Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold195
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: 1914327
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.29
Warning! 179916 characters in sequence are not A, C, G, or T
File 2 of 12
Found at i:140396 original size:21 final size:22
Alignment explanation
Indices: 140372--140421 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
140362 ATCAAATCTT
* *
140372 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
140393 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
140415 --TCAAAAT
1 CTTCAAAAT
140422 CATCAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:141676 original size:3 final size:3
Alignment explanation
Indices: 141670--141695 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
141660 GAAGAAGATG
141670 CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CT
141696 TCACCCGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
CTC
Found at i:142787 original size:19 final size:21
Alignment explanation
Indices: 142744--142796 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
142734 CACACCCAAA
*
142744 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGTATGCAT
142764 TGTATCGATACATGT-T-CAT
1 TGTATCGATACATGTATGCAT
142783 TGTATCGATACATG
1 TGTATCGATACATG
142797 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATGTATGCAT
Found at i:147250 original size:15 final size:16
Alignment explanation
Indices: 147230--147259 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
147220 GATGTTTGAA
147230 TCTGTTT-TTTCTTTT
1 TCTGTTTATTTCTTTT
147245 TCTGTTTATTTCTTT
1 TCTGTTTATTTCTTT
147260 GTTTTCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.03, C:0.13, G:0.07, T:0.77
Consensus pattern (16 bp):
TCTGTTTATTTCTTTT
Found at i:148072 original size:17 final size:18
Alignment explanation
Indices: 148038--148083 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
148028 TTCAATCATT
*
148038 TTTATTTTTTATTATTTA
1 TTTATTTTTTAGTATTTA
*
148056 TTTATTTTTT-GTGTTTA
1 TTTATTTTTTAGTATTTA
*
148073 TTAATTTTTTA
1 TTTATTTTTTA
148084 ATTAATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTATTTTTTAGTATTTA
Found at i:148720 original size:42 final size:42
Alignment explanation
Indices: 148674--150088 Score: 538
Period size: 42 Copynumber: 33.5 Consensus size: 42
148664 AAGGTGAAAA
* * * *
148674 AGTCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATGAAGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAGC
* *
148716 AGTCTTCCAA-GTCAAAGCCGACACGCAGA-TTGAAGGGTTGGAA--
1 AGTC-TCCAAGGTCAAAGCCGACAGGCAGACTT-AA--GAT-GAAGC
* * * ** *
148759 AATCTCTAAGGTCAAAACTAACAGGCAGACTTTAA-ATGAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAAGATGAAGC
* * * * *
148801 AGTCTCCAGGGTCAAAACCGATAGGCAGACTGAAAGTAGGAA--
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACT-TAAG-ATGAAGC
* * * * *
148843 AGTTTCCAAGGTCAAAGCCGACAGGCAAACTT-TGAATGAGGT
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAG-ATGAAGC
* * * *
148885 AGTCTCCAGGGTC-AAGCCGATAGGCAGACTGAAAGTAGGAA--
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACT-TAAG-ATGAAGC
* * * * * *
148926 AGTCTCTAGGGTCAAAGCCGACATGCAAACTTTAGGT-AAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAA-GC
* * *
148968 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAG-GGTAAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATG-AAG-C
** * * * * * *
149011 AGTCTTTAGGGTCAAAGCCGGCAGGCCGACTTAAGGTGAGGT
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAGC
* ** *
149053 AGTCTCCAAGGTCAAAGTCGACAGGCAGACTGTGGGTAGGAA--
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACT-TAAG-ATGAAGC
* * * * *
149095 AGTCTCCAGGGTCAAAACCGACAAGCAGACTTTAGATGAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAGC
* * * * * * * *
149137 AATCTTCAGGGTCAAAGCTGACAGGTAGACTGAAG-GGTAAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATG-AAG-C
* * * *
149180 AGTCTCCAAGGTTAAAGCCGATAGGCAGACTTGAGGT-AAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAA-GC
* * * ** *
149222 AATCTCCAAGGTCAAAACCGACAGGCAGAC-TGAGGGGTAAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATG-AAG-C
* * * * * * * *
149265 AGTCT-CAAGGGTTAAAGCCAATAGGAAGACTTGAGGTGAGGT
1 AGTCTCCAA-GGTCAAAGCCGACAGGCAGACTTAAGATGAAGC
* * * * *
149307 AGTCT-CTAGAGCCAAAGCCAATAGGCAGAC-TAAGGGTAGGAA--
1 AGTCTCCAAG-GTCAAAGCCGACAGGCAGACTTAA--G-ATGAAGC
* * * * *
149349 AGTCTCTAGGGTCAAAGTCGACAGGCAGACTTGAGGT-AAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAA-GC
* * * * * ** *
149391 AGCCTCCAAGGTCAAAGCTGACAAGTAGAC-TGAGGGGTAAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATG-AAG-C
*
149434 AGTCTCCAAGGTCAAAGCCGATAGGCAGACTTGAAG-T-AAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTT-AAGATGAA-GC
* * * * * *
149476 AGTCTCTATGGTCAAAGCCGACAGGCAGACTGAGGGT-AAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAG-C
* * * * * *
149518 AGTCTCTAGGGTCAAAGCTGACAGGCAGACTTAAGGTGAGGT
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAGC
* * * * * *
149560 AGTCTCCAAGGTCAAAGTCAACAAGCAGACTGAAG-GGTAAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATG-AAG-C
* * * * * * *
149603 AGTCTCTAAGGTCAAAGCCGACAAGCAGATTTTAGGTGAGGT
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAGC
* * *
149645 AGTCTCCAAGATCAAAGCCGACAGGCAGACTAAAGGTGGGAA--
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGAT--GAAGC
* * * * *
149687 AGTCTCTAGGGTCAAAGCTGACAAGCAGACTTTAGAT-AAGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAGC
* * * * * * * *
149728 AGTCTCTAAGGTCAAAGTCGACAAGTAGA-TAAAAAGGTAAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATG-AAG-C
* * * *
149771 AGTCTCCAAGGTCAAAGTCGATAGGCAGACTTTAGGT-AAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAA-GC
* * * * *
149813 AGTCTCCAAGGCCAAAGTCGACCGGCAGACTGAAAGTAGGAA--
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACT-TAAG-ATGAAGC
* * * * * * * *
149855 AGTCTCTAGGGTCAAGGTCAACAGGCAAACTTAAGGT-AAGGT
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAA-GC
* * * * *
149897 AGTCTCCAAGGTCAAAGCCGATAGGCAGACTGAGGGT-AAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAG-C
* *
149939 AGTCTCC-AGAGTCAAAGCCAACAGGCAGACTTAAGGT-AAGGC
1 AGTCTCCAAG-GTCAAAGCCGACAGGCAGACTTAAGATGAA-GC
* * * * * *
149981 AGTCTCCAAGGTCAAAGCTGATAGGCAAACTAAAG-GGTAAGAA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATG-AAG-C
* * * *
150024 AATCTCCAAGGTCAAAGCCGAAAGGCAGACTTTAGATGAGGC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAGC
* *
150066 AGTCT-CTAGAGTCAAAGCTGACA
1 AGTCTCCAAG-GTCAAAGCCGACA
150089 AGCAAACTAA
Statistics
Matches: 1015, Mismatches: 275, Indels: 166
0.70 0.19 0.11
Matches are distributed among these distances:
39 8 0.01
40 12 0.01
41 88 0.09
42 633 0.62
43 240 0.24
44 25 0.02
45 9 0.01
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.18
Consensus pattern (42 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAAGATGAAGC
Found at i:148829 original size:85 final size:85
Alignment explanation
Indices: 148672--150088 Score: 1365
Period size: 85 Copynumber: 16.8 Consensus size: 85
148662 AAAAGGTGAA
* * * *
148672 AAAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATGAAGCAGTCTTCCAA-GTCAAAGCCG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTC-TCCAAGGTCAAAGCCG
* * **
148736 ACACGCAGATTGAAGGGTTGG
65 ACAGGCAGACTGAAGGGTAAG
* * ** ** * *
148757 AAAATCTCTAAGGTCAAAACTAACAGGCAGACTTTAAATGAGGCAGTCTCCAGGGTCAAAACCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * *
148822 TAGGCAGACTGAA-AGTAGG
66 CAGGCAGACTGAAGGGTAAG
* * * * * *
148841 AAAGTTTCCAAGGTCAAAGCCGACAGGCAAACTTT-GAATGAGGTAGTCTCCAGGGTC-AAGCCG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAG-GTGAGGCAGTCTCCAAGGTCAAAGCCG
* * *
148904 ATAGGCAGACTGAA-AGTAGG
65 ACAGGCAGACTGAAGGGTAAG
* * * *
148924 AAAGTCTCTAGGGTCAAAGCCGACATGCAAACTTTAGGTAAGGCAGTCTCCAAGGTCAAAGCCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
148989 CAGGCAGACTGAAGGGTAAG
66 CAGGCAGACTGAAGGGTAAG
* * * * * * *
149009 AAAGTCTTTAGGGTCAAAGCCGGCAGGCCGACTTAAGGTGAGGTAGTCTCCAAGGTCAAAGTCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* *
149074 CAGGCAGACTG-TGGGTAGG
66 CAGGCAGACTGAAGGGTAAG
* * * * * * * * *
149093 AAAGTCTCCAGGGTCAAAACCGACAAGCAGACTTTAGATGAGGCAATCTTCAGGGTCAAAGCTGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
*
149158 CAGGTAGACTGAAGGGTAAG
66 CAGGCAGACTGAAGGGTAAG
* * * * * * *
149178 AAAGTCTCCAAGGTTAAAGCCGATAGGCAGACTTGAGGTAAGGCAATCTCCAAGGTCAAAACCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
*
149243 CAGGCAGACTGAGGGGTAAG
66 CAGGCAGACTGAAGGGTAAG
* * * * * * * *
149263 AAAGTCTC-AAGGGTTAAAGCCAATAGGAAGACTTGAGGTGAGGTAGTCT-CTAGAGCCAAAGCC
1 AAAGTCTCTAA-GGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAG-GTCAAAGCC
* * *
149326 AATAGGCAGACT-AAGGGTAGG
64 GACAGGCAGACTGAAGGGTAAG
* * * * * *
149347 AAAGTCTCTAGGGTCAAAGTCGACAGGCAGACTTGAGGTAAGGCAGCCTCCAAGGTCAAAGCTGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * *
149412 CAAGTAGACTGAGGGGTAAG
66 CAGGCAGACTGAAGGGTAAG
* * * * * * *
149432 AAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTGAAGTAAGGCAGTCTCTATGGTCAAAGCCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
149497 CAGGCAGACTG-AGGGTAAG
66 CAGGCAGACTGAAGGGTAAG
* * * * * *
149516 AAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTTAAGGTGAGGTAGTCTCCAAGGTCAAAGTCAA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
*
149581 CAAGCAGACTGAAGGGTAAG
66 CAGGCAGACTGAAGGGTAAG
* * * *
149601 AAAGTCTCTAAGGTCAAAGCCGACAAGCAGATTTTAGGTGAGGTAGTCTCCAAGATCAAAGCCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* **
149666 CAGGCAGACT-AAAGGTGGG
66 CAGGCAGACTGAAGGGTAAG
* * * * * * *
149685 AAAGTCTCTAGGGTCAAAGCTGACAAGCAGACTTTAGAT-AAGCAGTCTCTAAGGTCAAAGTCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * * *
149749 CAAGTAGA-TAAAAAGGTAAG
66 CAGGCAGACT-GAAGGGTAAG
* * * * * *
149769 AAAGTCTCCAAGGTCAAAGTCGATAGGCAGACTTTAGGTAAGGCAGTCTCCAAGGCCAAAGTCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * *
149834 CCGGCAGACTGAA-AGTAGG
66 CAGGCAGACTGAAGGGTAAG
* * * * * * * *
149853 AAAGTCTCTAGGGTCAAGGTCAACAGGCAAACTTAAGGTAAGGTAGTCTCCAAGGTCAAAGCCGA
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
*
149918 TAGGCAGACTG-AGGGTAAG
66 CAGGCAGACTGAAGGGTAAG
* * * * *
149937 AAAGTCTC-CAGAGTCAAAGCCAACAGGCAGACTTAAGGTAAGGCAGTCTCCAAGGTCAAAGCTG
1 AAAGTCTCTAAG-GTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCG
* * *
150001 ATAGGCAAACTAAAGGGTAAG
65 ACAGGCAGACTGAAGGGTAAG
* * * * * *
150022 AAAATCTCCAAGGTCAAAGCCGAAAGGCAGACTTTAGATGAGGCAGTCT-CTAGAGTCAAAGCTG
1 AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAG-GTCAAAGCCG
150086 ACA
65 ACA
150089 AGCAAACTAA
Statistics
Matches: 1105, Mismatches: 206, Indels: 42
0.82 0.15 0.03
Matches are distributed among these distances:
82 1 0.00
83 100 0.09
84 497 0.45
85 504 0.46
86 3 0.00
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.18
Consensus pattern (85 bp):
AAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTTTAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
CAGGCAGACTGAAGGGTAAG
Found at i:149109 original size:169 final size:170
Alignment explanation
Indices: 148672--150088 Score: 1394
Period size: 169 Copynumber: 8.4 Consensus size: 170
148662 AAAAGGTGAA
* * * *
148672 AAAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTTAGATGAAGCAGTCTTCCAA-GTCAAAGCCG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGTGAGGCAGTC-TCCAAGGTCAAAGCCG
* * ** * * * ** ** *
148736 ACACGCAGATTGAAGGGTTGGAAAATCTCTAAGGTCAAAACTAACAGGCAGACTTTAAATGAGGC
65 ACAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGGTAAGGC
* * * * *
148801 AGTCTCCAGGGTCAAAACCGATAGGCAGACTGAA-AGTAGG
130 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAG
* * * * * *
148841 AAAGTTTCCAAGGTCAAAGCCGACAGGCAAACTTTGAA--TGAGGTAGTCTCCAGGGTC-AAGCC
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGAC-TT-AAGGTGAGGCAGTCTCCAAGGTCAAAGCC
* * * * * * *
148903 GATAGGCAGACTGAA-AGTAGGAAAGTCTCTAGGGTCAAAGCCGACATGCAAACTTTAGGTAAGG
64 GACAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGGTAAGG
148967 CAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAG
129 CAGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAG
* * * * *
149009 AAAGTCTTTAGGGTCAAAGCCGGCAGGCCGACTTAAGGTGAGGTAGTCTCCAAGGTCAAAGTCGA
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * * * * * *
149074 CAGGCAGACTG-TGGGTAGGAAAGTCTCCAGGGTCAAAACCGACAAGCAGACTTTAGATGAGGCA
66 CAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGGTAAGGCA
* * * * *
149138 ATCTTCAGGGTCAAAGCTGACAGGTAGACTGAAGGGTAAG
131 GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAG
* * * * * * * *
149178 AAAGTCTCCAAGGTTAAAGCCGATAGGCAGACTTGAGGTAAGGCAATCTCCAAGGTCAAAACCGA
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * * * * * * *
149243 CAGGCAGACTGAGGGGTAAGAAAGTCT-CAAGGGTTAAAGCCAATAGGAAGACTTGAGGTGAGGT
66 CAGGCAGACTGAAGGGTAAGAAAGTCTCCAA-GGTCAAAGCCGACAGGCAGACTTTAGGTAAGGC
* * * * *
149307 AGTCT-CTAGAGCCAAAGCCAATAGGCAGACT-AAGGGTAGG
130 AGTCTCCAAG-GTCAAAGCCGACAGGCAGACTGAAGGGTAAG
* * * * *
149347 AAAGTCTCTAGGGTCAAAGTCGACAGGCAGACTTGAGGTAAGGCAGCCTCCAAGGTCAAAGCTGA
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * * * * *
149412 CAAGTAGACTGAGGGGTAAGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTGAAGTAAGGCA
66 CAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGGTAAGGCA
* *
149477 GTCTCTATGGTCAAAGCCGACAGGCAGACTG-AGGGTAAG
131 GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAG
* * * *
149516 AAAGTCTCTAGGGTCAAAGCTGACAGGCAGACTTAAGGTGAGGTAGTCTCCAAGGTCAAAGTCAA
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * * * * *
149581 CAAGCAGACTGAAGGGTAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGATTTTAGGTGAGGTA
66 CAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGGTAAGGCA
* * **
149646 GTCTCCAAGATCAAAGCCGACAGGCAGACT-AAAGGTGGG
131 GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAG
* * * * * * *
149685 AAAGTCTCTAGGGTCAAAGCTGACAAGCAGACTTTAGAT-AAGCAGTCTCTAAGGTCAAAGTCGA
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * * * * *
149749 CAAGTAGA-TAAAAAGGTAAGAAAGTCTCCAAGGTCAAAGTCGATAGGCAGACTTTAGGTAAGGC
66 CAGGCAGACT-GAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGGTAAGGC
* * * * *
149813 AGTCTCCAAGGCCAAAGTCGACCGGCAGACTGAA-AGTAGG
130 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAG
* * * * * *
149853 AAAGTCTCTAGGGTCAAGGTCAACAGGCAAACTTAAGGTAAGGTAGTCTCCAAGGTCAAAGCCGA
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
* * *
