Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 53 of 143
Found at i:17126741 original size:13 final size:13
Alignment explanation
Indices: 17126723--17126762 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 13
17126713 TATTTCACCC
17126723 AAAAAAAGAGAAG
1 AAAAAAAGAGAAG
17126736 AAAAAAA-AG-A-
1 AAAAAAAGAGAAG
17126746 AAAAAAAGA-AAG
1 AAAAAAAGAGAAG
17126758 AAAAA
1 AAAAA
17126763 GGAGAGGTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.29
11 3 0.12
12 7 0.29
13 7 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAGAAG
Found at i:17126742 original size:14 final size:12
Alignment explanation
Indices: 17126723--17126762 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
17126713 TATTTCACCC
*
17126723 AAAAAAAGAGAA
1 AAAAAAAAAGAA
*
17126735 GAAAAAAAAGAA
1 AAAAAAAAAGAA
17126747 AAAAAAGAAAGAA
1 AAAAAA-AAAGAA
17126760 AAA
1 AAA
17126763 GGAGAGGTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:17126749 original size:10 final size:9
Alignment explanation
Indices: 17126733--17126763 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
17126723 AAAAAAAGAG
17126733 AAGAAAAAA
1 AAGAAAAAA
17126742 AAGAAAAAA
1 AAGAAAAAA
17126751 AAGAAAGAAA
1 AAGAAA-AAA
17126761 AAG
1 AAG
17126764 GAGAGGTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:17127752 original size:49 final size:49
Alignment explanation
Indices: 17127699--17127825 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
17127689 TATACCCTAA
* *
17127699 AGATGTGGAGGGAAAGGTT-ACAACCGCAACGGTGAACCTTGTACCTTAG
1 AGATGTGGAGGGAAAGGTTGA-AACCGCAACGGTGAACCGTGTACCATAG
* * * * *
17127748 AGATGT-GATGGGAAAGATTGAAGCCGTAACGGTGAATCGTGTACCATGG
1 AGATGTGGA-GGGAAAGGTTGAAACCGCAACGGTGAACCGTGTACCATAG
* *
17127797 AGATATGGAGGGAAAGGTTGAAGCCGCAA
1 AGATGTGGAGGGAAAGGTTGAAACCGCAA
17127826 TGGCTAGCCT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
48 2 0.03
49 60 0.92
50 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (49 bp):
AGATGTGGAGGGAAAGGTTGAAACCGCAACGGTGAACCGTGTACCATAG
Found at i:17127842 original size:98 final size:98
Alignment explanation
Indices: 17127699--17128177 Score: 480
Period size: 98 Copynumber: 4.9 Consensus size: 98
17127689 TATACCCTAA
* * *
17127699 AGATGTGGAGGGAAAGGTT-ACAACCGCAACGG-TGAACCTTGTACCTTAGAGATGTGATGGGAA
1 AGATATGGAGGGAAAGGTTGA-AGCCGCAACGGCT-AACCTTATACCTTAGAGATGTGATGGGAA
* ** * *
17127762 AGATTGAAGCCGTAACGGTGAATCGTGTACCATGG
64 AGATTGAAGCCGCAACGACGAATCTTGTACCATAG
* * * ** *
17127797 AGATATGGAGGGAAAGGTTGAAGCCGCAATGGCTAGCCTTATACCTTAGAAAAATAATGGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGCCGCAACGGCTAACCTTATACCTTAGAGATGTGATGGGAAAG
* *
17127862 ATTGAAGTCGTAAC-AGCGAATCTTGTACCATAG
66 ATTGAAGCCGCAACGA-CGAATCTTGTACCATAG
* * * * * * *
17127895 AGATATAGAGGGAAAGGTCGAACCCGCAACGACGAACCCTATACCTTAGAGATGTGATGGGAAAT
1 AGATATGGAGGGAAAGGTTGAAGCCGCAACGGCTAACCTTATACCTTAGAGATGTGATGGGAAAG
* * *
17127960 ATTGAAGCCGCAATGACAAATCTTGCACCATAG
66 ATTGAAGCCGCAACGACGAATCTTGTACCATAG
* ** * ***
17127993 AGATATGGAGGGAAATGTTGAAGCCGCAACAACGAACCTTATACCTTAGAGACCCGATGGGAAAG
1 AGATATGGAGGGAAAGGTTGAAGCCGCAACGGCTAACCTTATACCTTAGAGATGTGATGGGAAAG
* *
17128058 ATTGAAGTCGCAACGACGAATCTTGTACCATGG
66 ATTGAAGCCGCAACGACGAATCTTGTACCATAG
* * * * * ***
17128091 AGATATGGAGGGAAATGTTGAAGCTGCAA-TGATGAACCTTATACCTTAGAGATATGAAAAGAAA
1 AGATATGGAGGGAAAGGTTGAAGCCGCAACGGCT-AACCTTATACCTTAGAGATGTGATGGGAAA
* * *
17128155 GATTGAGGCTGCAACGATGAATC
65 GATTGAAGCCGCAACGACGAATC
17128178 CCATACCCTG
Statistics
Matches: 314, Mismatches: 62, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
98 311 0.99
99 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (98 bp):
AGATATGGAGGGAAAGGTTGAAGCCGCAACGGCTAACCTTATACCTTAGAGATGTGATGGGAAAG
ATTGAAGCCGCAACGACGAATCTTGTACCATAG
Found at i:17127908 original size:49 final size:49
Alignment explanation
Indices: 17127722--17128146 Score: 249
Period size: 49 Copynumber: 8.7 Consensus size: 49
17127712 AAGGTTACAA
* * * *
17127722 CCGCAACGGTGAACCTTGTACCTTAGAGATGT-GATGGGAAAGATTGAAG
1 CCGCAAC-GCGAATCTTGTACCATAGAGATATGGATGGGAAAGATTGAAG
* * * * *
17127771 CCGTAACGGTGAATCGTGTACCATGGAGATATGGA-GGGAAAGGTTGAAG
1 CCGCAAC-GCGAATCTTGTACCATAGAGATATGGATGGGAAAGATTGAAG
* * ** * * * * *
17127820 CCGCAATGGCTAGCCTTATACCTTAGAAAAAT-AATGGGAAAGATTGAAG
1 CCGCAA-CGCGAATCTTGTACCATAGAGATATGGATGGGAAAGATTGAAG
* * * * * *
17127869 TCGTAACAGCGAATCTTGTACCATAGAGATATAGA-GGGAAAGGTCGAAC
1 CCGCAAC-GCGAATCTTGTACCATAGAGATATGGATGGGAAAGATTGAAG
* * * * * *
17127918 CCGCAACGACGAACCCTATACCTTAGAGATGT-GATGGGAAATATTGAAG
1 CCGCAACG-CGAATCTTGTACCATAGAGATATGGATGGGAAAGATTGAAG
* * *
17127967 CCGCAATGACAAATCTTGCACCATAGAGATATGGA-GGGAAATG-TTGAAG
1 CCGCAACG-CGAATCTTGTACCATAGAGATATGGATGGGAAA-GATTGAAG
* * * * ***
17128016 CCGCAACAACGAACCTTATACCTTAGAGA-CCCGATGGGAAAGATTGAAG
1 CCGCAAC-GCGAATCTTGTACCATAGAGATATGGATGGGAAAGATTGAAG
* *
17128065 TCGCAACGACGAATCTTGTACCATGGAGATATGGA-GGGAAATG-TTGAAG
1 CCGCAACG-CGAATCTTGTACCATAGAGATATGGATGGGAAA-GATTGAAG
* * * * * *
17128114 CTGCAATGATGAACCTTATACCTTAGAGATATG
1 CCGCAACG-CGAATCTTGTACCATAGAGATATG
17128147 AAAAGAAAGA
Statistics
Matches: 279, Mismatches: 82, Indels: 30
0.71 0.21 0.08
Matches are distributed among these distances:
48 7 0.03
49 264 0.95
50 8 0.03
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (49 bp):
CCGCAACGCGAATCTTGTACCATAGAGATATGGATGGGAAAGATTGAAG
Found at i:17127998 original size:196 final size:195
Alignment explanation
Indices: 17127706--17128171 Score: 540
Period size: 196 Copynumber: 2.4 Consensus size: 195
17127696 TAAAGATGTG
* *
17127706 GAGGGAAAGGTTAC-AACCGCAACGGTGAACCTTGTACCTTAGAGATGTGATGGGAAAGATTGAA
1 GAGGGAAAGG-T-CGAACCGCAACGATGAACCTTATACCTTAGAGATGTGATGGGAAAGATTGAA
* *** * * *** * *
17127770 GCCGTAACGGTGAATCGTGTACCATGGAGATATGGAGGGAAAGGTTGAAGCCGCAATGGCTAGCC
64 GCCGCAACGACAAATCGTGCACCATAGAGATATGGAGGGAAAGGTTGAAGCCGCAACAACGAACC
* *
17127835 TTATACCTTAGAAAAATAATGGGAAAGATTGAAGTCGTAAC-AGCGAATCTTGTACCATAGAGAT
129 TTATACCTTAGAAAAACAATGGGAAAGATTGAAGTCGCAACGA-CGAATCTTGTACCATAGAGAT
17127899 ATA
193 ATA
* * *
17127902 GAGGGAAAGGTCGAACCCGCAACGACGAACCCTATACCTTAGAGATGTGATGGGAAATATTGAAG
1 GAGGGAAAGGTCGAA-CCGCAACGATGAACCTTATACCTTAGAGATGTGATGGGAAAGATTGAAG
* * *
17127967 CCGCAATGACAAATCTTGCACCATAGAGATATGGAGGGAAATGTTGAAGCCGCAACAACGAACCT
65 CCGCAACGACAAATCGTGCACCATAGAGATATGGAGGGAAAGGTTGAAGCCGCAACAACGAACCT
* ** * *
17128032 TATACCTTAGAGACCCGATGGGAAAGATTGAAGTCGCAACGACGAATCTTGTACCATGGAGATAT
130 TATACCTTAGAAAAACAATGGGAAAGATTGAAGTCGCAACGACGAATCTTGTACCATAGAGATAT
*
17128097 G
195 A
* * * * * *** *
17128098 GAGGGAAATGTTGAAGCTGCAATGATGAACCTTATACCTTAGAGATATGAAAAGAAAGATTGAGG
1 GAGGGAAAGGTCGAA-CCGCAACGATGAACCTTATACCTTAGAGATGTGATGGGAAAGATTGAAG
*
17128163 CTGCAACGA
65 CCGCAACGA
17128172 TGAATCCCAT
Statistics
Matches: 225, Mismatches: 42, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
194 1 0.00
195 3 0.01
196 220 0.98
197 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.21
Consensus pattern (195 bp):
GAGGGAAAGGTCGAACCGCAACGATGAACCTTATACCTTAGAGATGTGATGGGAAAGATTGAAGC
CGCAACGACAAATCGTGCACCATAGAGATATGGAGGGAAAGGTTGAAGCCGCAACAACGAACCTT
ATACCTTAGAAAAACAATGGGAAAGATTGAAGTCGCAACGACGAATCTTGTACCATAGAGATATA
Found at i:17128446 original size:40 final size:40
Alignment explanation
Indices: 17128352--17129025 Score: 450
Period size: 40 Copynumber: 17.0 Consensus size: 40
17128342 GAGAAGTTAC
* *
17128352 CACACCAATCTCTTACCCTGATCATGGGGCAGATTAAAG-
1 CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
* * * *
17128391 CA-TCCAATCTTTTACCCTAATGA-GAGGGCAGATTCAAGA
1 CACACCAATCTCTTACCCTAATCATG-GGGCAGATTGAAGA
** * * *
17128430 CACACCAATCTCTTACCCCGATCATGGAGTAGTTTGAAG-
1 CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
* * *
17128469 CA-TCCAATCTTTTACCCTAATCA-GAGGGTAGATTGAAGA
1 CACACCAATCTCTTACCCTAATCATG-GGGCAGATTGAAGA
* ** *
17128508 CACATCAATCTCTTACCCCGATCATGGGGCAAATTGAAG-
1 CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
* * * * **
17128547 CA-TCTAATCTTTTACCCTAATAAAAGGGCAGATTGAAGA
1 CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
** * *
17128586 CACACCAATCTCTTACCCCGATCATGGAGTAGATTGAAG-
1 CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
* * *
17128625 CA-TCCAATCTTTTACCCTAATCA-GAGGGCAGATTAAAGA
1 CACACCAATCTCTTACCCTAATCATG-GGGCAGATTGAAGA
* ** * *
17128664 CACACCAATCTTTTACCCTAATCAAAGGGCAGATTAAAAA
1 CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
* * *
17128704 CACAGCAATCTCTTACCCCAATCATGGAGCAGATTGAA-A
1 CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
* * * * * *
17128743 CA-TCCAATCTCTTACCCCGAA-CATAGGGCAAATTAAAGT
1 CACACCAATCTCTTA-CCCTAATCATGGGGCAGATTGAAGA
* * * * *
17128782 CA-TCCAATCTTTTACCCTAATTA-GAGGGAAAATTGAAGA
1 CACACCAATCTCTTACCCTAATCATG-GGGCAGATTGAAGA
* * ** *
17128821 CACAGCAATCTCTAACCCCGATCATGGGGTAGATT-AAGGA
1 CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAA-GA
*
17128861 C-CATCCAATCTCTTACCCCAATCATGGGGCAGATTGAAGA
1 CACA-CCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
* * * * *
17128901 CATCATCCAATCTATTACCCCAATCATGGAGAAGATTGAAGT
1 CA-CA-CCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
* * ** * * **
17128943 CA-TCTAATCTCTTACCCCGACCATGGGGCAAATTGAACC
1 CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
* *
17128982 CACAATCCAATCTTTTACCCTTAAATCAAGAGGGCAGATTGAAG
1 CAC-A-CCAATCTCTTACCC-T-AATCATG-GGGCAGATTGAAG
17129026 CTCCCATCTC
Statistics
Matches: 489, Mismatches: 115, Indels: 56
0.74 0.17 0.08
Matches are distributed among these distances:
37 3 0.01
38 137 0.28
39 84 0.17
40 196 0.40
41 5 0.01
42 49 0.10
44 4 0.01
45 11 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
CACACCAATCTCTTACCCTAATCATGGGGCAGATTGAAGA
Found at i:17128481 original size:78 final size:78
Alignment explanation
Indices: 17128352--17128959 Score: 647
Period size: 78 Copynumber: 7.7 Consensus size: 78
17128342 GAGAAGTTAC
* * * *
17128352 CACACCAATCTCTTACCCTGATCATGGGGCAGATTAAAGCATCCAATCTTTTACCCTAATGAGAG
1 CACACCAATCTCTTACCCCGATCATGGAGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAG
*
17128417 GGCAGATTCAAGA
66 GGCAGATTGAAGA
* *
17128430 CACACCAATCTCTTACCCCGATCATGGAGTAGTTTGAAGCATCCAATCTTTTACCCTAATCAGAG
1 CACACCAATCTCTTACCCCGATCATGGAGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAG
*
17128495 GGTAGATTGAAGA
66 GGCAGATTGAAGA
* * * * * *
17128508 CACATCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCTAATCTTTTACCCTAATAAAAG
1 CACACCAATCTCTTACCCCGATCATGGAGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAG
17128573 GGCAGATTGAAGA
66 GGCAGATTGAAGA
*
17128586 CACACCAATCTCTTACCCCGATCATGGAGTAGATTGAAGCATCCAATCTTTTACCCTAATCAGAG
1 CACACCAATCTCTTACCCCGATCATGGAGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAG
*
17128651 GGCAGATTAAAGA
66 GGCAGATTGAAGA
* ** * * * * *
17128664 CACACCAATCTTTTACCCTAATCAAAGG-GCAGATTAAAAACA-CAGCAATCTCTTACCCCAATC
1 CACACCAATCTCTTACCCCGATC-ATGGAGCAGATT-GAAGCATC--CAATCTTTTACCCTAATC
*
17128727 ATG-GAGCAGATTGAA-A
62 A-GAGGGCAGATTGAAGA
* * * * *
17128743 CA-TCCAATCTCTTACCCCGAACATAGG-GCAAATTAAAGTCATCCAATCTTTTACCCTAATTAG
1 CACACCAATCTCTTACCCCGATCAT-GGAGCAGATTGAAG-CATCCAATCTTTTACCCTAATCAG
* *
17128806 AGGGAAAATTGAAGA
64 AGGGCAGATTGAAGA
* * * * * *
17128821 CACAGCAATCTCTAACCCCGATCATGGGGTAGATT-AAGGACCATCCAATCTCTTACCCCAATCA
1 CACACCAATCTCTTACCCCGATCATGGAGCAGATTGAA-G--CATCCAATCTTTTACCCTAATCA
17128885 TG-GGGCAGATTGAAGA
63 -GAGGGCAGATTGAAGA
* * * * *
17128901 CATCATCCAATCTATTACCCCAATCATGGAGAAGATTGAAGTCATCTAATCTCTTACCC
1 CA-CA-CCAATCTCTTACCCCGATCATGGAGCAGATTGAAG-CATCCAATCTTTTACCC
17128960 CGACCATGGG
Statistics
Matches: 442, Mismatches: 70, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
76 1 0.00
77 29 0.07
78 268 0.61
79 35 0.08
80 61 0.14
81 20 0.05
82 26 0.06
83 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (78 bp):
CACACCAATCTCTTACCCCGATCATGGAGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAG
GGCAGATTGAAGA
Found at i:17128602 original size:118 final size:118
Alignment explanation
Indices: 17128352--17128904 Score: 493
Period size: 118 Copynumber: 4.7 Consensus size: 118
17128342 GAGAAGTTAC
** * * * * * *
17128352 CACACCAATCTCTTACCCTGATCATGGGGCAGATTAAAG-CATCCAATCTTTTACCCTAATGA-G
1 CACACCAATCTCTTACCCCAATCATGGAGTAGATTGAAGACATCCAATCTCTTACCCCAATCATG
* * * * ** * * * *
17128415 AGGGCAGATTCAAGACACACCAATCTCTTACCCCGAT-CATGGAGTAGTTTGAAG-
66 -GGGCAAATTAAAGACA-TCCAATCTTTTACCCTAATAAAAGG-GCAGATTGAAGA
* * * * *
17128469 CA-TCCAATCTTTTACCCTAATCA-GAGGGTAGATTGAAGACA-CATCAATCTCTTACCCCGATC
1 CACACCAATCTCTTACCCCAATCATG-GAGTAGATTGAAGACATC--CAATCTCTTACCCCAATC
* *
17128531 ATGGGGCAAATTGAAG-CATCTAATCTTTTACCCTAATAAAAGGGCAGATTGAAGA
63 ATGGGGCAAATTAAAGACATCCAATCTTTTACCCTAATAAAAGGGCAGATTGAAGA
* * *
17128586 CACACCAATCTCTTACCCCGATCATGGAGTAGATTGAAG-CATCCAATCTTTTACCCTAATCA-G
1 CACACCAATCTCTTACCCCAATCATGGAGTAGATTGAAGACATCCAATCTCTTACCCCAATCATG
* * * * *
17128649 AGGGCAGATTAAAGACACACCAATCTTTTACCCTAATCAAAGGGCAGATTAAAAA
66 -GGGCAAATTAAAGACA-TCCAATCTTTTACCCTAATAAAAGGGCAGATTGAAGA
* *
17128704 CACAGCAATCTCTTACCCCAATCATGGAGCAGATTGAA-ACATCCAATCTCTTACCCCGAA-CAT
1 CACACCAATCTCTTACCCCAATCATGGAGTAGATTGAAGACATCCAATCTCTTACCCC-AATCAT
* * * * * *
17128767 AGGGCAAATTAAAGTCATCCAATCTTTTACCCTAATTAGAGGGAAAATTGAAGA
65 GGGGCAAATTAAAGACATCCAATCTTTTACCCTAATAAAAGGGCAGATTGAAGA
* * * *
17128821 CACAGCAATCTCTAACCCCGATCATGGGGTAGATT-AAGGACCATCCAATCTCTTACCCCAATCA
1 CACACCAATCTCTTACCCCAATCATGGAGTAGATTGAA-GA-CATCCAATCTCTTACCCCAATCA
* *
17128885 TGGGGCAGATTGAAGACATC
64 TGGGGCAAATTAAAGACATC
17128905 ATCCAATCTA
Statistics
Matches: 358, Mismatches: 58, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
115 2 0.01
116 82 0.23
117 76 0.21
118 158 0.44
119 40 0.11
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (118 bp):
CACACCAATCTCTTACCCCAATCATGGAGTAGATTGAAGACATCCAATCTCTTACCCCAATCATG
GGGCAAATTAAAGACATCCAATCTTTTACCCTAATAAAAGGGCAGATTGAAGA
Found at i:17151594 original size:40 final size:40
Alignment explanation
Indices: 17151454--17151975 Score: 396
Period size: 40 Copynumber: 13.2 Consensus size: 40
17151444 TAAGGTTAAA
* * *
17151454 AGATTGGATGATGTCTTCAATCGGCCTCATGATCGGGGTAAG
1 AGATTGG-T-ATGTCTTCAATCTGCCCCATGATCAGGGTAAG
* * * *
17151496 AGATTGGTTGATGTCTTTAATCTACCCTC-TGATTAGGGTAAA
1 AGATTGG-T-ATGTCTTCAATCTGCCC-CATGATCAGGGTAAG
* * *
17151538 ACACTGG-ATG-CTTCAATCTGCCCCATGATCGGGGTAAG
1 AGATTGGTATGTCTTCAATCTGCCCCATGATCAGGGTAAG
* ** * *
17151576 AGATTGGTGTGTCTTCAAT-TCGCCCTTTGATTAGGGTAAA
1 AGATTGGTATGTCTTCAATCT-GCCCCATGATCAGGGTAAG
17151616 AGATTGG-ATG-CTTCAATCTGCCCCATGATCAGGGTAAG
1 AGATTGGTATGTCTTCAATCTGCCCCATGATCAGGGTAAG
* * * * * * *
17151654 AGGTTGTTGTGTCTTCAATTTTCCCTC-TGATTAGGGTAAA
1 AGATTGGTATGTCTTCAATCTGCCC-CATGATCAGGGTAAG
* * *
17151694 AGATTGG-ATG-CTTTAATTTACCCCATGATCAGGGTAAG
1 AGATTGGTATGTCTTCAATCTGCCCCATGATCAGGGTAAG
* ** * * * *
17151732 AGATTGGTGTGTCTTTGATCTACCTTC-TGATTAGGGTAAA
1 AGATTGGTATGTCTTCAATCTGCC-CCATGATCAGGGTAAG
* *
17151772 AGACTGG-ATG-CTTCAATCTGCCCTATGATC-GAGGTAAG
1 AGATTGGTATGTCTTCAATCTGCCCCATGATCAG-GGTAAG
* *
17151810 AGATTGGTATGTCTTTAATCTGCCCTC-TGATTAGGGTAA-
1 AGATTGGTATGTCTTCAATCTGCCC-CATGATCAGGGTAAG
* *
17151849 ATATTGG-ATG-CTTCAATTTGCCCCATGATC-GAGGTAAG
1 AGATTGGTATGTCTTCAATCTGCCCCATGATCAG-GGTAAG
* * * *
17151887 AGATTGGTGTGTCTTCGATCTGCCCCATGGTCGGGGTAAG
1 AGATTGGTATGTCTTCAATCTGCCCCATGATCAGGGTAAG
* * *
17151927 AGATTGGATAATATCTTCAATCAGCCCCATGATCGGGGTAAG
1 AGATTGG-T-ATGTCTTCAATCTGCCCCATGATCAGGGTAAG
17151969 AGATTGG
1 AGATTGG
17151976 CTGGTGGCTT
Statistics
Matches: 378, Mismatches: 75, Indels: 54
0.75 0.15 0.11
Matches are distributed among these distances:
36 2 0.01
37 23 0.06
38 115 0.30
39 28 0.07
40 133 0.35
41 5 0.01
42 71 0.19
43 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
AGATTGGTATGTCTTCAATCTGCCCCATGATCAGGGTAAG
Found at i:17151630 original size:78 final size:78
Alignment explanation
Indices: 17151463--17151989 Score: 610
Period size: 78 Copynumber: 6.7 Consensus size: 78
17151453 AAGATTGGAT
* * * *
17151463 GATGTCTTCAATCGGCCTCATGATCGGGGTAAGAGATTGGTTGATGTCTTTAATCTACCCTCTGA
1 GATG-CTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-TG-TGTCTTCAATCTGCCCTCTGA
