Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_20 ID=scaffold_20-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 234652
ACGTcount: A:0.16, C:0.09, G:0.10, T:0.15
Warning! 119720 characters in sequence are not A, C, G, or T
Found at i:2517 original size:44 final size:43
Alignment explanation
Indices: 2346--3018 Score: 351
Period size: 44 Copynumber: 15.6 Consensus size: 43
2336 NNNNNNNNNN
* * * *
2346 GAAGTTGCAGTGGAGCAGATTAA-AGTCGATAATCCTATCT-CCT
1 GAAGTTGCAGTGGAGCAGACTAAGAATC-A-AGTCTTATCTCCCT
* * * *
2389 GAAG-TGCAGTAGAGCGGATTAA-AATCACAGATCTTATCTCTCT
1 GAAGTTGCAGTGGAGCAGACTAAGAATCA-AG-TCTTATCTCCCT
* * * * *
2432 GAAGTTGCAG-AGAGCAG-GT-CGCATCTAGTCTTATCTCCCT
1 GAAGTTGCAGTGGAGCAGACTAAGAATCAAGTCTTATCTCCCT
*
2472 GAAGTTGCAGTGGAGCAGGCTAAGTAATCAAGTCTTATC-CTCCT
1 GAAGTTGCAGTGGAGCAGACTAAG-AATCAAGTCTTATCTC-CCT
* * *
2516 GAAGTTGCAGT-GAGGCGGACTGAAG-ATGGAAAATCTTATCTCCCT
1 GAAGTTGCAGTGGA-GCAGACT-AAGAAT--CAAGTCTTATCTCCCT
* * *
2561 GAAGTTGCAGTGGAGCAGATTAAAGCCGA-CAA-TCCTATCTCCCT
1 GAAGTTGCAGTGGAGCAGACT-AAG--AATCAAGTCTTATCTCCCT
* * * * * *
2605 GAAGTTACAGTGGAGCGGATTAA-AATCACAAATCTTATCGCTCT
1 GAAGTTGCAGTGGAGCAGACTAAGAAT--CAAGTCTTATCTCCCT
* * * * *
2649 GAAGTTGCAG-AGAGTAGA-T-TGCATCTAGTCTTATCTCCCT
1 GAAGTTGCAGTGGAGCAGACTAAGAATCAAGTCTTATCTCCCT
*
2689 GAAGTTGCAGTGG-GACAGACTAAGTAAGCAAGTCTTATC-CTCCT
1 GAAGTTGCAGTGGAG-CAGACTAAG-AATCAAGTCTTATCTC-CCT
* * *
2733 GAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAATCTTATCTTCTT
1 GAAGTTGCAGTGGA-GCAGACT-AAGAAT--CAAGTCTTATCTCCCT
* * *
2778 AAAGTTGCAGTGGAGCAGATTAAAGCCGA-CAA-TCTTATCTCCCT
1 GAAGTTGCAGTGGAGCAGACT-AAG--AATCAAGTCTTATCTCCCT
* *
2822 GAAGTTGCAGTGGAGCAGATTAA-AATCACAGATCTTATCTCTCT
1 GAAGTTGCAGTGGAGCAGACTAAGAATCA-AG-TCTTATCTCCCT
* * * * *
2866 AAAGTTGCAG-AGAGCAGA-T-TGCATCTAGTCTTATCTCCCT
1 GAAGTTGCAGTGGAGCAGACTAAGAATCAAGTCTTATCTCCCT
* * * * * *
2906 GAAGTTGCAATGGAGCAGACTAAG-TTGGCAAATCTTATATTCTT
1 GAAGTTGCAGTGGAGCAGACTAAGAAT--CAAGTCTTATCTCCCT
* * *
2950 GAAGTTGCAGTGGAGCAGATTAAAGCTGAT-AA-TCCTATCTCCCT
1 GAAGTTGCAGTGGAGCAGACT-AAG--AATCAAGTCTTATCTCCCT
**
2994 GAAGTTGCAGTGGAATAGACTAAGA
1 GAAGTTGCAGTGGAGCAGACTAAGA
3019 TAGCAAATAT
Statistics
Matches: 489, Mismatches: 88, Indels: 108
0.71 0.13 0.16
Matches are distributed among these distances:
40 65 0.13
41 25 0.05
42 42 0.09
43 49 0.10
44 221 0.45
45 79 0.16
46 5 0.01
48 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (43 bp):
GAAGTTGCAGTGGAGCAGACTAAGAATCAAGTCTTATCTCCCT
Found at i:2606 original size:89 final size:86
Alignment explanation
Indices: 2346--3007 Score: 334
Period size: 84 Copynumber: 7.7 Consensus size: 86
2336 NNNNNNNNNN
* * * * *
2346 GAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCT-CCTGAAG-TGCAGTAGAGCGGATT
1 GAAGTTGCAGTGGAGCAGACT-AAGT-GAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* *
2409 AA--AATCACAGATCTTATCTCTCT
64 AAGCGATCA-A-ATCTTATCTCCCT
* * ** ** * **
2432 GAAGTTGCAG-AGAGCAGGTCGCA-T-CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTA
1 GAAGTTGCAGTGGAGCA-GACTAAGTGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
** *
2494 AGTAATCAAGTCTTATC-CTCCT
65 AGCGATCAAATCTTATCTC-CCT
*
2516 GAAGTTGCAGT-GAGGCGGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 GAAGTTGCAGTGGA-GCAGACT-AAG-T-GAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
*
2580 TTAAAGCCGA-C-AATCCTATCTCCCT
62 TT-AAG-CGATCAAATCTTATCTCCCT
* * * * * * * * *
2605 GAAGTTACAGTGGAGCGGATTAAAATCACAAATCTTATCGCTCTGAAGTTGCAG-AGAGTAGATT
1 GAAGTTGCAGTGGAGCAGACT-AAGTGA-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* *
2669 --GC-ATCTAGTCTTATCTCCCT
64 AAGCGATCAAATCTTATCTCCCT
2689 GAAGTTGCAGTGG-GACAGACTAAGT-AAGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCA
1 GAAGTTGCAGTGGAG-CAGACTAAGTGAA--AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCA
* * *
2750 GACTGAA--GATGGCAAATCTTATCTTCTT
60 GA-TTAAGCGAT--CAAATCTTATCTCCCT
* * * *
2778 AAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 GAAGTTGCAGTGGAGCAGACT-AAG-TGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
* *
2843 AA--AATCACAGATCTTATCTCTCT
64 AAGCGATCA-A-ATCTTATCTCCCT
* * * * ** * * *
2866 AAAGTTGCAG-AGAGCAGATTGCA-T-CTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTA
1 GAAGTTGCAGTGGAGCAGACT-AAGTGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * * * *
2928 AGTTG-GCAAATCTTATATTCTT
65 AG-CGATCAAATCTTATCTCCCT
* * *
2950 GAAGTTGCAGTGGAGCAGATTAAAGCTGATAATCCTATCTCCCTGAAGTTGCAGTGGA
1 GAAGTTGCAGTGGAGCAGACT-AAG-TGAAAATCTTATCTCCCTGAAGTTGCAGTGGA
3008 ATAGACTAAG
Statistics
Matches: 447, Mismatches: 81, Indels: 94
0.72 0.13 0.15
Matches are distributed among these distances:
81 1 0.00
82 11 0.02
83 17 0.04
84 140 0.31
85 25 0.06
86 21 0.05
87 24 0.05
88 75 0.17
89 115 0.26
90 16 0.04
91 1 0.00
92 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (86 bp):
GAAGTTGCAGTGGAGCAGACTAAGTGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
GCGATCAAATCTTATCTCCCT
Found at i:2723 original size:217 final size:217
Alignment explanation
Indices: 2346--3007 Score: 992
Period size: 217 Copynumber: 3.1 Consensus size: 217
2336 NNNNNNNNNN
* * *
2346 GAAGTTGCAGTGGAGCAGATTAAAGTCGATAATCCTATCT-CCTGAAG-TGCAGTAGAGCGGATT
1 GAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
* *
2409 AAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCCTGA
66 AAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGA
* * *
2474 AGTTGCAGTGGAGCAGGCTAAGTAATCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCGGACTGA
131 AGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGA
2539 AGATGGAAAATCTTATCTCCCT
196 AGATGGAAAATCTTATCTCCCT
*
2561 GAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT
1 GAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
* * *
2626 AAAATCACAAATCTTATCGCTCTGAAGTTGCAGAGAGTAGATTGCATCTAGTCTTATCTCCCTGA
66 AAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGA
2691 AGTTGCAGTGG-GACAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTG
131 AGTTGCAGTGGAG-CAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTG
* * *
2755 AAGATGGCAAATCTTATCTTCTT
195 AAGATGGAAAATCTTATCTCCCT
* * *
2778 AAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 GAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
*
2843 AAAATCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGA
66 AAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGA
* ** * ** * * *
2908 AGTTGCAATGGAGCAGACTAAGTTGGCAAATCTTATATTCTTGAAGTTGCAGTG-GAGCAGATTA
131 AGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAG-GCAGACTG
* * *
2972 AAGCT-GATAATCCTATCTCCCT
195 AAGATGGAAAATCTTATCTCCCT
2994 GAAGTTGCAGTGGA
1 GAAGTTGCAGTGGA
3008 ATAGACTAAG
Statistics
Matches: 403, Mismatches: 39, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
215 38 0.09
216 34 0.08
217 330 0.82
218 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (217 bp):
GAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
AAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGA
AGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGA
AGATGGAAAATCTTATCTCCCT
Found at i:9154 original size:54 final size:52
Alignment explanation
Indices: 9052--9161 Score: 141
Period size: 54 Copynumber: 2.1 Consensus size: 52
9042 TTGCACAAAT
* * *
9052 AATTGTACATAAATTCATACATTCTTTTGTAACCATGTTAGGTCCCTGAGAA
1 AATTGTACATAAATTCATACATTCTTTTGTAAACATGTCAGATCCCTGAGAA
* *
9104 AATTGTAACCATAAATTCATACATTGTTTTGTAAACATGTGCAGAT-CCTGATAA
1 AATTGT-A-CATAAATTCATACATTCTTTTGTAAACATGT-CAGATCCCTGAGAA