149918 TAGGCAGACTG-AGGGTAAGAAAGTCTCC-AGAGTCAAAGCCAACAGGCAGACTTAAGGTAAGGC
66 CAGGCAGACTGAAGGGTAAGAAAGTCTCCAAG-GTCAAAGCCGACAGGCAGACTTTAGGTAAGGC
* * * *
149981 AGTCTCCAAGGTCAAAGCTGATAGGCAAACTAAAGGGTAAG
130 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAG
* * * * * * * *
150022 AAAATCTCCAAGGTCAAAGCCGAAAGGCAGACTTTAGATGAGGCAGTCT-CTAGAGTCAAAGCTG
1 AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGTGAGGCAGTCTCCAAG-GTCAAAGCCG
150086 ACA
65 ACA
150089 AGCAAACTAA
Statistics
Matches: 1023, Mismatches: 203, Indels: 44
0.81 0.16 0.03
Matches are distributed among these distances:
166 2 0.00
167 74 0.07
168 277 0.27
169 605 0.59
170 64 0.06
171 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.18
Consensus pattern (170 bp):
AAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTTAAGGTGAGGCAGTCTCCAAGGTCAAAGCCGA
CAGGCAGACTGAAGGGTAAGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTTAGGTAAGGCA
GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGGTAAG
Found at i:152645 original size:14 final size:13
Alignment explanation
Indices: 152626--152667 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 13
152616 TAGAGCTTCA
152626 TTCTTTTTATTTTT
1 TTCTTTTT-TTTTT
152640 TTCTTTTTTTTTT
1 TTCTTTTTTTTTT
152653 TTGCTTTTTCTTTTT
1 TT-CTTTTT-TTTTT
152668 ATCATCTCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.27
14 14 0.54
15 5 0.19
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.86
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:158383 original size:103 final size:103
Alignment explanation
Indices: 158235--158553 Score: 557
Period size: 103 Copynumber: 3.1 Consensus size: 103
158225 TCGTTTCTTT
* * * * *
158235 CTTCATTACTTCTTGCTGCCATTTCTGTTTTGGTTTCCAGCAGCTGTTACTCTCTTCATTGCTAC
1 CTTCATTGCTTCATGCTGCCGTTTTTGTTTTGGTTTCCAGTAGCTGTTACTCTCTTCATTGCTAC
158300 CATTTGCAGCAACTTTAATTGCATCTATTCATTGCTTC
66 CATTTGCAGCAACTTTAATTGCATCTATTCATTGCTTC
158338 CTTCATTGCTTCATGCTGCCGTTTTTGTTTTGGTTTCCAGTAGCTGTTACTCTCTTCATTGCTAC
1 CTTCATTGCTTCATGCTGCCGTTTTTGTTTTGGTTTCCAGTAGCTGTTACTCTCTTCATTGCTAC
*
158403 CATTTGCAGCAACCTTAATTGCATCTATTCATTGCTTC
66 CATTTGCAGCAACTTTAATTGCATCTATTCATTGCTTC
**
158441 CTTCATTGCTTCATGCTATCGTTTTTGTTTTGGTTTCCAGTAGCTGTTACTCTCTTCATTGCTAC
1 CTTCATTGCTTCATGCTGCCGTTTTTGTTTTGGTTTCCAGTAGCTGTTACTCTCTTCATTGCTAC
*
158506 CATTTGTAGCAACTTTAATTGCATCTATTCATTGCTTC
66 CATTTGCAGCAACTTTAATTGCATCTATTCATTGCTTC
158544 CTTCATTGCT
1 CTTCATTGCT
158554 GTATCGATTT
Statistics
Matches: 206, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 206 1.00
ACGTcount: A:0.16, C:0.25, G:0.13, T:0.46
Consensus pattern (103 bp):
CTTCATTGCTTCATGCTGCCGTTTTTGTTTTGGTTTCCAGTAGCTGTTACTCTCTTCATTGCTAC
CATTTGCAGCAACTTTAATTGCATCTATTCATTGCTTC
Found at i:158672 original size:17 final size:17
Alignment explanation
Indices: 158646--158707 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
158636 CATTTGCATG
* *
158646 AAAGCTTGCATGACGTA
1 AAAGCATGCATGAAGTA
* *
158663 AAAGCATGCATGAAATG
1 AAAGCATGCATGAAGTA
* *
158680 AAGGTATGCATGAAAGTA
1 AAAGCATGCATG-AAGTA
158698 AAAGCATGCA
1 AAAGCATGCA
158708 ATGACACGTA
Statistics
Matches: 34, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 23 0.68
18 11 0.32
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (17 bp):
AAAGCATGCATGAAGTA
Found at i:158958 original size:16 final size:16
Alignment explanation
Indices: 158939--158969 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
158929 ATGTTTATTA
158939 ATTTTTTAATTAATTT
1 ATTTTTTAATTAATTT
158955 ATTTTTTAATTAATT
1 ATTTTTTAATTAATT
158970 AATTATTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTAATTAATTT
Found at i:162812 original size:13 final size:13
Alignment explanation
Indices: 162794--162823 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
162784 ATGATCTTAA
*
162794 TATCAATATATTG
1 TATCAATACATTG
162807 TATCAATACATTG
1 TATCAATACATTG
162820 TATC
1 TATC
162824 GATAAAGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (13 bp):
TATCAATACATTG
Found at i:164763 original size:50 final size:51
Alignment explanation
Indices: 164704--164817 Score: 169
Period size: 50 Copynumber: 2.3 Consensus size: 51
164694 GGGAGAGGTG
* *
164704 TTTTGAGAAATAAACTTGTTTTATA-AAGAGGAGATTATTTTTGAAGATTA
1 TTTTGAGAAATAAACATGTTTTACACAAGAGGAGATTATTTTTGAAGATTA
* *
164754 TTTTGAGAAATAAACATGTTTTACACAGGGGGAGATTATTTTTGAAGATTA
1 TTTTGAGAAATAAACATGTTTTACACAAGAGGAGATTATTTTTGAAGATTA
*
164805 TTTT-TGAAATAAA
1 TTTTGAGAAATAAA
164818 AAGGGGGAGA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 31 0.53
51 27 0.47
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (51 bp):
TTTTGAGAAATAAACATGTTTTACACAAGAGGAGATTATTTTTGAAGATTA
Found at i:164804 original size:13 final size:13
Alignment explanation
Indices: 164786--164812 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
164776 ACACAGGGGG
164786 AGATTATTTTTGA
1 AGATTATTTTTGA
164799 AGATTATTTTTGA
1 AGATTATTTTTGA
164812 A
1 A
164813 ATAAAAAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGATTATTTTTGA
Found at i:165778 original size:10 final size:10
Alignment explanation
Indices: 165759--165814 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 10
165749 GTATCGATAC
*
165759 ATGAACAGTG
1 ATGAATAGTG
165769 ATGAATAGTG
1 ATGAATAGTG
165779 AT--ATAG-G
1 ATGAATAGTG
165786 --G-ATAGTG
1 ATGAATAGTG
*
165793 ATAAATAGTG
1 ATGAATAGTG
165803 ATGAATAGTG
1 ATGAATAGTG
165813 AT
1 AT
165815 ACATGTACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
6 4 0.11
7 2 0.05
8 4 0.11
10 28 0.74
ACGTcount: A:0.41, C:0.02, G:0.29, T:0.29
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:169335 original size:21 final size:21
Alignment explanation
Indices: 169297--169340 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
169287 TCTTTTCTCC
** *
169297 TCTAATTCTTTTATTTTCTTT
1 TCTAATTCACTTAATTTCTTT
169318 TCTAATTCACTTAATTTCTTT
1 TCTAATTCACTTAATTTCTTT
169339 TC
1 TC
169341 AAGAATATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (21 bp):
TCTAATTCACTTAATTTCTTT
Found at i:170931 original size:35 final size:36
Alignment explanation
Indices: 170886--170954 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
170876 AGACAGAAAC
*
170886 CTCCCTATC-TTTTC-ATGAGCTAAGATAGAACCTCT
1 CTCCCTATCTTTTTCAAAG-GCTAAGATAGAACCTCT
170921 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCT
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCT
170955 TTCAATCACT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 9 0.29
36 20 0.65
37 2 0.06
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (36 bp):
CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCTCT
Found at i:171453 original size:24 final size:24
Alignment explanation
Indices: 171421--171469 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
171411 TATAATGTAT
171421 TGATACATGAACAA-TGATAAACAG
1 TGATACATGAA-AAGTGATAAACAG
*
171445 TGATACATGAAAAGTGATGAACAG
1 TGATACATGAAAAGTGATAAACAG
171469 T
1 T
171470 AATGTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.22
Consensus pattern (24 bp):
TGATACATGAAAAGTGATAAACAG
Found at i:172317 original size:6 final size:6
Alignment explanation
Indices: 172306--172347 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
172296 AATTTATTAA
*
172306 AAAAAT AAAAAT AAATAT AAAAAAT AAAATAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAA-AT AAAAAT AAAA
172348 TTTAGTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 21 0.66
7 11 0.34
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:172328 original size:20 final size:21
Alignment explanation
Indices: 172303--172347 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
172293 GTCAATTTAT
*
172303 TAAAAAAATAAAA-ATAAATA
1 TAAAAAAATAAAATATAAAAA
172323 T-AAAAAATAAAATATAAAAA
1 TAAAAAAATAAAATATAAAAA
172343 TAAAA
1 TAAAA
172348 TTTAGTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 11 0.50
20 8 0.36
21 3 0.14
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAAAAATAAAATATAAAAA
Found at i:172330 original size:13 final size:13
Alignment explanation
Indices: 172305--172348 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
172295 CAATTTATTA
*
172305 AAAAAATAAAAAT
1 AAAATATAAAAAT
172318 -AAATATAAAAAAT
1 AAAATAT-AAAAAT
172331 AAAATATAAAAAT
1 AAAATATAAAAAT
172344 AAAAT
1 AAAAT
172349 TTAGTTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 5 0.18
13 17 0.61
14 6 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATATAAAAAT
Found at i:172883 original size:24 final size:24
Alignment explanation
Indices: 172842--172888 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
172832 AACAAATGAA
*
172842 GAAAAAGTAATAGCTGCAACAAAT
1 GAAAAAGTAACAGCTGCAACAAAT
* *
172866 GAAAAAGTAACAGTTGCAGCAAA
1 GAAAAAGTAACAGCTGCAACAAA
172889 AGAGTAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.53, C:0.13, G:0.19, T:0.15
Consensus pattern (24 bp):
GAAAAAGTAACAGCTGCAACAAAT
Found at i:174450 original size:23 final size:23
Alignment explanation
Indices: 174422--174468 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
174412 AAAATGGTCA
174422 TTTTATTCACTCGAGTCATATTT
1 TTTTATTCACTCGAGTCATATTT
* *
174445 TTTTATTTACTTGAGTCATATTT
1 TTTTATTCACTCGAGTCATATTT
174468 T
1 T
174469 CATATTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTTATTCACTCGAGTCATATTT
Found at i:174474 original size:23 final size:23
Alignment explanation
Indices: 174425--174475 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
174415 ATGGTCATTT
**
174425 TATTCACTCGAGTCATATTTTTT
1 TATTCACTCGAGTCATATTTTCA
* *
174448 TATTTACTTGAGTCATATTTTCA
1 TATTCACTCGAGTCATATTTTCA
174471 TATTC
1 TATTC
174476 TTATGGTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.53
Consensus pattern (23 bp):
TATTCACTCGAGTCATATTTTCA
Found at i:175869 original size:34 final size:34
Alignment explanation
Indices: 175831--175898 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
175821 GAAAATATAA
*
175831 AATATCATCATTAATATGGCCCATAGAATAGGAG
1 AATATCATCATTAATATGCCCCATAGAATAGGAG
175865 AATATCATCATTAATATGCCCCATAGAATAGGAG
1 AATATCATCATTAATATGCCCCATAGAATAGGAG
175899 TCATCAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (34 bp):
AATATCATCATTAATATGCCCCATAGAATAGGAG
Found at i:182799 original size:20 final size:20
Alignment explanation
Indices: 182774--182848 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
182764 TTTTACCGAG
*
182774 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
182794 ATGTATCGATACATGTATAA
1 ATGTATCGATACATTTTTCA
* *
182814 ATGTAACGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
182834 ATGTATTGATACATT
1 ATGTATCGATACATT
182849 CTGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:182929 original size:71 final size:71
Alignment explanation
Indices: 182833--182969 Score: 195
Period size: 71 Copynumber: 1.9 Consensus size: 71
182823 TACATTCTTC
* * * * *
182833 AATGTATTGATACATTCTGTCTTTTTACCTAGAGGTAACGATGCTTTTTTCAATGTATCGATACA
1 AATGTATTGATACATTCTGTCTTTTTACCCAGAGGTAACAATACATTATTCAATGTATCGATACA
182898 TGTATG
66 TGTATG
* *
182904 AATGT-TTCGATACATTCTGTCTTTTTACCCAGATGTATCAATACATTATTCAATGTATCGATAC
1 AATGTATT-GATACATTCTGTCTTTTTACCCAGAGGTAACAATACATTATTCAATGTATCGATAC
182968 AT
65 AT
182970 TATTCTAGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 2 0.03
71 56 0.97
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (71 bp):
AATGTATTGATACATTCTGTCTTTTTACCCAGAGGTAACAATACATTATTCAATGTATCGATACA
TGTATG
Found at i:182961 original size:20 final size:20
Alignment explanation
Indices: 182936--182974 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
182926 TTTTACCCAG
182936 ATGTATCAATACATTATTCA
1 ATGTATCAATACATTATTCA
*
182956 ATGTATCGATACATTATTC
1 ATGTATCAATACATTATTC
182975 TAGTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (20 bp):
ATGTATCAATACATTATTCA
Found at i:186913 original size:13 final size:13
Alignment explanation
Indices: 186895--186921 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
186885 TACAAAGATT
186895 AATGTATCGATAC
1 AATGTATCGATAC
186908 AATGTATCGATAC
1 AATGTATCGATAC
186921 A
1 A
186922 TTGAGTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:186918 original size:33 final size:33
Alignment explanation
Indices: 186876--186943 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
186866 AAATTCCCAG
*
186876 ATGTATCGATACAAAGATTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
**
186909 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
186942 AT
1 AT
186944 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:187666 original size:49 final size:49
Alignment explanation
Indices: 187594--187964 Score: 388
Period size: 49 Copynumber: 7.5 Consensus size: 49
187584 TGAGAAGAGT
* * * * *
187594 GATGAA-AGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTAAA
1 GATGAAGA-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
*
187643 GATGAAGATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAA
1 GATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * * *
187692 GATGACAG-TGCCAATATGCTGATTCAAGGCCAGCGATATTCGACTTAAA
1 GATGA-AGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * *
187741 AATGAAGATGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAA
1 GATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * * * *
187790 GATGGTTAAGGTGCCAATGTGCTAATTTAAGGCCAACGACATTGATCTTAAA
1 GAT-G--AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * * *
187842 GATGAGGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAA
1 GATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * * * * *
187891 GATGAGGGTGCTAATGTGTTGATTCAAGGCCAACGACATTAGTCTTAAA
1 GATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * * *
187940 GA-CAAGGTGCCAATATGTTGATTCA
1 GATGAAGATGCCAATGTGCTGATTCA
187965 CCATATGTCC
Statistics
Matches: 281, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
48 21 0.07
49 214 0.76
50 4 0.01
51 1 0.00
52 41 0.15
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
GATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
Found at i:187863 original size:150 final size:147
Alignment explanation
Indices: 187602--187941 Score: 412
Period size: 150 Copynumber: 2.3 Consensus size: 147
187592 GTGATGAAAG
* * * * * * *
187602 TGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATT
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTAATT
** * * *
187667 CAAGGCCAGTGACATTGGTCTTAAAGATGACAGTGCCAATATGCTGATTCAAGGCCAGCGATATT
66 CAAGGCCAACGACATTGATCTTAAAGATGACAGTGCCAATATGCTGATTCAAGGCCAACGACA-T
187732 C-GACTTAAAAATGAAGA
130 CGGACTTAAAAATGAAGA
*
187749 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTTAAGGTGCCAATGTGCTA
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGATGCCAATGTGCTA
* ** *
187814 ATTTAAGGCCAACGACATTGATCTTAAAGATGAGGGTGCCAATGTGCTGATTCAAGGCCAACGAC
63 ATTCAAGGCCAACGACATTGATCTTAAAGATGACAGTGCCAATATGCTGATTCAAGGCCAACGAC
* * * *
187879 ATCGGTCTTAAAGATGAGGG
128 ATCGGACTTAAAAATGAAGA
* * * *
187899 TGCTAATGTGTTGATTCAAGGCCAACGACATTAGTCTTAAAGA
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGA
187942 CAAGGTGCCA
Statistics
Matches: 164, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
147 38 0.23
148 1 0.01
149 2 0.01
150 123 0.75
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (147 bp):
TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATGTGCTAATT
CAAGGCCAACGACATTGATCTTAAAGATGACAGTGCCAATATGCTGATTCAAGGCCAACGACATC
GGACTTAAAAATGAAGA
Found at i:190303 original size:13 final size:13
Alignment explanation
Indices: 190285--190310 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
190275 CAATTTTTTA
190285 TGTATCGATACAT
1 TGTATCGATACAT
190298 TGTATCGATACAT
1 TGTATCGATACAT
190311 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:196746 original size:27 final size:27
Alignment explanation
Indices: 196714--197535 Score: 915
Period size: 27 Copynumber: 29.7 Consensus size: 27
196704 TTTCATTTCA
*
196714 AAGTCCACAACTCCGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
196741 AAGTCCACAGCTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
196768 AAGTCCATAACTTCGTGGCACCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
196795 AAGTCCAAAACTCCGTGTCACCCCTTTA
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
*
196823 AAGTCCACAACTAACTCTGTGGCATCCTTTT
1 AAGTCCACAACT--C-C-GTGGCACCCTTTT
* *
196854 AAGTCTACAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
196881 AAGTCCACAATTCGGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
196908 AAAGCCCACAACTCCGTGACACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
196936 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
196963 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
196990 AAAGTCCACAACTCTGTGACACCTTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* *
197018 AAAGTCCACAACTCCATGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* *
197046 AAAGTCCACAACTCCGTGGCATCCTTTA
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* * *
197074 AAGTCCACAACTTCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
197101 AAAGTCCACAACTTCATGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
197129 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
197157 AAAGTCCACAAATCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
* *
197185 AAGTCCACAACTCTGTGGTAGCCCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCC-TTTT
**
197214 AAGTCCACAACTCTATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
197241 AAGTCCACAACTCCGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
197268 AAAGTCCACAACTTCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
197296 AAAGTCCACAACTCCGTGGCACCTTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTT
*
197324 AAATCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
197351 AAGGCCACAACTCCGTGGCAGCCCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCC-TTTT
* *
197380 AAGTCCACAAGTCCATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * * * * *
197407 GAGTCCACAAGTCAGTGGCATCATTTCA
1 AAGTCCACAACTCCGTGGCACCCTTT-T
* * * * *
197435 AAGCCCACAAGTCAGTGGCATCATTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
** * *
197462 AAGTCCACAACTTTGTGGCATCATTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
** *
197489 AAGTCCACAACTTTGTGGCACTCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
197516 AAGTCCACAAGTCAGTGGCA
1 AAGTCCACAACTCCGTGGCA
197536 TCATTTCAAA
Statistics
Matches: 693, Mismatches: 88, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
27 348 0.50
28 278 0.40
29 44 0.06
30 1 0.00
31 17 0.02
32 5 0.01
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:196917 original size:28 final size:28
Alignment explanation
Indices: 196713--198112 Score: 893
Period size: 28 Copynumber: 50.4 Consensus size: 28
196703 ATTTCATTTC
* *
196713 AAAGTCCACAACTCCGTGGCAACCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* *
196741 -AAGTCCACAGCTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
*
196768 -AAGTCCATAACTTC-GTGGCA-CCTTTT
1 AAAGTCCACAAC-TCAGTGGCATCCTTTT
* * * * * *
196794 TAAGTCCAAAACTCCGTGTCACCCCTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
*
196822 AAAGTCCACAACTAACTCTGTGGCATCCTTTT
1 AAAGT-C-C-AC-AACTCAGTGGCATCCTTTT
* * *
196854 -AAGTCTACAACTCCGTGGCA-CCCTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* *
196880 AAAGTCCACAATTCGGTGGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * * *
196908 AAAGCCCACAACTCCGTGACACCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
*
196936 -AAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* *
196963 -AAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* *
196990 AAAGTCCACAACTCTGTGACA-CCTTTTT
1 AAAGTCCACAACTCAGTGGCATCC-TTTT
197018 AAAGTCCACAACTCCA-TGGCATCCTTTT
1 AAAGTCCACAACT-CAGTGGCATCCTTTT
*
197046 AAAGTCCACAACTCCGTGGCATCC-TTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
197073 AAAGTCCACAACTTCA-TGGCATCCTTTT
1 AAAGTCCACAAC-TCAGTGGCATCCTTTT
*
197101 AAAGTCCACAACTTCA-TGGCACCCTTTT
1 AAAGTCCACAAC-TCAGTGGCATCCTTTT
* *
197129 AAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * *
197157 AAAGTCCACAAATCCGTGGCACCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * *
197185 -AAGTCCACAACTCTGTGGTAGCCCTTTT
1 AAAGTCCACAACTCAGTGGCA-TCCTTTT
* *
197213 TAAGTCCACAACTCTA-TGGCACCCTTTT
1 AAAGTCCACAACTC-AGTGGCATCCTTTT
* *
197241 -AAGTCCACAACTCCGTGGCAACCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
*
197268 AAAGTCCACAACTTC-GTGGCACCCTTTT
1 AAAGTCCACAAC-TCAGTGGCATCCTTTT
*
197296 AAAGTCCACAACTCCGTGGCA-CCTTTTT
1 AAAGTCCACAACTCAGTGGCATCC-TTTT
* *
197324 AAA-TCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * *
197351 -AAGGCCACAACTCCGTGGCAGCCCTTTT
1 AAAGTCCACAACTCAGTGGCA-TCCTTTT
* * *
197379 TAAGTCCACAAGTCCA-TGGCACCCTTTT
1 AAAGTCCACAACT-CAGTGGCATCCTTTT
* * * *
197407 -GAGTCCACAAGTCAGTGGCATCATTTC
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * *
197434 AAAGCCCACAAGTCAGTGGCATCATTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
** *
197462 -AAGTCCACAACTTTGTGGCATCATTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
**
197489 -AAGTCCACAACTTTGTGGCA-CTCTTTT
1 AAAGTCCACAACTCAGTGGCATC-CTTTT
* * *
197516 -AAGTCCACAAGTCAGTGGCATCATTTC
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* *
197543 AAAGCCCACAAGTCAGTGGCAT-CTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
** * *
197570 CAAAACCCACAAGTTAGTGGCAT-CTTTT
1 -AAAGTCCACAACTCAGTGGCATCCTTTT
* * ** *
197598 CCAA-TCCCACAAGTCAACGGCAT-ATTTT
1 -AAAGT-CCACAACTCAGTGGCATCCTTTT
* * * ** *
197626 CCAAGCCCACAAGTCAACGGCAT-ATTTT
1 -AAAGTCCACAACTCAGTGGCATCCTTTT
* * * ** *
197654 CATAGCCCACAAGTCAGTGGCATTATTTC
1 -AAAGTCCACAACTCAGTGGCATCCTTTT
* * *
197683 AAAGCCCACAAGTCAGTGGCAT-CTCTTC
1 AAAGTCCACAACTCAGTGGCATCCT-TTT
* * * *
197711 AAAGCCCACAAGTCAGTGGTATCCTTTC
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * * *
197739 AAAG-CCTACAAGTCAATGGCATCATTTC
1 AAAGTCC-ACAACTCAGTGGCATCCTTTT
* * * *
197767 AAAGCCCACAAGTCAGTGGCATCATTTC
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * * *
197795 AGAGCCCACAAGTCAGTGGCATCCTCTTC
1 AAAGTCCACAACTCAGTGGCATCCT-TTT
* * * *
197824 AAAGCCCACGAATTCA-TGGCACCCTTTC
1 AAAGTCCAC-AACTCAGTGGCATCCTTTT
** * * *
197852 ATCGCCCACAAGTTAGTGGCA-CCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* *
197879 CAAAG-CCACGAGTCAGTGGCAT-CTTTT
1 -AAAGTCCACAACTCAGTGGCATCCTTTT
* * * * *
197906 CAGAGCCCACAAGTTAGTGGCATCCTCTTC
1 -AAAGTCCACAACTCAGTGGCATCCT-TTT
* * * *
197936 AAAGCCCACGAATTCA-TGGCACCCTTTC
1 AAAGTCCAC-AACTCAGTGGCATCCTTTT
** * * *
197964 ATCGCCCACAAGTTAGTGGCA-CCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * * *
197991 CAAAG-CCGCGAGTCAGTGGCATCCTTTC
1 -AAAGTCCACAACTCAGTGGCATCCTTTT
* * * *
198019 AAAGCCCACAAGTTAGTGGCAT-CTCTTC
1 AAAGTCCACAACTCAGTGGCATCCT-TTT
* * **
198047 AAAGTCCACGAGTCAGTGGCATCCTTCC
1 AAAGTCCACAACTCAGTGGCATCCTTTT
* * * *
198075 AAAGCCCACAAGTTAGTTGCATCCTTTT
1 AAAGTCCACAACTCAGTGGCATCCTTTT
*
198103 AAAGCCCACA
1 AAAGTCCACA
198113 CAAGTTTGTG
Statistics
Matches: 1176, Mismatches: 137, Indels: 118
0.82 0.10 0.08
Matches are distributed among these distances:
26 18 0.02
27 396 0.34
28 643 0.55
29 85 0.07
30 14 0.01
31 5 0.00
32 15 0.01
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
AAAGTCCACAACTCAGTGGCATCCTTTT
Found at i:196932 original size:55 final size:54
Alignment explanation
Indices: 196713--197563 Score: 894
Period size: 55 Copynumber: 15.4 Consensus size: 54
196703 ATTTCATTTC
* * *
196713 AAAGTCCACAACTCCGTGGCAACCTTTTAAGTCCACAGCTCCGTGGCATCCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* * * * * *
196767 TAAGTCCATAACTTCGTGGCACCTTTTTAAGTCCAAAACTCCGTGTCACCCCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTT
* *
196822 AAAGTCCACAACTAACTCTGTGGCATCCTTTTAAGTCTACAACTCCGTGGCACCCTTT
1 AAAGTCCACAACT--C-C-GTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* * * * *
196880 AAAGTCCACAATTCGGTGGCATCCTTTTAAAGCCCACAACTCCGTGACACCCTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTT
* *
196935 TAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC-TTT
* * * * *
196990 AAAGTCCACAACTCTGTGACACCTTTTTAAAGTCCACAACTCCATGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCA-CCCTTT
* * * * *
197046 AAAGTCCACAACTCCGTGGCATCCTTTAAAGTCCACAACTTCATGGCATCCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTT
* *
197101 AAAGTCCACAACTTCATGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCC-TTT
* * *
197157 AAAGTCCACAAATCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGTAGCCCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCC-TTT
* ** *
197213 TAAGTCCACAACTCTATGGCACCCTTTTAAGTCCACAACTCCGTGGCAACCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGC-ACCCTTT
* *
197268 AAAGTCCACAACTTCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC-CTTT
*
197324 AAA-TCCACAACTCCGTGGCACCCTTTTAAGGCCACAACTCCGTGGCAGCCCTTTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCC-TTT
* * * * * * * *
197379 TAAGTCCACAAGTCCATGGCACCCTTTTGAGTCCACAAGTCAGTGGCATCATTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* * * * * ** * *
197433 CAAAGCCCACAAGTCAGTGGCATCATTTTAAGTCCACAACTTTGTGGCATCATTT
1 -AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* ** * * * * *
197488 TAAGTCCACAACTTTGTGGCACTCTTTTAAGTCCACAAGTCAGTGGCATCATTT
1 AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
* * *
197542 CAAAGCCCACAAGTCAGTGGCA
1 -AAAGTCCACAACTCCGTGGCA
197564 TCTTTTCAAA
Statistics
Matches: 676, Mismatches: 101, Indels: 39
0.83 0.12 0.05
Matches are distributed among these distances:
54 139 0.21
55 281 0.42
56 206 0.30
57 3 0.00
58 19 0.03
59 28 0.04
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (54 bp):
AAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
Found at i:198913 original size:20 final size:20
Alignment explanation
Indices: 198888--198998 Score: 127
Period size: 20 Copynumber: 5.5 Consensus size: 20
198878 TTTTACCTAG
*
198888 ATGTATCGACACATTCGTCA
1 ATGTATCGATACATTCGTCA
* *
198908 ATGTATCGATACATGTAG-GA
1 ATGTATCGATACAT-TCGTCA
*
198928 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCGTCA
* *
198948 ATGTATCGATACATGTAG-GA
1 ATGTATCGATACAT-TCGTCA
*
198968 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCGTCA
198988 ATGTATCGATA
1 ATGTATCGATA
198999 TATTTTGTCT
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.03
20 70 0.93
21 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTCGTCA
Found at i:198943 original size:40 final size:40
Alignment explanation
Indices: 198888--199092 Score: 221
Period size: 40 Copynumber: 4.8 Consensus size: 40
198878 TTTTACCTAG
* *
198888 ATGTATCGACACATTCGTCAATGTATCGATACATGTAGGA
1 ATGTATCGATACATTCTTCAATGTATCGATACATGTAGGA
198928 ATGTATCGATACATTCTTCAATGTATCGATACATGTAGGA
1 ATGTATCGATACATTCTTCAATGTATCGATACATGTAGGA
* **
198968 ATGTATCGATACATTCTTCAATGTATCGATATATTTTGTCTTTTTACCCA
1 ATGTATCGATACATTCTTCAATGTATCGATACA---TG------TA-GGA
* * * *
199018 GATGTATCGATACATTTTTCAATCTATCAATACATGTATGA
1 -ATGTATCGATACATTCTTCAATGTATCGATACATGTAGGA
*
199059 ATGTATCGATACATTCTTCAATGTATCGACACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACAT
199093 TCTATCTTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
40 100 0.72
41 1 0.01
42 2 0.01
43 2 0.01
48 2 0.01
49 2 0.01
50 1 0.01
51 29 0.21
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (40 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATGTAGGA
Found at i:199050 original size:20 final size:20
Alignment explanation
Indices: 199019--199093 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
199009 TTTTACCCAG
199019 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
199039 ATCTATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
199059 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
199079 ATGTATCGACACATT
1 ATGTATCGATACATT
199094 CTATCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:199083 original size:91 final size:91
Alignment explanation
Indices: 198928--199123 Score: 302
Period size: 91 Copynumber: 2.2 Consensus size: 91
198918 ACATGTAGGA
* *
198928 ATGTATCGATACATTCTTCAATGTATCGATACATGTAGGAATGTATCGATACATTCTTCAATGTA
1 ATGTATCGATACATTCTTCAATCTATCAATACATGTAGGAATGTATCGATACATTCTTCAATGTA
* * * *
198993 TCGATATATTTTGTCTTTTTACCCAG
66 TCGACACATTCTATCTTTTTACCCAG
* *
199019 ATGTATCGATACATTTTTCAATCTATCAATACATGTATGAATGTATCGATACATTCTTCAATGTA
1 ATGTATCGATACATTCTTCAATCTATCAATACATGTAGGAATGTATCGATACATTCTTCAATGTA
*
199084 TCGACACATTCTATCTTTTTACCCAT
66 TCGACACATTCTATCTTTTTACCCAG
*
199110 ATGTATCCATACAT
1 ATGTATCGATACAT
199124 CAAGTTAAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 95 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.40
Consensus pattern (91 bp):
ATGTATCGATACATTCTTCAATCTATCAATACATGTAGGAATGTATCGATACATTCTTCAATGTA
TCGACACATTCTATCTTTTTACCCAG
Found at i:200021 original size:19 final size:21
Alignment explanation
Indices: 199983--200021 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
199973 TAGCCTTTAA
*
199983 CCATGCATTTTTTACTATGTT
1 CCATGCATTTTTAACTATGTT
200004 CCATGCA-TTTTAAC-ATGT
1 CCATGCATTTTTAACTATGT
200022 CCAACATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.46
Consensus pattern (21 bp):
CCATGCATTTTTAACTATGTT
Found at i:204703 original size:44 final size:43