* *
17151528 TTAGGGTAAAACACTG
63 TTAGGGTAAAAGATTG
*
17151544 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAAT-TCGCCCTTTGATT
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCT-GCCCTCTGATT
17151608 AGGGTAAAAGATTG
65 AGGGTAAAAGATTG
* * * * *
17151622 GATGCTTCAATCTGCCCCATGATCAGGGTAAGAGGTTGTTGTGTCTTCAATTTTCCCTCTGATTA
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTA
17151687 GGGTAAAAGATTG
66 GGGTAAAAGATTG
* * * * ** * *
17151700 GATGCTTTAATTTACCCCATGATCAGGGTAAGAGATTGGTGTGTCTTTGATCTACCTTCTGATTA
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTA
*
17151765 GGGTAAAAGACTG
66 GGGTAAAAGATTG
* * * *
17151778 GATGCTTCAATCTGCCCTATGATCGAGGTAAGAGATTGGTATGTCTTTAATCTGCCCTCTGATTA
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTA
*
17151843 GGGT-AAATATTG
66 GGGTAAAAGATTG
* * * * *
17151855 GATGCTTCAATTTGCCCCATGATCGAGGTAAGAGATTGGTGTGTCTTCGATCTGCCC-CATGGTC
1 GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTC-TGATT
* *
17151919 GGGGTAAGAGATTG
65 AGGGTAAAAGATTG
* * *
17151933 GATAATATCTTCAATCAGCCCCATGATCGGGGTAAGAGATTGGCTGGTGGCTTCAAT
1 G---AT-GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-T-GTGTCTTCAAT
17151990 TTGCTCTTCT
Statistics
Matches: 385, Mismatches: 51, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
76 1 0.00
77 66 0.17
78 234 0.61
79 3 0.01
80 33 0.09
81 6 0.02
82 32 0.08
83 1 0.00
84 9 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (78 bp):
GATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTA
GGGTAAAAGATTG
Found at i:17152164 original size:42 final size:42
Alignment explanation
Indices: 17152117--17152225 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
17152107 TAGGGATGTA
*
17152117 AGATTCACCTTTACAGCTTCAATCTAGCCTTT-TACAG-CTTTG
1 AGATTCACCTTTACGGCTTCAATCT-GCCTTTCTACAGTC-TTG
* ** *
17152159 AGATTCGCCTTTTTGGCTTCAATCTGCTTTTCTACAGTCTTG
1 AGATTCACCTTTACGGCTTCAATCTGCCTTTCTACAGTCTTG
17152201 AGATTCACCTTTACGGCTTCAATCT
1 AGATTCACCTTTACGGCTTCAATCT
17152226 TTCCTTTCAC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 5 0.09
42 51 0.89
43 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.40
Consensus pattern (42 bp):
AGATTCACCTTTACGGCTTCAATCTGCCTTTCTACAGTCTTG
Found at i:17153394 original size:13 final size:13
Alignment explanation
Indices: 17153376--17153420 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
17153366 TCGACCTCTC
17153376 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
17153389 CTTTTT-TTTCTTT
1 CTTTTTCTTT-TTT
*
17153402 CTTTTCCTTTTTT
1 CTTTTTCTTTTTT
*
17153415 ATTTTT
1 CTTTTT
17153421 TTGGGTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 3 0.11
13 21 0.78
14 3 0.11
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:17158447 original size:30 final size:30
Alignment explanation
Indices: 17158413--17158593 Score: 163
Period size: 30 Copynumber: 6.1 Consensus size: 30
17158403 AGGAAAAATA
* *
17158413 GGGTCAAAAATGAAATTTTAGAAAGTTTGG
1 GGGTCAAAAATGAAATTTTGGAAAGTTTAG
*
17158443 GGGTCAAAAATGAAATTTTGGAATA-TTTTG
1 GGGTCAAAAATGAAATTTTGGAA-AGTTTAG
* * * * **
17158473 GCGTC-AAATTCAAATTTTGGAAAGATCGG
1 GGGTCAAAAATGAAATTTTGGAAAGTTTAG
* * *
17158502 GGGTC-AAATTCAAATTTTTGGAAAGTTCAG
1 GGGTCAAAAATGAAA-TTTTGGAAAGTTTAG
17158532 GGGTCAAAAATGAAATTTTGGAAAGTTTA-
1 GGGTCAAAAATGAAATTTTGGAAAGTTTAG
** * **
17158561 GGGTCAAATTTGAATTTTTAAAAAGTTTAG
1 GGGTCAAAAATGAAATTTTGGAAAGTTTAG
17158591 GGG
1 GGG
17158594 CTAAAGTATC
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
28 1 0.01
29 54 0.43
30 64 0.50
31 8 0.06
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (30 bp):
GGGTCAAAAATGAAATTTTGGAAAGTTTAG
Found at i:17158565 original size:59 final size:59
Alignment explanation
Indices: 17158413--17158593 Score: 170
Period size: 59 Copynumber: 3.1 Consensus size: 59
17158403 AGGAAAAATA
* * * *
17158413 GGGTCAAAAATGAAATTTTAGAAAGTTTGGGGGTCAAAAATGAAA-TTTTGGAATA-TTTTG
1 GGGTCAAAAATGAAATTTTGGAAAGTTT-GGGGTC-AAATTCAAATTTTTGGAA-AGTTTAG
* * * ** *
17158473 GCGTC-AAATTCAAATTTTGGAAAGATCGGGGGTCAAATTCAAATTTTTGGAAAGTTCAG
1 GGGTCAAAAATGAAATTTTGGAAAG-TTTGGGGTCAAATTCAAATTTTTGGAAAGTTTAG
* ** **
17158532 GGGTCAAAAATGAAATTTTGGAAAGTTTAGGGTCAAATTTGAATTTTTAAAAAGTTTAG
1 GGGTCAAAAATGAAATTTTGGAAAGTTTGGGGTCAAATTCAAATTTTTGGAAAGTTTAG
17158591 GGG
1 GGG
17158594 CTAAAGTATC
Statistics
Matches: 96, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
58 8 0.08
59 66 0.69
60 22 0.23
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (59 bp):
GGGTCAAAAATGAAATTTTGGAAAGTTTGGGGTCAAATTCAAATTTTTGGAAAGTTTAG
Found at i:17160809 original size:26 final size:28
Alignment explanation
Indices: 17160754--17160809 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
17160744 TTTTTCGAGC
* *
17160754 TTGAGTACTCATGCTCTCTTTTTTTCTT
1 TTGAGTACTCATGCTCTCATTCTTTCTT
17160782 TTGAGTACAT-ATGCTCT-ATTCTTT-TT
1 TTGAGTAC-TCATGCTCTCATTCTTTCTT
17160808 TT
1 TT
17160810 AGCATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.16
27 5 0.20
28 15 0.60
29 1 0.04
ACGTcount: A:0.14, C:0.18, G:0.11, T:0.57
Consensus pattern (28 bp):
TTGAGTACTCATGCTCTCATTCTTTCTT
Found at i:17170121 original size:19 final size:20
Alignment explanation
Indices: 17170099--17170140 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
17170089 AGTAGGCATG
*
17170099 AAAATAGATAAA-AAATAAT
1 AAAATACATAAATAAATAAT
17170118 AAAATACATAAATAAATAAT
1 AAAATACATAAATAAATAAT
17170138 AAA
1 AAA
17170141 TTAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAATACATAAATAAATAAT
Found at i:17172253 original size:50 final size:50
Alignment explanation
Indices: 17172153--17172253 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
17172143 CTTATGTTTT
* * * *
17172153 AATCTGCCCCTCTACAACTTTAGGGGTATAAGATTTGCTTCTGTAGCTTC
1 AATCTACCCCTCTACAACTTTAGGGGTATAAGATTCGCGTCTGTAACTTC
* * *
17172203 AATCTACCCTTCTACAGCTTTAGGGGTATAAGATTCGAGGT-TGTAACTTC
1 AATCTACCCCTCTACAACTTTAGGGGTATAAGATTCG-CGTCTGTAACTTC
17172253 A
1 A
17172254 CTCCATTCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 42 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (50 bp):
AATCTACCCCTCTACAACTTTAGGGGTATAAGATTCGCGTCTGTAACTTC
Found at i:17184023 original size:20 final size:20
Alignment explanation
Indices: 17183998--17184040 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
17183988 AATAGGCATG
*
17183998 AAAATAGATAACA-AAATAAT
1 AAAATACATAA-ATAAATAAT
17184018 AAAATACATAAATAAATAAT
1 AAAATACATAAATAAATAAT
17184038 AAA
1 AAA
17184041 TAAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAATACATAAATAAATAAT
Found at i:17184041 original size:11 final size:11
Alignment explanation
Indices: 17184019--17184052 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
17184009 CAAAATAATA
17184019 AAATACATAAAT
1 AAATA-ATAAAT
17184031 AAATAATAAAT
1 AAATAATAAAT
17184042 AAAT-ATAAAT
1 AAATAATAAAT
17184052 A
1 A
17184053 TAAAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 10 0.45
12 5 0.23
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:17189525 original size:53 final size:53
Alignment explanation
Indices: 17189229--17189528 Score: 327
Period size: 53 Copynumber: 5.7 Consensus size: 53
17189219 TTCGCATTTG
* * *
17189229 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCATGAT-GGATTCGT
1 ATAACTCACGATGACACAAAGTCATCAGACCTTTAATCCATGATAGGATTCAT
* * * ** * * *
17189281 GTATCTCATGATGACACAAAGTCATTGGACCCTTAATCCATAATAAGATTCAT
1 ATAACTCACGATGACACAAAGTCATCAGACCTTTAATCCATGATAGGATTCAT
* * *
17189334 ATAACTCACGATGACACATAGTCTTCAGGCCTTTAATCCATGATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCAGACCTTTAATCCATGATAGGATTCAT
* * ***
17189387 ATAACTCATGATGACACATAGTCATC-GAACCTTTAATATGTGATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCAG-ACCTTTAATCCATGATAGGATTCAT
* * * * *
17189440 ATAACTCACGATGACACAGAGCCAT-AGAACCTTTACTCCGTGATAGGAGTCAT
1 ATAACTCACGATGACACAAAGTCATCAG-ACCTTTAATCCATGATAGGATTCAT
* *
17189493 ATAACTCACGATGACATAAAGTAATCAGACCTTTAA
1 ATAACTCACGATGACACAAAGTCATCAGACCTTTAA
17189529 GCTTTGGCAC
Statistics
Matches: 206, Mismatches: 38, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
52 38 0.18
53 166 0.81
54 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (53 bp):
ATAACTCACGATGACACAAAGTCATCAGACCTTTAATCCATGATAGGATTCAT
Found at i:17189526 original size:159 final size:158
Alignment explanation
Indices: 17189229--17189528 Score: 366
Period size: 159 Copynumber: 1.9 Consensus size: 158
17189219 TTCGCATTTG
* * * * * *
17189229 ATAACTCACGATGACACAGAGTCATCGGACCTTTAATCCATGATGGATTCGTGTATCTCATGATG
1 ATAACTCACGATGACACAGAGTCATCGAACCTTTAATACATGATGGATTCATATAACTCACGATG
* * * * * **
17189294 ACACAAAGTCATTGGACCCTTAATCCATAATAAGATTCATATAACTCACGATGACACATAGTCTT
66 ACACAAAGCCATAGAACCCTTAATCCATAATAAGAGTCATATAACTCACGATGACACAAAGTAAT
*
17189359 CAGGCCTTTAATCCATGATAGGATTCAT
131 CAGACCTTTAATCCATGATAGGATTCAT
* * **
17189387 ATAACTCATGATGACACATAGTCATCGAACCTTTAATATGTGATAGGATTCATATAACTCACGAT
1 ATAACTCACGATGACACAGAGTCATCGAACCTTTAATACATGAT-GGATTCATATAACTCACGAT
* * * * * * *
17189452 GACACAGAGCCATAGAACCTTTACTCCGTGATAGGAGTCATATAACTCACGATGACATAAAGTAA
65 GACACAAAGCCATAGAACCCTTAATCCATAATAAGAGTCATATAACTCACGATGACACAAAGTAA
17189517 TCAGACCTTTAA
130 TCAGACCTTTAA
17189529 GCTTTGGCAC
Statistics
Matches: 116, Mismatches: 25, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
158 38 0.33
159 78 0.67
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (158 bp):
ATAACTCACGATGACACAGAGTCATCGAACCTTTAATACATGATGGATTCATATAACTCACGATG
ACACAAAGCCATAGAACCCTTAATCCATAATAAGAGTCATATAACTCACGATGACACAAAGTAAT
CAGACCTTTAATCCATGATAGGATTCAT
Found at i:17195808 original size:21 final size:21
Alignment explanation
Indices: 17195784--17195840 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
17195774 AGTGCAGACC
17195784 TCTACCGATACAAGTGACCCT
1 TCTACCGATACAAGTGACCCT
* *
17195805 TCTACCTATACAAGTGACTCT
1 TCTACCGATACAAGTGACCCT
* *
17195826 TCTACTGAAACAAGT
1 TCTACCGATACAAGT
17195841 TTTATTTCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (21 bp):
TCTACCGATACAAGTGACCCT
Found at i:17196592 original size:53 final size:53
Alignment explanation
Indices: 17196524--17196823 Score: 390
Period size: 53 Copynumber: 5.7 Consensus size: 53
17196514 TGCATTTGAC
* *
17196524 AACTCACGATGACACAAAGTCGTCGGACCCTTAATCCGTAATAGGATTCATAT
1 AACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATAT
* **
17196577 AACTTACGATGACACATAA-TCATTAGACCTTTAATCCGTAATAGGATTCATAT
1 AACTCACGATGACACA-AAGTCATCGGACCTTTAATCCGTAATAGGATTCATAT
* * * * *
17196630 AACTTACGATGACACATAGTCATCAGACCTTTAATCCAT-ATAAGATTCATAT
1 AACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATAT
* *
17196682 AACTCACGATGACACATAA-TCATTGGACCTTTAATCCGTGATAGGATTCATAT
1 AACTCACGATGACACA-AAGTCATCGGACCTTTAATCCGTAATAGGATTCATAT
* * * *
17196735 AACTCACGATGACACAGAGTCATAGGACCTTTAATCCATGATAGGATTCATAT
1 AACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATAT
* * *
17196788 AACTCACAATGACACAGAGTCATCGGACCTTCAATC
1 AACTCACGATGACACAAAGTCATCGGACCTTTAATC
17196824 TTTGACACAA
Statistics
Matches: 221, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
52 46 0.21
53 173 0.78
54 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (53 bp):
AACTCACGATGACACAAAGTCATCGGACCTTTAATCCGTAATAGGATTCATAT
Found at i:17196691 original size:105 final size:106
Alignment explanation
Indices: 17196524--17196803 Score: 420
Period size: 105 Copynumber: 2.7 Consensus size: 106
17196514 TGCATTTGAC
* * * * *
17196524 AACTCACGATGACACAAAGTCGTCGGACCCTTAATCCGTAATAGGATTCATATAACTTACGATGA
1 AACTCACGATGACACAAAGTCATCAGACCTTTAATCCATAATAGGATTCATATAACTCACGATGA
17196589 CACATAATCATTAGACCTTTAATCCGTAATAGGATTCATAT
66 CACATAATCATTAGACCTTTAATCCGTAATAGGATTCATAT
* * *
17196630 AACTTACGATGACACATAGTCATCAGACCTTTAATCCAT-ATAAGATTCATATAACTCACGATGA
1 AACTCACGATGACACAAAGTCATCAGACCTTTAATCCATAATAGGATTCATATAACTCACGATGA
* *
17196694 CACATAATCATTGGACCTTTAATCCGTGATAGGATTCATAT
66 CACATAATCATTAGACCTTTAATCCGTAATAGGATTCATAT
* * *
17196735 AACTCACGATGACACAGAGTCAT-AGGACCTTTAATCCATGATAGGATTCATATAACTCACAATG
1 AACTCACGATGACACAAAGTCATCA-GACCTTTAATCCATAATAGGATTCATATAACTCACGATG
17196799 ACACA
65 ACACA
17196804 GAGTCATCGG
Statistics
Matches: 158, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
104 1 0.01
105 97 0.61
106 60 0.38
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.28
Consensus pattern (106 bp):
AACTCACGATGACACAAAGTCATCAGACCTTTAATCCATAATAGGATTCATATAACTCACGATGA
CACATAATCATTAGACCTTTAATCCGTAATAGGATTCATAT
Found at i:17196790 original size:158 final size:158
Alignment explanation
Indices: 17196524--17196823 Score: 442
Period size: 158 Copynumber: 1.9 Consensus size: 158
17196514 TGCATTTGAC
* *
17196524 AACTCACGATGACACAAAGTCGTCGGACCCTTAATCCGTAATAGGATTCATATAACTTACGATGA
1 AACTCACGATGACACAAAGTCATCGGACCCTTAATCCGTAATAGGATTCATATAACTCACGATGA
* * * * *
17196589 CACATAATCATTAGACCTTTAATCCGTAATAGGATTCATATAACTTACGATGACACATAGTCATC
66 CACAGAATCATTAGACCTTTAATCCATAATAGGATTCATATAACTCACAATGACACAGAGTCATC
*
17196654 AGACCTTTAATCCATATAAGATTCATAT
131 AGACCTTCAATCCATATAAGATTCATAT
* * *
17196682 AACTCACGATGACACATAA-TCATTGGACCTTTAATCCGTGATAGGATTCATATAACTCACGATG
1 AACTCACGATGACACA-AAGTCATCGGACCCTTAATCCGTAATAGGATTCATATAACTCACGATG
* *
17196746 ACACAGAGTCA-TAGGACCTTTAATCCATGATAGGATTCATATAACTCACAATGACACAGAGTCA
65 ACACAGAATCATTA-GACCTTTAATCCATAATAGGATTCATATAACTCACAATGACACAGAGTCA
*
17196810 TCGGACCTTCAATC
129 TCAGACCTTCAATC
17196824 TTTGACACAA
Statistics
Matches: 126, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
157 2 0.02
158 122 0.97
159 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (158 bp):
AACTCACGATGACACAAAGTCATCGGACCCTTAATCCGTAATAGGATTCATATAACTCACGATGA
CACAGAATCATTAGACCTTTAATCCATAATAGGATTCATATAACTCACAATGACACAGAGTCATC
AGACCTTCAATCCATATAAGATTCATAT
Found at i:17199611 original size:19 final size:20
Alignment explanation
Indices: 17199587--17199651 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
17199577 AATATTTTTT
17199587 TCAT-AAAAATGAT-TAAAAA
1 TCATAAAAAAT-ATATAAAAA
17199606 TCATAAAAAATATATAAAAA
1 TCATAAAAAATATATAAAAA
**
17199626 TCGGAAAAAAT-TATAAAAA
1 TCATAAAAAATATATAAAAA
17199645 T-ATAAAA
1 TCATAAAA
17199652 TGTATTACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 4 0.10
19 15 0.38
20 21 0.52
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (20 bp):
TCATAAAAAATATATAAAAA
Found at i:17200153 original size:9 final size:9
Alignment explanation
Indices: 17200134--17200192 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
17200124 TAGTTTTTAC
*
17200134 AATTTTTAT
1 AATTTTAAT
17200143 AATTTTAAT
1 AATTTTAAT
*
17200152 AAGTTTATATT
1 AA-TTT-TAAT
17200163 AATTTTAAT
1 AATTTTAAT
*
17200172 ATTTTTAAT
1 AATTTTAAT
17200181 -A-TTTAAT
1 AATTTTAAT
17200188 -ATTTT
1 AATTTT
17200193 TTTTATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
7 7 0.17
8 3 0.07
9 21 0.50
10 6 0.14
11 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
AATTTTAAT
Found at i:17200163 original size:38 final size:39
Alignment explanation
Indices: 17200090--17200168 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 39
17200080 TATAAAAAAA
* * * *
17200090 TTTATAATTTATTATATATTTTTATAGTATGTATTAGTT
1 TTTACAATTTATTATATATTTTAATAGTATATATTAATT
*
17200129 TTTACAATTT-TTATA-ATTTTAATAAGTTTATATTAATT
1 TTTACAATTTATTATATATTTTAAT-AGTATATATTAATT
17200167 TT
1 TT
17200169 AATATTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
37 7 0.21
38 18 0.53
39 9 0.26
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (39 bp):
TTTACAATTTATTATATATTTTAATAGTATATATTAATT
Found at i:17200167 original size:29 final size:28
Alignment explanation
Indices: 17200134--17200204 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
17200124 TAGTTTTTAC
17200134 AATTTTTATAATTTTAATAAGTTT-ATATT
1 AATTTTTATAATTTTAAT-A-TTTAATATT
* *
17200163 AATTTTAATATTTTTAATATTTAATATT
1 AATTTTTATAATTTTAATATTTAATATT
*
17200191 -TTTTTTATAATTTT
1 AATTTTTATAATTTT
17200205 TTATTTTTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 14 0.39
28 6 0.17
29 16 0.44
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
AATTTTTATAATTTTAATATTTAATATT