9158 AATT
1 AATT
9162 ATTCTTAAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 6 0.12
53 1 0.02
54 40 0.80
55 3 0.06
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (52 bp):
AATTGTACATAAATTCATACATTCTTTTGTAAACATGTCAGATCCCTGAGAA
Found at i:12716 original size:44 final size:43
Alignment explanation
Indices: 12578--13160 Score: 280
Period size: 44 Copynumber: 13.5 Consensus size: 43
12568 CCGATAATCC
* ** *
12578 TATCTCCCTGAAGTTGCAGTGGAGAAGATTAA-AATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCA-AG-TCT
* * * * * * *
12622 TATCTCTCTGAAGTTGCAG-AGAGCA-GAT-CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCAAGTCT
*
12662 TATCTCCCTGAAGTTGCAGTGGAGTAGGCTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG-AAGCAAGTCT
* * *
12706 TATC-CTCCTGAAGTTCCAGT-GAGGCAGACTGAA-AATGACAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGGCT-AAGAA-G-CAAGTCT
* * * * *
12751 TATCTCCCTGAAGTTGCAGTGGAGTA-GATTA-AAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAG-C-A-AGTCT
* * * * * *
12795 TATCTCCTTAAAGTTACAGTGGAG-TGGATTAA-AATCACAGATC-
1 TATCTCCCTGAAGTTGCAGTGGAGCAGG-CTAAGAAGCA-AG-TCT
* * * * * *
12838 TATTCTCTCTGAAGTTGCAG-AGAGCAGG-T-CGCATCTAGTCT
1 TA-TCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCAAGTCT
*
12879 TATCTCCCTAAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG-AAGCAAGTCT
* * *
12923 TATC-CTCCTGAAGTTGTAGT-GAGGC-GGACTGAAGATGACAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGG-CT-AAGAAG-CAAGTCT
** ** *
12968 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGAAG-CAAGTCT
* * *
13012 TATCTCCCTGAAGTTGAAGTGGAGC-GGATTAA-AATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGG-CTAAGAAGCA-AG-TCT
* * * * * * *
13056 TATCTCTCTGAAGTTGCAG-AGAGCA-GAT-CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCAAGTCT
13096 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG-AAGCAAGTCT
13140 TATC-CTCCTGAAGTTGCAGTG
1 TATCTC-CCTGAAGTTGCAGTG
13161 NNNNNNNNNN
Statistics
Matches: 412, Mismatches: 83, Indels: 88
0.71 0.14 0.15
Matches are distributed among these distances:
40 59 0.14
41 26 0.06
42 20 0.05
43 37 0.09
44 195 0.47
45 68 0.17
46 7 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGAAGCAAGTCT
Found at i:12719 original size:84 final size:87
Alignment explanation
Indices: 12573--12783 Score: 220
Period size: 84 Copynumber: 2.4 Consensus size: 87
12563 CGTAGCCGAT
* * * * *
12573 AATCCTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAATCACAGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAAGCACAGATCTTATCTCTCTGAAGTTC
* *
12638 CAGAGA-GCAGA-TCG-CAT-CT
66 CAGAGAGGCAGACT-GAAATACA
* *
12657 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCTAAGTAAGCA-AG-TCTTATC-CTCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAA--AAGCACAGATCTTATCTCT-CTGAAG
*
12719 TTCCAGTGAGGCAGACTGAAAATGACA
63 TTCCAGAGAGGCAGACTG-AAAT-ACA
*
12746 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAA
12784 GCCGATAATC
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
83 2 0.02
84 52 0.50
85 8 0.08
86 5 0.05
87 3 0.03
89 35 0.33
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAAAGCACAGATCTTATCTCTCTGAAGTTC
CAGAGAGGCAGACTGAAATACA
Found at i:12946 original size:217 final size:217
Alignment explanation
Indices: 12566--13160 Score: 1023
Period size: 217 Copynumber: 2.7 Consensus size: 217
12556 ACAAATCCGT
* *
12566 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGAGGATTAAAATCACAGATCTTATCTCTCT
*
12631 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
*
12696 AAGCAAGTCTTATCCTCCTGAAGTTCCAGTGAGGCAGACTGAAAATGACAAATCTTATCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAAATGACAAATCTTATCTCCCTG
*
12761 AAGTTGCAGTGGAGTAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