Alignment explanation
Indices: 204646--205701 Score: 364
Period size: 44 Copynumber: 24.6 Consensus size: 43
204636 CATTTCAGTC
* * *
204646 TGACATATAGTTACCACCCTAGTCAGATTCTTGCTATTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAAATTCTT-CTATTCTGATT
* * **
204690 TGACGTATGGTTACCACCCTGGTCAAATCCCCCCCT-TTCT-ATT
1 TGACGTATGGTTACCACCCTAGTCAAAT--TCTTCTATTCTGATT
* * * * *
204733 TGACGTATGGCTGCCACCCTGGTTAAACTT-TTCTCATT-TTAGTT
1 TGACGTATGGTTACCACCCTAGTCAAA-TTCTTCT-ATTCTGA-TT
* * * * *
204777 TGATGTATAGTTACCACCCTGGTCAGATTCTTTTTATTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAAATTC-TTCTATTCTGATT
* ** * *
204821 TGACGTATGGTTACTACTATGGTCAAATCCCTTTCCT-TTCTG-TT
1 TGACGTATGGTTACCACCCTAGTCAAAT-TC-TT-CTATTCTGATT
* * * * *
204865 TGACGTATAGTTACCACCTTGGTCAAACTT-TTCTCATT-TCAGTC
1 TGACGTATGGTTACCACCCTAGTCAAA-TTCTTCT-ATTCTGA-TT
* *
204909 TGACGTATGGTTACCACCCTAGTCAAATTCTTTTTATTCTAATT
1 TGACGTATGGTTACCACCCTAGTCAAATTC-TTCTATTCTGATT
* * * * *
204953 TGATGTATCGTTATCACCCTGGTCAAATCTCTTTCCT-TTTTG-TT
1 TGACGTATGGTTACCACCCTAGTCAAAT-TC-TT-CTATTCTGATT
* * * * *
204997 TGAAGTATGGTTACCACTCTGGTCAAACTT-TTCTAATT-TCAATC
1 TGACGTATGGTTACCACCCTAGTCAAA-TTCTTCT-ATTCT-GATT
* * *
205041 TGACGTATGGTTACCA-CCTTGCTCAGATTCTTCTTGTTCTGATT
1 TGACGTATGGTTACCACCCTAG-TCAAATTCTTC-TATTCTGATT
* ** * * *
205085 TGACTTATGGTTACCATTCTAGTCAAA-TC-CCT-TTATGGTT
1 TGACGTATGGTTACCACCCTAGTCAAATTCTTCTATTCTGATT
** ** * * *
205125 ACCAC-CCTGGTTA--A-ACT--T----TTC-TC-ATT-TCAGTC
1 -TGACGTATGGTTACCACCCTAGTCAAATTCTTCTATTCTGA-TT
* * * *
205157 TGACGTATGGTTACCACACTAGTTAGATTC-T-TATTTTGATT
1 TGACGTATGGTTACCACCCTAGTCAAATTCTTCTATTCTGATT
* *
205198 TGATGTATGGTTACCACCCTAGTTAAATCCTCTTTCT-TTCTG-TT
1 TGACGTATGGTTACCACCCTAGTCAAAT--TC-TTCTATTCTGATT
* * * *
205242 TAACGTATGGTTACCATCCTGGTCAAACTT-TTCTCATT-TTAGTT
1 TGACGTATGGTTACCACCCTAGTCAAA-TTCTTCT-ATTCTGA-TT
*
205286 TGACGTATGGTTACCACCCTTA-TCAGATTCTTCTTATTCTGATT
1 TGACGTATGGTTACCACCC-TAGTCAAATTCTTC-TATTCTGATT
* * * * *
205330 TGATGTCTGGTTACCACCATGGTCAAATCCCTTTCCT-TTCT-ATT
1 TGACGTATGGTTACCACCCTAGTCAAAT-TC-TT-CTATTCTGATT
** *
205374 TGACGTATACTTACTACCCTAGTCAAACTT-TTCTCATTTCT-ATCT
1 TGACGTATGGTTACCACCCTAGTCAAA-TTCTTCT-A-TTCTGAT-T
* * *
205419 T-ACGTATGGTTACCACCCTGGTCAAATCTCTTTCTTTTTTG-TT
1 TGACGTATGGTTACCACCCTAGTCAAAT-TC-TTCTATTCTGATT
* * * * *
205462 TGATGTATGGTTACTACCCTAGTCAGATTTTTCTTATTCTAATT
1 TGACGTATGGTTACCACCCTAGTCAAATTCTTC-TATTCTGATT
* * * * *
205506 TGACATATGGTTACCGCCCTAATTAAACCTCTTTCCT-TTCTG-TT
1 TGACGTATGGTTACCACCCTAGTCAAA-TTC-TT-CTATTCTGATT
* * * * * *
205550 TAACGTATGGTTACTATCCTGGTTAAACTT-TGCTTATTTCTG-TT
1 TGACGTATGGTTACCACCCTAGTCAAA-TTCTTC-TA-TTCTGATT
* ** * *
205594 TGACATATGGTTACCACTTTAGTTAGATTC-TCTTCATTCTGATT
1 TGACGTATGGTTACCACCCTAGTCAAATTCTTC-T-ATTCTGATT
* * *
205638 TGACATGTGGTTACCACCCTAGTCAAA----TCTA-CCT-ATT
1 TGACGTATGGTTACCACCCTAGTCAAATTCTTCTATTCTGATT
* *
205675 TAACGTATGGTTACCACCCTGGTCAAA
1 TGACGTATGGTTACCACCCTAGTCAAA
205702 CCTTTATACT
Statistics
Matches: 760, Mismatches: 165, Indels: 181
0.69 0.15 0.16
Matches are distributed among these distances:
31 3 0.00
32 12 0.02
34 1 0.00
35 4 0.01
37 29 0.04
38 3 0.00
39 1 0.00
40 13 0.02
41 51 0.07
42 18 0.02
43 71 0.09
44 479 0.63
45 59 0.08
46 14 0.02
47 2 0.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (43 bp):
TGACGTATGGTTACCACCCTAGTCAAATTCTTCTATTCTGATT
Found at i:204927 original size:132 final size:132
Alignment explanation
Indices: 204618--205486 Score: 919
Period size: 132 Copynumber: 6.7 Consensus size: 132
204608 TCGGATTAGT
* * * **
204618 CCCTAGTCAAACTTTTCTCATTTCAGTCTGACATATAGTTACCACCCTAGTCAGATTCTTGCTAT
1 CCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTTAT
* ** * * *
204683 TCTGATTTGACGTATGGTTACCACCCTGGTCAAATCCC-CCCCTTTCTATTTGACGTATGGCTGC
66 TCTGATTTGATGTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTTAC
204747 CA
131 CA
* * * * * *
204749 CCCTGGTTAAACTTTTCTCATTTTAGTTTGATGTATAGTTACCACCCTGGTCAGATTCTTTTTAT
1 CCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTTAT
* * ** *
204814 TCTGATTTGACGTATGGTTACTACTATGGTCAAATCCCTTTCCTTTCTGTTTGACGTATAGTTAC
66 TCTGATTTGATGTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTTAC
204879 CA
131 CA
* *
204881 CCTTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACCCTAGTCAAATTCTTTTTAT
1 CCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTTAT
* * * * * *
204946 TCTAATTTGATGTATCGTTATCACCCTGGTCAAATCTCTTTCCTTTTTGTTTGAAGTATGGTTAC
66 TCTGATTTGATGTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTTAC
205011 CA
131 CA
* * * * * *
205013 CTCTGGTCAAACTTTTCTAATTTCAATCTGACGTATGGTTACCA-CCTTGCTCAGATTCTTCTTG
1 CCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACCCTAG-TCAGATTCTTTTTA
** *
205077 TTCTGATTTGACT-TATGGTTACCATTCTAGTCAAA------TCC---C---TT----TATGGTT
65 TTCTGATTTGA-TGTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTT
205125 ACCA
129 ACCA
* * *
205129 CCCTGGTTAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACACTAGTTAGATTC---TTAT
1 CCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTTAT
* * * *
205191 TTTGATTTGATGTATGGTTACCACCCTAGTTAAATCCTCTTT-CTTTCTGTTTAACGTATGGTTA
66 TCTGATTTGATGTATGGTTACCACCCTGGTCAAATCC-CTTTCCTTTCTGTTTGACGTATGGTTA
205255 CCA
130 CCA
* * * *
205258 TCCTGGTCAAACTTTTCTCATTTTAGTTTGACGTATGGTTACCACCCTTA-TCAGATTCTTCTTA
1 CCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACCC-TAGTCAGATTCTTTTTA
* * * **
205322 TTCTGATTTGATGTCTGGTTACCACCATGGTCAAATCCCTTTCCTTTCTATTTGACGTATACTTA
65 TTCTGATTTGATGTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTTA
*
205387 CTA
130 CCA
* * * *
205390 CCCTAGTCAAACTTTTCTCATTTCTA-TCTTACGTATGGTTACCACCCTGGTCAAATCTCTTTCT
1 CCCTGGTCAAACTTTTCTCATTTC-AGTCTGACGTATGGTTACCACCCTAGTCAGAT-TCTTT-T
* * *
205454 T-TTTTG-TTTGATGTATGGTTACTACCCTAGTCA
63 TATTCTGATTTGATGTATGGTTACCACCCTGGTCA
205487 GATTTTTCTT
Statistics
Matches: 614, Mismatches: 93, Indels: 61
0.80 0.12 0.08
Matches are distributed among these distances:
112 1 0.00
113 31 0.05
116 58 0.09
117 3 0.00
119 1 0.00
120 3 0.00
122 1 0.00
125 2 0.00
126 3 0.00
129 60 0.10
130 2 0.00
131 100 0.16
132 337 0.55
133 10 0.02
134 2 0.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (132 bp):
CCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTTAT
TCTGATTTGATGTATGGTTACCACCCTGGTCAAATCCCTTTCCTTTCTGTTTGACGTATGGTTAC
CA
Found at i:205314 original size:245 final size:246
Alignment explanation
Indices: 204874--205363 Score: 670
Period size: 245 Copynumber: 2.0 Consensus size: 246
204864 TTGACGTATA
* *
204874 GTTACCACCTTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACCCTAGTCAAATTC
1 GTTACCACCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACACTAGTCAAATTC
* * *
204939 TTTTTATTCTAATTTGATGTATCGTTATCACCCTGGTCAAATCTCTTTCCTTTTTGTTTGAAGTA
66 --TTTATTCTAATTTGATGTATCGTTACCACCCTAGTCAAATCTCTTTCCTTTCTGTTTGAAGTA
*
205004 TGGTTACCACTCTGGTCAAACTTTTCTAATTTCAATCTGACGTATGGTTACCACCTTGCTCAGAT
129 TGGTTACCACTCTGGTCAAACTTTTCTAATTTCAATCTGACGTATGGTTACCACCTTGATCAGAT
* *
205069 TCTTCTTGTTCTGATTTGACT-TATGGTTACCATTC-TAGTCAAATCCCTTTATG
194 TCTTCTTATTCTGATTTGA-TGTATGGTTACCA-CCATAGTCAAATCCCTTTATG
* * *
205122 GTTACCACCCTGGTTAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACACTAGTTAGATTC
1 GTTACCACCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACACTAGTCAAATTC
* * * *
205187 -TTATTTTGATTTGATGTATGGTTACCACCCTAGTTAAATCCTCTTT-CTTTCTGTTT-AACGTA
66 TTTATTCTAATTTGATGTATCGTTACCACCCTAGTCAAAT-CTCTTTCCTTTCTGTTTGAA-GTA
* * * *
205249 TGGTTACCA-TCCTGGTCAAACTTTTCTCATTTTAGTTTGACGTATGGTTACCACCCTT-ATCAG
129 TGGTTACCACT-CTGGTCAAACTTTTCTAATTTCAATCTGACGTATGGTTACCA-CCTTGATCAG
* *
205312 ATTCTTCTTATTCTGATTTGATGTCTGGTTACCACCATGGTCAAATCCCTTT
192 ATTCTTCTTATTCTGATTTGATGTATGGTTACCACCATAGTCAAATCCCTTT
205364 CCTTTCTATT
Statistics
Matches: 215, Mismatches: 21, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
244 5 0.02
245 140 0.65
246 10 0.05
248 60 0.28
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.42
Consensus pattern (246 bp):
GTTACCACCCTGGTCAAACTTTTCTCATTTCAGTCTGACGTATGGTTACCACACTAGTCAAATTC
TTTATTCTAATTTGATGTATCGTTACCACCCTAGTCAAATCTCTTTCCTTTCTGTTTGAAGTATG
GTTACCACTCTGGTCAAACTTTTCTAATTTCAATCTGACGTATGGTTACCACCTTGATCAGATTC
TTCTTATTCTGATTTGATGTATGGTTACCACCATAGTCAAATCCCTTTATG
Found at i:205441 original size:176 final size:176
Alignment explanation
Indices: 205234--205610 Score: 431
Period size: 176 Copynumber: 2.1 Consensus size: 176
205224 ATCCTCTTTC
* * *
205234 TTTCTGTTTAACGTATGGTTACCATCCTGGTCAAA-CT-TTTCTCATTTTAGTTTGACGTATGGT
1 TTTCTATTTGACGTATGGTTACCACCCTGGTCAAATCTCTTTCT--TTTTAGTTTGACGTATGGT
* ** * **
205297 TACCACCCTTA-TCAGATTCTTCTTATTCTGATTTGATGTCTGGTTACCACCATGGTCAAATCC-
64 TACCACCC-TAGTCAGATTCTTCTTATTCTAATTTGACATATGGTTACCACCATAATCAAA-CCT
* *
205360 CTTTCCTTTCTATTTGACGTATACTTACTACCCTAGTCAAACTTTTCTCA
127 CTTTCCTTTCTATTTAACGTATACTTACTACCCTAGTCAAACTTTGCTCA
* *
205410 TTTCTATCTT-ACGTATGGTTACCACCCTGGTCAAATCTCTTTCTTTTTTGTTTGATGTATGGTT
1 TTTCTAT-TTGACGTATGGTTACCACCCTGGTCAAATCTCTTTCTTTTTAGTTTGACGTATGGTT
* * * * *
205474 ACTACCCTAGTCAGATTTTTCTTATTCTAATTTGACATATGGTTACCGCCCTAATTAAACCTCTT
65 ACCACCCTAGTCAGATTCTTCTTATTCTAATTTGACATATGGTTACCACCATAATCAAACCTCTT
* ** * * * *
205539 TCCTTTCTGTTTAACGTATGGTTACTATCCTGGTTAAACTTTGCTTA
130 TCCTTTCTATTTAACGTATACTTACTACCCTAGTCAAACTTTGCTCA
* *
205586 TTTCTGTTTGACATATGGTTACCAC
1 TTTCTATTTGACGTATGGTTACCAC
205611 TTTAGTTAGA
Statistics
Matches: 169, Mismatches: 26, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
175 6 0.04
176 154 0.91
177 4 0.02
178 5 0.03
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (176 bp):
TTTCTATTTGACGTATGGTTACCACCCTGGTCAAATCTCTTTCTTTTTAGTTTGACGTATGGTTA
CCACCCTAGTCAGATTCTTCTTATTCTAATTTGACATATGGTTACCACCATAATCAAACCTCTTT
CCTTTCTATTTAACGTATACTTACTACCCTAGTCAAACTTTGCTCA
Found at i:205526 original size:132 final size:131
Alignment explanation
Indices: 205118--205701 Score: 438
Period size: 132 Copynumber: 4.5 Consensus size: 131
205108 CAAATCCCTT
* * * * * * *
205118 TATGGTTACCACCCTGGTTAAACTTTTCTCATTTC-AGTCTGACGTATGGTTACCACACTAGTTA
1 TATGGTTACCACCCTAGTCAAACTTTTCTCATTTCTA-TTTAACGTATGGTTACCACCCTGGTCA
* * *
205182 GA---TTCTTATTTTGATTTGATGTATGGTTACCACCCTAGTTAAATCCTCTTTC-TTTCTGTTT
65 AATTCTTCTTATTTTGATTTGATGTATGGTTACCACCCTAGTCAAAT-CT-TTTCTTTTCTATTT
* *
205243 AACG
128 GACA
* * * **
205247 TATGGTTACCATCCTGGTCAAACTTTTCTCATTT-TAGTTTGACGTATGGTTACCACCCTTATCA
1 TATGGTTACCACCCTAGTCAAACTTTTCTCATTTCTA-TTTAACGTATGGTTACCACCCTGGTCA
* * * * * * *
205311 GATTCTTCTTATTCTGATTTGATGTCTGGTTACCACCATGGTCAAATCCCTTTCCTTTCTATTTG
65 AATTCTTCTTATTTTGATTTGATGTATGGTTACCACCCTAGTCAAAT-CTTTTCTTTTCTATTTG
*
205376 ACG
129 ACA
** *
205379 TATACTTACTACCCTAGTCAAACTTTTCTCATTTCTATCTT-ACGTATGGTTACCACCCTGGTCA
1 TATGGTTACCACCCTAGTCAAACTTTTCTCATTTCTAT-TTAACGTATGGTTACCACCCTGGTCA
* *
205443 AATCTCTTTCTT-TTTTG-TTTGATGTATGGTTACTACCCTAGTCAGAT-TTTTCTTATTCTAAT
65 AAT-TC-TTCTTATTTTGATTTGATGTATGGTTACCACCCTAGTCAAATCTTTTCTT-TTCT-AT
205505 TTGACA
126 TTGACA
* * * * * * *
205511 TATGGTTACCGCCCTAATTAAACCTCTTTC-C-TTTCTGTTTAACGTATGGTTACTATCCTGGTT
1 TATGGTTACCACCCTAGTCAAA-CT-TTTCTCATTTCTATTTAACGTATGGTTACCACCCTGGTC
* ** ** * * * *
205574 AAACTT-TGCTTATTTCTG-TTTGACATATGGTTACCACTTTAGTTAGATTCTCTTC-ATTCTGA
64 AAA-TTCTTCTTATTT-TGATTTGATGTATGGTTACCACCCTAGTCA-AATCTTTTCTTTTCT-A
205636 TTTGACA
125 TTTGACA
* *
205643 TGTGGTTACCACCCTAGTCAAA----TCT-A--CCTATTTAACGTATGGTTACCACCCTGGTCAA
1 TATGGTTACCACCCTAGTCAAACTTTTCTCATTTCTATTTAACGTATGGTTACCACCCTGGTCAA
205701 A
66 A
205702 CCTTTATACT
Statistics
Matches: 371, Mismatches: 63, Indels: 46
0.77 0.13 0.10
Matches are distributed among these distances:
125 28 0.08
126 2 0.01
129 58 0.16
130 9 0.02
131 13 0.04
132 233 0.63
133 15 0.04
134 13 0.04
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (131 bp):
TATGGTTACCACCCTAGTCAAACTTTTCTCATTTCTATTTAACGTATGGTTACCACCCTGGTCAA
ATTCTTCTTATTTTGATTTGATGTATGGTTACCACCCTAGTCAAATCTTTTCTTTTCTATTTGAC
A
Found at i:205861 original size:42 final size:42
Alignment explanation
Indices: 205808--205913 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
205798 AAACCCTTCT
* * * *
205808 GACTTTTTTACCTTTAGTTTGCTTGTTGGCTTTGACTCTGAA
1 GACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTGAA
*
205850 GACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTGGA
1 GACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTGAA
205892 GAC-TTCTTTACCCTTT-GTCTGC
1 GACTTTC-TTA-CCTTTAGTCTGC
205914 CCGTTAGCTT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 3 0.05
42 49 0.86
43 5 0.09
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (42 bp):
GACTTTCTTACCTTTAGTCTGCTTGTCGGCTTTGACCCTGAA
Found at i:208245 original size:19 final size:21
Alignment explanation
Indices: 208203--208249 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
208193 TAGCCTTTGA
*
208203 CCATGCATTTTTTACTATGTT
1 CCATGCATTTTTAACTATGTT
208224 CCATGCATTTTTAAC-ATG-T
1 CCATGCATTTTTAACTATGTT
208243 CCA-GCAT
1 CCATGCAT
208250 CTCATTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 4 0.16
19 4 0.16
20 3 0.12
21 14 0.56
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (21 bp):
CCATGCATTTTTAACTATGTT
Found at i:228375 original size:10 final size:10
Alignment explanation
Indices: 228360--228385 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
228350 CCTACGTACC
228360 AAAAAAAACA
1 AAAAAAAACA
228370 AAAAAAAACA
1 AAAAAAAACA
228380 AAAAAA
1 AAAAAA
228386 CGAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:229669 original size:26 final size:26
Alignment explanation
Indices: 229597--229669 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
229587 CAAGAAATGG
* * *
229597 TTGTTAAGAAATTATCATCAAGAACT
1 TTGTCAAGAAATTTTCATCAAAAACT
* *
229623 TCTATCAAG-AATGTTT-GTCAAAAACT
1 T-TGTCAAGAAAT-TTTCATCAAAAACT
229649 TTGTCAAGAAATTTTCATCAA
1 TTGTCAAGAAATTTTCATCAA
229670 TACAACCAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
25 9 0.25
26 20 0.56
27 7 0.19
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.36
Consensus pattern (26 bp):
TTGTCAAGAAATTTTCATCAAAAACT
Found at i:229721 original size:28 final size:28
Alignment explanation
Indices: 229677--230335 Score: 680
Period size: 28 Copynumber: 23.3 Consensus size: 28
229667 CAATACAACC
229677 AAGCCCACAAGTCAGTGGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * ** *
229705 AAACCCACAAGTTAGTGGCATTTTTTCG
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
*
229733 AAGCCCACAAGTCAGTGGCATCCTTTCG
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * *
229761 AAGCCTACAAGTTAGTGGCATCATTCTCA
1 AAGCCCACAAGTCAGTGGCATCCTT-TCA
*
229790 AAGCCCACAAGTCAGTGCCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * *
229818 AAGCCCACATGTTAGTGGCATCCTTTTA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* *
229846 AAGCCCCCAAGTCAATGGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* *
229874 AAGTCCCA-AAGTCAGGGGTATCCTTTCA
1 AAG-CCCACAAGTCAGTGGCATCCTTTCA
* *
229902 AAGCCCCCAAGTCAGTAGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* *
229930 AAGCCCATATGTCAGTGGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
**
229958 AAGCCCATGAGTCAGTGGCA-CCTTTTCA
1 AAGCCCACAAGTCAGTGGCATCC-TTTCA
** *
229986 AAGCCCATGAGTCAGTGGCATCCTTCTTA
1 AAGCCCACAAGTCAGTGGCATCCTT-TCA
* * *
230015 AAGCTCACAAGTTAGTGGCACCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
*
230043 AAGCCCACAA-TCAGTGGCACCCCTTT--
1 AAGCCCACAAGTCAGTGGCA-TCCTTTCA
* * *
230069 AAGCCCACACAAGTCGGTGGTAACCTCTCTCA
1 AAG-CC-CACAAGTCAGTGGCATCCT-T-TCA
* *
230101 AAGCCCACAAGTCAGTGGTACCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
*
230129 AAGCCCACAAGTCAGTGGCACCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * * *
230157 AAGCCCACAAGTTAGTGACACCCTTTCG
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * **
230185 AAGCCCACAAGTTAGTGGCACCCTTTTG
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * *
230213 AAGCCCACAAGTTAGTGGCACCCTTTTA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* *
230241 AAGCCCACAAGTTAGTGGCACCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * * *
230269 AAGCCCATAAATTAGTGGCATCCTTTTA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* **
230297 AAGCCCACAAGTTAGTGGCAAACTTCTCTA
1 AAGCCCACAAGTCAGTGGCATCCTT-TC-A
230327 AAGCCCACA
1 AAGCCCACA
230336 CAAATTGGTG
Statistics
Matches: 544, Mismatches: 71, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.01
27 15 0.03
28 433 0.80
29 60 0.11
30 28 0.05
31 2 0.00
32 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCATCCTTTCA
Found at i:231387 original size:51 final size:51
Alignment explanation
Indices: 231252--231397 Score: 204
Period size: 50 Copynumber: 2.9 Consensus size: 51
231242 ATAAGTCACA
* *
231252 TTTTTACCTAGATGTATCCATACATTTTTCAATGTATCGATACATTCTATC
1 TTTTTACCCAGATGTATCAATACATTTTTCAATGTATCGATACATTCTATC
* * * *
231303 TTTTTA-CCAGATATATCAATACATTTTTAAATGTATTGATACATTCTATT
1 TTTTTACCCAGATGTATCAATACATTTTTCAATGTATCGATACATTCTATC
** *
231353 TTTTTACCCAGATGTATTGATACATTTTGCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCAATACATTTTTCAATGTATCGATACAT
231398 CTAGTTAAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 44 0.54
51 38 0.46
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCAATACATTTTTCAATGTATCGATACATTCTATC
Found at i:231874 original size:20 final size:21
Alignment explanation
Indices: 231836--231874 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
231826 AGCCTTTGAC
*
231836 CATGCATTTTTTACTATGTTT
1 CATGCATTTTTAACTATGTTT
231857 CATGCATTTTTAAC-ATGT
1 CATGCATTTTTAACTATGT
231875 CTAGCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.51
Consensus pattern (21 bp):
CATGCATTTTTAACTATGTTT
Found at i:234522 original size:18 final size:17
Alignment explanation
Indices: 234482--234534 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
234472 ATAGCAAAAG
234482 AGAAAA-AAAAAGCAAGA-
1 AGAAAAGAAAAA-CAA-AC
*
234499 AGAAAAGAGAAACGAAAC
1 AGAAAAGAAAAAC-AAAC
234517 AGAAAAGAAAAACAAAC
1 AGAAAAGAAAAACAAAC
234534 A
1 A
234535 ACAACCAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 13 0.42
18 18 0.58
ACGTcount: A:0.74, C:0.09, G:0.17, T:0.00
Consensus pattern (17 bp):
AGAAAAGAAAAACAAAC
Found at i:238141 original size:157 final size:157
Alignment explanation
Indices: 237698--238395 Score: 700
Period size: 157 Copynumber: 4.5 Consensus size: 157
237688 GGCTAAATTT
* * * * * * *
237698 TAAAAAATTACAAAAATGCCCCTAAGGG-ATACCTTCGACGTAAAAGCAT-CTGATACCCCTAAA
1 TAAAAAATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAAA
* * *
237761 GGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAG
66 GGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAA
** * *
237826 ACCTAGTGACAACCTAGGACTTGGTTC
131 ACCCGGTGACAACCTAAGACTCGGTTC
* * * * * * * *
237853 TAAAAAATTACCACACTGTCCC-TAAGGG-ATACCTTCAACATAAAAGTA-ACCGA-TACCCTTA
1 TAAAAAATTACGAAAATG-CCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGACAACCC-TA
* * * * * *
237914 TAGGACTTAAAAA-TATTAAAAATAGGATAAACCTATCCTAAATGCCCACCTTC-GACATAAAAG
64 AAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCAG-CATAAAAG
** *
237977 CAAACCCGGTGACAACCTAAGACTCAATCC
128 CAAACCCGGTGACAACCTAAGACTCGGTTC
* * * *
238007 TAAGAAATTATGAAAATGCCCTTATGGGTATA-TTTACGATGTAAAAGTATCCCGACAACCCTAA
1 TAAAAAATTACGAAAATGCCCTTATGGGTATACCTT-CGACGTAAAAGTATCCCGACAACCCTAA
* * * *
238071 AGGACTTAAAAAGGA-TATAGATAGGAGTGAACCTATCCTAAATACTCATCTTCAGCATGAAACC
65 AGGACTTAAAAAGGATTATAGATAGGA-TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGC
* * *
238135 AGACCCGGTGACAACCTAGGACTTGGTTC
129 AAACCCGGTGACAACCTAAGACTCGGTTC
* * * * ** * *
238164 TAAAAAATTACAAAAATGCCCATGTGGGTATACCTTCGACGAAAAAGTATCTTGGCAACCTTAAA
1 TAAAAAATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAAA
* * * * * *
238229 GGACTTAAAAA-GACTAGAGGTGGGATGAACCTATCCTAAATGCCCACCTTTAGCATAAAAGCAA
66 GGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAA
* * *
238293 ACCTGATGACAACCTAAGACTCTGTTC
131 ACCCGGTGACAACCTAAGACTCGGTTC
* * * *
238320 TAAGAAATTATGAAAATACCCTTATGGGTATACCTTTGACGTAAAAG-ATCCCGACAACCCTAAA
1 TAAAAAATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAAA
238384 GGACTTAAAAAG
66 GGACTTAAAAAG
238396 ACTAGAAATG
Statistics
Matches: 437, Mismatches: 91, Indels: 29
0.78 0.16 0.05
Matches are distributed among these distances:
153 4 0.01
154 87 0.20
155 92 0.21
156 125 0.29
157 126 0.29
158 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (157 bp):
TAAAAAATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCCGACAACCCTAAA
GGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAA
ACCCGGTGACAACCTAAGACTCGGTTC
Found at i:238326 original size:313 final size:309
Alignment explanation
Indices: 237754--238395 Score: 844
Period size: 313 Copynumber: 2.1 Consensus size: 309
237744 CATCTGATAC
* *
237754 CCCTAAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATA
1 CCCTAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCAGCATA
* * * * *
237819 AAAGCAGACCTAGTGACAACCTAGGACTTGGTTCTAAAAAATTACCACACTGTCCCTAAGGGATA
66 AAACCAGACCCAGTGACAACCTAGGACTTGGTTCTAAAAAATTACAAAAATGTCCCTAAGGGATA
* * * * *
237884 CCTTCAACATAAAAGTAACCGATACCCTTATAGGACTTAAAAATATTAAAAATAGGATAAACCTA
131 CCTTCAACATAAAAGTAACCGACAACCTTAAAGGACTTAAAAAGACTAAAAATAGGATAAACCTA
* *
237949 TCCTAAATGCCCACCTTCGACATAAAAGCAAACCCGGTGACAACCTAAGACTCAATCCTAAGAAA
196 TCCTAAATGCCCACCTTAGACATAAAAGCAAACCCGATGACAACCTAAGACTCAATCCTAAGAAA
* *
238014 TTATGAAAATGCCCTTATGGGTATA-TTTACGATGTAAAAGTATCCCGACAA
261 TTATGAAAATACCCTTATGGGTATACTTT--GACGTAAAAG-ATCCCGACAA
* *
238065 CCCTAAAGGACTTAAAAAGGA-TATAGATAGGAGTGAACCTATCCTAAATACTCATCTTCAGCAT
1 CCCTAAAGGACTTAAAAAGGATTATAGATAGGA-TGAACCTATCCTAAATACCCACCTTCAGCAT
* * **
238129 GAAACCAGACCCGGTGACAACCTAGGACTTGGTTCTAAAAAATTACAAAAATG-CCCATGTGGGT
65 AAAACCAGACCCAGTGACAACCTAGGACTTGGTTCTAAAAAATTACAAAAATGTCCC-TAAGGG-
* * * * * ** * *
238193 ATACCTTCGACGA-AAAAGTATCTTGGCAACCTTAAAGGACTTAAAAAGACTAGAGGTGGGATGA
128 ATACCTTCAAC-ATAAAAGTAAC-CGACAACCTTAAAGGACTTAAAAAGACTAAAAATAGGATAA
* ** *
238257 ACCTATCCTAAATGCCCACCTTTAG-CATAAAAGCAAACCTGATGACAACCTAAGACTCTGTTCT
191 ACCTATCCTAAATGCCCACC-TTAGACATAAAAGCAAACCCGATGACAACCTAAGACTCAATCCT
238321 AAGAAATTATGAAAATACCCTTATGGGTATACCTTTGACGTAAAAGATCCCGACAA
255 AAGAAATTATGAAAATACCCTTATGGGTATA-CTTTGACGTAAAAGATCCCGACAA
238377 CCCTAAAGGACTTAAAAAG
1 CCCTAAAGGACTTAAAAAG
238396 ACTAGAAATG
Statistics
Matches: 288, Mismatches: 35, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
310 13 0.05
311 99 0.34
312 47 0.16
313 123 0.43
314 3 0.01
315 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (309 bp):
CCCTAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCAGCATA
AAACCAGACCCAGTGACAACCTAGGACTTGGTTCTAAAAAATTACAAAAATGTCCCTAAGGGATA
CCTTCAACATAAAAGTAACCGACAACCTTAAAGGACTTAAAAAGACTAAAAATAGGATAAACCTA
TCCTAAATGCCCACCTTAGACATAAAAGCAAACCCGATGACAACCTAAGACTCAATCCTAAGAAA
TTATGAAAATACCCTTATGGGTATACTTTGACGTAAAAGATCCCGACAA
Found at i:238336 original size:156 final size:155
Alignment explanation
Indices: 237698--238401 Score: 672
Period size: 156 Copynumber: 4.5 Consensus size: 155
237688 GGCTAAATTT
* * * * * * *
237698 TAAAAAATTACAAAAATGCCCCTAAGGG-ATACCTTCGACGTAAAAGCATCTGATACCCCTAAAG
1 TAAAAAATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCGACAACCCTAAAG
* * * * *
237762 GACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGA
66 GACTTAAAAA-GACTAGAGATAGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAAA
* *
237827 -CCTAGTGACAACCTAGGACTTGGTTC
130 CCCGA-TGACAACCTAAGACTTGGTTC
* * * * * * * * *
237853 TAAAAAATTACCACACTGTCCC-TAAGGG-ATACCTTCAACATAAAAGTAACCGA-TACCCTTAT
1 TAAAAAATTACGAAAATG-CCCTTATGGGTATACCTTCGACGTAAAAGTATCCGACAACCC-TAA
* * * * * *
237915 AGGACTTAAAAATATTAAAAATAGGATAAACCTATCCTAAATGCCCACCTTC-GACATAAAAGCA
64 AGGACTTAAAAAGACTAGAGATAGGATGAACCTATCCTAAATACCCACCTTCAG-CATAAAAGCA
* *** *
237979 AACCCGGTGACAACCTAAGACTCAATCC
128 AACCCGATGACAACCTAAGACTTGGTTC
* * * *
238007 TAAGAAATTATGAAAATGCCCTTATGGGTATA-TTTACGATGTAAAAGTATCCCGACAACCCTAA
1 TAAAAAATTACGAAAATGCCCTTATGGGTATACCTT-CGACGTAAAAGTAT-CCGACAACCCTAA
* * * * *
238071 AGGACTTAAAAAGGA-TATAGATAGGAGTGAACCTATCCTAAATACTCATCTTCAGCATGAAACC
64 AGGACTTAAAAA-GACTAGAGATAGGA-TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGC
* * *
238135 AGACCCGGTGACAACCTAGGACTTGGTTC
127 AAACCCGATGACAACCTAAGACTTGGTTC
* * * * * * *
238164 TAAAAAATTACAAAAATGCCCATGTGGGTATACCTTCGACGAAAAAGTATCTTGGCAACCTTAAA
1 TAAAAAATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATC-CGACAACCCTAAA
* * * *
238229 GGACTTAAAAAGACTAGAGGTGGGATGAACCTATCCTAAATGCCCACCTTTAGCATAAAAGCAAA
65 GGACTTAAAAAGACTAGAGATAGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAAA
*
238294 CCTGATGACAACCTAAGACTCT-GTTC
130 CCCGATGACAACCTAAGACT-TGGTTC
* * * *
238320 TAAGAAATTATGAAAATACCCTTATGGGTATACCTTTGACGTAAAAG-ATCCCGACAACCCTAAA
1 TAAAAAATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTAT-CCGACAACCCTAAA
238384 GGACTTAAAAAGACTAGA
65 GGACTTAAAAAGACTAGA
238402 AATGGTGATT
Statistics
Matches: 444, Mismatches: 88, Indels: 34
0.78 0.16 0.06
Matches are distributed among these distances:
153 4 0.01
154 84 0.19
155 100 0.23
156 127 0.29
157 126 0.28
158 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (155 bp):
TAAAAAATTACGAAAATGCCCTTATGGGTATACCTTCGACGTAAAAGTATCCGACAACCCTAAAG
GACTTAAAAAGACTAGAGATAGGATGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAAAC
CCGATGACAACCTAAGACTTGGTTC
Found at i:239189 original size:13 final size:13
Alignment explanation
Indices: 239171--239196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
239161 TACACAAAGT
239171 ATGTATCGATACA
1 ATGTATCGATACA
239184 ATGTATCGATACA
1 ATGTATCGATACA
239197 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:239194 original size:32 final size:33
Alignment explanation
Indices: 239153--239216 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
239143 TAGCCAAACT
**
239153 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
239185 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
239217 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:243288 original size:15 final size:15
Alignment explanation
Indices: 243268--243298 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
243258 TAAAAATGTC
*
243268 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
243283 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
243298 C
1 C
243299 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:245388 original size:13 final size:13
Alignment explanation
Indices: 245370--245394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
245360 CATTTTTCTT
245370 TGTATCGATACAC
1 TGTATCGATACAC
245383 TGTATCGATACA
1 TGTATCGATACA
245395 TGGGGATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:245549 original size:20 final size:20
Alignment explanation
Indices: 245506--245551 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
245496 AAATCTTTTG
245506 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
245527 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
245547 CAAAA
1 CAAAA
245552 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:249336 original size:21 final size:21
Alignment explanation
Indices: 249303--249347 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
249293 TTGCAAGTTG
*
249303 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
249325 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
249345 AAA
1 AAA
249348 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:253221 original size:20 final size:21
Alignment explanation
Indices: 253196--253248 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
253186 ATATCCAAAA
253196 TGTATCGATACA-TGTTTCTG
1 TGTATCGATACATTGTTTCTG
* *
253216 TGTATCGATACATTTTTTCTT
1 TGTATCGATACATTGTTTCTG
253237 TGTATCGATACA
1 TGTATCGATACA
253249 GGGTGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (21 bp):
TGTATCGATACATTGTTTCTG
Found at i:253412 original size:20 final size:20
Alignment explanation
Indices: 253369--253414 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
253359 AAATCTTTTG
253369 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
253390 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
253410 CAAAA
1 CAAAA
253415 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:255741 original size:20 final size:19
Alignment explanation
Indices: 255686--255741 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
255676 AAAACCCTTA
*
255686 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
255706 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
255726 AATGTATCGATACATG
1 AAAGTATCGATACATG
255742 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:255818 original size:13 final size:13
Alignment explanation
Indices: 255800--255825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
255790 TACAGCAAGT
255800 ATGTATCGATACA
1 ATGTATCGATACA
255813 ATGTATCGATACA
1 ATGTATCGATACA
255826 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:257848 original size:13 final size:13
Alignment explanation
Indices: 257830--257855 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
