAATAAAA
*
41234469 AAATAAAAATGAAATAAAA
1 AAATAAAAATAAAATAAAA
41234488 AAA
1 AAA
41234491 AACTAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAATAAAA
Found at i:41235204 original size:121 final size:122
Alignment explanation
Indices: 41234797--41235252 Score: 554
Period size: 124 Copynumber: 3.7 Consensus size: 122
41234787 TTTAATGGAT
* * * * * * * *** *
41234797 TTAGTGGCGCTAAGATAAAAACGCCTCTAAAGATGAGCATTAGAGGCGCTACTTGGGAAATGCCG
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCG
* * * * * *
41234862 CAAAACTTCATTTTAATTTAAACAAAACTATGTCGTTTTGTCTGTCGAAATTAGCGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAAC--TGGCGTTTTGTCTGGCAAAATTAGCGGCA
* *
41234921 TTAGCGGCGCTACGCTAAAAACGCTGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCG
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCG
* * * * *
41234986 CAAAGCTTCATTGTAGTTTATAGATAACGGTGTCATTTTGTCTGGCAAAATTAGCGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAAC--TGGCGTTTTGTCTGGCAAAATTAGCGGCA
* * * * *
41235045 TTAGCGGCGCTATGCTAAAAACGCCGCAAAAGGCGAGAATTAGAGGCGCTATTTTAGAAACTCCA
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCG
*
41235110 CAAAGCTTCATTGTAGTTTAAACAAAAC-GGCGTTTTGTCTGGAAAAATTAGCGGCA
66 CAAAGCTTCATTGTAGTTTAAACAAAACTGGCGTTTTGTCTGGCAAAATTAGCGGCA
* * * *
41235166 TTAGCGGCGCTAGGCTAAAAACGCCGCGAAATGTGAGAATTAGAGGCGCTATTTTAAAAACGCGG
1 TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCG
*
41235231 CAAAGCTTCATAGTAGTTTAAA
66 CAAAGCTTCATTGTAGTTTAAA
41235253 TAAGACGCTT
Statistics
Matches: 287, Mismatches: 45, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
121 103 0.36
124 184 0.64
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (122 bp):
TTAGCGGCGCTAAGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCG
CAAAGCTTCATTGTAGTTTAAACAAAACTGGCGTTTTGTCTGGCAAAATTAGCGGCA
Found at i:41235236 original size:245 final size:246
Alignment explanation
Indices: 41234797--41235250 Score: 642
Period size: 245 Copynumber: 1.8 Consensus size: 246
41234787 TTTAATGGAT
* * * * * * *
41234797 TTAGTGGCGCTAAGATAAAAACGCCTCTAAAGATGAGCATTAGAGGCGCTACTTGGGAAATGCCG
1 TTAGCGGCGCTAAGATAAAAACGCCGCAAAAGACGAGAATTAGAGGCGCTACTTGAGAAATGCCA
* * ***
41234862 CAAAACTTCATTTTAATTTAAACAAAACTATGTCGTTTTGTCTGTCGAAATTAGCGGCATTAGCG
66 CAAAACTTCATTGTAATTTAAACAAAAC--TGGCGTTTTGTCTGGAAAAATTAGCGGCATTAGCG
*
41234927 GCGCTACGCTAAAAACGCTGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCGCAAAGC
129 GCGCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCGCAAAGC
*
41234992 TTCATTGTAGTTTATAGATAACGGTGTCATTTTGTCTGGCAAAATTAGCGGCA
194 TTCATAGTAGTTTATAGATAACGGTGTCATTTTGTCTGGCAAAATTAGCGGCA
* * * * *
41235045 TTAGCGGCGCTATGCTAAAAACGCCGCAAAAGGCGAGAATTAGAGGCGCTATTTTAGAAACT-CC
1 TTAGCGGCGCTAAGATAAAAACGCCGCAAAAGACGAGAATTAGAGGCGCTACTTGAGAAA-TGCC
* *
41235109 ACAAAGCTTCATTGTAGTTTAAACAAAAC-GGCGTTTTGTCTGGAAAAATTAGCGGCATTAGCGG