Found at i:17200178 original size:20 final size:18
Alignment explanation
Indices: 17200135--17200193 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 18
17200125 AGTTTTTACA
17200135 ATTTTT-ATAATTTTAAT
1 ATTTTTAATAATTTTAAT
* *
17200152 AAGTTTATATTAATTTTAAT
1 -A-TTTTTAATAATTTTAAT
17200172 ATTTTTAAT-A-TTTAAT
1 ATTTTTAATAATTTTAAT
17200188 ATTTTT
1 ATTTTT
17200194 TTTATAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 12 0.34
17 1 0.03
18 7 0.20
19 5 0.14
20 10 0.29
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTAATAATTTTAAT
Found at i:17203811 original size:11 final size:11
Alignment explanation
Indices: 17203795--17203824 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
17203785 AGTTTAGCTT
17203795 TGGGTTTGTAA
1 TGGGTTTGTAA
17203806 TGGGTTTGTAA
1 TGGGTTTGTAA
17203817 TGGGTTTG
1 TGGGTTTG
17203825 AGGTAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (11 bp):
TGGGTTTGTAA
Found at i:17222913 original size:146 final size:145
Alignment explanation
Indices: 17222712--17223134 Score: 520
Period size: 146 Copynumber: 2.9 Consensus size: 145
17222702 ATGTGTGGAT
* * * * * * *
17222712 TTTTTAAAAATAAAAATGTATTTTTTATTTATTTTAAAGGAAAAAGTTTAGATTTTTAAACAAAG
1 TTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAAATTTAAATTTTTAAATAAAG
* *
17222777 TTTTTATTTTTTTAACTATTTCGAAATAAAAGATTTGATTTTTAAGAAAAGTAATAATTTTTTTA
66 TTTTGATTTTTTTAACTATTTCAAAATAAAAG-TTTGATTTTTAAGAAAAGTAATAATTTTTTTA
17222842 AAAAA-AAACTTTAGA
130 AAAAAGAAACTTTAGA
* * *
17222857 TTTTTAAAAATAAAGATATGTTTTTTAGTCATTTAAAAGAAAAAAAATTTAAATTTTTAAATAAA
1 TTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAG-GAAAAAATTTAAATTTTTAAATAAA
* * *
17222922 GTTTTGATTTTTTTAACTATTTTAAAATAAAAGTTCTAATTTTTAAGAAAAGTAGTAATTTTTTT
65 GTTTTGATTTTTTTAACTATTTCAAAATAAAAGTT-TGATTTTTAAGAAAAGTAATAA-TTTTTT
*
17222987 TAAAACAAAAAGAAAGTTTAGA
128 T---A-AAAAAGAAACTTTAGA
* *
17223009 -TTTTAAAAATAAAAATCTGTTTTTTAGTCATTTTAAAGGAAAAAATTTAAATTTTTAAATAAAA
1 TTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAAATTTAAATTTTTAAATAAAG
* * *
17223073 TTTTGATTTTTTT---TA--TCAAAATAAAAGCTTTG-TCTTTAAGAAAATTAATGATTTTTTTA
66 TTTTGATTTTTTTAACTATTTCAAAATAAAAG-TTTGATTTTTAAGAAAAGTAATAATTTTTTTA
17223132 AAA
130 AAA
17223135 CAAAGAAAAT
Statistics
Matches: 242, Mismatches: 27, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
139 3 0.01
140 1 0.00
143 7 0.03
144 15 0.06
145 47 0.19
146 73 0.30
147 9 0.04
150 38 0.16
151 40 0.17
152 9 0.04
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (145 bp):
TTTTTAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGAAAAAATTTAAATTTTTAAATAAAG
TTTTGATTTTTTTAACTATTTCAAAATAAAAGTTTGATTTTTAAGAAAAGTAATAATTTTTTTAA
AAAAGAAACTTTAGA
Found at i:17223685 original size:10 final size:10
Alignment explanation
Indices: 17223670--17223728 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
17223660 CACTTGTATA
17223670 ATTTTTATTT
1 ATTTTTATTT
17223680 ATTTTTATTT
1 ATTTTTATTT
*
17223690 CATCTTTATTT
1 -ATTTTTATTT
*
17223701 ATTTTAATGTCT
1 ATTTTTAT-T-T
*
17223713 ATTTATATTT
1 ATTTTTATTT
17223723 -TTTTTA
1 ATTTTTA
17223729 CACATTCCCC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 5 0.12
10 17 0.43
11 11 0.28
12 7 0.17
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:17225498 original size:14 final size:14
Alignment explanation
Indices: 17225481--17225513 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17225471 CATTCTCACT
17225481 TTTATTTAATT-TTA
1 TTTATTT-ATTATTA
17225495 TTTATTTATTATTA
1 TTTATTTATTATTA
17225509 TTTAT
1 TTTAT
17225514 GCTATTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTTATTATTA
Found at i:17225575 original size:27 final size:29
Alignment explanation
Indices: 17225541--17225595 Score: 78
Period size: 27 Copynumber: 1.9 Consensus size: 29
17225531 CTTCATTTAA
17225541 TTTTATTTACTTAT-TG-ATATTTTTATT
1 TTTTATTTACTTATATGTATATTTTTATT
*
17225568 TTTTATTTATTTATATGTTATATTTTTA
1 TTTTATTTACTTATATG-TATATTTTTA
17225596 CCTTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 2 0.08
30 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (29 bp):
TTTTATTTACTTATATGTATATTTTTATT
Found at i:17225577 original size:23 final size:24
Alignment explanation
Indices: 17225546--17225594 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
17225536 TTTAATTTTA
*
17225546 TTTACTTATTGATAT-TTTTATTT
1 TTTACTTATTGATATGTTATATTT
* *
17225569 TTTATTTATTTATATGTTATATTT
1 TTTACTTATTGATATGTTATATTT
17225593 TT
1 TT
17225595 ACCTTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTACTTATTGATATGTTATATTT
Found at i:17228769 original size:22 final size:24
Alignment explanation
Indices: 17228719--17228772 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
17228709 AGTAGTGTTT
17228719 TTTTTTTAAAAAAAGAAACTTTAG
1 TTTTTTTAAAAAAAGAAACTTTAG
*
17228743 -ATTTTTAAAAATAA-AAA-TTT-G
1 TTTTTTTAAAAA-AAGAAACTTTAG
17228764 TTTTTTTAA
1 TTTTTTTAA
17228773 TCATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 1 0.04
22 10 0.38
23 13 0.50
24 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (24 bp):
TTTTTTTAAAAAAAGAAACTTTAG
Found at i:17228880 original size:147 final size:146
Alignment explanation
Indices: 17228696--17228966 Score: 409
Period size: 147 Copynumber: 1.8 Consensus size: 146
17228686 ACATCAGTGA
*
17228696 GATTTTTAAGAAAAGTAGTGTTTTTTTTTTAAAAAAAGAAACTTTAGATTTTTAAAAATAAAAAT
1 GATTTTTAAGAAAAATAGTG--TTTTTTTTAAAAAAAGAAACTTTAGATTTTTAAAAATAAAAAT
* * * *
17228761 TTGTTTTTTTAATCATTTAAAAGGAAAGAGTTTAAATTTTTAAACAAGATTTTTGATTTTTTAAC
64 CT-ATTTTTTAATCATTTAAAAGGAAAAAGTTTAAATTTTTAAACAA-ATTTCTGATTTTTTAAC
17228826 TATTTCGAAATAAAAACTTT
127 TATTTCGAAATAAAAACTTT
*
17228846 GATTTTTAAGAAAAATAGTG-TTTTTTTAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATCT
1 GATTTTTAAGAAAAATAGTGTTTTTTTTAAAAAAAGAAACTTTAGATTTTTAAAAATAAAAATCT
* * * *
17228910 ATTTTTTAGTGATTTTAAAGTAAAAAGTTTAAATTTTTAAACAAATTTCTGATTTTT
66 ATTTTTTAATCATTTAAAAGGAAAAAGTTTAAATTTTTAAACAAATTTCTGATTTTT
17228967 AAGAAAGTAG
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
145 12 0.11
146 38 0.34
147 42 0.38
150 19 0.17
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (146 bp):
GATTTTTAAGAAAAATAGTGTTTTTTTTAAAAAAAGAAACTTTAGATTTTTAAAAATAAAAATCT
ATTTTTTAATCATTTAAAAGGAAAAAGTTTAAATTTTTAAACAAATTTCTGATTTTTTAACTATT
TCGAAATAAAAACTTT
Found at i:17233396 original size:15 final size:15
Alignment explanation
Indices: 17233378--17233417 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
17233368 AACTTCCTCT
17233378 TTTTCTTCTTCTTTC
1 TTTTCTTCTTCTTTC
*
17233393 TTTTCTTCTTTTTTC
1 TTTTCTTCTTCTTTC
* *
17233408 GTCTCTTCTT
1 TTTTCTTCTT
17233418 TCTCCTCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTCTTCTTCTTTC
Found at i:17254532 original size:9 final size:9
Alignment explanation
Indices: 17254513--17254554 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
17254503 TCATCAAACA
17254513 ATATATTCAC
1 ATAT-TTCAC
*
17254523 ATGTTTCAC
1 ATATTTCAC
*
17254532 ATATTTCAA
1 ATATTTCAC
17254541 ATATTTCAC
1 ATATTTCAC
17254550 ATATT
1 ATATT
17254555 ATCAACTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 25 0.89
10 3 0.11
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (9 bp):
ATATTTCAC
Found at i:17258032 original size:13 final size:12
Alignment explanation
Indices: 17258014--17258075 Score: 63
Period size: 13 Copynumber: 4.9 Consensus size: 12
17258004 TTAGCATCAT
17258014 TTTTAAAAAATA
1 TTTTAAAAAATA
17258026 CTTTTAAAAAATA
1 -TTTTAAAAAATA
17258039 TTTTGAAACAAGA-A
1 TTTT-AAA-AA-ATA
*
17258053 ATTTAAAAAATA
1 TTTTAAAAAATA
*
17258065 TTTTTAAAAAT
1 TTTTAAAAAAT
17258076 TTGATTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
11 1 0.02
12 16 0.38
13 18 0.43
14 6 0.14
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (12 bp):
TTTTAAAAAATA
Found at i:17258041 original size:26 final size:26
Alignment explanation
Indices: 17258012--17258074 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
17258002 ATTTAGCATC
* **
17258012 ATTTTTAAAAAATACTTTTAAAAAAT
1 ATTTTTAAAAAAGAAATTTAAAAAAT
* *
17258038 ATTTTGAAACAAGAAATTTAAAAAAT
1 ATTTTTAAAAAAGAAATTTAAAAAAT
17258064 ATTTTTAAAAA
1 ATTTTTAAAAA
17258075 TTTGATTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (26 bp):
ATTTTTAAAAAAGAAATTTAAAAAAT
Found at i:17260956 original size:31 final size:31
Alignment explanation
Indices: 17260880--17260957 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
17260870 CTTCTTTTCA
*
17260880 GTCCAA-TTAGATACCTGAACTTGGCTTCTTG
1 GTCCAACTTAG-TACTTGAACTTGGCTTCTTG
* * *
17260911 GTTCAAAC-TGGTACTTGAACTTGGCTTTTTG
1 G-TCCAACTTAGTACTTGAACTTGGCTTCTTG
17260942 GTCCAACTTAGTACTT
1 GTCCAACTTAGTACTT
17260958 ACGATAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
30 5 0.13
31 27 0.71
32 6 0.16
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (31 bp):
GTCCAACTTAGTACTTGAACTTGGCTTCTTG
Found at i:17261128 original size:58 final size:60
Alignment explanation
Indices: 17261036--17261152 Score: 166
Period size: 58 Copynumber: 2.0 Consensus size: 60
17261026 AGGTACCTAC
* * * *
17261036 CTAATTGGACCAATAAAAAGATTAGGTACCAAATTGAACCTTGAGGCCAAGTTTAGGTAA
1 CTAATTGGACCAATAAAAAAATTAGGTACCAAATTGAACCTTGAAGACAAGTTCAGGTAA
* *
17261096 CTAATTGGA-CAA-AAAAAAATTAGGTGCCAAATTGAACTTTGAAGACAAGTTCAGGTA
1 CTAATTGGACCAATAAAAAAATTAGGTACCAAATTGAACCTTGAAGACAAGTTCAGGTA
17261153 CCAAAATATA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 39 0.76
59 3 0.06
60 9 0.18
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.25
Consensus pattern (60 bp):
CTAATTGGACCAATAAAAAAATTAGGTACCAAATTGAACCTTGAAGACAAGTTCAGGTAA
Found at i:17272823 original size:16 final size:17
Alignment explanation
Indices: 17272794--17272834 Score: 66
Period size: 16 Copynumber: 2.4 Consensus size: 17
17272784 TGATTTTTAC
17272794 TAATTCATATTTTAATAA
1 TAATT-ATATTTTAATAA
17272812 TAATTATA-TTTAATAA
1 TAATTATATTTTAATAA
17272828 TAATTAT
1 TAATTAT
17272835 GTTAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 15 0.65
17 3 0.13
18 5 0.22
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATTATATTTTAATAA
Found at i:17273050 original size:44 final size:46
Alignment explanation
Indices: 17272987--17273081 Score: 124
Period size: 44 Copynumber: 2.1 Consensus size: 46
17272977 TATTACAACA
* *
17272987 CCATTCCATTCAACCAAAC-ACAAGAA-TATT-ATTATAGCTCTATT
1 CCATTCCATTCAACCAAACAAC-AGAATTATTGATTACAACTCTATT
* *
17273031 CCATTCCATTCAACTAAACAACTGAATTATTGATTACAACTCTATT
1 CCATTCCATTCAACCAAACAACAGAATTATTGATTACAACTCTATT
17273077 CCATT
1 CCATT
17273082 ACAACTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
44 21 0.48
45 6 0.14
46 17 0.39
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (46 bp):
CCATTCCATTCAACCAAACAACAGAATTATTGATTACAACTCTATT
Found at i:17273084 original size:16 final size:16
Alignment explanation
Indices: 17273063--17273102 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
17273053 TGAATTATTG
17273063 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
17273079 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
17273095 ATTACAAC
1 ATTACAAC
17273103 GAACCAAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:17278181 original size:16 final size:17
Alignment explanation
Indices: 17278160--17278192 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17278150 GGATATAATT
17278160 ATGTAA-TAATTTCCAC
1 ATGTAATTAATTTCCAC
17278176 ATGTAATTTAATTTCCA
1 ATGTAA-TTAATTTCCA
17278193 GATCTTGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (17 bp):
ATGTAATTAATTTCCAC
Found at i:17278856 original size:204 final size:204
Alignment explanation
Indices: 17278506--17278893 Score: 749
Period size: 204 Copynumber: 1.9 Consensus size: 204
17278496 CCACGCCCCG
*
17278506 CATTCCAAACATTAACCTGAGCACCATCACCAATTCTTCAAAGAAGGCCATCTGCAATCAGATCA
1 CATTCCAAACATTAACCTGAGCACCATCACCAATTCTCCAAAGAAGGCCATCTGCAATCAGATCA
17278571 CGTGCACTACAAAGGCTCTTCTAGGTAAATGAGGTGTACGAACAGATAGTAGCTTCCATAATGCC
66 CGTGCACTACAAAGGCTCTTCTAGGTAAATGAGGTGTACGAACAGATAGTAGCTTCCATAATGCC
*
17278636 TGTATGTGGATGATAACGAGCTTTAAACACTTTTGCTAATAAACACAAGGGTTGCGCTAATAATA
131 TGTACGTGGATGATAACGAGCTTTAAACACTTTTGCTAATAAACACAAGGGTTGCGCTAATAATA
17278701 GCCAGGGAT
196 GCCAGGGAT
17278710 CATTCCAAACATTAACCTGAGCACCATCACCAATTCTCCAAAGAAGGCCATCTGCAATCAGATCA
1 CATTCCAAACATTAACCTGAGCACCATCACCAATTCTCCAAAGAAGGCCATCTGCAATCAGATCA
*
17278775 CGTGCACTACAAAGGCTCTTCTAGGTAAATGAGGTGTACGAACAGATAGTAGCTTTCATAATGCC
66 CGTGCACTACAAAGGCTCTTCTAGGTAAATGAGGTGTACGAACAGATAGTAGCTTCCATAATGCC
17278840 TGTACGTGGATGATAACGAGCTTTAAACACTTTTGCTAATAAACACAAGGGTTG
131 TGTACGTGGATGATAACGAGCTTTAAACACTTTTGCTAATAAACACAAGGGTTG
17278894 GGTTTGTAAC
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
204 181 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (204 bp):
CATTCCAAACATTAACCTGAGCACCATCACCAATTCTCCAAAGAAGGCCATCTGCAATCAGATCA
CGTGCACTACAAAGGCTCTTCTAGGTAAATGAGGTGTACGAACAGATAGTAGCTTCCATAATGCC
TGTACGTGGATGATAACGAGCTTTAAACACTTTTGCTAATAAACACAAGGGTTGCGCTAATAATA
GCCAGGGAT
Found at i:17289915 original size:215 final size:217
Alignment explanation
Indices: 17289168--17290446 Score: 1390
Period size: 215 Copynumber: 6.0 Consensus size: 217
17289158 TTTCGTATCA
* *
17289168 TTTTAATTCAAAGACCAAAAGTAGTTTACAAAATGAAAAACAATTT-GACCAAATGATGCGATTT
1 TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTTAGACCAAATGATGCGATTT
* * * *
17289232 CTCGAGCATGGAATGTTC-GAAAAATTGGTCGAAGGAGTGGATCGTCCTGAATACTCTT-AGGAA
66 CTCGAGCATGGAATGTTCAG-AAAATTGGTCAAAGGAATGGATCGTCTTGAATACT-TTAAAGAA
* *
17289295 TCGAAGTTATAAAAGAACT--TGTAAATGTTTGACAAGTTCGAAACTTCATCCAAGAACCAAGAG
129 TCGAAGTTATAAAAGAACTCAT-TAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACC-A-AG
*
17289358 AGAGAAATAATTCTCACATAAATAAGT
191 AGAGAAACAATTCTCACATAAATAAGT
** * * * **
17289385 TTTTAATTCAAA-ACCAAATTTTTTTTTACAAAATGACAAACTATTTAGACCTAATGATGCTTTT
1 TTTTAATTCAAAGACCAAA-AGTTGTTTACAAAATGACAAACAATTTAGACCAAATGATGCGATT
* * * ** ** *
17289449 TCTCGAGTATGGAATATTCGGAAAATTACTCAAAGGAATTCATCATCCTTGAATAC-TTAAAGGA
65 TCTCGAGCATGGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGT-CTTGAATACTTTAAA-GA
* *
17289513 ATCGTAGTTATAAAAGAACTCA-TAAAAGTTTGAC----T----AGTTCGTCCAAGAACCAAGAG
128 ATCGAAGTTATAAAAGAACTCATTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAG
*
17289569 AGAAACAATTCTCACGTAAATAAGTT
193 AGAAACAATTCTCACATAAATAAG-T
* * * ** *
17289595 TTTTAATTCAAAGGCCAAAACTTATTTTTAAAATGACAAACAATTT-CACCAAATGATGCGATTT
1 TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTTAGACCAAATGATGCGATTT
* ** * *
17289659 CTCGAGCATGGAATGAT-AGGAAAATTCATCAAAGCAATGGATCGTCTTGAATACTTTAAAGAAC
66 CTCGAGCATGGAATGTTCA-GAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTTTAAAGAAT
* *
17289723 CAAAGTTATAAAAGAACTCATTAAA-GTTTGGCAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG
130 CGAAGTTATAAAAGAACTCATTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG
17289787 AAACAATTCTCACATAAATAAGT
195 AAACAATTCTCACATAAATAAGT
* * * * *
17289810 TTTTAATTCATAGACTAACAGTTGTTTACAAAATGACAAACAATTT-GATCAAATGATGTGATTT
1 TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTTAGACCAAATGATGCGATTT
* * * * * * * *
17289874 CCCGAGCATGCAATTTTCAAAAAATTGGTCAAAGGAATGGATAGTCCTGAATACTCTCAAGAATC
66 CTCGAGCATGGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTTTAAAGAATC
* * * * * *
17289939 GAAGTTATAAAAGAACTC-GTAAATGTTTGACAAGTTCGAAATTTCATCCAACAACTAAGAGTGA
131 GAAGTTATAAAAGAACTCATTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGA
* * *
17290003 AACAATTCTAACGTAAATATGT
196 AACAATTCTCACATAAATAAGT
* * * * ** * *
17290025 TTTAAATTCAAAGACCAAAAGTTATTTACAAAATAATAAACTTTTTAGACCAAATGGTTCGATTT
1 TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTTAGACCAAATGATGCGATTT
* * * ** * *
17290090 CTTGAGCATGCAATGTTCAGAAAATTGGTCGAAGGAATGGATCGTCTTGAATACCCTCATGAATC
66 CTCGAGCATGGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTTTAAAGAATC
*
17290155 GAAGTTATAAAAGAACTCGA--AAATGTTTTGACAAGTTC-AGAAGTTCGTCGAAGAACTCAA-A
131 GAAGTTATAAAAGAACTC-ATTAAATG-TTTGACAAGTTCGA-AAGTTCGTCCAAGAAC-CAAGA
17290216 GAGAAACAATTCTCACATAAATAAGT
192 GAGAAACAATTCTCACATAAATAAGT
* * **