257820 TACACAAAGT
257830 ATGTATCGATACA
1 ATGTATCGATACA
257843 ATGTATCGATACA
1 ATGTATCGATACA
257856 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:257853 original size:32 final size:33
Alignment explanation
Indices: 257812--257875 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
257802 TAGCCAAACT
**
257812 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
257844 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
257876 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:260371 original size:121 final size:122
Alignment explanation
Indices: 260210--260444 Score: 298
Period size: 121 Copynumber: 1.9 Consensus size: 122
260200 ATAAGAAATA
* * * * *
260210 AATTTAATTTTGCAAAACTAATTTAATGAGAATTAAATAACAATATTATATGA-ATTTTAAAAAT
1 AATTAAATTTTGCAAAACTAATTTAATGAAAAATAAATAACAATATTAGAT-ACATTTAAAAAAT
* * *
260274 TTTAAATC-AAGAACAATTC-CCCTGAAAATATTTATGGAGTAGAAAACTCATGAAAGTG
65 TTTAAATCAAAGAA-AATACTCCC-GAAAATATTTATAGAATAGAAAACTCATGAAAGTG
** * *
260332 AATTAAATTTT-CAAAACTAATTTAATGAAAAATCCATAACACTGTTAGATACATTTAAAAAATT
1 AATTAAATTTTGCAAAACTAATTTAATGAAAAATAAATAACAATATTAGATACATTTAAAAAATT
*
260396 TTAGATCAAAGAAAATACTCCCGAAAATATTTATAGAATAGAAAACTCA
66 TTAAATCAAAGAAAATACTCCCGAAAATATTTATAGAATAGAAAACTCA
260445 ATTTTTTGGG
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
120 1 0.01
121 78 0.80
122 18 0.19
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (122 bp):
AATTAAATTTTGCAAAACTAATTTAATGAAAAATAAATAACAATATTAGATACATTTAAAAAATT
TTAAATCAAAGAAAATACTCCCGAAAATATTTATAGAATAGAAAACTCATGAAAGTG
Found at i:260604 original size:166 final size:167
Alignment explanation
Indices: 260454--260759 Score: 370
Period size: 166 Copynumber: 1.8 Consensus size: 167
260444 AATTTTTTGG
* *
260454 GAAAA-GAAATATTTCAAATAAAAAA-TCTAAAA-ATTATGAAAATGAATTAAATTTTCAAAACT
1 GAAAAGGAAA-ATTTCAAAGAAAAAATTC-AAAAGATTATGAAAATGAATGAAATTTTCAAAACT
* * * * * * * * *
260516 AATTTAATGTGAATTAAATGATGATATTTTG-TGAATTTTAAAAATTGAAAACTGAGAAAAATCC
64 AAGTTAATATAAAATAAATGATAATA-TTTGATAAATTTTAAAAATTAAAAACTAAAAAAAATCC
*
260580 TCTA-AAAAAATTTTACGGAATAGAAAACTCTGTATTTCA
128 TCCAGAAAAAATTTTACGGAATAGAAAACTCTGTATTTCA
* * * * *
260619 GAAAAGGGAAATTTCAAGGAAAAAATTCAAAAGTTTATGAAAATGAATGAATTTTTTAAAACTAA
1 GAAAAGGAAAATTTCAAAGAAAAAATTCAAAAGATTATGAAAATGAATGAAATTTTCAAAACTAA
* * *
260684 GTTAATATAAAATAAATGATAATATTTGATAAATTTTAAATATTAAAAATTAAAAAAAATCTTCC
66 GTTAATATAAAATAAATGATAATATTTGATAAATTTTAAAAATTAAAAACTAAAAAAAATCCTCC
260749 AGAAAAAATTT
131 AGAAAAAATTT
260760 ACAGAGAAAG
Statistics
Matches: 116, Mismatches: 20, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
165 26 0.22
166 81 0.70
167 9 0.08
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (167 bp):
GAAAAGGAAAATTTCAAAGAAAAAATTCAAAAGATTATGAAAATGAATGAAATTTTCAAAACTAA
GTTAATATAAAATAAATGATAATATTTGATAAATTTTAAAAATTAAAAACTAAAAAAAATCCTCC
AGAAAAAATTTTACGGAATAGAAAACTCTGTATTTCA
Found at i:262984 original size:11 final size:11
Alignment explanation
Indices: 262944--262984 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
262934 TGGAAAAGGA
262944 AAAAACAAAGC
1 AAAAACAAAGC
262955 AGAAAA-AAA-C
1 A-AAAACAAAGC
262965 AAAAACAAAGC
1 AAAAACAAAGC
*
262976 AAAAGCAAA
1 AAAAACAAA
262985 AAAAAAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 13 0.50
12 4 0.15
ACGTcount: A:0.76, C:0.15, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAACAAAGC
Found at i:262989 original size:21 final size:20
Alignment explanation
Indices: 262943--262990 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
262933 ATGGAAAAGG
262943 AAAAAACAAAGCAGAAAAAA
1 AAAAAACAAAGCAGAAAAAA
262963 ACAAAAACAAAGCA-AAAGCAAA
1 A-AAAAACAAAGCAGAAA--AAA
262985 AAAAAA
1 AAAAAA
262991 AAGGGAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.79, C:0.12, G:0.08, T:0.00
Consensus pattern (20 bp):
AAAAAACAAAGCAGAAAAAA
Found at i:264010 original size:50 final size:50
Alignment explanation
Indices: 263953--264125 Score: 328
Period size: 50 Copynumber: 3.5 Consensus size: 50
263943 TTCGCACTTG
*
263953 ATAAGAAGATCAAGTCCTATAGAGTCGAAATCCATGCTTGCTAGCTCCTA
1 ATAAGAAGGTCAAGTCCTATAGAGTCGAAATCCATGCTTGCTAGCTCCTA
264003 ATAAGAAGGTCAAGTCCTATAGAGTCGAAATCCATGCTTGCTAGCTCCTA
1 ATAAGAAGGTCAAGTCCTATAGAGTCGAAATCCATGCTTGCTAGCTCCTA
*
264053 ATAAGAAGGTCAAGTCCTATAGAGTCGAAATCCATGCTTGCTGGCTCCTA
1 ATAAGAAGGTCAAGTCCTATAGAGTCGAAATCCATGCTTGCTAGCTCCTA
264103 ATAAGAAGGTCAAGTCCTATAGA
1 ATAAGAAGGTCAAGTCCTATAGA
264126 ATTAAAGTCC
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 121 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (50 bp):
ATAAGAAGGTCAAGTCCTATAGAGTCGAAATCCATGCTTGCTAGCTCCTA
Found at i:264214 original size:81 final size:81
Alignment explanation
Indices: 264068--264235 Score: 194
Period size: 81 Copynumber: 2.1 Consensus size: 81
264058 AAGGTCAAGT
* * ** * *
264068 CCTATAGAGTCGAAATCCATGCTTGCTGGCTCCTAATAAGAAGGTCAAGTCCTATAGAATTAAAG
1 CCTATAAAGTCGAAATCCATGCTAGCTGGCAACTAATAAGAAGGTCAAGTCATATAGAATCAAAG
*
264133 TCCACACTAATTGGCA
66 TCCACACTAATTAGCA
* * * *
264149 CCTATAAAGTCGAAGTCCATGCTAGCTGGCAACTGATAGGAAGGTTAAGTCATATA-AAGTCAAA
1 CCTATAAAGTCGAAATCCATGCTAGCTGGCAACTAATAAGAAGGTCAAGTCATATAGAA-TCAAA
* * *
264213 GTTCACATTAGTTAGCA
65 GTCCACACTAATTAGCA
264230 CCTATA
1 CCTATA
264236 TAGAGAGGTC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 2 0.03
81 70 0.97
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (81 bp):
CCTATAAAGTCGAAATCCATGCTAGCTGGCAACTAATAAGAAGGTCAAGTCATATAGAATCAAAG
TCCACACTAATTAGCA
Found at i:264348 original size:52 final size:51
Alignment explanation
Indices: 264211--264671 Score: 295
Period size: 51 Copynumber: 9.0 Consensus size: 51
264201 TATAAAGTCA
* * * * ** *
264211 AAGTTCACATTAGTTAGCACCTATATAGAGAGGTCAAACCCTTTAGGGTTA
1 AAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATAGAATTT
* * * * * *
264262 AAGTTCACATTAGCCAACACTTGTATAGAGAGGTCAAGCCTTATAGAATTT
1 AAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATAGAATTT
* * *
264313 AAGCCCACAATTAGTTAGCACCTATATAGACAGGTCAAGCCCTATAGAATTT
1 AAGTCCAC-ATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATAGAATTT
* * * * * * *
264365 AAGTCCGCATTAGCTGGCATCTATATAAAGAGGTTAAGCCCTATAAAATCT
1 AAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATAGAATTT
* * * * * *
264416 AAGTCCACAATTAGCTGGCACCTATGTAAAGAGGTCAAGCACTATAGAGTTA
1 AAGTCCAC-ATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATAGAATTT
** ** * * ***
264468 AAGTCCACGCTAGCCGGTACCTATATAGGGAGG-CTAAGCCCTATAGAACCC
1 AAGTCCACATTAGCTAGCACCTATATAGAGAGGTC-AAGCCCTATAGAATTT
* ** * **
264519 AAGACCACATTAGCTAGCAATTGCATA-AG-GATGTCAAGCCCTATA-AAGTCA
1 AAGTCCACATTAGCTAGCACCT--ATATAGAGAGGTCAAGCCCTATAGAA-TTT
* * * * *
264570 AAGTTCAACATACTAGCTTA-CACATGTATA-AGAGGTCAAGCCCTATAGAGTTC
1 AAG-TCCACAT--TAGC-TAGCACCTATATAGAGAGGTCAAGCCCTATAGAATTT
* * * * * *
264623 AAGTCCACATTAGGTGGCACTTATGTAGAGACGTCAAACCCTATAGAAT
1 AAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATAGAAT
264672 CAAGTCCTTG
Statistics
Matches: 314, Mismatches: 80, Indels: 32
0.74 0.19 0.08
Matches are distributed among these distances:
49 1 0.00
50 13 0.04
51 166 0.53
52 101 0.32
53 23 0.07
54 8 0.03
55 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (51 bp):
AAGTCCACATTAGCTAGCACCTATATAGAGAGGTCAAGCCCTATAGAATTT
Found at i:264398 original size:103 final size:103
Alignment explanation
Indices: 264219--264475 Score: 291
Period size: 103 Copynumber: 2.5 Consensus size: 103
264209 CAAAGTTCAC
* * * *
264219 ATTAGTTAGCACCTATATAGAGAGGTCAAACCCTTTAGGGTTAAAGTTCACATTAGCCAACACTT
1 ATTAGTTAGCACCTATATAGAGAGGTCAAGCCCTATAGAGTTAAAGTCCACATTAGCCAACACTT
* * * * *
264284 GTATAGAGAGGTCAAGCCTTATAGAATTTAAGCCCACA
66 ATATAAAGAGGTCAAGCCCTATAAAATCTAAGCCCACA
* * * * ***
264322 ATTAGTTAGCACCTATATAGACAGGTCAAGCCCTATAGAATTTAAGTCCGCATTAGCTGGCA-TC
1 ATTAGTTAGCACCTATATAGAGAGGTCAAGCCCTATAGAGTTAAAGTCCACATTAGCCAACACT-
* *
264386 TATATAAAGAGGTTAAGCCCTATAAAATCTAAGTCCACA
65 TATATAAAGAGGTCAAGCCCTATAAAATCTAAGCCCACA
* * * * *
264425 ATTAGCTGGCACCTATGTAAAGAGGTCAAGCACTATAGAGTTAAAGTCCAC
1 ATTAGTTAGCACCTATATAGAGAGGTCAAGCCCTATAGAGTTAAAGTCCAC
264476 GCTAGCCGGT
Statistics
Matches: 126, Mismatches: 27, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
102 1 0.01
103 125 0.99
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (103 bp):
ATTAGTTAGCACCTATATAGAGAGGTCAAGCCCTATAGAGTTAAAGTCCACATTAGCCAACACTT
ATATAAAGAGGTCAAGCCCTATAAAATCTAAGCCCACA
Found at i:264492 original size:103 final size:103
Alignment explanation
Indices: 264219--264537 Score: 271
Period size: 103 Copynumber: 3.1 Consensus size: 103
264209 CAAAGTTCAC
* * * * * * ** * * ** *
264219 ATTAGTTAGCACCTATATAGAGAGGTCAAACCCTTTAGGGTTAAAGTTCACATTAGCCAACACTT
1 ATTAGCTAGCACCTATATAAACAGGTCAAGCACTATAGAATTAAAGTCCACACTAGCCGGCACCT
* * * * *
264284 GTATAGAGAGGTCAAGCCTTATAGAATTTAAGCCCACA
66 ATATAGAGAGGTTAAGCCCTATAAAATCTAAGCCCACA
* * * * * * * *
264322 ATTAGTTAGCACCTATATAGACAGGTCAAGCCCTATAGAATTTAAGTCCGCATTAGCTGGCATCT
1 ATTAGCTAGCACCTATATAAACAGGTCAAGCACTATAGAATTAAAGTCCACACTAGCCGGCACCT
* *
264387 ATATAAAGAGGTTAAGCCCTATAAAATCTAAGTCCACA
66 ATATAGAGAGGTTAAGCCCTATAAAATCTAAGCCCACA
* * * * * *
264425 ATTAGCTGGCACCTATGTAAAGAGGTCAAGCACTATAGAGTTAAAGTCCACGCTAGCCGGTACCT
1 ATTAGCTAGCACCTATATAAACAGGTCAAGCACTATAGAATTAAAGTCCACACTAGCCGGCACCT
* * * * * *
264490 ATATAGGGAGGCTAAGCCCTATAGAACCCAAGACCAC-
66 ATATAGAGAGGTTAAGCCCTATAAAATCTAAGCCCACA
264527 ATTAGCTAGCA
1 ATTAGCTAGCA
264538 ATTGCATAAG
Statistics
Matches: 174, Mismatches: 42, Indels: 1
0.80 0.19 0.00
Matches are distributed among these distances:
102 10 0.06
103 164 0.94
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (103 bp):
ATTAGCTAGCACCTATATAAACAGGTCAAGCACTATAGAATTAAAGTCCACACTAGCCGGCACCT
ATATAGAGAGGTTAAGCCCTATAAAATCTAAGCCCACA
Found at i:264511 original size:154 final size:155
Alignment explanation
Indices: 264332--264630 Score: 338
Period size: 154 Copynumber: 1.9 Consensus size: 155
264322 ATTAGTTAGC
*** * * * *
264332 ACCTATATAGACAGGTCAAGCCCTATAGAATTTAAGTCCGCATTAGCTGGC-ATCTATATAAAGA
1 ACCTATATAGACAGGTCAAGCCCTATAGAACCCAAGACCACATTAGCTAGCAAT-TACATAAAGA
* * * * *
264396 GGTTAAGCCCTATAAAATCTAAG-TCCACA-ATTAGCTGGCACCTATGTA-AAGAGGTCAAGCAC
65 GGTCAAGCCCTATAAAATCAAAGTTCAACATACTAGCTGACA-C-ATGTATAAGAGGTCAAGCAC
264458 TATAGAGTTAAAGTCCACGCTAGCCGGT
128 TATAGAGTTAAAGTCCACGCTAGCCGGT
** * *
264486 ACCTATATAGGGAGG-CTAAGCCCTATAGAACCCAAGACCACATTAGCTAGCAATTGCATAAGGA
1 ACCTATATAGACAGGTC-AAGCCCTATAGAACCCAAGACCACATTAGCTAGCAATTACATAAAGA
* * * *
264550 TGTCAAGCCCTATAAAGTCAAAGTTCAACATACTAGCTTACACATGTATAAGAGGTCAAGCCCTA
65 GGTCAAGCCCTATAAAATCAAAGTTCAACATACTAGCTGACACATGTATAAGAGGTCAAGCACTA
*
264615 TAGAGTTCAAGTCCAC
130 TAGAGTTAAAGTCCAC
264631 ATTAGGTGGC
Statistics
Matches: 119, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
153 1 0.01
154 72 0.61
155 38 0.32
156 8 0.07
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (155 bp):
ACCTATATAGACAGGTCAAGCCCTATAGAACCCAAGACCACATTAGCTAGCAATTACATAAAGAG
GTCAAGCCCTATAAAATCAAAGTTCAACATACTAGCTGACACATGTATAAGAGGTCAAGCACTAT
AGAGTTAAAGTCCACGCTAGCCGGT
Found at i:268951 original size:116 final size:116
Alignment explanation
Indices: 268815--269078 Score: 329
Period size: 116 Copynumber: 2.3 Consensus size: 116
268805 ACCTACTTAC
*
268815 TTAATTGATTTAGG-CCTATTTTATTTAATTATATT-GAATCATAAATTATTTAATTTAAAGCCA
1 TTAATTTATTTAGGACCTATTTTATTTAATTATATTAG-ATCATAAATTATTTAATTTAAAGCCA
* * * * * *
268878 AGTCTAATAGAAAAATATATATTAAATAAAATA-GGCGTTATATGCTTATTTAA
65 AGCCTAATA-AAAAATATACATTAAATAAAATAGGGC-TCACATACATATTTAA
* * *
268931 TTAATTTATTT-GGACCTATTTTATTTAATTACATTAGGTCATAAATTATTTAATTTAAAGGCAA
1 TTAATTTATTTAGGACCTATTTTATTTAATTATATTAGATCATAAATTATTTAATTTAAAGCCAA
* * * *
268995 GCCTTATATAAAATATACATTAGATAAAATAGGGCTCACGTACATATTTAA
66 GCCTAATAAAAAATATACATTAAATAAAATAGGGCTCACATACATATTTAA
* *
269046 TTAATTTATTTAGGATCTATTTTATTCAATTAT
1 TTAATTTATTTAGGACCTATTTTATTTAATTAT
269079 GTTGGGCCAA
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
115 44 0.35
116 82 0.65
117 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (116 bp):
TTAATTTATTTAGGACCTATTTTATTTAATTATATTAGATCATAAATTATTTAATTTAAAGCCAA
GCCTAATAAAAAATATACATTAAATAAAATAGGGCTCACATACATATTTAA
Found at i:273842 original size:15 final size:15
Alignment explanation
Indices: 273822--273855 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
273812 TCATATCACT
273822 ATCTGCATGCTCAAC
1 ATCTGCATGCTCAAC
273837 ATCTGCATGCTCAAC
1 ATCTGCATGCTCAAC
273852 ATCT
1 ATCT
273856 ACAATAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.29
Consensus pattern (15 bp):
ATCTGCATGCTCAAC
Found at i:275629 original size:28 final size:27
Alignment explanation
Indices: 275592--275660 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
275582 TCTCATAAAA
*
275592 TTTA-AATTTAATTTTTAATTGTTAATT
1 TTTACAATTTAATTTTT-ATTATTAATT
*
275619 TTTACAATTTAATCTTTTTTTATTAATT
1 TTTACAATTTAAT-TTTTATTATTAATT
275647 TTTAC-ATTT-ATTTT
1 TTTACAATTTAATTTT
275661 ACAGATATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 3 0.08
26 2 0.05
27 8 0.21
28 21 0.55
29 4 0.11
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (27 bp):
TTTACAATTTAATTTTTATTATTAATT
Found at i:275630 original size:14 final size:13
Alignment explanation
Indices: 275592--275636 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
275582 TCTCATAAAA
275592 TTTAAATTTAATT
1 TTTAAATTTAATT
*
275605 TTTAATTGTTAATT
1 TTTAAAT-TTAATT
275619 TTTACAATTTAATCT
1 TTTA-AATTTAAT-T
275634 TTT
1 TTT
275637 TTTATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.22
14 15 0.56
15 6 0.22
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (13 bp):
TTTAAATTTAATT
Found at i:277329 original size:155 final size:154
Alignment explanation
Indices: 277033--277520 Score: 479
Period size: 155 Copynumber: 3.1 Consensus size: 154
277023 ATTATTACTA
* * * * *
277033 AATCTTTTTAAGTCCTTTAAGGATACCAAGATACTTTCATA-TCGAAGGTATCCCCTAAAGGCAT
1 AATCTTTTTAAGTCCTTTAGGGGTACCAGGATACTTTCA-AGTCGAAGGTAT-CCCTAAGGGAAT
* * * * **
277097 TTTTGTAATTTTTTAGAATCAAGTCCTAGATTGTTATCGAGTCTGC-TTT-TGCACTGAAGGTGG
64 TTTTGTAATTTTTTAGAATCGAGTCCTAGGTTGTCACCGAGTCCACTTTTATGC-C-GAAGGTGG
* * *
277160 GTGTTTTGGTTAGGTTCATCCCATCTAT
127 GTATTTAGGATAGGTTCATCCCATCTAT
* *
277188 AATCTTTTTAAGCCCTTTAGGGGTACCAGGATACTTTCACGTCGAAGGTATCCACT-AGGGAAAT
1 AATCTTTTTAAGTCCTTTAGGGGTACCAGGATACTTTCAAGTCGAAGGTATCC-CTAAGGG-AAT
* * * * *
277252 TTTCGTAAATTTCTAGAA-CTGAGTCCTAGGTTGTCAGCGAGTCCACTTTTATGCCGAAGGTGAG
64 TTTTGTAATTTTTTAGAATC-GAGTCCTAGGTTGTCACCGAGTCCACTTTTATGCCGAAGGTGGG
**
277316 TATTTAGGATAGGTTCATCATATCTAT