65 ACAAAACTTCATTGTAATTTAAACAAAACTGGCGTTTTGTCTGGAAAAATTAGCGGCATTAGCGG
* * * *
41235173 CGCTAGGCTAAAAACGCCGCGAAATGTGAGAATTAGAGGCGCTATTTTAAAAACGCGGCAAAGCT
130 CGCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCGCAAAGCT
41235238 TCATAGTAGTTTA
195 TCATAGTAGTTTA
41235251 AATAAGACGC
Statistics
Matches: 180, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
245 103 0.57
248 76 0.42
249 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (246 bp):
TTAGCGGCGCTAAGATAAAAACGCCGCAAAAGACGAGAATTAGAGGCGCTACTTGAGAAATGCCA
CAAAACTTCATTGTAATTTAAACAAAACTGGCGTTTTGTCTGGAAAAATTAGCGGCATTAGCGGC
GCTACGCTAAAAACGCCGCAAAAGGTGAGAATTAGAGGCGCTATTTTAAAAACGCCGCAAAGCTT
CATAGTAGTTTATAGATAACGGTGTCATTTTGTCTGGCAAAATTAGCGGCA
Found at i:41235618 original size:22 final size:21
Alignment explanation
Indices: 41235556--41235623 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
41235546 TTTATATTCT
41235556 CCTGTACATAAATTGTTTTACA
1 CCTG-ACATAAATTGTTTTACA
* ***
41235578 CCT-ACTTCCGTGTGTTTTACA
1 CCTGACATAAAT-TGTTTTACA
41235599 CCTGCACATAAATTGTTTTACA
1 CCTG-ACATAAATTGTTTTACA
41235621 CCT
1 CCT
41235624 TCATTGATAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
20 4 0.11
21 12 0.34
22 15 0.43
23 4 0.11
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (21 bp):
CCTGACATAAATTGTTTTACA
Found at i:41236986 original size:19 final size:19
Alignment explanation
Indices: 41236964--41237004 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
41236954 ACATTTTTAA
41236964 TATATATATTTAT-AAAATT
1 TATATAT-TTTATCAAAATT
*
41236983 TATATATTTTTTCAAAATT
1 TATATATTTTATCAAAATT
41237002 TAT
1 TAT
41237005 CAATCATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATATTTTATCAAAATT
Found at i:41237059 original size:9 final size:9
Alignment explanation
Indices: 41237041--41237489 Score: 294
Period size: 9 Copynumber: 51.8 Consensus size: 9
41237031 CTTAAATATA
*
41237041 AACTTGCAT
1 AACTTACAT
41237050 AACTTACAT
1 AACTTACAT
*
41237059 AA-TAACATAAT
1 AACTTAC---AT
41237070 AACTTACAT
1 AACTTACAT
41237079 AA--TACAT
1 AACTTACAT
* *
41237086 AGCCTACAT
1 AACTTACAT
41237095 AACTTACAT
1 AACTTACAT
41237104 AACTTACAT
1 AACTTACAT
*
41237113 AA--TACAC
1 AACTTACAT
41237120 AACTTACAT
1 AACTTACAT
*
41237129 AACTTAAAT
1 AACTTACAT
41237138 AACTTACAT
1 AACTTACAT
41237147 AA--TACAT
1 AACTTACAT
*
41237154 AACTTTCAT
1 AACTTACAT
41237163 AACTTACAT
1 AACTTACAT
* *
41237172 TA--TACAC
1 AACTTACAT
41237179 AACTTACAT
1 AACTTACAT
41237188 AACTTA-ATT
1 AACTTACA-T
* *
41237197 AATATTATACAC
1 -A-ACT-TACAT
41237209 AACTTACAT
1 AACTTACAT
41237218 AA--TACAT
1 AACTTACAT
*
41237225 TACTTACAT
1 AACTTACAT
41237234 AACTTACAT
1 AACTTACAT
* *
41237243 TA--TACAC
1 AACTTACAT
41237250 AACTTACAT
1 AACTTACAT
41237259 AACTTA-ATT
1 AACTTACA-T
* * *
41237268 GCATTATACAC
1 -AACT-TACAT
41237279 AACTTACAT
1 AACTTACAT