17290242 TTTTAATTCAATGACCAAAAGTAGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCGATTT
1 TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTTAGACCAAATGATGCGATTT
* * * * *
17290307 CCCGAGCATGGAATGTTTAGAAAATCGGTCGAAA-GAATGGATCGTCTTGAATACTTTAAGGAAC
66 CTCGAGCATGGAATGTTCAGAAAATTGGTC-AAAGGAATGGATCGTCTTGAATACTTTAAAGAAT
* * * * * *
17290371 CAAATTTATAAAAGAACT-AGTAAATGTTTGACAAGTTCGAAAGTTCGTCCATGAA-AAAGGGAG
130 CGAAGTTATAAAAGAACTCATTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG
17290434 AAACAATTCTCAC
195 AAACAATTCTCAC
17290447 GTTTTTAAGG
Statistics
Matches: 885, Mismatches: 143, Indels: 70
0.81 0.13 0.06
Matches are distributed among these distances:
208 36 0.04
209 83 0.09
210 35 0.04
211 19 0.02
212 1 0.00
214 6 0.01
215 229 0.26
216 170 0.19
217 211 0.24
218 54 0.06
219 41 0.05
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (217 bp):
TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACAATTTAGACCAAATGATGCGATTT
CTCGAGCATGGAATGTTCAGAAAATTGGTCAAAGGAATGGATCGTCTTGAATACTTTAAAGAATC
GAAGTTATAAAAGAACTCATTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGA
AACAATTCTCACATAAATAAGT
Found at i:17291255 original size:818 final size:816
Alignment explanation
Indices: 17289642--17291266 Score: 1947
Period size: 818 Copynumber: 2.0 Consensus size: 816
17289632 AAACAATTTC
* * * *
17289642 ACCAAATGATGCGATTTCTCGAGCATGGAATGATAGGAAAATTCATCAAAGCAATGGATCGTCTT
1 ACCAAATGATGCAATTTCACGAGCATGGAATGATACGAAAATTCATAAAAGCAATGGATCGTCTT
* * * ** *
17289707 GAATACTTTAAAGAACCAAAGTTATAAAAGAACTCATTAAAGTTTGGCAAGTTCGAAAGTTCGTC
66 AAATACTTTAAAGAACCAAAGCTATAAAAGAACTCATAAAAGTTTAACAAGTTCGAAACTTCGTC
* *
17289772 CAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCATAGACTAACAGTTGTTT
131 CAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACTAAAAGTTGTTT
* * ** * * *
17289837 ACAAAATGACAAACAATTTGATCAAATGATGTGATTTCCCGAGCATGCAATTTTCAAAAAATTGG
196 AAAAAATGACAAACAATTTGACCAAATGATGCAATTTCACGAGCATGCAATTATC--AAAATTGC
* * * * * *
17289902 TCAAAGGAATGGATAGTCCTGAATACTCTCAAGAATCGAAGTTATAAAAGAACTCGTAAATGTTT
259 TAAAACGAATGGATAGTCCTAAATACTCTCAAGAACCGAAGTTATAAAAGAACTCATAAAAGTTT
* * * *
17289967 GACAAGTTCGAAATTTCATCCAACAACTAAGAGTGAAACAATTCTAACGTAAATATGTTTTAAAT
324 GACAAGTTCGAAATTTCATCCAACAACCAAGAGGGAAACAATTCTAACATAAATAAGTTTTAAAT
* * * * * **
17290032 TCAAAGACCAAAAGTTATTTACAAAATAATAAACTTTTTAGACCAAATGGTTCGATTTCTTGAGC
389 TCAAAGACCAAAAGTTATTTAAAAAATAACAAACTATTTAGACCAAATGATTCAATTTCCCGAGC
* * * * * * *
17290097 ATGCAATGTTCAGAAAATTGGTCGAAGGAATGGATCGTCTTGAATACCCTCATGAATCGAAGTTA
454 ATGCAATGATCAGAAAATTGCTCAAAGGAATGGATCATCTTGAATACCCTAAGGAATCAAAGTTA
* * * * * *
17290162 TAAAAGAACTCGAAAATGTTTTGACAAGTTCAGAAGTTCGTCGAAGAACTCAAAGAGAAACAATT
519 TAAAAGAACTCAAAAAAGTTTTGACAAGTTCAGAAGTTCATCCAAGAACCCAAAGAAAAACAATT
* ** **
17290227 CTCACATAAATAAGTTTTTAATTCAATGACCAAAAGTAGTTTACAAAATGACAAACTTTTTAGAC
584 CTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTAGTTTACAAAAAAACAAACAATTTAGAC
* * * *
17290292 CAAATGATGCGATTTCCCGAGCATGGAATGTTTAGAAAATCGGTCGAAAGAATGGATCGTCTTGA
649 CAAATGATGCGATTTCCCCAGCATGGAATGTTTAGAAAATCAGTCGAAAGAATGGATCGTCCTAA
* *
17290357 ATACTTTAAGGAACCAAATTTATAAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCGTCCA
714 ATACTTCAAGGAACCAAAGTTATAAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCGTCCA
* * *
17290422 TGAAAAAGGGAGAAACAATTCTCACGTTTTTAAGGGAG
779 AGAAAAAGAGAGAAACAATTATCACGTTTTTAAGGGAG
*
17290460 ACCAAATGATGCAATTTCACGTGCATGGAATGAT-CGAAAATTGC-TAAAA-CGAATGGATCGTC
1 ACCAAATGATGCAATTTCACGAGCATGGAATGATACGAAAATT-CATAAAAGC-AATGGATCGTC
* * ** * * *
17290522 TTTAAATACTTTAAGGAATCGGAGCTATAAAAGAACTCATAAAAGTTTAACTAGTTCGTAACTTT
64 -TTAAATACTTTAAAGAACCAAAGCTATAAAAGAACTCATAAAAGTTTAACAAGTTCGAAACTTC
* *
17290587 GTCCAAGAACCAAGAG-GAAAACAATTCTCACGTAAATAAGTTTTTTTATTCAAAGA-TCAAAAG
128 GTCCAAGAACCAAGAGAG-AAACAATTCTCACATAAATAAG-TTTTTAATTCAAAGACT-AAAAG
* * * * *
17290650 TTGTTTAAAAAATGACAACCTATTTAGACCAAATGATGCAATTTCATGTGCATGGAATTATC-AA
190 TTGTTTAAAAAATGACAAACAATTT-GACCAAATGATGCAATTTCACGAGCATGCAATTATCAAA
* ** *
17290714 ATTGCTAAAACGAATGGATCGTTTTTAAATACT-TTAAGGAACC-AGAGTTATAAAAGAACTCAT
254 ATTGCTAAAACGAATGGATAG-TCCTAAATACTCTCAA-GAACCGA-AGTTATAAAAGAACTCAT
* * * * *
17290777 AAAAGTTTGGCTAGTTCGTAAA-TTCGTCCAAGAACCAAGAGGGAAACAATTCTCACATAAATAA
316 AAAAGTTTGACAAGTTCG-AAATTTCATCCAACAACCAAGAGGGAAACAATTCTAACATAAATAA
** * * *
17290841 GTTTTTTATTCAAAGATCAAAAGTTGTTTAAAAAATGAC-AACATATTTAGACCAAATGATGT-A
380 GTTTTAAATTCAAAGACCAAAAGTTATTTAAAAAATAACAAAC-TATTTAGACCAAATGAT-TCA
* **
17290904 ATTTCCCGAGCATGCAATGATCGGAAAATTGCTCAAAGGAATGGATCATCCTTGAATACTTTAAG
443 ATTTCCCGAGCATGCAATGATCAGAAAATTGCTCAAAGGAATGGATCAT-CTTGAATACCCTAAG
* * *
17290969 GAATCAAAGTTATAAAAGAACT-AATAAAAG-TTTGACATGTTCGGAAGTTCATCCAAGATCCCA
507 GAATCAAAGTTATAAAAGAACTCAA-AAAAGTTTTGACAAGTTCAGAAGTTCATCCAAGAACCCA
* ** *
17291032 CAA-AAAAATAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAAAA
571 -AAGAAAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAAGTAGTTTACAAAAAAA
* *
17291096 CAAACAATTT-GACCAAATGATGGGATTTCCCCAGCATGGAAT-TTTCAGAAAATTAGTC-AAAG
635 CAAACAATTTAGACCAAATGATGCGATTTCCCCAGCATGGAATGTTT-AGAAAATCAGTCGAAA-
*
17291158 GAATGGATCGTCCTAAATACTCTCAA-GAACCAAAGTTATAAAAGAACTCGTAAAAT-TTTGACA
698 GAATGGATCGTCCTAAATACT-TCAAGGAACCAAAGTTATAAAAGAACTAGT-AAATGTTTGACA
**
17291221 AGTTCGAAAGTTCGTCCAAGAGCCAAGAGAGAAACAATTATCACGT
761 AGTTCGAAAGTTCGTCCAAGA-AAAAGAGAGAAACAATTATCACGT
17291267 AAATAAGTTT
Statistics
Matches: 679, Mismatches: 107, Indels: 42
0.82 0.13 0.05
Matches are distributed among these distances:
816 7 0.01
817 158 0.23
818 405 0.60
819 81 0.12
820 28 0.04
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (816 bp):
ACCAAATGATGCAATTTCACGAGCATGGAATGATACGAAAATTCATAAAAGCAATGGATCGTCTT
AAATACTTTAAAGAACCAAAGCTATAAAAGAACTCATAAAAGTTTAACAAGTTCGAAACTTCGTC
CAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACTAAAAGTTGTTT
AAAAAATGACAAACAATTTGACCAAATGATGCAATTTCACGAGCATGCAATTATCAAAATTGCTA
AAACGAATGGATAGTCCTAAATACTCTCAAGAACCGAAGTTATAAAAGAACTCATAAAAGTTTGA
CAAGTTCGAAATTTCATCCAACAACCAAGAGGGAAACAATTCTAACATAAATAAGTTTTAAATTC
AAAGACCAAAAGTTATTTAAAAAATAACAAACTATTTAGACCAAATGATTCAATTTCCCGAGCAT
GCAATGATCAGAAAATTGCTCAAAGGAATGGATCATCTTGAATACCCTAAGGAATCAAAGTTATA
AAAGAACTCAAAAAAGTTTTGACAAGTTCAGAAGTTCATCCAAGAACCCAAAGAAAAACAATTCT
CACATAAATAAGTTTTTAATTCAAAGACCAAAAGTAGTTTACAAAAAAACAAACAATTTAGACCA
AATGATGCGATTTCCCCAGCATGGAATGTTTAGAAAATCAGTCGAAAGAATGGATCGTCCTAAAT
ACTTCAAGGAACCAAAGTTATAAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAG
AAAAAGAGAGAAACAATTATCACGTTTTTAAGGGAG
Found at i:17291298 original size:432 final size:431
Alignment explanation
Indices: 17290458--17291954 Score: 1578
Period size: 430 Copynumber: 3.5 Consensus size: 431
17290448 TTTTTAAGGG
* * *
17290458 AGACCAAATGATGCAATTTCACGTGCATGGAATGATC-GAAAATTGCTAAAACGAATGGATCGTC
1 AGACCAAATGATGCAATTTCACGAGCATGGAATGATCGGAAAATTGCTAAAAGGAATGGATCATC
* * * * * * *
17290522 TTTAAATACTTTAAGGAATCGGAGCTATAAAAGAACTCATAAAAGTTTAACTAGTTCGTAACTTT
66 CTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCATAAAAGTTTAACTAGTTCGGAAGTTC
* * *
17290587 GTCCAAGAACCAAGAGGAAAACAATTCTCACGTAAATAAGTTTTTTTATTCAAAGATCAAAAGTT
131 GTCCAAGAACCAAGAGAAAAACAATTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTT
* * * * *
17290652 GTTTA-AAAAATGACAACCTATTTAGACCAAATGATGCAATTTCATGTGCATGGAATTATC---A
195 GTTTACAAAAA-AACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGAATTTTCAGAA
* * * *
17290713 AATT-GCTAAAACGAATGGATCGTTTTTAAATACTTTAAGGAACCAGAGTTATAAAAGAACTCAT
259 AATTAG-TAAAAGGAATGGATCG-TCTTAAATACTTTAA-GAACCAAAGTTATAAAAGAACTCGT
* * * * *
17290777 AAAAGTTTGGCTAGTTCGTAAA-TTCGTCCAAGAACCAAGAGGGAAACAATTCTCACATAAATAA
321 AAAATTTTGACAAGTTCG-AAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
* *
17290841 GTTTTTTATTCAAAGATCAAAAGTTGTTTAAAAAATGACAACATATTT
385 GTTTTTAATTCAAAGACCAAAAGTTGTTTAAAAAATGACAA-ATATTT
* * * *
17290889 AGACCAAATGATGTAATTTCCCGAGCATGCAATGATCGGAAAATTGCTCAAAGGAATGGATCATC
1 AGACCAAATGATGCAATTTCACGAGCATGGAATGATCGGAAAATTGCTAAAAGGAATGGATCATC
* * *
17290954 CTTGAATACTTTAAGGAATCAAAGTTATAAAAGAACTAATAAAAGTTTGAC-ATGTTCGGAAGTT
66 CTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCATAAAAGTTTAACTA-GTTCGGAAGTT
* * * * * * *
17291018 CATCCAAGATCCCACAAAAAAATAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
130 CGTCCAAGAACCAAGAGAAAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* ** * *
17291083 GTTTACAAAAAAACAAACAATTT-GACCAAATGATGGGATTTCCCCAGCATGGAATTTTCAGAAA
195 GTTTACAAAAAAACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGAATTTTCAGAAA
* * *
17291147 ATTAGTCAAAGGAATGGATCGTCCTAAATACTCTCAAGAACCAAAGTTATAAAAGAACTCGTAAA
260 ATTAGTAAAAGGAATGGATCGTCTTAAATACT-TTAAGAACCAAAGTTATAAAAGAACTCGTAAA
* *
17291212 ATTTTGACAAGTTCGAAAGTTCGTCCAAGAGCCAAGAGAGAAACAATTATCACGTAAATAAGTTT
324 ATTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
*
17291277 CTAATTCAAAGACCAAAAGTTGTTTAAAAAATGACAAATATTTT
389 TTAATTCAAAGACCAAAAGTTGTTTAAAAAATGACAAATA-TTT
* * * * * * ** *
17291321 AGACCAAATGATGCGATTTCTCGAGCACGGAATGCTCGAAAAATTGGTTGAAGGAACGGATCAT-
1 AGACCAAATGATGCAATTTCACGAGCATGGAATGATCGGAAAATTGCTAAAAGGAATGGATCATC
* * * * * * *
17291385 CATGAATTCTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTAACTAGTTCGGAAGTTC
66 CTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCATAAAAGTTTAACTAGTTCGGAAGTTC
* * * * *
17291450 GTACAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGTTA
131 GTCCAAGAACCAAGAGAAAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
* * * * * * * * * *
17291515 TTTAC--AAAAAGATAGTTTTTAGACCAAATGTTACAATTTCTCGAGCACT-AAATGTTCAGAAT
196 TTTACAAAAAAACAAACTATTTAGACCAAATGATGCAATTTCACGAGCA-TGGAATTTTCAGAAA
* ** * * * *
17291577 ATTAATTGAAGGAATGGATCATCTTGAATACTATTAGGAACCGAAGTTATAAAAGAACTCGT-AA
260 ATTAGTAAAAGGAATGGATCGTCTTAAATACT-TTAAGAACCAAAGTTATAAAAGAACTCGTAAA
** *
17291641 ATGTTTGACAAGTTCGAAAGTTTTTCCATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
324 AT-TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* *
17291706 TTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTT
388 TTTAATTCAAAGACCAAAAGTTGTTTAAAAAATGACAAA-TATTT
* * * * * * ** * ** *
17291751 AGACCAAATGATGCGATTTCTCGAGTACGAAATGTTCGGAATGTTGGTCGGAA-GAATGGATCGT
1 AGACCAAATGATGCAATTTCACGAGCATGGAATGATCGGAAAATTGCT-AAAAGGAATGGATCAT
* * * * * * *
17291815 -CTCGAATACTCTT-AGGCA-CTGAA-TCTAT-AAAGAAACTCTTAAATGTTTGAC-AATATCGA
65 CCTTGAATACT-TTAAGGAATC-GAAGT-TATAAAAG-AACTCATAAAAGTTTAACTAGT-TCGG
* * * *
17291874 AAGTTCGTCAAAGAACCATGAGAGAAACAATTCTCACGTAAATAAGCTTTTAATTCAAAGACCAA
125 AAGTTCGTCCAAGAACCAAGAGAAAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAA
*
17291939 AAGTTTTTTACAAAAA
190 AAGTTGTTTACAAAAA
17291955 GATGATGTGA
Statistics
Matches: 899, Mismatches: 144, Indels: 45
0.83 0.13 0.04
Matches are distributed among these distances:
429 22 0.02
430 364 0.40
431 193 0.21
432 297 0.33
433 22 0.02
434 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (431 bp):
AGACCAAATGATGCAATTTCACGAGCATGGAATGATCGGAAAATTGCTAAAAGGAATGGATCATC
CTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCATAAAAGTTTAACTAGTTCGGAAGTTC
GTCCAAGAACCAAGAGAAAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTG
TTTACAAAAAAACAAACTATTTAGACCAAATGATGCAATTTCACGAGCATGGAATTTTCAGAAAA
TTAGTAAAAGGAATGGATCGTCTTAAATACTTTAAGAACCAAAGTTATAAAAGAACTCGTAAAAT
TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTCAAAGACCAAAAGTTGTTTAAAAAATGACAAATATTT
Found at i:17291488 original size:216 final size:215
Alignment explanation
Indices: 17290458--17291954 Score: 1436
Period size: 216 Copynumber: 6.9 Consensus size: 215
17290448 TTTTTAAGGG
* * * * * * * * *
17290458 AGACCAAATGATGCAATTTCACGTGCATGGAATGATCGAAAATTGCTAAAACGAATGGATCGTCT
1 AGACCAAATGATGCAATTTCTCGAGCACGGAATGTTCAAAAATTGGTCAAAGGAATGGATCATC-
* * * * * * * * * *
17290523 TTAAATACTTTAAGGAATCGGAGCTATAAAAGAACTCATAAAAGTTTAACTAGTTCGTAACTTTG
65 TTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCATAAATGTTTGACTAGTTCGAAAGTTCG
* *
17290588 TCCAAGAACCAAGAG-GAAAACAATTCTCACGTAAATAAGTTTTTTTATTCAAAGATCAAAAGTT
130 TCCAAGAACCAAGAGAG-AAACAATTCTCACGTAAATAAG-TTTTTAATTCAAAGACCAAAAGTT
*
17290652 GTTTAAAAAATGACAACCTA-TTT
193 GTTTAAAAAATGACAA-ATATTTT
* * * * * *
17290675 AGACCAAATGATGCAATTTCAT-GTGCATGGAAT-TATC--AAATTGCTAAAACGAATGGATCGT
1 AGACCAAATGATGCAATTTC-TCGAGCACGGAATGT-TCAAAAATTGGTCAAAGGAATGGATC-A
* * * * *
17290736 TTTTAAATACTTTAAGGAACC-AGAGTTATAAAAGAACTCATAAAAGTTTGGCTAGTTCGTAAA-
63 TCTTGAATACTCTAAGGAACCGA-AGTTATAAAAGAACTCATAAATGTTTGACTAGTTCG-AAAG
* * * *
17290799 TTCGTCCAAGAACCAAGAGGGAAACAATTCTCACATAAATAAGTTTTTTATTCAAAGATCAAAAG
126 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAG
17290864 TTGTTTAAAAAATGACAACATA-TTT
191 TTGTTTAAAAAATGACAA-ATATTTT
* * * * * * *
17290889 AGACCAAATGATGTAATTTCCCGAGCATGCAATGATCGGAAAATTGCTCAAAGGAATGGATCATC
1 AGACCAAATGATGCAATTTCTCGAGCACGGAATGTTC-AAAAATTGGTCAAAGGAATGGATCAT-
* * * * * *
17290954 CTTGAATACTTTAAGGAATCAAAGTTATAAAAGAACTAATAAAAGTTTGAC-ATGTTCGGAAGTT
64 CTTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCATAAATGTTTGACTA-GTTCGAAAGTT
* * * * * * * *
17291018 CATCCAAGATCCCACAAAAAAATAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
128 CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
* * *
17291083 GTTTACAAAAA-AACAAACAATTT
193 GTTTA-AAAAATGACAAATATTTT
** * * * * * *
17291106 -GACCAAATGATGGGATTTCCCCAGCATGGAATTTTCAGAAAATTAGTCAAAGGAATGGATCGTC
1 AGACCAAATGATGCAATTTCTCGAGCACGGAATGTTCA-AAAATTGGTCAAAGGAATGGATCATC
* * * * *
17291170 CTAAATACTCTCAA-GAACCAAAGTTATAAAAGAACTCGTAAAAT-TTTGACAAGTTCGAAAGTT
65 TTGAATACTCT-AAGGAACCGAAGTTATAAAAGAACTCAT-AAATGTTTGACTAGTTCGAAAGTT
* * *
17291233 CGTCCAAGAGCCAAGAGAGAAACAATTATCACGTAAATAAGTTTCTAATTCAAAGACCAAAAGTT
128 CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTT
17291298 GTTTAAAAAATGACAAATATTTT
193 GTTTAAAAAATGACAAATATTTT
* * ** *
17291321 AGACCAAATGATGCGATTTCTCGAGCACGGAATGCTCGAAAAATTGGTTGAAGGAACGGATCATC
1 AGACCAAATGATGCAATTTCTCGAGCACGGAATGTTC-AAAAATTGGTCAAAGGAATGGATCATC
* * * * * *
17291386 ATGAATTCTCTCAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTAACTAGTTCGGAAGTTCG
65 TTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCATAAATGTTTGACTAGTTCGAAAGTTCG
* * * *
17291451 TACAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGTTAT
130 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
* *
17291516 TTACAAAAA-GA-TAGT-TTTT
195 TTA-AAAAATGACAAATATTTT
* * ** * ** **
17291535 AGACCAAATGTTACAATTTCTCGAGCACTAAATGTTCAGAATATTAATTGAAGGAATGGATCATC
1 AGACCAAATGATGCAATTTCTCGAGCACGGAATGTTCA-AAAATTGGTCAAAGGAATGGATCATC
* * * * **
17291600 TTGAATACTATTAGGAACCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTTT
65 TTGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCATAAATGTTTGACTAGTTCGAAAGTTCG
*
17291665 TCCATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
130 TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGT
*
17291730 TTACAAAATGACAAACT-TTTT
195 TTAAAAAATGACAAA-TATTTT
* * * * ** * *
17291751 AGACCAAATGATGCGATTTCTCGAGTACGAAATGTTCGGAATGTTGGTCGGAA-GAATGGATCGT
1 AGACCAAATGATGCAATTTCTCGAGCACGGAATGTTC-AAAAATTGGTC-AAAGGAATGGATCAT
* * * * * *
17291815 CTCGAATACTCTTAGGCACTGAA-TCTAT-AAAGAAACTCTTAAATGTTTGAC-AATATCGAAAG
64 CTTGAATACTCTAAGGAACCGAAGT-TATAAAAG-AACTCATAAATGTTTGACTAGT-TCGAAAG
* * *
17291877 TTCGTCAAAGAACCATGAGAGAAACAATTCTCACGTAAATAAGCTTTTAATTCAAAGACCAAAAG
126 TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAG
*
17291942 TTTTTTACAAAAA
191 TTGTTTA-AAAAA
17291955 GATGATGTGA
Statistics
Matches: 1091, Mismatches: 152, Indels: 74
0.83 0.12 0.06
Matches are distributed among these distances:
213 5 0.00
214 259 0.24
215 243 0.22
216 396 0.36
217 182 0.17
218 6 0.01
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (215 bp):
AGACCAAATGATGCAATTTCTCGAGCACGGAATGTTCAAAAATTGGTCAAAGGAATGGATCATCT
TGAATACTCTAAGGAACCGAAGTTATAAAAGAACTCATAAATGTTTGACTAGTTCGAAAGTTCGT
CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTT
TAAAAAATGACAAATATTTT
Found at i:17291813 original size:646 final size:645
Alignment explanation