128 TATTTAGGATAGGTTCATCCCATCTAT
* * * * ** **
277343 AATCCTTTTTATGTCTTTTAGCGGTATC-GGGCAC-TTCTAAGTAAAAGGTATCCCATAAGGGAA
1 AAT-CTTTTTAAGTCCTTTAGGGGTACCAGGATACTTTC-AAGTCGAAGGTATCCC-TAAGGGAA
* * * *
277406 TTTTTGTAATTTTTTTAGAATCGAGTCTTAGGTTTTCACCG-GATCCATTTTTATGCCAAAGGTG
63 TTTTTGTAA-TTTTTTAGAATCGAGTCCTAGGTTGTCACCGAG-TCCACTTTTATGCCGAAGGTG
277470 GGTATTTAGGATAGGTTCATCCCATCTAT
126 GGTATTTAGGATAGGTTCATCCCATCTAT
*
277499 AATTCTTTTCAAGTCCTTTAGG
1 AA-TCTTTTTAAGTCCTTTAGG
277521 ATCTCCGGGC
Statistics
Matches: 272, Mismatches: 47, Indels: 27
0.79 0.14 0.08
Matches are distributed among these distances:
154 10 0.04
155 145 0.53
156 112 0.41
157 5 0.02
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (154 bp):
AATCTTTTTAAGTCCTTTAGGGGTACCAGGATACTTTCAAGTCGAAGGTATCCCTAAGGGAATTT
TTGTAATTTTTTAGAATCGAGTCCTAGGTTGTCACCGAGTCCACTTTTATGCCGAAGGTGGGTAT
TTAGGATAGGTTCATCCCATCTAT
Found at i:281829 original size:20 final size:20
Alignment explanation
Indices: 281804--281903 Score: 112
Period size: 20 Copynumber: 4.7 Consensus size: 20
281794 AAATTTTCCA
281804 AATGTATCGATACAAAGATC
1 AATGTATCGATACAAAGATC
281824 AATGTATCGATACAAAGATC
1 AATGTATCGATACAAAGATC
281844 AATGTATCGATACAATGTATCGATAC
1 AATGTATCGATACAA---A--GAT-C
**
281870 AATGTATCGATACATTGAGT-
1 AATGTATCGATACAAAGA-TC
281890 AATGTATCGATACA
1 AATGTATCGATACA
281904 TTTCCTTGGC
Statistics
Matches: 71, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
20 49 0.69
21 2 0.03
22 1 0.01
23 1 0.01
25 3 0.04
26 15 0.21
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAAAGATC
Found at i:281861 original size:13 final size:13
Alignment explanation
Indices: 281843--281883 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
281833 ATACAAAGAT
281843 CAATGTATCGATA
1 CAATGTATCGATA
281856 CAATGTATCGATA
1 CAATGTATCGATA
281869 CAATGTATCGATA
1 CAATGTATCGATA
281882 CA
1 CA
281884 TTGAGTAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:283287 original size:14 final size:13
Alignment explanation
Indices: 283270--283329 Score: 50
Period size: 15 Copynumber: 4.2 Consensus size: 13
283260 TTTGTATTGG
283270 TTTAATAGTAATTT
1 TTTAATA-TAATTT
283284 TTTAATATAATTAT
1 TTTAATATAATT-T
*
283298 GTTTAAAATAATATAT
1 -TTTAATATAAT-T-T
283314 CTTT-ATATAATTT
1 -TTTAATATAATTT
283327 TTT
1 TTT
283330 TTATAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 9 0.22
15 16 0.40
16 6 0.15
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (13 bp):
TTTAATATAATTT
Found at i:284598 original size:2 final size:2
Alignment explanation
Indices: 284593--284626 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
284583 TCTCCTTCCC
284593 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
284627 TAAAATTAGA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:285646 original size:2 final size:2
Alignment explanation
Indices: 285639--285672 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
285629 TTATATGTAA
285639 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
285673 GAAATAATTC
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):
AT
Found at i:286891 original size:22 final size:24
Alignment explanation
Indices: 286865--286920 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
286855 ATATCATGTC
286865 AAAACATTGA-TCAAAT-CCTTTT
1 AAAACATTGATTCAAATACCTTTT
* *
286887 TAAACA-TGATTTAAATACCTTTT
1 AAAACATTGATTCAAATACCTTTT
286910 AAAACA-TGATT
1 AAAACATTGATT
286921 AAACATGACC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.10
22 10 0.34
23 16 0.55
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (24 bp):
AAAACATTGATTCAAATACCTTTT
Found at i:286914 original size:23 final size:22
Alignment explanation
Indices: 286877--286920 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
286867 AACATTGATC
*
286877 AAATCCTTTTTAAACATGATTT
1 AAATCCTTTTAAAACATGATTT
286899 AAATACCTTTTAAAACATGATT
1 AAAT-CCTTTTAAAACATGATT
286921 AAACATGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (22 bp):
AAATCCTTTTAAAACATGATTT
Found at i:286922 original size:22 final size:21
Alignment explanation
Indices: 286865--286923 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
286855 ATATCATGTC
*
286865 AAAACATTGATCAAATCCTTTT
1 AAAACA-TGATTAAATCCTTTT
*
286887 TAAACATGATTTAAATACCTTTT
1 AAAACATGA-TTAAAT-CCTTTT
286910 AAAACATGATTAAA
1 AAAACATGATTAAA
286924 CATGACCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 3 0.09
22 15 0.47
23 14 0.44
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAACATGATTAAATCCTTTT
Found at i:292745 original size:29 final size:29
Alignment explanation
Indices: 292703--292820 Score: 150
Period size: 29 Copynumber: 4.1 Consensus size: 29
292693 ATATAAAGTT
* *
292703 AAAG-AATGAAAAGTCCACTAAAACACAA
1 AAAGAAATTAAAAGTCAACTAAAACACAA
292731 AAAGAAATTAAAAGTCAACTAAAACATC-A
1 AAAGAAATTAAAAGTCAACTAAAACA-CAA
* * *
292760 AAATAAATTAAAAGTTAACTAAAACACCA
1 AAAGAAATTAAAAGTCAACTAAAACACAA
* *
292789 AAATAAATTAAAAGTCAACTAAAACAAAA
1 AAAGAAATTAAAAGTCAACTAAAACACAA
292818 AAA
1 AAA
292821 AAAGGAAACT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
28 5 0.06
29 74 0.93
30 1 0.01
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.16
Consensus pattern (29 bp):
AAAGAAATTAAAAGTCAACTAAAACACAA
Found at i:296307 original size:21 final size:20
Alignment explanation
Indices: 296253--296309 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
296243 TAGCAATATA
296253 AATAAATACAAAAATAAGTC
1 AATAAATACAAAAATAAGTC
* *
296273 AAAAAATAAAAAAAATAAGAT-
1 AATAAAT-ACAAAAATAAG-TC
296294 ATATAAATACAAAAAT
1 A-ATAAATACAAAAAT
296310 TAAATAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 6 0.20
21 18 0.60
22 6 0.20
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (20 bp):
AATAAATACAAAAATAAGTC
Found at i:302389 original size:2 final size:2
Alignment explanation
Indices: 302382--302424 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
302372 GGATGTACGT
302382 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
302423 GA
1 GA
302425 CCTATGTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:304894 original size:3 final size:3
Alignment explanation
Indices: 304888--304919 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
304878 AAAAATTTAA
304888 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
304920 CAGAACCGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:306104 original size:3 final size:3
Alignment explanation
Indices: 306096--306144 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
306086 TGTTTTCTTG
306096 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
306144 T
1 T
306145 TTGATAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:307333 original size:4 final size:4
Alignment explanation
Indices: 307324--307348 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
307314 TTTAGTTGCA
307324 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
307349 TTGAATTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:308531 original size:28 final size:28
Alignment explanation
Indices: 308499--308581 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
308489 ATATAAAGAT
*
308499 AAAGAATTAAAAATCAACTAAAACA-TGA
1 AAAGAATTAAAAATCAATTAAAACACT-A
* * * *
308527 AAAGAATCAAAAGTTAATTAAAATACTA
1 AAAGAATTAAAAATCAATTAAAACACTA
308555 AAAGAAATTAAAAATCAATTAAAACAC
1 AAAG-AATTAAAAATCAATTAAAACAC
308582 ACATAAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
28 25 0.57
29 19 0.43
ACGTcount: A:0.64, C:0.10, G:0.06, T:0.20
Consensus pattern (28 bp):
AAAGAATTAAAAATCAATTAAAACACTA
Found at i:308603 original size:26 final size:24
Alignment explanation
Indices: 308574--308622 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
308564 AAAAATCAAT
308574 TAAAACACACATAAAAAAAAGTTAAC
1 TAAAACACA-A-AAAAAAAAGTTAAC
*
308600 TAAAACACAAAAAAAAAATTTAA
1 TAAAACACAAAAAAAAAAGTTAA
308623 GTCCACTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
25 1 0.05
26 9 0.41
ACGTcount: A:0.69, C:0.12, G:0.02, T:0.16
Consensus pattern (24 bp):
TAAAACACAAAAAAAAAAGTTAAC
Found at i:312636 original size:22 final size:22
Alignment explanation
Indices: 312601--312658 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
312591 ATGTTAGTAA
312601 AACAAAA-A-ATAAAAT-AATG
1 AACAAAATACATAAAATAAATG
*
312620 AACAAATTTACATAAAATAAATG
1 AACAAA-ATACATAAAATAAATG
*
312643 CACAAAATACATAAAA
1 AACAAAATACATAAAA
312659 GAGGGATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 6 0.19
21 1 0.03
22 16 0.50
23 9 0.28
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.19
Consensus pattern (22 bp):
AACAAAATACATAAAATAAATG
Found at i:313164 original size:80 final size:79
Alignment explanation
Indices: 312985--313374 Score: 414
Period size: 80 Copynumber: 4.9 Consensus size: 79
312975 CTCGTAGATG
* * * *
312985 GAGATGGTGGGGTTGGAGTATCCCCAAAGATGAAAAATTCAATGTTTTGAAAGT-AAAATGGGAT
1 GAGATGGTGGGGTTGGAGTAT-CCTAGAGATGAAAAATTCAGTGTTTTGGAAGTAAAAATGGG-T
* * **
313049 TAGAATATC-CCTTTG
64 TGGAGTATCTCCTTCA
* * *
313064 GAGATGGCGGGGTTGGAGTATGCCTAGAAATGAAAAATTCGGTGTTTTGGAAGTAAAAATAGGGT
1 GAGATGGTGGGGTTGGAGTAT-CCTAGAGATGAAAAATTCAGTGTTTTGGAAGTAAAAAT-GGGT
313129 TGGAGTATCTCCTT-A
64 TGGAGTATCTCCTTCA
* * * *
313144 GAGATGGCGGGGTTGGAGTATTCTAGAGAT-AAAAAATCTAGTGTTTTGGAAGTAAAAACGAGGT
1 GAGATGGTGGGGTTGGAGTATCCTAGAGATGAAAAATTC-AGTGTTTTGGAAGTAAAAATG-GGT
313208 TGGAGTAT-TCCTTCA
64 TGGAGTATCTCCTTCA
** * * * *
313223 GAGATTATGGGGTTAGAGTATTCCCAGAGATGAAAAATTCAATGTTTTAGAAGTAAAAATGAGGT
1 GAGATGGTGGGGTTGGAGTA-TCCTAGAGATGAAAAATTCAGTGTTTTGGAAGTAAAAATG-GGT
313288 TGGAGTATCT-CTTCA
64 TGGAGTATCTCCTTCA
* ** *
313303 GAGATGGTGGGGTTGGGGTATCCTCAGAGATGAAAAATTTGGTGTTTTAGAAGTAAAAATAGGGT
1 GAGATGGTGGGGTTGGAGTATCCT-AGAGATGAAAAATTCAGTGTTTTGGAAGTAAAAAT-GGGT
*
313368 TTGAGTA
64 TGGAGTA
313375 CCCCTTTTGA
Statistics
Matches: 265, Mismatches: 35, Indels: 21
0.83 0.11 0.07
Matches are distributed among these distances:
78 13 0.05
79 102 0.38
80 134 0.51
81 16 0.06
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (79 bp):
GAGATGGTGGGGTTGGAGTATCCTAGAGATGAAAAATTCAGTGTTTTGGAAGTAAAAATGGGTTG
GAGTATCTCCTTCA
Found at i:313256 original size:159 final size:160
Alignment explanation
Indices: 313072--313361 Score: 415
Period size: 159 Copynumber: 1.8 Consensus size: 160
313062 TGGAGATGGC
* * ** *
313072 GGGGTTGGAGTATGCCTAGAAATGAAAAATTCGGTGTTTTGGAAGTAAAAAT-AGGGTTGGAGTA
1 GGGGTTAGAGTATGCCCAGAAATGAAAAATTCAATGTTTTAGAAGTAAAAATGA-GGTTGGAGTA
* *
313136 TCTCCTT-AGAGATGGCGGGGTTGGAGTATTCT-AGAGATAAAAAATCTAGTGTTTTGGAAGTAA
65 TCT-CTTCAGAGATGGCGGGGTTGGAGTATCCTCAGAGATAAAAAATCTAGTGTTTTAGAAGTAA
313199 AAACGAGGTTGGAGTATTCCTTCAGAGATTAT
129 AAACGAGGTTGGAGTATTCCTTCAGAGATTAT
* *
313231 GGGGTTAGAGTATTCCCAGAGATGAAAAATTCAATGTTTTAGAAGTAAAAATGAGGTTGGAGTAT
1 GGGGTTAGAGTATGCCCAGAAATGAAAAATTCAATGTTTTAGAAGTAAAAATGAGGTTGGAGTAT
* * * * *
313296 CTCTTCAGAGATGGTGGGGTTGGGGTATCCTCAGAGATGAAAAATTTGGTGTTTTAGAAGTAAAA
66 CTCTTCAGAGATGGCGGGGTTGGAGTATCCTCAGAGATAAAAAATCTAGTGTTTTAGAAGTAAAA
313361 A
131 A
313362 TAGGGTTTGA
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
158 3 0.03
159 80 0.70
160 31 0.27
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (160 bp):
GGGGTTAGAGTATGCCCAGAAATGAAAAATTCAATGTTTTAGAAGTAAAAATGAGGTTGGAGTAT
CTCTTCAGAGATGGCGGGGTTGGAGTATCCTCAGAGATAAAAAATCTAGTGTTTTAGAAGTAAAA
ACGAGGTTGGAGTATTCCTTCAGAGATTAT
Found at i:315592 original size:20 final size:20
Alignment explanation
Indices: 315567--315604 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
315557 TTTTTGACCC
315567 CAATGTATCGATACATTCTT
1 CAATGTATCGATACATTCTT
315587 CAATGTATCGATACATTC
1 CAATGTATCGATACATTC
315605 AATTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
CAATGTATCGATACATTCTT
Found at i:321605 original size:97 final size:97
Alignment explanation
Indices: 321439--321632 Score: 291
Period size: 97 Copynumber: 2.0 Consensus size: 97
321429 ATTTTATTCA
* *
321439 TAAGGATATTCCAACCTCATTATTCCGAGAGGATACTCCAACTCCATTTTTAAACTTGTCAAGAT
1 TAAGGATACTCCAACCTCATTATTCCGAGAGGATACTCCAACCCCATTTTTAAACTTGTCAAGAT
* * *
321504 TTAAATCTTATTTTTGCTTAAATTGTAATCAT
66 TTAAATATTATTTTTACGTAAATTGTAATCAT
* * *
321536 TAAGGATACTCCAAACC-CATTCTTCTGAGGGGATACTCCAACCCCATTTTTAAACTTGTCAAGA
1 TAAGGATACTCC-AACCTCATTATTCCGAGAGGATACTCCAACCCCATTTTTAAACTTGTCAAGA
*
321600 TTTAAATATTATTTTTACGTAAATTGTCATCAT
65 TTTAAATATTATTTTTACGTAAATTGTAATCAT
321633 CGGTGACTCT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 83 0.95
98 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (97 bp):
TAAGGATACTCCAACCTCATTATTCCGAGAGGATACTCCAACCCCATTTTTAAACTTGTCAAGAT
TTAAATATTATTTTTACGTAAATTGTAATCAT
Found at i:321683 original size:69 final size:69
Alignment explanation
Indices: 321571--321718 Score: 251
Period size: 69 Copynumber: 2.1 Consensus size: 69
321561 TGAGGGGATA
* *
321571 CTCCAACCCCATTTTTAAACTTGTCAAGATTTAAATATTATTTTTACGTAAATTGTCATCATCGG
1 CTCCAA-CCCATTTTTAAACTTGTCAAGATTTAAATATTATTTTTACATAAATTGTCATCATCGA
321636 TGACT
65 TGACT
* *
321641 CTCCAACCCATTTTTAAACTTGTCAAGTTTTAAATATTATTTTTGCATAAATTGTCATCATCGAT
1 CTCCAACCCATTTTTAAACTTGTCAAGATTTAAATATTATTTTTACATAAATTGTCATCATCGAT
321706 GACT
66 GACT
321710 CTCCAACCC
1 CTCCAACCC
321719 TATTCCTCCA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
69 68 0.92
70 6 0.08
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (69 bp):
CTCCAACCCATTTTTAAACTTGTCAAGATTTAAATATTATTTTTACATAAATTGTCATCATCGAT
GACT
Found at i:322928 original size:457 final size:459
Alignment explanation
Indices: 322063--322978 Score: 1588
Period size: 457 Copynumber: 2.0 Consensus size: 459
322053 TAATATTCCG
322063 TGTCGGTATCTCTCCAATGCTTGACACATAATACCTAGTTTTCAAATTAAAATCCAAATATCATT
1 TGTCGGTATCTCTCCAATGCTTGACACATAATACCTAGTTTTCAAATTAAAATCCAAATATCATT
322128 TTATGTCTTTATGTTATTAATTTCTCCAAGGCACATATGAGATTAAAACTTTTTATCAAAACCTG
66 TTATGTCTTTATGTTATTAATTTCTCCAAGGCACATATGAGATTAAAACTTTTTATCAAAACCTG
322193 GATTCATTTTTTTTTATATACAAAATTCATGCATCAAAGGGGATTATATCGAAATAATGATAAAC
131 GATTCA-TTTTTTTTATATACAAAATTCATGCATCAAAGGGGATTATATCGAAATAATGATAAAC
* * *
322258 CGAAACCGAGAAAATTAATATTGAGTCAAAACATAGCTAGTAAGGTACTAATTTCAGGCGTCACG
195 CAAAACCAAGAAAATCAATATTGAGTCAAAACATAGCTAGTAAGGTACTAATTTCAGGCGTCACG
* * * * *
322323 AGGAGGTTCGTACTTCTTTACACGCAACCAACTCTCGAACCCAATTGGCGAATCTTGGAATTACA
260 AGGAGGTTCATACCTCTTTACACGCAACCAACTCTCGAACCCAATCGACGAATCTTGAAATTACA
*
322388 TAGACCACGGGATTGATATTTCGAGTTTTGTAACTCAAAGCATAAGTTTTAATAGGCATCCAATC
325 TAGACCACGGGATCGATATTTCGAGTTTTGTAACTCAAAGCATAAGTTTTAATAGGCATCCAATC
* *
322453 ATGCTTAGCTCGAAATTGTTGCAACGTGGCCCGGATACGAATCCCGACCAAGCCCGACTTAAAAT