41237288 AA--TACAT
1 AACTTACAT
41237295 AACTTACAT
1 AACTTACAT
41237304 AACTTACAT
1 AACTTACAT
* *
41237313 TA--TACAC
1 AACTTACAT
41237320 AACTTACAT
1 AACTTACAT
41237329 AACTTA-ATT
1 AACTTACA-T
*
41237338 ACATTATACACT
1 A-ACT-TACA-T
41237350 -ACTTACAT
1 AACTTACAT
41237358 AACTTACAT
1 AACTTACAT
41237367 AACTTACAT
1 AACTTACAT
* *
41237376 -TC-TACAC
1 AACTTACAT
*
41237383 AACTTACGT
1 AACTTACAT
*
41237392 AACATACAT
1 AACTTACAT
41237401 AA--TACAT
1 AACTTACAT
41237408 AACTTACAT
1 AACTTACAT
*
41237417 AA--TACAC
1 AACTTACAT
41237424 AACTTACAT
1 AACTTACAT
*
41237433 AGCTTACAT
1 AACTTACAT
41237442 AA--TACAT
1 AACTTACAT
41237449 AACTTACAT
1 AACTTACAT
*
41237458 AACTTATAT
1 AACTTACAT
41237467 AA--TACAT
1 AACTTACAT
*
41237474 AGCTTACAT
1 AACTTACAT
*
41237483 AATTTAC
1 AACTTAC
41237490 GTAATACATA
Statistics
Matches: 341, Mismatches: 55, Indels: 88
0.70 0.11 0.18
Matches are distributed among these distances:
7 76 0.22
8 9 0.03
9 225 0.66
10 11 0.03
11 11 0.03
12 8 0.02
13 1 0.00
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:41237098 original size:25 final size:24
Alignment explanation
Indices: 41237060--41237500 Score: 169
Period size: 25 Copynumber: 18.2 Consensus size: 24
41237050 AACTTACATA
*
41237060 ATAACATA-ATAACTTACATAATAC
1 ATAACTTACATAAC-TACATAATAC
* *
41237084 ATAGCCTACATAACTTACATAACTTAC
1 ATAACTTACATAAC-TACATAA--TAC
* *
41237111 ATAA--TACACAACTTACATAACTTAA
1 ATAACTTACATAAC-TACATAA--TAC
*
41237136 ATAACTTACATAA-TACATAACTTTC
1 ATAACTTACATAACTACATAA--TAC
* *
41237161 ATAACTTACATTA-TACACAACTTAC
1 ATAACTTACATAACTACATAA--TAC
*
41237186 ATAACTTA-ATTAA-T--ATTATAC
1 ATAACTTACA-TAACTACATAATAC
* *
41237207 ACAACTTACATAA-TACATTACTTAC
1 ATAACTTACATAACTACA-TA-ATAC
* *
41237232 ATAACTTACATTA-TACACAACTTAC
1 ATAACTTACATAACTACATAA--TAC
* *
41237257 ATAACTTA-AT---TGCATTATAC
1 ATAACTTACATAACTACATAATAC
*
41237277 ACAACTTACATAA-TACATAACTTAC
1 ATAACTTACATAACTACATAA--TAC
* *
41237302 ATAACTTACATTA-TACACAACTTAC
1 ATAACTTACATAACTACATAA--TAC
*
41237327 ATAACTTA-AT---TACATTATAC
1 ATAACTTACATAACTACATAATAC
41237347 ACT-ACTTACATAACTTACATAACTTAC
1 A-TAACTTACATAAC-TACATAA--TAC
* * *
41237374 AT-TC-TACACAACTTACGTAACATAC
1 ATAACTTACATAAC-TACAT-A-ATAC
41237399 ATAA--TACATAACTTACATAATAC
1 ATAACTTACATAAC-TACATAATAC
* *
41237422 ACAACTTACATAGCTTACATAATAC
1 ATAACTTACATAAC-TACATAATAC
*
41237447 ATAACTTACATAACTTATATAATAC
1 ATAACTTACATAAC-TACATAATAC
* * *
41237472 ATAGCTTACATAATTTACGTAATAC
1 ATAACTTACATAA-CTACATAATAC
41237497 ATAA
1 ATAA
41237501 ATATATATCA
Statistics
Matches: 336, Mismatches: 49, Indels: 63
0.75 0.11 0.14
Matches are distributed among these distances:
20 19 0.06
21 19 0.06
22 10 0.03
23 15 0.04
24 14 0.04
25 239 0.71
26 3 0.01
27 17 0.05
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (24 bp):
ATAACTTACATAACTACATAATAC