Indices: 17290546--17291954 Score: 1612
Period size: 646 Copynumber: 2.2 Consensus size: 645
17290536 GGAATCGGAG
* * * * * *
17290546 CTATAAAAGAACTCATAAAAGTTTAACTAGTTCGTAACTTTGTCCAAGAACCAAGAG-GAAAACA
1 CTATAAAAGAACTC-TAAAATTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAG-AAACA
* * * *
17290610 ATTCTCACGTAAATAAGTTTTTTTATTCAAAGATCAAAAGTTGTTTAAAAAATGACAACCTATTT
64 ATTCTCACGTAAATAAG-CTTTTAATTCAAAGACCAAAAGTTGTTTAAAAAATGACAACATATTT
* * * * * **
17290675 AGACCAAATGATGCAATTTCATGTGCATGGAATTATCAAATTGCTAAAACGAATGGATCGTTTTT
128 AGACCAAATGATGCAATTTCATGAGCACGGAATGATCAAATTGCTAAAACGAACGGATCGATCAT
* ** * *
17290740 AAATACTTTAAGGAACCAGAGTTATAAAAGAACTCATAAAAGTTTGGCTAGTTCGTAAATTCGTC
193 AAATACTCTAAGGAACCAGAGTTATAAAAGAACTCATAAAAGTTTAACTAGTTCGGAAATTCGTA
* * *
17290805 CAAGAACCAAGAGGGAAACAATTCTCACATAAATAAGTTTTTTATTCAAAGATCAAAAGTTGTTT
258 CAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGATCAAAAGTTATTT
** * * *
17290870 AAAAAATGACAACATATTTAGACCAAATGATGTAATTTCCCGAGCATGCAATGATCGGAAAATTG
323 AAAAAATGACAACATATTTAGACCAAATGATACAATTTCCCGAGCATGAAATGATCAGAAAATTA
* *
17290935 CTCAAAGGAATGGATCATCCTTGAATACTTTAAGGAATCAAAGTTATAAAAGAACTAATAAAAGT
388 ATCAAAGGAATGGATCATCCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTAATAAAAGT
* * * * * *
17291000 TTGACATGTTCGGAAGTTCATCCAAGATCCCACAAAAAAATAATTCTCATGTAAATAAGTTTTTA
453 TTGACAAGTTCGAAAGTTCATCCAAGAACCAACAAAAAAACAATTCTCACGTAAATAAGTTTTTA
*
17291065 ATTCAAAGACCAAAAGTTGTTTACAAAAAAACAAACAATTTGACCAAATGATGGGATTTCCCCAG
518 ATTCAAAGACCAAAAGTTGTTTACAAAAAAACAAACAATTTGACCAAATGATGCGATTTCCCCAG
* * *
17291130 CATGGAATTTTCAGAAAATTAGTCAAAGGAATGGATCGTC-CTAAATACTCTCAAGAACCAAAGT
583 CACGAAATGTTCAGAAAATTAGTCAAAGGAATGGATCGTCTC-AAATACTCTCAAGAACCAAA-T
*
17291194 -TATAAAAGAACTCGTAAAATTTTGACAAGTTCGAAAGTTCGTCCAAGAGCCAAGAGAGAAACAA
1 CTATAAAAGAACTC-TAAAATTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAA
*
17291258 TTATCACGTAAATAAG-TTTCTAATTCAAAGACCAAAAGTTGTTTAAAAAATGACAA-ATATTTT
65 TTCTCACGTAAATAAGCTTT-TAATTCAAAGACCAAAAGTTGTTTAAAAAATGACAACATA-TTT
* * * ** *
17291321 AGACCAAATGATGCGATTTC-TCGAGCACGGAATGCTCGAAAAATTGGTTGAAGGAACGGATC-A
128 AGACCAAATGATGCAATTTCAT-GAGCACGGAATGATC---AAATTGCTAAAACGAACGGATCGA
* * * * * *
17291384 TCATGAATTCTCTCAGGAACC-GAAGTTATAAAAGAACTCGTAAATGTTTAACTAGTTCGGAAGT
189 TCATAAATACTCTAAGGAACCAG-AGTTATAAAAGAACTCATAAAAGTTTAACTAGTTCGGAAAT
17291448 TCGTACAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGA-CAAAAAG
253 TCGTACAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGATC-AAAAG
* * * * * *
17291512 TTATTTACAAAAA-GA-TA-GTTTTTAGACCAAATGTTACAATTTCTCGAGCACT-AAATGTTCA
317 TTATTTA-AAAAATGACAACATATTTAGACCAAATGATACAATTTCCCGAGCA-TGAAATGATCA
* ** *
17291573 GAATATTAATTGAAGGAATGGATCAT-CTTGAATACTATT-AGGAACCGAAGTTATAAAAGAACT
380 GAAAATTAATCAAAGGAATGGATCATCCTTGAATACT-TTAAGGAACCAAAGTTATAAAAGAACT
** * ** * * * *
17291636 CGTAAATGTTTGACAAGTTCGAAAGTTTTTCCATGAACCAAGAGAGAAACAATTCTCACGTAAAT
444 AATAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAACAAAAAAACAATTCTCACGTAAAT
** **
17291701 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGACAAACTTTTTAGACCAAATGATGCG
509 AAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAAAAACAAACAATTT-GACCAAATGATGCG
* * * * ** * * * * *
17291766 ATTTCTCGAGTACGAAATGTTCGGAATGTTGGTCGGAA-GAATGGATCGTCTCGAATACTCTTAG
573 ATTTCCCCAGCACGAAATGTTCAGAAAATTAGTC-AAAGGAATGGATCGTCTCAAATACTCTCAA
* **
17291830 GCACTGAAT
637 GAACCAAAT
* * *
17291839 CTAT-AAAGAAACTCTTAAATGTTTGACAA-TATCGAAAGTTCGTCAAAGAACCATGAGAGAAAC
1 CTATAAAAG-AACTCTAAAAT-TTTGACAAGT-TCGAAAGTTCGTCCAAGAACCAAGAGAGAAAC
*
17291902 AATTCTCACGTAAATAAGCTTTTAATTCAAAGACCAAAAGTTTTTTACAAAAA
63 AATTCTCACGTAAATAAGCTTTTAATTCAAAGACCAAAAGTTGTTTA-AAAAA
17291955 GATGATGTGA
Statistics
Matches: 641, Mismatches: 99, Indels: 43
0.82 0.13 0.05
Matches are distributed among these distances:
645 145 0.23
646 272 0.42
647 84 0.13
648 118 0.18
649 22 0.03
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (645 bp):
CTATAAAAGAACTCTAAAATTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAAT
TCTCACGTAAATAAGCTTTTAATTCAAAGACCAAAAGTTGTTTAAAAAATGACAACATATTTAGA
CCAAATGATGCAATTTCATGAGCACGGAATGATCAAATTGCTAAAACGAACGGATCGATCATAAA
TACTCTAAGGAACCAGAGTTATAAAAGAACTCATAAAAGTTTAACTAGTTCGGAAATTCGTACAA
GAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGATCAAAAGTTATTTAAA
AAATGACAACATATTTAGACCAAATGATACAATTTCCCGAGCATGAAATGATCAGAAAATTAATC
AAAGGAATGGATCATCCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTAATAAAAGTTTG
ACAAGTTCGAAAGTTCATCCAAGAACCAACAAAAAAACAATTCTCACGTAAATAAGTTTTTAATT
CAAAGACCAAAAGTTGTTTACAAAAAAACAAACAATTTGACCAAATGATGCGATTTCCCCAGCAC
GAAATGTTCAGAAAATTAGTCAAAGGAATGGATCGTCTCAAATACTCTCAAGAACCAAAT
Found at i:17292652 original size:80 final size:80
Alignment explanation
Indices: 17292547--17292697 Score: 239
Period size: 80 Copynumber: 1.9 Consensus size: 80
17292537 AGGAGAAATG
* * * *
17292547 CCATGCCTTTTTAGCTACATCAGATCCTAATCAAGAGACATGACTCACTGGCTTTCGTACAAGAG
1 CCATGCCTTTTTAACTACATCAGATCCTAATCAAGAGACATGACTCACTAGCTTCCCTACAAGAG
17292612 TTAAAAGCAAAATTT
66 TTAAAAGCAAAATTT
* * *
17292627 CCATGCCTTTTTAACTACATTAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCTACAAGAG
1 CCATGCCTTTTTAACTACATCAGATCCTAATCAAGAGACATGACTCACTAGCTTCCCTACAAGAG
17292692 TTAAAA
66 TTAAAA
17292698 TGAAATTAGT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (80 bp):
CCATGCCTTTTTAACTACATCAGATCCTAATCAAGAGACATGACTCACTAGCTTCCCTACAAGAG
TTAAAAGCAAAATTT
Found at i:17293935 original size:215 final size:216
Alignment explanation
Indices: 17293157--17294288 Score: 1558
Period size: 215 Copynumber: 5.2 Consensus size: 216
17293147 AGGTCATATC
*
17293157 AAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCAAGCACGAAATGTTCGGAATATTGGTC
1 AAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGCACGAAATGTTCGGAATATTGGTC
* * * * *
17293222 GAAGGAATGGGTCGTCTTGAATACTGTCAGGAACCGAAGTTATAAAAGAACTTTTAAATATTTGA
66 GAAGGAATGGATCGTCTTGAATACTCTCAGGAACCAAAGTTATAAAAGAACTCTTAAATGTTTGA
* * * * *
17293287 CAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAATTATGTTTTTAATTC
131 CAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTC
17293352 AAAGACCAAAAGTTGTTTACA
196 AAAGACCAAAAGTTGTTTACA
* * * * * * *
17293373 GAACGACAAACTTTTTAGACCAAATGATGAGATTTCTAGAGTATGGAATGTTCGGAATATTGGTC
1 AAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGCACGAAATGTTCGGAATATTGGTC
* * * *
17293438 GAAGGAATGGATCG-CTCGAATACTCTGAGGCACCAAATTTATAAAAGAACTCTTAAATGTTTGA
66 GAAGGAATGGATCGTCTTGAATACTCTCAGGAACCAAAGTTATAAAAGAACTCTTAAATGTTTGA
* * * *
17293502 CAAGATCGAAAATTCATCCAAGAACCATGAGAGAAACAATTTTCACATAAATAAGTTTTTTTAAT
131 CAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAG--TTTTTAAT
*
17293567 TCAAAGACCAAAAGTAGTTTACA
194 TCAAAGACCAAAAGTTGTTTACA
* ** * * * ** * *
17293590 AAATGACAAACAATTT-GACAAAATGATGCGATTT-TCCGAGCATGGAATGTTCAAAAAATTGAT
1 AAAAGACAAACTTTTTAGACCAAATGATGCGATTTCT-CGAGCACGAAATGTTCGGAATATTGGT
* *
17293653 CGAAGGAATGGATCATCCTGAATACTCTCAGGAACCAAAGTTATAAAAGAAC-CTGTAAATGTTT
65 CGAAGGAATGGATCGTCTTGAATACTCTCAGGAACCAAAGTTATAAAAGAACTCT-TAAATGTTT
*
17293717 GACAAGTTCGAAACTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAAT
129 GACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAAT
*
17293782 TCAAAGACCAAAAGTTTTTTACA
194 TCAAAGACCAAAAGTTGTTTACA
17293805 AAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGCAC-AGAATGTTCGGAATATTGGT
1 AAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGCACGA-AATGTTCGGAATATTGGT
* * * * *
17293869 CGAAGGAATTGATCGTCTTGAAT-CTGTTAGGAACCAAAGTTATAAAAGAACTCGTAAATATTTG
65 CGAAGGAATGGATCGTCTTGAATACTCTCAGGAACCAAAGTTATAAAAGAACTCTTAAATGTTTG
* * *
17293933 ACAAGTTGGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAGGTTTTTGATT
130 ACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATT
*
17293998 CAAAGGCCAAAAGTTGTTTACA
195 CAAAGACCAAAAGTTGTTTACA
* * * *
17294020 AAATGACAAAATTTTTAGACCAATTGATGCGATTTCTCGAGCACGAAATGTTCAGAATATTGGTC
1 AAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGCACGAAATGTTCGGAATATTGGTC
* * * * *
17294085 GAAGGAATGGCTCGTCTTGAATACTCTCAAGAATCGAAGCTATAAAAGAACTCTTAAATGTTTGA
66 GAAGGAATGGATCGTCTTGAATACTCTCAGGAACCAAAGTTATAAAAGAACTCTTAAATGTTTGA
* * **
17294150 CATGTTC-AGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATT
131 CAAGTTCGA-AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATT
*
17294214 CAAAGACCAAAAGTTTTTTTACA
195 CAAAGACCAAAAG-TTGTTTACA
* *
17294237 AAAAGACAAACTTTTTAGACCAAATGATGCTATTTCTCAAGCACGAAATGTT
1 AAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGCACGAAATGTT
17294289 TTGTCTTCTT
Statistics
Matches: 801, Mismatches: 102, Indels: 25
0.86 0.11 0.03
Matches are distributed among these distances:
215 327 0.41
216 283 0.35
217 191 0.24
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (216 bp):
AAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGCACGAAATGTTCGGAATATTGGTC
GAAGGAATGGATCGTCTTGAATACTCTCAGGAACCAAAGTTATAAAAGAACTCTTAAATGTTTGA
CAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTC
AAAGACCAAAAGTTGTTTACA
Found at i:17293982 original size:432 final size:429
Alignment explanation
Indices: 17293156--17294288 Score: 1603
Period size: 432 Copynumber: 2.6 Consensus size: 429
17293146 GAGGTCATAT
* * *
17293156 CAAAA-GACAAACTTTTTAGACCAAATGATGCGATTTCTCAAGCACGAAATGTTCGGAATATTGG
1 CAAAATGACAAACATTTTAGACCAAATGATGCGATTTCTCGAGCACGAAATGTTCAGAATATTGG
* * * *
17293220 TCGAAGGAATGGGTCGTCTTGAATACTGTCAGGAACCGAAGTTATAAAAGAACTTTTAAATATTT
66 TCGAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAAC-CTTAAATGTTT
* * *
17293285 GACAAGTTTGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAATTATGTTTTTAAT
130 GACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * * * * *
17293350 TCAAAGACCAAAAGTTGTTTACAGAACGACAAACTTTTTAGACCAAATGATGAGATTTCTAGAGT
195 TCAAAGACCAAAAGTTTTTTACAAAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGC
* * *
17293415 ATGGAATGTTCGGAATATTGGTCGAAGGAATGGATCGCTCGAATACTCTGAGGCACCAAATTTAT
260 A-CGAATGTTCGGAATATTGGTCGAAGGAATGGATCGCTCGAATACTCTGAGGAACCAAAGTTAT
* * * *
17293480 AAAAGAACTCTTAAATGTTTGACAAGATCGAAAATTCATCCAAGAACCATGAGAGAAACAATTTT
324 AAAAGAACTCGTAAATATTTGACAAGATCGAAAATTCATCCAAGAACCAAGAGAGAAACAATTCT
*
17293545 CACATAAATAAGTTTTTTTAATTCAAAGACCAAAAGTAGTTTA
389 CACATAAAT-AG-GTTTTTAATTCAAAGACCAAAAGTAGTTTA
* * * * * *
17293588 CAAAATGACAAACAATTT-GACAAAATGATGCGATTT-TCCGAGCATGGAATGTTCAAAAAATTG
1 CAAAATGACAAACATTTTAGACCAAATGATGCGATTTCT-CGAGCACGAAATGTTCAGAATATTG
* * * *
17293651 ATCGAAGGAATGGATCATCCTGAATACTCTCAGGAACCAAAGTTATAAAAGAACCTGTAAATGTT
65 GTCGAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACCT-TAAATGTT
* * *
17293716 TGACAAGTTCGAAACTTCATCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAA
129 TGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
17293781 TTCAAAGACCAAAAGTTTTTTACAAAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAG
194 TTCAAAGACCAAAAGTTTTTTACAAAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAG
* * * *
17293846 CACAGAATGTTCGGAATATTGGTCGAAGGAATTGATCGTCTTGAAT-CTGTTAGGAACCAAAGTT
259 CAC-GAATGTTCGGAATATTGGTCGAAGGAATGGATCG-CTCGAATACTCTGAGGAACCAAAGTT
* * *
17293910 ATAAAAGAACTCGTAAATATTTGACAAGTTGGAAAGTTCATCCAAGAACCAAGAGAGAAACAATT
322 ATAAAAGAACTCGTAAATATTTGACAAGATCGAAAATTCATCCAAGAACCAAGAGAGAAACAATT
* * *
17293975 CTCACATAAATAGGTTTTTGATTCAAAGGCCAAAAGTTGTTTA
387 CTCACATAAATAGGTTTTTAATTCAAAGACCAAAAGTAGTTTA
*
17294018 CAAAATGACAAA-ATTTTTAGACCAATTGATGCGATTTCTCGAGCACGAAATGTTCAGAATATTG
1 CAAAATGACAAACA-TTTTAGACCAAATGATGCGATTTCTCGAGCACGAAATGTTCAGAATATTG
* * * *
17294082 GTCGAAGGAATGGCTCGTCTTGAATACTCTCAAGAATCGAAGCTATAAAAGAACTCTTAAATGTT
65 GTCGAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAAC-CTTAAATGTT
* *
17294147 TGACATGTTC-AGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTA
129 TGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* *
17294211 ATTCAAAGACCAAAAGTTTTTTTACAAAAAGACAAACTTTTTAGACCAAATGATGCTATTTCTCA
193 ATTCAAAGACCAAAAG-TTTTTTACAAAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCG
17294276 AGCACGAAATGTT
257 AGCACG-AATGTT
17294289 TTGTCTTCTT
Statistics
Matches: 620, Mismatches: 69, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
429 1 0.00
430 42 0.07
431 169 0.27
432 392 0.63
433 16 0.03
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (429 bp):
CAAAATGACAAACATTTTAGACCAAATGATGCGATTTCTCGAGCACGAAATGTTCAGAATATTGG
TCGAAGGAATGGATCGTCTTGAATACTCTCAGGAACCGAAGTTATAAAAGAACCTTAAATGTTTG
ACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
CAAAGACCAAAAGTTTTTTACAAAAAGACAAACTTTTTAGACCAAATGATGCGATTTCTCGAGCA
CGAATGTTCGGAATATTGGTCGAAGGAATGGATCGCTCGAATACTCTGAGGAACCAAAGTTATAA
AAGAACTCGTAAATATTTGACAAGATCGAAAATTCATCCAAGAACCAAGAGAGAAACAATTCTCA
CATAAATAGGTTTTTAATTCAAAGACCAAAAGTAGTTTA
Found at i:17295523 original size:431 final size:431
Alignment explanation
Indices: 17294311--17296294 Score: 2344
Period size: 431 Copynumber: 4.6 Consensus size: 431
17294301 AAAAAAACTT
* **
17294311 TTGGTCTTTGAATTAAAAACTTATTTAAATGAGAATTGTTTCAT-TCTTGGTTCTTGGACGAACT
1 TTGGTCTATGAATTAAAAACTTATTTATGTGAGAATTGTTTC-TCTCTTGGTTCTTGGACGAACT
* * * *
17294375 TCCAAACTTGTCAAACATTTAAT-AGTTCTTTTATAACTTGGATTCCTGATAGTATTCAAGATGA
65 TCCGAACTTGTCAAACTTTTAATGAGTTCTTTTATAACTTGGATT-CTTAAAGTATTCAAGATGA
* * * * * * * * * *
17294439 TCCGTTCCTTCAACCAATATTCTAAACATTCCGTGCTCGAGAAATCGCATCAATTGGTTTAAAAA
129 TCCATTCCTTCGACAAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATA
**
17294504 TTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTC
194 GGTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTC
* * * * *
17294569 TCACTTGGTTCTTGGACAAACTTTCAAACTTTTCAAACATTTACGAGTTCTTTTATAACTTCGGT
259 TCTCTTGGTTCTTAGACGAACTTTCAAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGAT
* * * *
17294634 TCCTTAGAGTACTCAAGACGATCCATTCCTTTGACCAATTTTTCGAAAATTCCATGCTGGGGAAA
324 TCCTGAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCCGAAAATTCCATGCTCGGGAAA
* *
17294699 TCACATCATTTGGTCAAATTGTTTGTTATTTTGTAAATAGCTA
389 TCACATCATTTGGTCAAATTGTTTGTCATTTTGTAAACAGCTA
* *
17294742 TTGGTCTATGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTATTGGTTCTTGGATGAACTT
1 TTGGTCTATGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT
** * * * * *
17294807 TTGAGCTTGTCAAAC-TTTAATGAGTTCTTTTATAAATTTGATTTCTTAAAAGTATTTAAGACGA
66 CCGAACTTGTCAAACTTTTAATGAGTTCTTTTATAACTTGGA-TTCTT-AAAGTATTCAAGATGA
* * *
17294871 TCCATTCCTTCAACAAATTTTTTGAACATTCAATGCTTGAGAAATCGCATCATTTGGTCTAAA-A
129 TCCATTCCTTCGACAAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATA
* *
17294935 AGTTAGTCATTTTGTCAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGT-AGGAATTGTT
194 GGTT-GTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGA-GAATTGTT
* * * *
17294999 TCTCTCTTGGTTCTTATATGAACTTTCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCA
257 TCTCTCTTGGTTCTTAGACGAACTTTCAAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCG
* * * * *
17295064 ATTCCTGAGAGTATTTAGGATGATCCATTCCTTTGATCAATTTTCCGAAAATTTCATGCTCGGGA
322 ATTCCTGAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCCGAAAATTCCATGCTCGGGA
** * *
17295129 AATCGTATCTTTTGGTCAAATTGTTTGTCATTTTGTAAACTGCTA
387 AATCACATCATTTGGTCAAATTGTTTGTCATTTTGTAAACAGCTA
* *
17295174 TTGCTCTATGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTAGTTCTTGGACGAACTT
1 TTGGTCTATGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT
*
17295239 CCGAACTTGTCAAA-TTTTAATGAGTTCTTTTATAACTTCGGCTTCTTAAAGTATTCAAGATGAT
66 CCGAACTTGTCAAACTTTTAATGAGTTCTTTTATAACTT-GGATTCTTAAAGTATTCAAGATGAT
*** *
17295303 CCATTCCTTCGACAAATTTTCCAAACATTCCATGCTCGAGAAATCGCATCATTTTGTCTAAATAG
130 CCATTCCTTCGACAAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAG
* * * * * * *
17295368 GTTGTTATTTTTTAAAAAACTTTGGGTCTTTGAATAAAAAACTTTTTTACGTTAGAATTGTTTCT
195 GTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * * *
17295433 CTCTTGGTTCTAAGATGAAC-TTCTGAACTTGTCAAACATTTATGAGTTCTTTAAGAACTTTGAT
260 CTCTTGGTTCTTAGACGAACTTTC-AAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGAT
* * * * * * * *
17295497 TCCTTAGAGTATTCAAGACGATCCATTCCTTCGACCAATATTCTGAACATTTCGTGCTTGGGAAA