390 ATGCCTAGCTCAAAATTGTTGCAACGTGGCCCGGATACGAATCCCGACCAAGCCCGACTTAAAAT
322518 GGTCA
455 GGTCA
*
322523 TGTCGGTATCTCTCCAATGCTTGACAC-TGAATACCTAGTTTTCAAATTAAAATCCAGATATCAT
1 TGTCGGTATCTCTCCAATGCTTGACACAT-AATACCTAGTTTTCAAATTAAAATCCAAATATCAT
** *
322587 TTTATGTCTTTATGTTATTAATTTCTCTGAGGTACATATGAGATTAAAAC-TTTTATCAAAACCT
65 TTTATGTCTTTATGTTATTAATTTCTCCAAGGCACATATGAGATTAAAACTTTTTATCAAAACCT
*
322651 GGATTCA-TTTTTTTATATACAAAATTCATGCATCAAAGGGGATTATATTGAAATAATGATAAAC
130 GGATTCATTTTTTTTATATACAAAATTCATGCATCAAAGGGGATTATATCGAAATAATGATAAAC
* *
322715 CAAAACCAA-AGAAATCGATATTGAGTCAAAACATAGCTAGTAAGGTACTAATTTCAGGCGTCGC
195 CAAAACCAAGA-AAATCAATATTGAGTCAAAACATAGCTAGTAAGGTACTAATTTCAGGCGTCAC
* *
322779 GAGGAGGTTTATACCTCTTTACACGTAACCAACTCTCGAACCCAATCGACGAATCTTGAAATTAC
259 GAGGAGGTTCATACCTCTTTACACGCAACCAACTCTCGAACCCAATCGACGAATCTTGAAATTAC
*
322844 ATAGACCACGGGATCGATATTTCGAGTTTTGTAACTCAAAGCATAGGTTTTAATAGGCATCCAAT
324 ATAGACCACGGGATCGATATTTCGAGTTTTGTAACTCAAAGCATAAGTTTTAATAGGCATCCAAT
322909 CATGCCTAGCTCAAAATTGTTGCAACGTGGCCCGGATACGAATCCCGACCAAGCCCGACTTAAAA
389 CATGCCTAGCTCAAAATTGTTGCAACGTGGCCCGGATACGAATCCCGACCAAGCCCGACTTAAAA
322974 TGGTC
454 TGGTC
322979 CTTGATCATA
Statistics
Matches: 433, Mismatches: 21, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
456 1 0.00
457 302 0.70
459 22 0.05
460 108 0.25
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (459 bp):
TGTCGGTATCTCTCCAATGCTTGACACATAATACCTAGTTTTCAAATTAAAATCCAAATATCATT
TTATGTCTTTATGTTATTAATTTCTCCAAGGCACATATGAGATTAAAACTTTTTATCAAAACCTG
GATTCATTTTTTTTATATACAAAATTCATGCATCAAAGGGGATTATATCGAAATAATGATAAACC
AAAACCAAGAAAATCAATATTGAGTCAAAACATAGCTAGTAAGGTACTAATTTCAGGCGTCACGA
GGAGGTTCATACCTCTTTACACGCAACCAACTCTCGAACCCAATCGACGAATCTTGAAATTACAT
AGACCACGGGATCGATATTTCGAGTTTTGTAACTCAAAGCATAAGTTTTAATAGGCATCCAATCA
TGCCTAGCTCAAAATTGTTGCAACGTGGCCCGGATACGAATCCCGACCAAGCCCGACTTAAAATG
GTCA
Found at i:324513 original size:156 final size:156
Alignment explanation
Indices: 324118--325070 Score: 958
Period size: 156 Copynumber: 6.1 Consensus size: 156
324108 CTCCTAGGGG
* ** * * * *
324118 ATACCTTCGACGTAAAAGTATCT-GATACCCCTAAAGGACCTAAAAAGGA-TAGAAATGTGATGA
1 ATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACTTAAAAA-GACTAGAAAAGGGATGA
* ** * * * *
324181 ACCTATCCTAAATGCCCACCTTCAGCATAAAAGCAGACCC-AGTGACGACCTATGAGTTGGTTCT
65 ACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGA-TGATAACCTAGGACTCGATTCT
*
324245 AAAAAATTACGAAAAT-ACTCCTA-GGAG-
129 AAAAAATTACGAAAATGCCT-CTATGG-GT
* *
324272 ATACCTTTGACGTAAAAGTACC-C--AATACCCTTAAAGGACTTAAAAAGACTAGAAAAGGTGAT
1 ATACCTTCGACGTAAAAGTACCTCGGCA-ACCC-TAAAGGACTTAAAAAGACTAGAAAAGG-GAT
*
324334 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGATGATAACCTAGGACTCGATTA
63 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGATGATAACCTAGGACTCGATTC
* *
324399 TAAGAAATTACGAAAATGCCTTTATGGGT
128 TAAAAAATTACGAAAATGCCTCTATGGGT
324428 ATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGA-TCTAAAAAGACTAGAAAAGGGATGA
1 ATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACT-TAAAAAGACTAGAAAAGGGATGA
* * * * * * *
324492 ACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCTGGTGATGACCTAGGAGTTGGTTCTA
65 ACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGATGATAACCTAGGACTCGATTCT-
*
324557 AAAAAATTACGAAAATGCC-CTTAAGGG-
129 AAAAAATTACGAAAATGCCTC-TATGGGT
* * * * * * *
324584 ATACCTTCGATGTGAAAGTATCTCGGC-ATCCTAAAGGACTTAAAAAGACTAGAAATGATGATAA
1 ATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACTTAAAAAGACTAGAAAAG-GGATGA
* * * * *
324648 ACCTATCCTAAATGCCCACCTTCGGCATGAAAGCGGACCTGGTGATAACTTAGGACTC-AGTTCT
65 ACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGATGATAACCTAGGACTCGA-TTCT
*
324712 AAGAAATTACGAAAATG-CTCCTATGGGT
129 AAAAAATTACGAAAATGCCT-CTATGGGT
* * * *
324740 ATACTTTCGACGTAAAAGTACCTCAGCAACCGTAAAGGACCTAAAAAGACTAGAAAAAGGGATGA
1 ATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACTTAAAAAGACTAG-AAAAGGGATGA
* * * * *
324805 ACCTATCTTAAATGCCCACCTTTGGCACCAAAAG-TGAACCCGATG-TCAACCTAAGACTCGATT
65 ACCTATCCTAAATGCCCACCTTCGGCA-TAAAAGCAG-ACCCGATGAT-AACCTAGGACTCGATT
* * * *
324868 TTAAGAAATTACGAAAATACCCCTATGGGT
127 CTAAAAAATTACGAAAATGCCTCTATGGGT
* * *
324898 ATACCTTCGAAGTAAAAGTACCTCGGTAACCCTAAAGGACTTAAAAAGACTAGAAAATGG-TGAA
1 ATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACTTAAAAAGACTAGAAAAGGGATGAA
* * * * ** * * *
324962 CCTATCCTAAATACCCACTTTCGACATAAAAGCGGA-CTTAGTGCTAACCTAAGACTCGGTTCTA
66 CCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGA-TGATAACCTAGGACTCGATTCTA
* * *
325026 AAAAATTACGAAAAT-ACTCGTAAGAG-
130 AAAAATTACGAAAATGCCTC-TATGGGT
*
325052 ATACCTTCGACGTGAAAGT
1 ATACCTTCGACGTAAAAGT
325071 GCTCGGAGAT
Statistics
Matches: 671, Mismatches: 96, Indels: 64
0.81 0.12 0.08
Matches are distributed among these distances:
152 1 0.00
153 5 0.01
154 63 0.09
155 167 0.25
156 222 0.33
157 108 0.16
158 102 0.15
159 3 0.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (156 bp):
ATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACTTAAAAAGACTAGAAAAGGGATGAA
CCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGATGATAACCTAGGACTCGATTCTAA
AAAATTACGAAAATGCCTCTATGGGT
Found at i:324696 original size:312 final size:308
Alignment explanation
Indices: 324108--325070 Score: 1109
Period size: 312 Copynumber: 3.1 Consensus size: 308
324098 AATCAAAACA
* * ** *
324108 CTCCTA-GGGGATACCTTCGACGTAAAAGTATCT-GATACCCCTAAAGGACCTAAAAAGGA-TAG
1 CTCCTATGGGTATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACCTAAAAA-GACTAG
* * * * * * *
324170 AAATGTGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCAGACCCAGTGACGACCTATG
65 AAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCCGGTGATGACCTAAG
* * **
324235 AGTTGGTTCTAAAAAATTACGAAAATACTCCT-AGGAGATACCTTTGACGTAAAAGTAC-CCAAT
130 AGTTGGTTCTAAAAAATTACGAAAATAC-CCTAAGG-GATACCTTCGAAGTAAAAGTACTCGGA-
*
324298 ACCCTTAAAGGACTTAAAAAGACTAGAAAAGGTGATGAACCTATCCTAAATGCCCACCTTCGGCA
192 ACCC-TAAAGGACTTAAAAAGACTAG-AAAGATGATGAACCTATCCTAAATGCCCACCTTCGGCA
* * * *
324363 TAAAAGCAGACCCGATGATAACCTAGGACTCGATTATAAGAAATTACGAAAATG
255 TAAAAGCGGACCTGGTGATAACCTAGGACTCGATTCTAAGAAATTACGAAAATG
* *
324417 C-CTTTATGGGTATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGATCTAAAAAGACTAG
1 CTC-CTATGGGTATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACCTAAAAAGACTAG
* *
324481 AAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCTGGTGATGACCTAGG
65 AAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCCGGTGATGACCTAAG
* * * *
324546 AGTTGGTTCTAAAAAAATTACGAAAATGCCCTTAAGGGATACCTTCGATGTGAAAGTATCTCGGC
130 AGTTGGTTCT-AAAAAATTACGAAAATACCC-TAAGGGATACCTTCGAAGTAAAAGTA-CTCGGA
* *
324611 ATCCTAAAGGACTTAAAAAGACTAGAAATGATGATAAACCTATCCTAAATGCCCACCTTCGGCAT
192 ACCCTAAAGGACTTAAAAAGACTAGAAA-GATGATGAACCTATCCTAAATGCCCACCTTCGGCAT
* *
324676 GAAAGCGGACCTGGTGATAACTTAGGACTC-AGTTCTAAGAAATTACGAAAATG
256 AAAAGCGGACCTGGTGATAACCTAGGACTCGA-TTCTAAGAAATTACGAAAATG
* * *
324729 CTCCTATGGGTATACTTTCGACGTAAAAGTACCTCAGCAACCGTAAAGGACCTAAAAAGACTAGA
1 CTCCTATGGGTATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACCTAAAAAGACTAG-
* * * ** * *
324794 AAAAGGGATGAACCTATCTTAAATGCCCACCTTTGGCACCAAAAGTGAACCCGATG-TCAACCTA
65 AAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCA-TAAAAGCAAACCCGGTGAT-GACCTA
* * * * * *
324858 AGACTCGATTTTAAGAAATTACGAAAATACCCCTATGGGTATACCTTCGAAGTAAAAGTACCTCG
128 AGAGTTGGTTCTAAAAAATTACGAAAATA-CCCTAAGGG-ATACCTTCGAAGTAAAAGTA-CTCG
* * * *
324923 GTAACCCTAAAGGACTTAAAAAGACTAGAAA-ATGGTGAACCTATCCTAAATACCCACTTTCGAC
190 G-AACCCTAAAGGACTTAAAAAGACTAGAAAGATGATGAACCTATCCTAAATGCCCACCTTCGGC
* * * * * * *
324987 ATAAAAGCGGACTTAGTGCTAACCTAAGACTCGGTTCTAAAAAATTACGAAAATA
254 ATAAAAGCGGACCTGGTGATAACCTAGGACTCGATTCTAAGAAATTACGAAAATG
* * * *
325042 CTCGTAAGAG-ATACCTTCGACGTGAAAGT
1 CTCCTATGGGTATACCTTCGACGTAAAAGT
325071 GCTCGGAGAT
Statistics
Matches: 559, Mismatches: 76, Indels: 35
0.83 0.11 0.05
Matches are distributed among these distances:
308 1 0.00
309 3 0.01
310 27 0.05
311 95 0.17
312 210 0.38
313 145 0.26
314 51 0.09
315 27 0.05
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (308 bp):
CTCCTATGGGTATACCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACCTAAAAAGACTAGA
AAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAAACCCGGTGATGACCTAAGA
GTTGGTTCTAAAAAATTACGAAAATACCCTAAGGGATACCTTCGAAGTAAAAGTACTCGGAACCC
TAAAGGACTTAAAAAGACTAGAAAGATGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAG
CGGACCTGGTGATAACCTAGGACTCGATTCTAAGAAATTACGAAAATG
Found at i:325697 original size:128 final size:124
Alignment explanation
Indices: 325536--325906 Score: 379
Period size: 128 Copynumber: 2.9 Consensus size: 124
325526 CTCAAAAAGT
* ** * *
325536 ATCATTTCGTACCTTGATGGA-AGCCCGCCAAGATACAAAAAATTTGAAATCTTTCAATACCCCT
1 ATCATTTCGTACCTTAATGGATA--CCGAAAAGATACAAAAATTTTGAAATCTTT-TATACCCCT
* * *
325600 ACGGATATCCATAGGAATAAAAAAGATTAAAAATGATTAATATTTATTTAT-TTTTGGAAAAAAA
63 ACGGATACCCATAAGAATATAAAAGATTAAAAATGATTAATATTTATTTATGTTTT-G--AAAAA
* *
325664 ATTATTTCGTACCTTAATGGATATCCGAAAAGATACAAAAAGTTTTTAAAATCTTTTATACCCCT
1 ATCATTTCGTACCTTAATGGATA-CCGAAAAGATACAAAAA--TTTTGAAATCTTTTATACCCCT
** * * * *
325729 ATAGATACCCATATA-AATATAAAAGACTTTAAAATAATTGATATTTATTTATGTTTTGACAAA
63 ACGGATACCCATA-AGAATATAAAAGA-TTAAAAATGATTAATATTTATTTATGTTTTGAAAAA
** *
325792 ATCATTTCGTACCTTAATGGATACCTGAAAAGATACGAAGAGTTTTTGAAATCTTTTATACCCTT
1 ATCATTTCGTACCTTAATGGATACC-GAAAAGATAC-AA-AAATTTTGAAATCTTTTATACCCCT
* ** *
325857 ACGGATACCCGTAAGAATATAAGTGATTAAAAAATGATTAATGTTTATTT
63 ACGGATACCCATAAGAATATAAAAGATT-AAAAATGATTAATATTTATTT
325907 TAATTAACAA
Statistics
Matches: 201, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
127 5 0.02
128 126 0.63
129 31 0.15
130 35 0.17
131 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (124 bp):
ATCATTTCGTACCTTAATGGATACCGAAAAGATACAAAAATTTTGAAATCTTTTATACCCCTACG
GATACCCATAAGAATATAAAAGATTAAAAATGATTAATATTTATTTATGTTTTGAAAAA
Found at i:327552 original size:166 final size:165
Alignment explanation
Indices: 327265--327665 Score: 519
Period size: 166 Copynumber: 2.4 Consensus size: 165
327255 GAGTTCAATG
* * * * *
327265 ATGATATTAGATGCATTTT-AGAATT-TAAACCGAGAAAAATCCCCCTAAAAAAATTTACGGAAT
1 ATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTAAAAAAATTTACGGAAT
* * *
327328 AAAAAACACCATATTTCGGAAAAAGAAAAATTTCAAGGAAAAAATCTAAAACTCATGAAAATGAA
66 AAAAAACACCATATTTCGGAAAAAAAAAAATTTCAAGAAAAAAATCCAAAACTCATGAAAATGAA
327393 TTT-TTTTTTAAAACTGAATTCATATGAAATAAATA
131 TTTATTTTTTAAAA-TGAATTCATATGAAATAAATA
* ** * * *
327428 ATGATGTTTGATGAA-TTTAAAAATTAAAAACCAAGAAAAATCCCTTTGAAAAAATTTATGGAGT
1 ATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTAAAAAAATTTACGGAAT
* *
327492 AGAAAACACCGTATTTC-GAAAAAAAATGAGAATTTCAAGAAAAAAATCCAAAACTCATGAAAAT
66 AAAAAACACCATATTTCGGAAAAAAAA--A-AATTTCAAGAAAAAAATCCAAAACTCATGAAAAT
*
327556 GAATTTATTTTTTAAAATGAATTCCTATGAAATAAATA
128 GAATTTATTTTTTAAAATGAATTCATATGAAATAAATA
** *
327594 ATGATATTTGATGAATTTTAAAAATTAAAAATTAAGAAAAATCCTCCC-GAAAAAATTTACGG-A
1 ATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-CCCTAAAAAAATTTACGGAA
327657 TAAGAAAAC
65 TAA-AAAAC
327666 CTCGTAATTT
Statistics
Matches: 204, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
162 3 0.01
163 25 0.12
164 46 0.23
165 1 0.00
166 74 0.36
167 54 0.26
168 1 0.00
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.28
Consensus pattern (165 bp):
ATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCTAAAAAAATTTACGGAAT
AAAAAACACCATATTTCGGAAAAAAAAAAATTTCAAGAAAAAAATCCAAAACTCATGAAAATGAA
TTTATTTTTTAAAATGAATTCATATGAAATAAATA
Found at i:328868 original size:2 final size:2
Alignment explanation
Indices: 328861--328885 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
328851 AGCTTGGTTT
328861 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
328886 TTGCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:331782 original size:6 final size:6
Alignment explanation
Indices: 331771--331816 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
331761 ATTTCCCTTT
* * *
331771 TTTTTC TTTTTC TTTTTC TTCTT- TTTTTC TTCTTC TTCTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
331817 TCCTCACCCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:331795 original size:23 final size:22
Alignment explanation
Indices: 331768--331817 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
331758 TCCATTTCCC
* *
331768 TTTTTTTTCTTTTTCTTTTTCT
1 TTTTTTTTCTTCTTCTTCTTCT
331790 TCTTTTTTTCTTCTTCTTCTTCT
1 T-TTTTTTTCTTCTTCTTCTTCT
331813 TTTTT
1 TTTTT
331818 CCTCACCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTTTCTTCTTCTTCTTCT
Found at i:331797 original size:17 final size:18
Alignment explanation
Indices: 331774--331816 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
331764 TCCCTTTTTT
*
331774 TTCTTTTTCTTTTTCTTC
1 TTCTTTTTCTTCTTCTTC
331792 TT-TTTTTCTTCTTCTTC
1 TTCTTTTTCTTCTTCTTC
331809 TTCTTTTT
1 TTCTTTTT
331817 TCCTCACCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTCTTTTTCTTCTTCTTC
Found at i:331803 original size:20 final size:20
Alignment explanation
Indices: 331780--331817 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
331770 TTTTTTCTTT
*
331780 TTCTTTTTCTTCTTTTTTTC
1 TTCTTCTTCTTCTTTTTTTC
331800 TTCTTCTTCTTCTTTTTT
1 TTCTTCTTCTTCTTTTTT
331818 CCTCACCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTCTTCTTCTTCTTTTTTTC
Found at i:332402 original size:20 final size:21
Alignment explanation
Indices: 332369--332411 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
332359 TTTTTTTTGA
*
332369 TTTCTTTTTTTTTC-ATAACTT
1 TTTCTTTTTGTTTCTATAA-TT
332390 TTTC-TTTTGTTTCTATAATT
1 TTTCTTTTTGTTTCTATAATT
332410 TT
1 TT
332412 ATAATTAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTCTTTTTGTTTCTATAATT
Found at i:332407 original size:21 final size:20
Alignment explanation
Indices: 332369--332411 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
332359 TTTTTTTTGA
*
332369 TTTCTTTTTTTTTCATAACTT
1 TTTCTTTTTTTCTCATAA-TT
332390 TTTCTTTTGTTTCT-ATAATT
1 TTTCTTTT-TTTCTCATAATT
332410 TT
1 TT
332412 ATAATTAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTCTTTTTTTCTCATAATT
Found at i:333332 original size:20 final size:20
Alignment explanation
Indices: 333307--333360 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
333297 CACTACAAGC
*
333307 ATGTATCGATACATTGACTT
1 ATGTATCGATACATTAACTT
* * *
333327 ATGTATTGGTATATTAACTT
1 ATGTATCGATACATTAACTT
*
333347 AGAGTATCGATACA
1 A-TGTATCGATACA
333361 AATTGTAGAA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTAACTT
Done.