Found at i:41237108 original size:34 final size:33
Alignment explanation
Indices: 41237060--41237529 Score: 239
Period size: 34 Copynumber: 14.5 Consensus size: 33
41237050 AACTTACATA
* *
41237060 ATAACATA-ATAACTTACATAATACATAGCCTAC
1 ATAACTTACATAACTTACATAATACATA-CTTAC
*
41237093 ATAACTTACATAACTTACATAATACACAACTTAC
1 ATAACTTACATAACTTACATAATACA-TACTTAC
* *
41237127 ATAACTTAAATAACTTACATAATACATAACTTTC
1 ATAACTTACATAACTTACATAATACAT-ACTTAC
* *
41237161 ATAACTTACATTA--TACACAACTTACATAACTTA-
1 ATAACTTACATAACTTACATAA--TACAT-ACTTAC
* *
41237194 ATTAATATTATACACAACTTACATAATACATTACTTAC
1 A-T-A-ACT-TACATAACTTACATAATACA-TACTTAC
*
41237232 ATAACTTAC---A-TT--AT-ACACA-ACTTAC
1 ATAACTTACATAACTTACATAATACATACTTAC
* * * *
41237257 ATAACTTA-ATTGCATTATACACAACTTACATA-ATAC
1 ATAACTTACA-T-AACT-TACATAA--TACATACTTAC
* *
41237293 ATAACTTACATAACTTACATTATACACAACTTAC
1 ATAACTTACATAACTTACATAATACA-TACTTAC
*
41237327 ATAACTT--A--A-TTACATTATACACTACTTAC
1 ATAACTTACATAACTTACATAATACA-TACTTAC
41237356 ATAACTTACATAACTTACAT--T-C-TAC--AC
1 ATAACTTACATAACTTACATAATACATACTTAC
* *
41237383 --AACTTACGTAACATACATAATACATAACTTAC
1 ATAACTTACATAACTTACATAATACAT-ACTTAC
* * *
41237415 ATAA--TACACAACTTACATAGCTTACATA-ATAC
1 ATAACTTACATAACTTACATA--ATACATACTTAC
*
41237447 ATAACTTACATAACTTATATAATACATAGCTTAC
1 ATAACTTACATAACTTACATAATACATA-CTTAC
* * * *
41237481 ATAATTTACGTAA--TACATAAATATATATCATATC
1 ATAACTTACATAACTTACAT-AATACATA-CTTA-C
*
41237515 ATAACTTACCTAACT
1 ATAACTTACATAACT
41237530 CATTTATACT
Statistics
Matches: 339, Mismatches: 45, Indels: 103
0.70 0.09 0.21
Matches are distributed among these distances:
25 30 0.09
27 7 0.02
28 3 0.01
29 31 0.09
30 6 0.02
31 4 0.01
32 43 0.13
33 22 0.06
34 144 0.42
35 6 0.02
36 18 0.05
37 17 0.05
38 2 0.01
39 6 0.02
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (33 bp):
ATAACTTACATAACTTACATAATACATACTTAC
Found at i:41237123 original size:16 final size:16
Alignment explanation
Indices: 41237047--41237485 Score: 204
Period size: 16 Copynumber: 27.9 Consensus size: 16
41237037 TATAAACTTG
41237047 CATAACTTACATAATAA
1 CATAACTTACATAAT-A
41237064 CATAATAACTTACATAATA
1 C---ATAACTTACATAATA
* *
41237083 CATAGCCTACATAACTTA
1 CATAACTTACATAA--TA
41237101 CATAACTTACATAATA
1 CATAACTTACATAATA
*
41237117 CACAACTTACATAACTTA
1 CATAACTTACATAA--TA
*
41237135 AATAACTTACATAATA
1 CATAACTTACATAATA
41237151 CATAAC-T---T--T-
1 CATAACTTACATAATA
*
41237160 CATAACTTACATTATA
1 CATAACTTACATAATA
*
41237176 CACAACTTACAT-A-A
1 CATAACTTACATAATA
*
41237190 CTTAA-TTA-ATATTATA
1 CATAACTTACATA--ATA
*
41237206 CACAACTTACATAATA
1 CATAACTTACATAATA
41237222 C---A-TTAC-T--TA
1 CATAACTTACATAATA
*
41237231 CATAACTTACATTATA
1 CATAACTTACATAATA
*
41237247 CACAACTTACAT-A-A
1 CATAACTTACATAATA
* * *
41237261 CTTAA-TTGCATTATA
1 CATAACTTACATAATA
*
41237276 CACAACTTACATAATA
1 CATAACTTACATAATA
41237292 CATAACTTACATAACTTA