324 TCCTGAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCCGAAAATTCCATGCTCGGGAAA
* * * *
17295562 TCGCATCAGTTGGTCAAATTGTTTGTCACTTTGTAAACAAG-TT
389 TCACATCATTTGGTCAAATTGTTTGTCATTTTGTAAAC-AGCTA
* *
17295605 TTGGTCTTTGAATTAAAAACTTATTT-TCGTGAGAATTGATTT-TTTCTTGGTTCTTGGACGAAC
1 TTGGTCTATGAATTAAAAACTTATTTAT-GTGAGAATTG-TTTCTCTCTTGGTTCTTGGACGAAC
* * * * * * *
17295668 TTACGAACTAGTCAAACTTTT-ATGAGTTCTTTTATAACTTCAGTTTCTTTAACTATTCAAAGAC
64 TTCCGAACTTGTCAAACTTTTAATGAGTTCTTTTATAACTT-GGATTCTTAAAGTATTC-AAGAT
* * ** * * * *
17295732 GATCTATTCCTTTGTGTAATTTTTTTGAATATTCCATGCTCGAGAAATCGTATCATTAGGTCTAA
127 GATCCATTCCTTCG-ACAAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAA
* * * * * * *
17295797 ATAGTTTGCCACTTTGTAAACAACTTTTTTGTTTTTGAATTAAAAACTTAATTATGTGAGAATTG
191 ATAGGTTGTCATTTTGTAAACAAC-TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG
* * *
17295862 TTTCTTTCTTGGTTCTTGGACGAACTTTCAAACTTGTCAAACATTTACCAGTTCTTTTATAACTT
255 TTTCTCTCTTGGTTCTTAGACGAACTTTCAAACTTGTCAAACATTTACGAGTTCTTTTATAACTT
* * * * *
17295927 CGGTTCCTGAGAGTATTCATGGCGATCCGTTCCTTTGACCAATTTT-CTAAACATTCCATGCTCG
320 CGATTCCTGAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCCGAAA-ATTCCATGCTCG
* * * * *
17295991 AGAAATCACATCGTTTGGTCTAAAATGTTTGTCATTTTGTAAACAACTT
384 GGAAATCACATCATTTGGTC-AAATTGTTTGTCATTTTGTAAACAGCTA
* * * * ** *
17296040 TTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGATTCTCTCTTACTTCTTGGATGAACTT
1 TTGGTCTATGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT
* * * *
17296105 TCGAACTAGTCAAACTTTT-ATGAGTTCTTTTATAACTTTGATTCCTTAAAGCATTCAAGGATGA
66 CCGAACTTGTCAAACTTTTAATGAGTTCTTTTATAACTTGGATT-CTTAAAGTATTCAA-GATGA
* * * *
17296169 TCCATTCCTTTGAGC-AATTTTTCGATCATTGCATGCTCTG-GAAATCGCATCATTTGGTCTAAA
129 TCCATTCCTTCGA-CAAATTTTTTGAACATTCCATGCTC-GAGAAATCGCATCATTTGGTCTAAA
* * *
17296232 TAGGATGTCATATTT-TAAACAACTTTTGGCCTTTGAATAAAAAAACTTATTTACGTGAGAATT
192 TAGGTTGTCAT-TTTGTAAACAACTTTTGGTCTTTGAAT-TAAAAACTTATTTACGTGAGAATT
17296295 TGATGTGAGC
Statistics
Matches: 1319, Mismatches: 204, Indels: 57
0.83 0.13 0.04
Matches are distributed among these distances:
430 11 0.01
431 457 0.35
432 403 0.31
433 73 0.06
434 230 0.17
435 145 0.11
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (431 bp):
TTGGTCTATGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT
CCGAACTTGTCAAACTTTTAATGAGTTCTTTTATAACTTGGATTCTTAAAGTATTCAAGATGATC
CATTCCTTCGACAAATTTTTTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGG
TTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC
TCTTGGTTCTTAGACGAACTTTCAAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGATTC
CTGAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCCGAAAATTCCATGCTCGGGAAATC
ACATCATTTGGTCAAATTGTTTGTCATTTTGTAAACAGCTA
Found at i:17295564 original size:216 final size:215
Alignment explanation
Indices: 17294288--17296294 Score: 2149
Period size: 216 Copynumber: 9.3 Consensus size: 215
17294278 CACGAAATGT
* **
17294288 TTTGTC-TTCTTGTAAAAAAACTTTTGGTCTTTGAATTAAAAACTTATTTAAATGAGAATTGTTT
1 TTTGTCATT-TTGT-AAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
** *
17294352 CAT-TCTTGGTTCTTGGACGAACTTCCAAACTTGTCAAACATTTAAT-AGTTCTTTTATAACTTG
64 C-TCTCTTGGTTCTTGGACGAACTT-TGAACTTGTCAAACATTT-ATGAGTTCTTTTATAACTTC
* * * * ** * * *
17294415 GATTCCTGATAGTATTCAAGATGATCCGTTCCTTCAACCAATATTCTAAACATTCCGTGCTCGAG
126 GATTCCTTAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCTGAACATTCCATGCTCGAG
* * * *
17294480 AAATCGCATCAATTGGTTTAAAAAT
191 AAATCGCATCATTTGGTCTAAATAG
17294505 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
1 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * *
17294570 CACTTGGTTCTTGGACAAACTTTCAAACTTTTCAAACATTTACGAGTTCTTTTATAACTTCGGTT
66 CTCTTGGTTCTTGGACGAACTTT-GAACTTGTCAAACATTTATGAGTTCTTTTATAACTTCGATT
* * * *
17294635 CCTTAGAGTACTCAAGACGATCCATTCCTTTGACCAATTTT-TCGAAAATTCCATGCTGGGGAAA
130 CCTTAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCT-GAACATTCCATGCTCGAGAAA
* *
17294699 TCACATCATTTGGTC-AAATTG
194 TCGCATCATTTGGTCTAAATAG
* * * * * *
17294720 TTTGTTATTTTGTAAATAGCTATTGGTCTATGAATTAAAAACTTATTTATGTGAGAATTGTTTCT
1 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * *
17294785 CTATTGGTTCTTGGATGAACTTTTGAGCTTGTCAAAC-TTTAATGAGTTCTTTTATAAATTTGAT
66 CTCTTGGTTCTTGGACGAAC-TTTGAACTTGTCAAACATTT-ATGAGTTCTTTTATAACTTCGAT
* * * ** * * * *
17294849 TTCTTAAAAGTATTTAAGACGATCCATTCCTTCAACAAATTTTTTGAACATTCAATGCTTGAGAA
129 TCCTT-AGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCTGAACATTCCATGCTCGAGAA
*
17294914 ATCGCATCATTTGGTCTAAAAAG
193 ATCGCATCATTTGGTCTAAATAG
* *
17294937 TTAGTCATTTTGTCAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGT-AGGAATTGTTTC
1 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGA-GAATTGTTTC
** * * *
17295001 TCTCTTGGTTCTTATATGAACTTTCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCAAT
65 TCTCTTGGTTCTTGGACGAACTTT-GAACTTGTCAAACATTTATGAGTTCTTTTATAACTTCGAT
* * * * * * * * *
17295066 TCCTGAGAGTATTTAGGATGATCCATTCCTTTGATCAATTTTCCGAAAATTTCATGCTCGGGAAA
129 TCCTTAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCTGAACATTCCATGCTCGAGAAA
* * *
17295131 TCGTATCTTTTGGTC-AAATTG
194 TCGCATCATTTGGTCTAAATAG
** * * * *
17295152 TTTGTCATTTTGTAAACTGCTATTGCTCTATGAATTAAAAACTTATTTATGTGAGAATTGTTTCT
1 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * *
17295217 CTCTTAGTTCTTGGACGAACTTCCGAACTTGTCAAA-TTTTAATGAGTTCTTTTATAACTTCGGC
66 CTCTTGGTTCTTGGACGAACTT-TGAACTTGTCAAACATTT-ATGAGTTCTTTTATAACTTC-GA
* * * * **
17295281 TT-CTTAAAGTATTCAAGATGATCCATTCCTTCGACAAATTTTCCAAACATTCCATGCTCGAGAA
128 TTCCTTAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCTGAACATTCCATGCTCGAGAA
*
17295345 ATCGCATCATTTTGTCTAAATAG
193 ATCGCATCATTTGGTCTAAATAG
* * * * * * * *
17295368 GTTGTTATTTTTTAAAAAACTTTGGGTCTTTGAATAAAAAACTTTTTTACGTTAGAATTGTTTCT
1 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
** * * * *
17295433 CTCTTGGTTCTAAGATGAACTTCTGAACTTGTCAAACATTTATGAGTTCTTTAAGAACTTTGATT
66 CTCTTGGTTCTTGGACGAACTT-TGAACTTGTCAAACATTTATGAGTTCTTTTATAACTTCGATT
* * * * * *
17295498 CCTTAGAGTATTCAAGACGATCCATTCCTTCGACCAATATTCTGAACATTTCGTGCTTGGGAAAT
130 CCTTAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCTGAACATTCCATGCTCGAGAAAT
* *
17295563 CGCATCAGTTGGTC-AAATTG
195 CGCATCATTTGGTCTAAATAG
* * *
17295583 TTTGTCACTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTTCGTGAGAATTGATTT-
1 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG-TTTC
* * * * *
17295647 TTTCTTGGTTCTTGGACGAACTTACGAACTAGTCAAACTTTTATGAGTTCTTTTATAACTTCAGT
65 TCTCTTGGTTCTTGGACGAACTT-TGAACTTGTCAAACATTTATGAGTTCTTTTATAACTTC-GA
* * * *** * *
17295712 TTCTTTA-ACTATTCAAAGACGATCTATTCCTTTGTGTAATTTTTTTGAATATTCCATGCTCGAG
128 TTCCTTAGAGTATTC-AAGACGATCCATTCCTTTGACCAA-TTTTCTGAACATTCCATGCTCGAG
* *
17295776 AAATCGTATCATTAGGTCTAAATAG
191 AAATCGCATCATTTGGTCTAAATAG
* * * * * *
17295801 TTTGCCACTTTGTAAACAACTTTTTTGTTTTTGAATTAAAAACTTAATTATGTGAGAATTGTTTC
1 TTTGTCATTTTGTAAACAAC-TTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTC
* * ** *
17295866 TTTCTTGGTTCTTGGACGAACTTTCAAACTTGTCAAACATTTACCAGTTCTTTTATAACTTCGGT
65 TCTCTTGGTTCTTGGACGAACTTT-GAACTTGTCAAACATTTATGAGTTCTTTTATAACTTCGAT
* * * * *
17295931 TCCTGAGAGTATTCATGGCGATCCGTTCCTTTGACCAATTTTCTAAACATTCCATGCTCGAGAAA
129 TCCTTAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCTGAACATTCCATGCTCGAGAAA
* *
17295996 TCACATCGTTTGGTCTAAA-ATG
194 TCGCATCATTTGGTCTAAATA-G
* *
17296018 TTTGTCATTTTGTAAACAACTTTTTGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGATTCT
1 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
** * * * *
17296083 CTCTTACTTCTTGGATGAACTTTCGAACTAGTCAAACTTTTATGAGTTCTTTTATAACTTTGATT
66 CTCTTGGTTCTTGGACGAACTTT-GAACTTGTCAAACATTTATGAGTTCTTTTATAACTTCGATT
* * * * * *
17296148 CCTTAAAGCATTCAAGGATGATCCATTCCTTTGAGCAATTTT-TCGATCATTGCATGCTCTG-GA
130 CCTTAGAGTATTCAA-GACGATCCATTCCTTTGACCAATTTTCT-GAACATTCCATGCTC-GAGA
17296211 AATCGCATCATTTGGTCTAAATAG
192 AATCGCATCATTTGGTCTAAATAG
** * *
17296235 GATGTCATATTT-TAAACAACTTTTGGCCTTTGAATAAAAAAACTTATTTACGTGAGAATT
1 TTTGTCAT-TTTGTAAACAACTTTTGGTCTTTGAAT-TAAAAACTTATTTACGTGAGAATT
17296295 TGATGTGAGC
Statistics
Matches: 1482, Mismatches: 272, Indels: 71
0.81 0.15 0.04
Matches are distributed among these distances:
214 6 0.00
215 400 0.27
216 601 0.41
217 297 0.20
218 82 0.06
219 96 0.06
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (215 bp):
TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
CTCTTGGTTCTTGGACGAACTTTGAACTTGTCAAACATTTATGAGTTCTTTTATAACTTCGATTC
CTTAGAGTATTCAAGACGATCCATTCCTTTGACCAATTTTCTGAACATTCCATGCTCGAGAAATC
GCATCATTTGGTCTAAATAG
Found at i:17296672 original size:48 final size:48
Alignment explanation
Indices: 17296597--17296727 Score: 228
Period size: 48 Copynumber: 2.8 Consensus size: 48
17296587 ATTTATGCTT
17296597 TCATTAAGTGTTTT-TTTGTTAAATGCATCTTTGTTTAATAATCTGCA
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCA
*
17296644 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATCTGCA
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCA
* *
17296692 TTATTAACTGTTTTGTTTGTTAAATGCATCTTTGTT
1 TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTT
17296728 AAATGCCTTG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
47 14 0.17
48 66 0.82
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.53
Consensus pattern (48 bp):
TCATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAATAATCTGCA
Found at i:17296740 original size:48 final size:46
Alignment explanation
Indices: 17296599--17296742 Score: 177
Period size: 48 Copynumber: 3.0 Consensus size: 46
17296589 TTATGCTTTC
*
17296599 ATTAAGTGTTTT-TTTGTTAAATGCATCTTTGTTTAATAATC-TGCATC
1 ATTAAGTGTTTTGTTTGTTAAATGCATCTTTG-TT-A-AATCTTGCATT
17296646 ATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTTAGTAATC-TGCATT
1 ATTAAGTGTTTTGTTTGTTAAATGCATCTTTG-TTA--AATCTTGCATT
*
17296694 ATTAACTGTTTTGTTTGTTAAATGCATCTTTGTTAAATGCCTTGCATT
1 ATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTAAAT--CTTGCATT
17296742 A
1 A
17296743 ATGCATTAGC
Statistics
Matches: 90, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
45 3 0.03
47 17 0.19
48 70 0.78
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (46 bp):
ATTAAGTGTTTTGTTTGTTAAATGCATCTTTGTTAAATCTTGCATT
Found at i:17298227 original size:216 final size:214
Alignment explanation
Indices: 17297715--17298410 Score: 821
Period size: 216 Copynumber: 3.2 Consensus size: 214
17297705 ATTTTTTCCC
* * * * *
17297715 CTCTTGGTTCTTGGACGAAGTTACGAACTAGTCAAACTTTTATGAGTTCTTTTATAACTTCGATT
1 CTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGATT
* * ** * *
17297780 CCTTAAAGTATTTAAAGATGATCCATTCATTTTAGCAATTTTC-GATCATTCCATGCTCGTGAAA
66 CCTTAAAGTATTT-AAGACGATCCATTCCTTCGA-CAATTTTCTGAACATTCCATGCTCGAGAAA
** * * * *
17297844 TTGCATAATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTT-CTCTTTGAATTGAAAAC
129 TCACATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAA-TTTTTGATCTTTGAATTAAAAAC
* *
17297908 TTAATAACGTG---TTGTTTCT
193 TTATTTACGTGAAATTGTTTCT
* * * * * *
17297927 CACTT-GTTCATGGACGAACTTTCGAACTTGTCAAACACTTACTAGTTCTTTTATAAATTTGATT
1 CTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGATT
* *
17297991 CCTTAAAGTATTTAAGACGATCCATTCCTTCGACTGATTTTCTGAACATTCCATGCTCGGGAAAT
66 CCTTAAAGTATTTAAGACGATCCATTCCTTCGAC-AATTTTCTGAACATTCCATGCTCGAGAAAT
* * * *
17298056 CACATCATTTGGTTTAAAAAATTTATCATTTTGTAAACAATTTTTGATTTTTGAATTAAAAACTT
130 CACATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAATTTTTGATCTTTGAATTAAAAACTT
17298121 ATTTACGTGAAAATTGTTTCT
195 ATTTACGTG-AAATTGTTTCT
* * * * *
17298142 CTCTGGGTTCTTGGACGAACTTCCAAACTTGTCAAACATTTAAGAGTTCTTTTATAACTTCGGTT
1 CTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGATT
* * ** * *
17298207 CATGAGGGTATTTAAGACGATCCATTCCTTCGACCAATTTTCTGAACATTCCATTCTCAAGAAAT
66 CCTTAAAGTATTTAAGACGATCCATTCCTTCGA-CAATTTTCTGAACATTCCATGCTCGAGAAAT
* * * *
17298272 CGA-ATCATTTGGTCTAAAAAGTTTGTTAATTTGTAAACAACTTTTGGTCTTTGAATTAAAAACT
130 C-ACATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAATTTTTGATCTTTGAATTAAAAACT
*
17298336 TATTTACATGAGAATTGTTTCT
194 TATTTACGTGA-AATTGTTTCT
* * *
17298358 GTCTTGGTTCTTAGACGAACTTTTGAACTTGTCAAACATTTACGAGTTCTTTT
1 CTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACATTTACGAGTTCTTTT
17298411 CTCTCAGCTG
Statistics
Matches: 408, Mismatches: 65, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
209 1 0.00
210 27 0.07
211 138 0.34
212 4 0.01
215 12 0.03
216 224 0.55
217 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (214 bp):
CTCTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACATTTACGAGTTCTTTTATAACTTCGATT
CCTTAAAGTATTTAAGACGATCCATTCCTTCGACAATTTTCTGAACATTCCATGCTCGAGAAATC
ACATCATTTGGTCTAAAAAGTTTGTCATTTTGTAAACAATTTTTGATCTTTGAATTAAAAACTTA
TTTACGTGAAATTGTTTCT
Found at i:17298534 original size:69 final size:69
Alignment explanation
Indices: 17298418--17298613 Score: 230
Period size: 69 Copynumber: 2.8 Consensus size: 69
17298408 TTTCTCTCAG
* *
17298418 CTGTAATATTAAGGCTCATAGGTGAAGAGCTGCAGCCTCCAACACAGTTAGCGAGAGCAAAACTC
1 CTGTAATATTAAGGCTCGTAGGTGAAGAGCTGCAGCCTCTAACACAGTTAGCGAGAGCAAAACTC
17298483 CCAA
66 CCAA
* * * *
17298487 CTGTTATATTAAGGCTCGTAGGTGAAGAGCCGCAGCCTCTAACACAGTTAGTGAGAGCAAAGCTC
1 CTGTAATATTAAGGCTCGTAGGTGAAGAGCTGCAGCCTCTAACACAGTTAGCGAGAGCAAAACTC
*
17298552 CCAG
66 CCAA
* * * * * * * * * * *
17298556 TTGTCATATTAAGACTAGCACGTGAAGAACTGCAACCTCTGACACAATTAGCGTGAGC
1 CTGTAATATTAAGGCTCGTAGGTGAAGAGCTGCAGCCTCTAACACAGTTAGCGAGAGC
17298614 TCAAGCTCCC
Statistics
Matches: 107, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 107 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.21
Consensus pattern (69 bp):
CTGTAATATTAAGGCTCGTAGGTGAAGAGCTGCAGCCTCTAACACAGTTAGCGAGAGCAAAACTC
CCAA
Found at i:17299502 original size:20 final size:20
Alignment explanation
Indices: 17299477--17299519 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17299467 GTTTAGCTTG
*
17299477 AAAGTATCGATATCTTTAAC
1 AAAGTATCGATAACTTTAAC
* *
17299497 AAAGTATCGGTAACTTTCAC
1 AAAGTATCGATAACTTTAAC
17299517 AAA
1 AAA
17299520 CAATATTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (20 bp):
AAAGTATCGATAACTTTAAC
Found at i:17300700 original size:24 final size:25
Alignment explanation
Indices: 17300673--17300722 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
17300663 GAGAAGGATA
17300673 GTGAGAGAAGGAGAGAT-AAGAAAG
1 GTGAGAGAAGGAGAGATAAAGAAAG
17300697 GTGAGAGAAGGAGAGATAAAGAAAG
1 GTGAGAGAAGGAGAGATAAAGAAAG
17300722 G
1 G
17300723 GTCACTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.42, T:0.08
Consensus pattern (25 bp):
GTGAGAGAAGGAGAGATAAAGAAAG
Found at i:17301798 original size:22 final size:22
Alignment explanation
Indices: 17301754--17301798 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
17301744 TACCATTTCC
* *
17301754 TTAGAATTTCCTTTCTTTCATT
1 TTAGAATTTACTTTATTTCATT
* *
17301776 TTAGAATTTAGTTTATTTTATT
1 TTAGAATTTACTTTATTTCATT
17301798 T
1 T
17301799 CTTGTTCTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (22 bp):
TTAGAATTTACTTTATTTCATT
Found at i:17308726 original size:192 final size:191
Alignment explanation
Indices: 17308294--17308726 Score: 688
Period size: 191 Copynumber: 2.3 Consensus size: 191
17308284 GTACTGACGC
* * * *
17308294 GATGGCTT-GGGTACCACATATGTTACGAGTCCTCGACAGCTCGTGTGAGCGGCATCGTGATTTA
1 GATGG-TTGGGGTACCGCATATGTTACGAGTCCTCGATAGCTCGTGTGAGCGGCATCATGATTCA
* * *
17308358 GAAAAGTGATATGAATCCTAAATGGATTATAGGCCTTTCGATGGCTGGGACTTATGCTTTATACA
65 GAAAAGTGATATGAATCCTAAATGGATTATAGGCCCTTCGATGACTAGGACTTATGCTTTATACA
* * *
17308423 TACTCCGATAGCTCGTGTGAGGAGCATCGTTAAGGGGACAGTTTGCATACAGCCACTGTACT
130 TACTCCGATAGCTCGTGTGAGCAGCATCGTTAAGGGGACAGTTTACATACAGCCACCGTACT
*
17308485 GATGGTTGGGGTACCGCATATGTTACGAGTCCTCGATAGCTCATGTGAGCGGCATCATGATTCAG
1 GATGGTTGGGGTACCGCATATGTTACGAGTCCTCGATAGCTCGTGTGAGCGGCATCATGATTCAG
*
17308550 AAAAGTGATATGAATCCTAAATGGATTATTGGCCCTTCGATGACTAGGACTTATGCTTTATACAT
66 AAAAGTGATATGAATCCTAAATGGATTATAGGCCCTTCGATGACTAGGACTTATGCTTTATACAT
*
17308615 ACTCCCGATAGCTTGTGTGAGCAGCATCGTTAAGGGGACAGTTTACATACAGCCACCGTACT