1 CATAACTTACATAA--TA
* *
41237310 CATTA--TACACAACTTA
1 CATAACTTACATAA--TA
41237326 CATAACTTA-AT--TA
1 CATAACTTACATAATA
* *
41237339 CATTA--TACACTACTTA
1 CATAACTTACA-TA-ATA
41237355 CATAACTTACATAACTTA
1 CATAACTTACATAA--TA
* *
41237373 CAT-TC-TACACAACTTA
1 CATAACTTACATAA--TA
* *
41237389 CGTAACATACATAATA
1 CATAACTTACATAATA
41237405 CATAACTTACATAATA
1 CATAACTTACATAATA
* *
41237421 CACAACTTACATAGCTTA
1 CATAACTTACATA--ATA
41237439 CATAA--TACATAACTTA
1 CATAACTTACATAA--TA
*
41237455 CATAACTTATATAATA
1 CATAACTTACATAATA
*
41237471 CATAGCTTACATAAT
1 CATAACTTACATAAT
41237486 TTACGTAATA
Statistics
Matches: 328, Mismatches: 43, Indels: 103
0.69 0.09 0.22
Matches are distributed among these distances:
9 9 0.03
10 2 0.01
11 3 0.01
12 9 0.03
13 21 0.06
14 10 0.03
15 9 0.03
16 174 0.53
17 9 0.03
18 66 0.20
19 2 0.01
20 14 0.04
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:41237441 original size:41 final size:41
Alignment explanation
Indices: 41237351--41237485 Score: 157
Period size: 41 Copynumber: 3.2 Consensus size: 41
41237341 TTATACACTA
** * *
41237351 CTTACATAACTTACATAACTTACATTCTACACAACTTACGTAA
1 CTTACATAA--TACATAACTTACATAATACACAACTTACATAG
*
41237394 CATACATAATACATAACTTACATAATACACAACTTACATAG
1 CTTACATAATACATAACTTACATAATACACAACTTACATAG
* *
41237435 CTTACATAATACATAACTTACATAACTTATATAA--TACATAG
1 CTTACATAATACATAACTTACATAA--TACACAACTTACATAG
41237476 CTTACATAAT
1 CTTACATAAT
41237486 TTACGTAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
41 69 0.84
43 13 0.16
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.32
Consensus pattern (41 bp):
CTTACATAATACATAACTTACATAATACACAACTTACATAG
Found at i:41239538 original size:17 final size:18
Alignment explanation
Indices: 41239516--41239554 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
41239506 ATTATTATCT
*
41239516 TATTTA-AAATAGGATCA
1 TATTTATAAATAGAATCA
*
41239533 TATTTATATATAGAATCA
1 TATTTATAAATAGAATCA
41239551 TATT
1 TATT
41239555 CATTTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (18 bp):
TATTTATAAATAGAATCA
Found at i:41241008 original size:11 final size:11
Alignment explanation
Indices: 41240986--41241025 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
41240976 CAAACTAGTG
41240986 CTCTCAAATTTC
1 CTCTC-AATTTC
41240998 CTCTCAATTTC
1 CTCTCAATTTC
41241009 CTCTCAATTT-
1 CTCTCAATTTC
41241019 CTCTCAA
1 CTCTCAA
41241026 ATCCATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 7 0.25
11 16 0.57
12 5 0.18
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:41241043 original size:51 final size:51
Alignment explanation
Indices: 41240987--41241086 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
41240977 AAACTAGTGC
*
41240987 TCTCAAATTTCCTCTCAATTTCCTC-TCAATTTCTCTCAAATCCATATTTAA
1 TCTC-AATTTCCTCTCAATTTCCTCTTAAATTTCTCTCAAATCCATATTTAA
* * * *
41241038 TCTCAATTTGCTCTCAATTTTCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAATTTCCTCTTAAATTTCTCTCAAATCCATATTT
41241087 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 18 0.42
51 25 0.58
ACGTcount: A:0.25, C:0.27, G:0.01, T:0.47
Consensus pattern (51 bp):
TCTCAATTTCCTCTCAATTTCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:41241062 original size:11 final size:11
Alignment explanation
Indices: 41240986--41241073 Score: 50
Period size: 11 Copynumber: 7.4 Consensus size: 11
41240976 CAAACTAGTG
*
41240986 CTCTCAAATTTC
1 CTCTC-AATTTT
*
41240998 CTCTCAATTTC
1 CTCTCAATTTT
41241009 CTCTCAATTTCT
1 CTCTCAATTT-T
*
41241021 CTCAAATCCATATTTA
1 CTC---T-CA-ATTTT
* *
41241037 ATCTCAATTTG
1 CTCTCAATTTT
41241048 CTCTCAATTTT
1 CTCTCAATTTT
* *
41241059 CTCTTAAATTT
1 CTCTCAATTTT
41241070 CTCT
1 CTCT
41241074 TAAATCCCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
11 42 0.68
12 10 0.16
13 1 0.02
15 1 0.02
16 4 0.06
17 4 0.06
ACGTcount: A:0.24, C:0.28, G:0.01, T:0.47
Consensus pattern (11 bp):
CTCTCAATTTT
Found at i:41243097 original size:13 final size:13
Alignment explanation
Indices: 41243056--41243098 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
41243046 TAGATTTTTC
41243056 CTAAATATTATCA
1 CTAAATATTATCA
*
41243069 CCAAATA--ATC-
1 CTAAATATTATCA
41243079 CTAAATATTATCA
1 CTAAATATTATCA
41243092 CTAAATA
1 CTAAATA
41243099 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:41243107 original size:23 final size:23
Alignment explanation
Indices: 41243054--41243100 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
41243044 GCTAGATTTT
41243054 TCCTAAATATTATCACCAAATAA
1 TCCTAAATATTATCACCAAATAA
*
41243077 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACCAAATAA
41243100 T
1 T
41243101 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (23 bp):
TCCTAAATATTATCACCAAATAA
Found at i:41243835 original size:19 final size:20
Alignment explanation
Indices: 41243811--41243857 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
41243801 TAAAAAATAA
*
41243811 TCCAAAATAATTT-TTAAAAT
1 TCCAAAAT-ATTTATAAAAAT
41243831 T-CAAAATATTTATAAAAAT
1 TCCAAAATATTTATAAAAAT
41243850 TCCAAAAT
1 TCCAAAAT
41243858 TTATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (20 bp):
TCCAAAATATTTATAAAAAT
Found at i:41243916 original size:21 final size:19
Alignment explanation
Indices: 41243869--41243931 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 19
41243859 TATATTTTTT
* *
41243869 AAAAAATTCTAAAATTTTA
1 AAAAAATTCTAAAAATATA
41243888 AAATAAATTCTAAAAAATATA
1 AAA-AAATTCT-AAAAATATA
*
41243909 AAGAAAA-T-TAAAAATTTA
1 AA-AAAATTCTAAAAATATA
41243927 AAAAA
1 AAAAA
41243932 TCTTTAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 3 0.08
18 10 0.26
19 4 0.11
20 8 0.21
21 12 0.32
22 1 0.03
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAAATTCTAAAAATATA
Done.