131 ACT-CCGATAGCTCGTGTGAGCAGCATCGTTAAGGGGACAGTTTACATACAGCCACCGTACT
* * * *
17308677 GATGGTTGGGGTACCGCATATGTTGCAAGTCCTCAATTGCTCGTGTGAGC
1 GATGGTTGGGGTACCGCATATGTTACGAGTCCTCGATAGCTCGTGTGAGC
17308727 AGTATCGGGT
Statistics
Matches: 222, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
190 2 0.01
191 121 0.55
192 99 0.45
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (191 bp):
GATGGTTGGGGTACCGCATATGTTACGAGTCCTCGATAGCTCGTGTGAGCGGCATCATGATTCAG
AAAAGTGATATGAATCCTAAATGGATTATAGGCCCTTCGATGACTAGGACTTATGCTTTATACAT
ACTCCGATAGCTCGTGTGAGCAGCATCGTTAAGGGGACAGTTTACATACAGCCACCGTACT
Found at i:17309438 original size:21 final size:21
Alignment explanation
Indices: 17309412--17309462 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
17309402 AGAGTTTTTA
*
17309412 GTATCGGTAAATG-CATGACTT
1 GTATCGGTAAAAGTCAT-ACTT
*
17309433 GTATCGGTAAAAGTTATACTT
1 GTATCGGTAAAAGTCATACTT
17309454 GTATCGGTA
1 GTATCGGTA
17309463 GAACTAGCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (21 bp):
GTATCGGTAAAAGTCATACTT
Found at i:17316593 original size:17 final size:17
Alignment explanation
Indices: 17316571--17316610 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
17316561 AACTAAGAGG
*
17316571 AATGCAGTG-ATAATAAA
1 AATGCAG-GCATAAGAAA
17316588 AATGCAGGCATAAGAAA
1 AATGCAGGCATAAGAAA
17316605 AATGCA
1 AATGCA
17316611 TGAAAGCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.17
Consensus pattern (17 bp):
AATGCAGGCATAAGAAA
Found at i:17334612 original size:12 final size:12
Alignment explanation
Indices: 17334597--17334622 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17334587 TTTCAATTCT
17334597 AATTTCACTTTC
1 AATTTCACTTTC
17334609 AATTTCACTTTC
1 AATTTCACTTTC
17334621 AA
1 AA
17334623 CTTCGATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (12 bp):
AATTTCACTTTC
Found at i:17337605 original size:26 final size:25
Alignment explanation
Indices: 17337569--17337633 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
17337559 ACTACTAATG
*
17337569 TCGCTGTATGAGCATGTCCAAAATTA
1 TCGCTGCATGAGCATGT-CAAAATTA
* * * *
17337595 TCGCTGCATGAACATGTTAGAATTG
1 TCGCTGCATGAGCATGTCAAAATTA
*
17337620 TCGTTGCATGAGCA
1 TCGCTGCATGAGCA
17337634 CGTCTTGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 17 0.53
26 15 0.47
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (25 bp):
TCGCTGCATGAGCATGTCAAAATTA
Found at i:17345029 original size:15 final size:16
Alignment explanation
Indices: 17345009--17345041 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17344999 TGACACGACA
17345009 GATCTTT-TGGTGAAG
1 GATCTTTGTGGTGAAG
*
17345024 GATCTTTGTGTTGAAG
1 GATCTTTGTGGTGAAG
17345040 GA
1 GA
17345042 GCCACATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.21, C:0.06, G:0.33, T:0.39
Consensus pattern (16 bp):
GATCTTTGTGGTGAAG
Found at i:17346453 original size:17 final size:18
Alignment explanation
Indices: 17346433--17346473 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
17346423 ACATTTTAAC
* *
17346433 TGTCATTGCATTTGCA-T
1 TGTCATTACATTTCCATT
17346450 TGTCATTACATTTCCATT
1 TGTCATTACATTTCCATT
17346468 TGTCAT
1 TGTCAT
17346474 GGTATTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (18 bp):
TGTCATTACATTTCCATT
Found at i:17347515 original size:26 final size:26
Alignment explanation
Indices: 17347439--17347518 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 26
17347429 TTACTACTAA
* * *
17347439 TGTCGCTGTATAAGCATGTCCAAAAT
1 TGTCGCTGCATGAGCATGTCCAGAAT
** *
17347465 TGTCGCTGCATGAATATTTCCAGAAT
1 TGTCGCTGCATGAGCATGTCCAGAAT
* *
17347491 TGTCGCTGCATGAGCACGTCTAGAAT
1 TGTCGCTGCATGAGCATGTCCAGAAT
17347517 TG
1 TG
17347519 CGTCCAGAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (26 bp):
TGTCGCTGCATGAGCATGTCCAGAAT
Found at i:17350708 original size:41 final size:43
Alignment explanation
Indices: 17350570--17350718 Score: 214
Period size: 43 Copynumber: 3.5 Consensus size: 43
17350560 ACTCGATATT
* * *
17350570 TAAATGGAAGACTCATGTCGCAGGTTAAGCATGAGAATTTATA
1 TAAAAGGAAGACTCATGTCTCAGGTTGAGCATGAGAATTTATA
17350613 TAAAAGGAAGACTCATGTCTC-GTGTTGAGCATGAGAATTTATA
1 TAAAAGGAAGACTCATGTCTCAG-GTTGAGCATGAGAATTTATA
* *
17350656 TAAAAGGAAGACTCATGTCTCAGGATGAGAATGAG-A-TTATA
1 TAAAAGGAAGACTCATGTCTCAGGTTGAGCATGAGAATTTATA
*
17350697 TTAAAGGAAGACTCATGTCTCA
1 TAAAAGGAAGACTCATGTCTCA
17350719 AAATGAGCGT
Statistics
Matches: 98, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
41 26 0.27
42 2 0.02
43 69 0.70
44 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (43 bp):
TAAAAGGAAGACTCATGTCTCAGGTTGAGCATGAGAATTTATA
Found at i:17350726 original size:84 final size:86
Alignment explanation
Indices: 17350570--17350731 Score: 211
Period size: 84 Copynumber: 1.9 Consensus size: 86
17350560 ACTCGATATT
* * * *
17350570 TAAATGGAAGACTCATGTCGCAGGTTAAGCATGAGAATTTATATAAAAGGAAGACTCATGTCTCG
1 TAAAAGGAAGACTCATGTCGCAGGATAAGAATGAGAATTTATATAAAAGGAAGACTCATGTCTCA
***
17350635 TGTTGAGCATGAGAATTTATA
66 AAATGAGCATGAGAATTTATA
* * *
17350656 TAAAAGGAAGACTCATGTCTCAGGATGAGAATGAG-A-TTATATTAAAGGAAGACTCATGTCTCA
1 TAAAAGGAAGACTCATGTCGCAGGATAAGAATGAGAATTTATATAAAAGGAAGACTCATGTCTCA
*
17350719 AAATGAGCGTGAG
66 AAATGAGCATGAG
17350732 GTTTGTGTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
84 34 0.52
85 1 0.02
86 30 0.46
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.27
Consensus pattern (86 bp):
TAAAAGGAAGACTCATGTCGCAGGATAAGAATGAGAATTTATATAAAAGGAAGACTCATGTCTCA
AAATGAGCATGAGAATTTATA
Found at i:17350801 original size:40 final size:40
Alignment explanation
Indices: 17350743--17350839 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
17350733 TTTGTGTTTA
* * *
17350743 AAAAGGAAAACTTATGACTTGGTAGAGCATAAGAGTGATT
1 AAAAGGAAAACTTATGACTCGATAAAGCATAAGAGTGATT
* * *
17350783 AAAAGGAAGACTTGTGACTCGATAAAGCATAAGATTGATT
1 AAAAGGAAAACTTATGACTCGATAAAGCATAAGAGTGATT
*
17350823 AAAAGGAACACTTATGA
1 AAAAGGAAAACTTATGA
17350840 ACCTATGAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (40 bp):
AAAAGGAAAACTTATGACTCGATAAAGCATAAGAGTGATT
Found at i:17352015 original size:17 final size:17
Alignment explanation
Indices: 17351989--17352038 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
17351979 ACTAACACTA
*
17351989 AAATGTAATGACAATGG
1 AAATGCAATGACAATGG
*
17352006 AAATGCAATGATAATGG
1 AAATGCAATGACAATGG
*
17352023 AAATGCACTGACAATG
1 AAATGCAATGACAATG
17352039 TTTACTAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (17 bp):
AAATGCAATGACAATGG
Found at i:17352489 original size:13 final size:13
Alignment explanation
Indices: 17352473--17352499 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17352463 TCTCAGCCTC
17352473 TTTTCTTCATCCT
1 TTTTCTTCATCCT
17352486 TTTTCTTCATCCT
1 TTTTCTTCATCCT
17352499 T
1 T
17352500 CTCCTTCTCA
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:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTCTTCATCCT
Found at i:17380769 original size:19 final size:19
Alignment explanation
Indices: 17380732--17380772 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
17380722 AAGACTCTAA
* **
17380732 AGCGATATTGGCTTTTAAG
1 AGCGATATTGCCTAGTAAG
17380751 AGCGATATTGCCTAGTAAG
1 AGCGATATTGCCTAGTAAG
17380770 AGC
1 AGC
17380773 AATTTATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (19 bp):
AGCGATATTGCCTAGTAAG
Found at i:17380848 original size:35 final size:35
Alignment explanation
Indices: 17380802--17380881 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
17380792 TAAGAACTAA
*
17380802 AAATTACTGGGAATCTTGAACAGCTCGTATGAGTT-
1 AAATTACTGGGAATCTTGAACAACTCGTATGA-TTC
*
17380837 AAATTACTGGGAATCTTGAAGAACTCGTATGATTC
1 AAATTACTGGGAATCTTGAACAACTCGTATGATTC
*
17380872 AAATCACTGG
1 AAATTACTGG
17380882 AAGACTTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 2 0.05
35 39 0.95
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (35 bp):
AAATTACTGGGAATCTTGAACAACTCGTATGATTC
Found at i:17380890 original size:35 final size:35
Alignment explanation
Indices: 17380802--17380893 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 35
17380792 TAAGAACTAA
* * * *
17380802 AAATTACTGGGAATCTTGAACAGCTCGTATGAGTT
1 AAATCACTGGGAAACTTGAAGAACTCGTATGAGTT
* *
17380837 AAATTACTGGGAATCTTGAAGAACTCGTATGA-TT
1 AAATCACTGGGAAACTTGAAGAACTCGTATGAGTT
17380871 CAAATCACT-GGAAGACTTGAAGA
1 -AAATCACTGGGAA-ACTTGAAGA
17380894 GATCTACTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
34 6 0.12
35 45 0.88
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (35 bp):
AAATCACTGGGAAACTTGAAGAACTCGTATGAGTT
Found at i:17382617 original size:25 final size:25
Alignment explanation
Indices: 17382589--17382663 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
17382579 CAGAAATTTA
*
17382589 GCTCTTACGAGCCAAATAGAATATC
1 GCTCTTACGAGCCAAACAGAATATC
*
17382614 GCTCTTACGAGCCAAACAGGATATC
1 GCTCTTACGAGCCAAACAGAATATC
* *
17382639 GTTCTTACGAGCCAGACAGAATATC
1 GCTCTTACGAGCCAAACAGAATATC
17382664 TTTATCGTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (25 bp):
GCTCTTACGAGCCAAACAGAATATC
Found at i:17385043 original size:19 final size:18
Alignment explanation
Indices: 17385019--17385089 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
17385009 AACAATTAGG
17385019 AAAAAATATAAAAATCTCA
1 AAAAAATATAAAAATCT-A
* *
17385038 AAAAAATATAAAATTTTA
1 AAAAAATATAAAAATCTA
**
17385056 TAAAATTTTATAAAAATCATA
1 -AAAA-AATATAAAAATC-TA
17385077 AAAAAATATAAAA
1 AAAAAATATAAAA
17385090 TGTATAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
18 1 0.02
19 26 0.63
20 12 0.29
21 2 0.05
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAAATATAAAAATCTA
Found at i:17385080 original size:39 final size:38
Alignment explanation
Indices: 17385025--17385099 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 38
17385015 TAGGAAAAAA
*
17385025 TATAAAAATCTCAAAAAAATATAAAATTTTATAAAATTT
1 TATAAAAATCTCAAAAAAATATAAAA-TGTATAAAATTT
17385064 TATAAAAATCAT-AAAAAAATATAAAATGTATAAAAT
1 TATAAAAATC-TCAAAAAAATATAAAATGTATAAAAT
17385100 AATTCCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
38 9 0.26
39 24 0.71
40 1 0.03
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (38 bp):
TATAAAAATCTCAAAAAAATATAAAATGTATAAAATTT
Found at i:17385096 original size:19 final size:19
Alignment explanation
Indices: 17385019--17385098 Score: 65
Period size: 19 Copynumber: 4.2 Consensus size: 19
17385009 AACAATTAGG
*
17385019 AAAAAATATAAAAATCT-CA
1 AAAAAATATAAAAAT-TATA
*
17385038 AAAAAATATAAAATTTTATA
1 AAAAAATATAAAA-ATTATA
*** *
17385058 AAATTTTATAAAAATCATA
1 AAAAAATATAAAAATTATA
17385077 AAAAAATAT-AAAATGTATA
1 AAAAAATATAAAAAT-TATA
17385096 AAA
1 AAA
17385099 TAATTCCTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
18 5 0.11
19 30 0.64
20 12 0.26
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (19 bp):
AAAAAATATAAAAATTATA
Found at i:17385332 original size:20 final size:20
Alignment explanation
Indices: 17385294--17385332 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17385284 TATAAAAATT
*
17385294 TATATTTTTTTCTATATTTC
1 TATATTTTTTTATATATTTC
17385314 TATATATTTTTTATA-ATTT
1 TATAT-TTTTTTATATATTT
17385333 TTTTACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
TATATTTTTTTATATATTTC
Found at i:17385344 original size:31 final size:30
Alignment explanation
Indices: 17385249--17385355 Score: 85
Period size: 32 Copynumber: 3.5 Consensus size: 30
17385239 TGAATTTTAT
* *
17385249 ATTTCTTTATATTTTTTATTATTTTCTTACA
1 ATTTCTATATATTTTTTA-TATTTTTTTACA
* ***
17385280 A-CTCTATA-AAAATTTATATTTTTTT-CTA
1 ATTTCTATATATTTTTTATATTTTTTTAC-A
17385308 TATTTCTATATATTTTTTATAATTTTTTTACA
1 -ATTTCTATATATTTTTTAT-ATTTTTTTACA
*
17385340 ATTTCTAATAAATTTT
1 ATTTCT-ATATATTTT
17385356 AAATATATTT
Statistics
Matches: 58, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
27 1 0.02
28 9 0.16
29 6 0.10
30 11 0.19
31 13 0.22
32 17 0.29
33 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTCTATATATTTTTTATATTTTTTTACA
Found at i:17385381 original size:29 final size:29
Alignment explanation
Indices: 17385334--17385405 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
17385324 TTATAATTTT
* * * *
17385334 TTTACAATTTCTAATAAATTTTAA-ATATA
1 TTTATAATTTTTATTAAAATTTAATA-ATA
*
17385363 TTTAT-ATTTTTATTAAAATTTAATAATT
1 TTTATAATTTTTATTAAAATTTAATAATA
17385391 TTTATAATTTTTATT
1 TTTATAATTTTTATT
17385406 GATTTAATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 22 0.61
29 14 0.39
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTATAATTTTTATTAAAATTTAATAATA
Found at i:17387288 original size:18 final size:18
Alignment explanation
Indices: 17387265--17387300 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17387255 TTCCCAGGTA
17387265 ATCCCTTGGTAAGTATAT
1 ATCCCTTGGTAAGTATAT
17387283 ATCCCTTGGTAAGTATAT
1 ATCCCTTGGTAAGTATAT
17387301 CTGCCAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
ATCCCTTGGTAAGTATAT
Found at i:17394077 original size:17 final size:16
Alignment explanation
Indices: 17394052--17394085 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
17394042 TTCAGTTATG
17394052 CTTAAATTTTTATATTT
1 CTTAAATTTTTA-ATTT
*
17394069 CTTATATTTTTAATTT
1 CTTAAATTTTTAATTT
17394085 C
1 C
17394086 ACCCAAACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (16 bp):
CTTAAATTTTTAATTT
Found at i:17401251 original size:2 final size:2
Alignment explanation
Indices: 17401246--17401272 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17401236 TAATAACTTT
17401246 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
17401273 TATCCCAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17404970 original size:20 final size:18
Alignment explanation
Indices: 17404923--17404972 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
17404913 CAAGATAAAC
17404923 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
17404940 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
17404960 ATTAAATTAATAT
1 ATTAAATTAATAT
17404973 AATATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 3 0.11
20 15 0.54
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:17410376 original size:41 final size:41
Alignment explanation
Indices: 17410326--17410416 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
17410316 TAAAGCAATG
** **
17410326 GCGGCGTTTTTTCATAAACGCCGTAAAAGGTAAGAGAATTA
1 GCGGCGTTTTCCCATAAACGCCACAAAAGGTAAGAGAATTA
* *
17410367 GCGGGGTTTTCCCATAAACGCCACAAAAGGTAAGAGCATTA
1 GCGGCGTTTTCCCATAAACGCCACAAAAGGTAAGAGAATTA
*
17410408 GCGGTGTTT
1 GCGGCGTTT
17410417 ATGAGAAAAC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (41 bp):
GCGGCGTTTTCCCATAAACGCCACAAAAGGTAAGAGAATTA
Found at i:17410427 original size:41 final size:41
Alignment explanation
Indices: 17410341--17410582 Score: 270
Period size: 41 Copynumber: 5.9 Consensus size: 41
17410331 GTTTTTTCAT
* * * ***
17410341 AAACGCCGTAAAAGGTAAGAGAATTAGCGGGGTTT-TCCCA
1 AAACGCCGCAAAAGGTAAGAGCATTAGCGGTGTTTATGAGA
*
17410381 TAAACGCCACAAAAGGTAAGAGCATTAGCGGTGTTTATGAGA
1 -AAACGCCGCAAAAGGTAAGAGCATTAGCGGTGTTTATGAGA
* * * *** *
17410423 AAACGCGGCAACAGGTAAGAGCATTACCGACATTTATAAGA
1 AAACGCCGCAAAAGGTAAGAGCATTAGCGGTGTTTATGAGA
* * *
17410464 AAACGCCCCAAAAGGTCAGAGCATTAGCGGCGTTTATGAGA
1 AAACGCCGCAAAAGGTAAGAGCATTAGCGGTGTTTATGAGA
* * *
17410505 AAAAGTCGCAAAAGGTAAGAGCATTAGCAGTGTTTATGAGA
1 AAACGCCGCAAAAGGTAAGAGCATTAGCGGTGTTTATGAGA
* *
17410546 AAACGCTGCAAAAGGGAAGAGCATTAGCGGTGTTTAT
1 AAACGCCGCAAAAGGTAAGAGCATTAGCGGTGTTTAT
17410583 AGGAAAAATG
Statistics
Matches: 166, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
41 164 0.99
42 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (41 bp):
AAACGCCGCAAAAGGTAAGAGCATTAGCGGTGTTTATGAGA
Found at i:17412095 original size:41 final size:41
Alignment explanation
Indices: 17412041--17412208 Score: 128
Period size: 41 Copynumber: 4.1 Consensus size: 41
17412031 AAAAAATTAG
* * * * * *
17412041 AGGTTAAGCAATAGCAACGTTTATGGAAAAAACACTGTAAA
1 AGGTAAAGTAATAGCGACGTTTATAGAAAAAACACCGCAAA
* *** *
17412082 AGGTAAAGTAATAGTGACGTTT-TCCCATAAACACCGCAAA
1 AGGTAAAGTAATAGCGACGTTTATAGAAAAAACACCGCAAA
*
17412122 AGGTAAAGTAATAGCGACGTTTATAGAAAAAACGCCGCAATA
1 AGGTAAAGTAATAGCGACGTTTATAGAAAAAACACCGCAA-A
* * * *
17412164 A-ATATAGAGCAATAGC-ATCGTTTAT-GAAAAAATACCGTAAA
1 AGGTA-A-AGTAATAGCGA-CGTTTATAGAAAAAACACCGCAAA
17412205 AGGT
1 AGGT
17412209 CCAGAGCATA
Statistics
Matches: 99, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
40 33 0.33
41 34 0.34
42 17 0.17
43 15 0.15
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.22
Consensus pattern (41 bp):
AGGTAAAGTAATAGCGACGTTTATAGAAAAAACACCGCAAA
Found at i:17415678 original size:6 final size:6
Alignment explanation
Indices: 17415667--17415693 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17415657 TAGGATGATA
17415667 AAATCT AAATCT AAATCT AAATCT AAA
1 AAATCT AAATCT AAATCT AAATCT AAA
17415694 CATATAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATCT
Found at i:17422122 original size:43 final size:43
Alignment explanation
Indices: 17422063--17422203 Score: 153
Period size: 43 Copynumber: 3.3 Consensus size: 43
17422053 TTTGTTAATG
*
17422063 TTAGCGGCGTTTGTGGGAAAAACGCCTCTAAAGAACATGTTCT
1 TTAGCGGCGTTAGTGGGAAAAACGCCTCTAAAGAACATGTTCT
* * *
17422106 ATAGCGGCGTTAGTGGGAAAAACG-CTGCTAAAGATCATGTTTT
1 TTAGCGGCGTTAGTGGGAAAAACGCCT-CTAAAGAACATGTTCT
* * * * *
17422149 TTAGTGACGTT-TTTGGAAGAAACGCCGT-TAAAGACCATGTTCT
1 TTAGCGGCGTTAGTGGGAA-AAACGCC-TCTAAAGAACATGTTCT
17422192 TTAGCGGCGTTA
1 TTAGCGGCGTTA
17422204 TCTTTAGCGG
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 7 0.09
43 71 0.89
44 1 0.01
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TTAGCGGCGTTAGTGGGAAAAACGCCTCTAAAGAACATGTTCT
Found at i:17422209 original size:15 final size:15
Alignment explanation
Indices: 17422189--17422217 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17422179 AAGACCATGT
17422189 TCTTTAGCGGCGTTA
1 TCTTTAGCGGCGTTA
17422204 TCTTTAGCGGCGTT
1 TCTTTAGCGGCGTT
17422218 TTTTGAGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.21, G:0.28, T:0.41
Consensus pattern (15 bp):
TCTTTAGCGGCGTTA
Found at i:17427487 original size:136 final size:135
Alignment explanation
Indices: 17427244--17427515 Score: 456
Period size: 136 Copynumber: 2.0 Consensus size: 135
17427234 CTAGGAAAGG
17427244 GAGGTGAGTCAAATTTGACCGCTTAAAAACCAAACCTTTCCTAGCCAGGCCAATTCTAGACATGC
1 GAGGTGAGTCAAATTTGACCGCTTAAAAACCAAACCTTTCCTAGCCAGGCCAATTCTAGACATGC
*
17427309 ACATTCTCATTACCACACTTCTCACAATAATCAAATAACCTAAAAAAGTGAATAGAACAATACAA
66 ACATTCTCATTACCACACTTCTCACAATAATCAAATAACCTAAAAAAGTGAATAAAACAATACAA
17427374 CACAT
131 CACAT
*
17427379 GAGGTGAGTCAAATTTGACCGCTTAAAAA-CAAAGTCTTTCCTAGCCAGAGCCAATTCTAGACAT
1 GAGGTGAGTCAAATTTGACCGCTTAAAAACCAAA-CCTTTCCTAGCCAG-GCCAATTCTAGACAT
* * * * *
17427443 GCACCTTCTCATTACCATACTTCTCACAATAATCGAATAACCTAAAGAAGTGAATAAAATAATAC
64 GCACATTCTCATTACCACACTTCTCACAATAATCAAATAACCTAAAAAAGTGAATAAAACAATAC
17427508 AACACAT
129 AACACAT
17427515 G
1 G
17427516 TATTTTCTCA
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
134 4 0.03
135 42 0.33
136 82 0.64
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (135 bp):
GAGGTGAGTCAAATTTGACCGCTTAAAAACCAAACCTTTCCTAGCCAGGCCAATTCTAGACATGC
ACATTCTCATTACCACACTTCTCACAATAATCAAATAACCTAAAAAAGTGAATAAAACAATACAA
CACAT
Found at i:17427621 original size:10 final size:10
Alignment explanation
Indices: 17427592--17427623 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
17427582 ATGATAACAT
17427592 TAAATAA-TA
1 TAAATAATTA
17427601 TAAAT-ATTA
1 TAAATAATTA
17427610 TAAATAATTA
1 TAAATAATTA
17427620 TAAA
1 TAAA
17427624 ACAAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.05
9 12 0.57
10 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAATAATTA
Found at i:17428623 original size:37 final size:37
Alignment explanation
Indices: 17428540--17428623 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 37
17428530 CTTAAGAACT
* *
17428540 TTAATATTAAATTAATATAATATTTATCAAGATTAATA
1 TTAA-ATTAAATTAATATAATATTAATCAAGATTAACA
* *
17428578 TTATATTAAATTTAATATTAATA-TAATCAA-TTTAACA
1 TTAAATTAAA-TTAATA-TAATATTAATCAAGATTAACA
17428615 TTAAATTAA
1 TTAAATTAA
17428624 TATAATACTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
37 19 0.49
38 15 0.38
39 5 0.13
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
TTAAATTAAATTAATATAATATTAATCAAGATTAACA
Found at i:17428655 original size:17 final size:17
Alignment explanation
Indices: 17428541--17428668 Score: 65
Period size: 17 Copynumber: 7.6 Consensus size: 17
17428531 TTAAGAACTT
17428541 TAATATTAAATTAA-TA
1 TAATATTAAATTAAGTA
* *
17428557 TAATATT-TATCAAG-A
1 TAATATTAAATTAAGTA
* * *
17428572 TTAATATTATATTAAATT
1 -TAATATTAAATTAAGTA
*
17428590 TAATATTAATATAATCAA-TT
1 TAATATTAA-AT--T-AAGTA
*
17428610 TAACATTAAATTAA-TA
1 TAATATTAAATTAAGTA
*
17428626 TAATACT--ATTAAG-A
1 TAATATTAAATTAAGTA
*
17428640 TAAGTATTAAATTAAGTT
1 TAA-TATTAAATTAAGTA
17428658 TAATATTAAAT
1 TAATATTAAAT
17428669 CTATTAAAAC
Statistics
Matches: 87, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
14 9 0.10
15 8 0.09
16 22 0.25
17 28 0.32
18 5 0.06
19 2 0.02
20 11 0.13
21 2 0.02
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (17 bp):
TAATATTAAATTAAGTA
Found at i:17428662 original size:68 final size:69
Alignment explanation
Indices: 17428539--17428666 Score: 188
Period size: 68 Copynumber: 1.9 Consensus size: 69
17428529 ACTTAAGAAC
* * *
17428539 TTTAATATTAAATTAATATAATATTTATCAAGATTAATATTATATTAAATTTAATATTAATATAA
1 TTTAACATTAAATTAATATAATATCTATCAAGATTAATATTAAATTAAATTTAATATTAATATAA
17428604 TCAA
66 TCAA
* *
17428608 TTTAACATTAAATTAATATAATA-CTATTAAGA-TAAGTATTAAATTAAGTTTAATATTAA
1 TTTAACATTAAATTAATATAATATCTATCAAGATTAA-TATTAAATTAAATTTAATATTAA
17428667 ATCTATTAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
67 3 0.06
68 28 0.53
69 22 0.42
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (69 bp):
TTTAACATTAAATTAATATAATATCTATCAAGATTAATATTAAATTAAATTTAATATTAATATAA
TCAA
Found at i:17446169 original size:67 final size:67
Alignment explanation
Indices: 17446097--17446233 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 67
17446087 AGTTAAAGAA
17446097 AAATATAAAAGTTGAGATTTTTATGCAAGAAAACTTAAATAGCAAGAAACCAAAAGCATTTAACC
1 AAATATAAAAGTTGAGATTTTTATGCAAGAAAACTTAAATAGCAAGAAACCAAAAGCATTTAACC
17446162 AG
66 AG
*
17446164 AAATATAAAAGTTGAGATTTTTATGCAAGAAAACTTAAATAGCAAGAAACCAAAAGCATTTAATC
1 AAATATAAAAGTTGAGATTTTTATGCAAGAAAACTTAAATAGCAAGAAACCAAAAGCATTTAACC
17446229 AG
66 AG
17446231 AAA
1 AAA
17446234 ATTTAAAGCA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (67 bp):
AAATATAAAAGTTGAGATTTTTATGCAAGAAAACTTAAATAGCAAGAAACCAAAAGCATTTAACC
AG
Found at i:17449213 original size:11 final size:11
Alignment explanation
Indices: 17449177--17449218 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
17449167 CGATCTAGGT
17449177 AGAATCGAGCA
1 AGAATCGAGCA
17449188 AGAA-CGA-CGA
1 AGAATCGAGC-A
17449198 AGAATCGAGCA
1 AGAATCGAGCA
*
17449209 AGAATAGAGC
1 AGAATCGAGC
17449219 CTTGAGACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 1 0.04
10 8 0.30
11 17 0.63
12 1 0.04
ACGTcount: A:0.48, C:0.17, G:0.29, T:0.07
Consensus pattern (11 bp):
AGAATCGAGCA
Found at i:17455501 original size:29 final size:29
Alignment explanation
Indices: 17455468--17455568 Score: 139
Period size: 29 Copynumber: 3.5 Consensus size: 29
17455458 ATTTGGGAGC
*
17455468 AAAATGGTAATTTTTTGATGTTCGAGGGT
1 AAAATGGTAATTTTTAGATGTTCGAGGGT
* * * *
17455497 AAAATGGTAATTTTTGGATATTCAAGGGC
1 AAAATGGTAATTTTTAGATGTTCGAGGGT
17455526 AAAATGGTAATTTTTAGATGTTCGAGGGT
1 AAAATGGTAATTTTTAGATGTTCGAGGGT
**
17455555 AAAATCATAATTTT
1 AAAATGGTAATTTT
17455569 GGAGAAGTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.39
Consensus pattern (29 bp):
AAAATGGTAATTTTTAGATGTTCGAGGGT
Found at i:17455681 original size:30 final size:31
Alignment explanation
Indices: 17455642--17455779 Score: 171
Period size: 30 Copynumber: 4.6 Consensus size: 31
17455632 AGAATTTTGA
17455642 GGGTCAAAATGTGATTTTTA-AAAAGTTTAG
1 GGGTCAAAATGTGATTTTTAGAAAAGTTTAG
* *
17455672 GGGTTAAAATATGA-TTTTAGAAAAGTTTAG
1 GGGTCAAAATGTGATTTTTAGAAAAGTTTAG
*
17455702 GGGTCAAAATGT-AATTTTAGAAAAAGTTTA-
1 GGGTCAAAATGTGATTTTTAG-AAAAGTTTAG
* *
17455732 GGGTTAAAATGT-AATTTTAGAAAAGTTT-G
1 GGGTCAAAATGTGATTTTTAGAAAAGTTTAG
17455761 AGGGTCAAAATGTGATTTT
1 -GGGTCAAAATGTGATTTT
17455780 CAAAGAAAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
29 14 0.15
30 68 0.72
31 13 0.14
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.36
Consensus pattern (31 bp):
GGGTCAAAATGTGATTTTTAGAAAAGTTTAG
Found at i:17455712 original size:60 final size:61
Alignment explanation
Indices: 17455605--17455779 Score: 250
Period size: 60 Copynumber: 2.9 Consensus size: 61
17455595 GGTTTTGGAG
* * * *
17455605 AAGTTTAGGGGTT-AAATGTAATATTAGAGAATTTTGAGGGTCAAAATGTGATTTT-TAAA
1 AAGTTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTGAGGGTCAAAATGTGATTTTAGAAA
* * *
17455664 AAGTTTAGGGGTTAAAATATGATTTTAGAAAAGTTT-AGGGGTCAAAATGTAATTTTAGAAA
1 AAGTTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTGA-GGGTCAAAATGTGATTTTAGAAA
17455725 AAGTTTA-GGGTTAAAATGTAATTTTAGAAAAGTTTGAGGGTCAAAATGTGATTTT
1 AAGTTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTGAGGGTCAAAATGTGATTTT
17455780 CAAAGAAAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
59 14 0.14
60 77 0.75
61 11 0.11
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (61 bp):
AAGTTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTGAGGGTCAAAATGTGATTTTAGAAA
Found at i:17455735 original size:90 final size:89
Alignment explanation
Indices: 17455605--17455779 Score: 221
Period size: 90 Copynumber: 2.0 Consensus size: 89
17455595 GGTTTTGGAG
* * * *
17455605 AAGTTTAGGGGTTAAATGTAATATTAGAGAATTTTGAGGGTCAAAATGTGATTTTTA-AAAAGTT
1 AAGTTTAGGGGTAAAATGTAATATTAGAAAAGTTTGAGGGTCAAAATGT-AATTTTAGAAAAGTT
*
17455669 T-AGGGGTTAAAATATGATTTTAGAA
65 TGA-GGGTCAAAATATGATTTTAGAA
* *
17455694 AAGTTTAGGGGTCAAAATGTAATTTTAGAAAAAGTTT-AGGGTTAAAATGTAATTTTAGAAAAGT
1 AAGTTTAGGGGT-AAAATGTAATATTAG-AAAAGTTTGAGGGTCAAAATGTAATTTTAGAAAAGT
*
17455758 TTGAGGGTCAAAATGTGATTTT
64 TTGAGGGTCAAAATATGATTTT
17455780 CAAAGAAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
89 18 0.24
90 49 0.66
91 7 0.09
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (89 bp):
AAGTTTAGGGGTAAAATGTAATATTAGAAAAGTTTGAGGGTCAAAATGTAATTTTAGAAAAGTTT
GAGGGTCAAAATATGATTTTAGAA
Found at i:17457537 original size:17 final size:17
Alignment explanation
Indices: 17457506--17457550 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17457496 GAATTCCAAA
**
17457506 TAAATTTAAGTTTAAAC
1 TAAATTTAAACTTAAAC
*
17457523 TAAATTTAAACTTAAAT
1 TAAATTTAAACTTAAAC
17457540 TAAAATTTAAA
1 T-AAATTTAAA
17457551 ATTGGGTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAATTTAAACTTAAAC
Found at i:17458637 original size:17 final size:18
Alignment explanation
Indices: 17458615--17458648 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17458605 AAGCTAAATA
17458615 AATTAAA-TAAAACTCTT
1 AATTAAACTAAAACTCTT
*
17458632 AATTAAACTAGAACTCT
1 AATTAAACTAAAACTCT
17458649 AACTAATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (18 bp):
AATTAAACTAAAACTCTT
Found at i:17470830 original size:59 final size:61
Alignment explanation
Indices: 17470767--17470972 Score: 158
Period size: 60 Copynumber: 3.5 Consensus size: 61
17470757 AATTTAGGAG
* * * * *
17470767 CAAAATGGTAATTTTTG-GATG-TTCGGGGGTAAAATCATAATTTTGGAGAAGTTT-GGGGT
1 CAAAATGGTAATTTTAGAGAAGTTTAGGAGGTAAAAT-ATAATCTTGGAGAAGTTTGGGGGT
* * *
17470826 CAAAAAAGG--ATTTTAGAGAAGTTTAGGAGTTAAAATGTAATCTTGGAGAAGTTTGGGGGT
1 C-AAAATGGTAATTTTAGAGAAGTTTAGGAGGTAAAATATAATCTTGGAGAAGTTTGGGGGT
* * * * * * * *
17470886 CAAAAT-GTAATTTTGGAAAAGTTTAAG-GGTCAAAATGTGATTTTGGAAAAGTTTAGGGGT
1 CAAAATGGTAATTTTAGAGAAGTTTAGGAGGT-AAAATATAATCTTGGAGAAGTTTGGGGGT
* * *
17470946 TAAAAT-GTAATTTTGGAAAAGTTTAGG
1 CAAAATGGTAATTTTAGAGAAGTTTAGG
17470973 GTCAGAATGT
Statistics
Matches: 121, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
58 7 0.06
59 26 0.21
60 88 0.73
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.33
Consensus pattern (61 bp):
CAAAATGGTAATTTTAGAGAAGTTTAGGAGGTAAAATATAATCTTGGAGAAGTTTGGGGGT
Found at i:17470877 original size:30 final size:30
Alignment explanation
Indices: 17470804--17471048 Score: 262
Period size: 30 Copynumber: 8.2 Consensus size: 30
17470794 GGTAAAATCA
* * *
17470804 TAATTTTGGAGAAGTTT-GGGGTCAAAAAAG
1 TAATTTTGGAAAAGTTTAGGGGT-TAAAATG
* * * *
17470834 -GATTTTAGAGAAGTTTAGGAGTTAAAATG
1 TAATTTTGGAAAAGTTTAGGGGTTAAAATG
* * * *
17470863 TAATCTTGGAGAAGTTTGGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTAGGGGTTAAAATG
* *
17470893 TAATTTTGGAAAAGTTTAAGGGTCAAAATG
1 TAATTTTGGAAAAGTTTAGGGGTTAAAATG
*
17470923 TGATTTTGGAAAAGTTTAGGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAGGGGTTAAAATG
* *
17470953 TAATTTTGGAAAAGTTTA-GGGTCAGAATG
1 TAATTTTGGAAAAGTTTAGGGGTTAAAATG
* * * *
17470982 TGATTTTAGAAAAGTTAAGAGGTTAAAATG
1 TAATTTTGGAAAAGTTTAGGGGTTAAAATG
*
17471012 TAATTTTGGAAAATTTTAGGGGTTAAAATG
1 TAATTTTGGAAAAGTTTAGGGGTTAAAATG
*
17471042 TGATTTT
1 TAATTTT
17471049 CAAAGAAAAT
Statistics
Matches: 179, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
29 43 0.24
30 136 0.76
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTAGGGGTTAAAATG
Found at i:17471006 original size:59 final size:59
Alignment explanation
Indices: 17470887--17471048 Score: 252
Period size: 59 Copynumber: 2.7 Consensus size: 59
17470877 TTTGGGGGTC
* * *
17470887 AAAATGTAATTTTGGAAAAGTTTAAGGGTCAAAATGTGATTTTGGAAAAGTTTAGGGGTT
1 AAAATGTAATTTTGGAAAAGTTT-AGGGTCAAAATGTGATTTTAGAAAAGTTAAGAGGTT
*
17470947 AAAATGTAATTTTGGAAAAGTTTAGGGTCAGAATGTGATTTTAGAAAAGTTAAGAGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTAAGAGGTT
* *
17471006 AAAATGTAATTTTGGAAAATTTTAGGGGTTAAAATGTGATTTT
1 AAAATGTAATTTTGGAAAAGTTTA-GGGTCAAAATGTGATTTT
17471049 CAAAGAAAAT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
59 55 0.59
60 39 0.41
ACGTcount: A:0.38, C:0.01, G:0.25, T:0.36
Consensus pattern (59 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATGTGATTTTAGAAAAGTTAAGAGGTT
Found at i:17471062 original size:89 final size:89
Alignment explanation
Indices: 17470882--17471062 Score: 231
Period size: 89 Copynumber: 2.0 Consensus size: 89
17470872 AGAAGTTTGG
* *
17470882 GGGTCAAAATGTAATTTTGGAAAAGTTTAAGGGTCAAAATGTGATTTTGGAAAAGTTTAGGGGTT
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTT
* ***
17470947 AAAATGTAATTTTGGAAAAGTTTA
66 AAAATGTAATTTTGCAAAAAAATA
* * * *
17470971 GGGTCAGAATGTGATTTTAGAAAAG-TTAAGAGGTTAAAATGTAATTTTGGAAAATTTTAGGGGT
1 GGGTCAAAATGTAATTTTAGAAAAGTTTAAG-GGTCAAAATGTAATTTTGGAAAAGTTTAGGGGT
*
17471035 TAAAATGTGATTTT-CAAAGAAAATA
65 TAAAATGTAATTTTGCAAA-AAAATA
17471060 GGG
1 GGG
17471063 GCTTAATTTG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
88 8 0.10
89 71 0.90
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (89 bp):
GGGTCAAAATGTAATTTTAGAAAAGTTTAAGGGTCAAAATGTAATTTTGGAAAAGTTTAGGGGTT
AAAATGTAATTTTGCAAAAAAATA
Found at i:17472777 original size:6 final size:6
Alignment explanation
Indices: 17472766--17472845 Score: 69
Period size: 6 Copynumber: 13.8 Consensus size: 6
17472756 CCTTTTTTAA
* * *
17472766 TTAAAT TTAAAT TTAGAA- -TGAAT TTAAAT TCAAA- ATAAAT TTAAAT
1 TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
17472812 TTAAA- CTAAAT TTAAAC TTAAAT TAAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
17472846 ATTGAGTCTA
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
4 2 0.04
5 8 0.14
6 45 0.79
7 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:17472791 original size:17 final size:16
Alignment explanation
Indices: 17472761--17472845 Score: 89
Period size: 17 Copynumber: 5.0 Consensus size: 16
17472751 GACTCCCTTT
*
17472761 TTTAATTAAATTTAAA
1 TTTAAATAAATTTAAA
*
17472777 TTTAGAATGAATTTAAA
1 TTTA-AATAAATTTAAA
*
17472794 TTCAAAATAAATTTAAA
1 TT-TAAATAAATTTAAA
17472811 TTTAAACTAAATTTAAA
1 TTTAAA-TAAATTTAAA
*
17472828 CTTAAATTAAAATTTAAA
1 TTTAAA-T-AAATTTAAA
17472846 ATTGAGTCTA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
16 7 0.12
17 41 0.71
18 10 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (16 bp):
TTTAAATAAATTTAAA
Done.