* * *
12783 AGCCGATAATCCTATCTCCTTAAAGTTACAGTGGAGTGGATTAAAATCACAGATC-TATTCTCTC
1 AGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGAGGATTAAAATCACAGATCTTA-TCTCTC
* *
12847 TGAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGGCTAAG
65 TGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG
* * *
12912 TAAGCAAGTCTTATCCTCCTGAAGTTGTAGTGAGGCGGACTGAAGATGACAAATCTTATCTCCCT
130 TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAAATGACAAATCTTATCTCCCT
12977 GAAGTTGCAGTGGAGCAGATTAA
195 GAAGTTGCAGTGGAGCAGATTAA
* *
13000 AGCCGACAATCCTATCTCCCTGAAGTTGA-AGTGGAGCGGATTAAAATCACAGATCTTATCTCTC
1 AGCCGATAATCCTATCTCCCTGAAGTT-ACAGTGGAGAGGATTAAAATCACAGATCTTATCTCTC
13064 TGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG
65 TGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG
13129 TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
130 TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
13161 NNNNNNNNNN
Statistics
Matches: 355, Mismatches: 20, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
216 2 0.01
217 350 0.99
218 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
AGCCGATAATCCTATCTCCCTGAAGTTACAGTGGAGAGGATTAAAATCACAGATCTTATCTCTCT
GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAAATGACAAATCTTATCTCCCTG
AAGTTGCAGTGGAGCAGATTAA
Found at i:13027 original size:89 final size:88
Alignment explanation
Indices: 12876--13083 Score: 219
Period size: 89 Copynumber: 2.4 Consensus size: 88
12866 TCGCATCTAG
* ** * * *
12876 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCAAGCAAGTCCTATCCTCCTGAAGTTGAA
* *
12941 GT-GAGGCGGACTGAAGATGACAAA
66 GTGGA-GCGGA-TGAAAATCACAAA
*
12965 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC-CGACAA-TCCTAT-CTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGCAAG-CAAGTCCTATCCT-CCTGAAGTT
* *
13027 GAAGTGGAGCGGATTAAAATCACAGA
63 GAAGTGGAGCGGATGAAAATCACAAA
* *
13053 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
13084 CGCATCTAGT
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
87 8 0.08
88 32 0.31
89 54 0.53
90 8 0.08
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGCAAGCAAGTCCTATCCTCCTGAAGTTGAA
GTGGAGCGGATGAAAATCACAAA
Found at i:13423 original size:89 final size:88
Alignment explanation
Indices: 13261--13784 Score: 405
Period size: 89 Copynumber: 6.0 Consensus size: 88
13251 NNNNNNNNNN
* ** **
13261 GACTGAAGATGAAAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAG-TAAGCAAGTCT
1 GACT-AAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-CAA-TCT
13324 TATC-CTCCTGAAGTTGCAGT-GAGGCG
63 TATCTC-CCTGAAGTTGCAGTGGA-GCG
* *
13350 GACTGAAGATGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTA
1 GACT-AAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTA
*
13415 TCTCCCTGAAGTTGAAGTGGAGCG
65 TCTCCCTGAAGTTGCAGTGGAGCG
* * * * * * *** * * *
13439 GATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGTA-TC--TAGTCTTAT
1 GACTAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTAT
13500 CTCCCTGAAGTTGCAGTGGAGCAG
66 CTCCCTGAAGTTGCAGTGGAGC-G
* * * * ** *
13524 G-CTAAG-TAGGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAGATGGCAAATC
1 GACTAAGAT-GACAAATCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGATTAAAGCCGAC-AATC
*
13585 TTATCTCCCTGAAGTTGCAGTGGAGCA
62 TTATCTCCCTGAAGTTGCAGTGGAGCG
* ** * * *
13612 GATTAAAGCCGAC-AATCCTATCTCCCTGAAGTTGAAGTGGAGCAGATTATAA-TC-ACAGATCT
1 GACT-AAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCCGACA-ATCT
* * * *
13674 TATCTCTCTAAAGTTGCAATGGAGCA
63 TATCTCCCTGAAGTTGCAGTGGAGCG
* * * * *
13700 GACTAAG-TAGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGATAATCCTA
1 GACTAAGAT-GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTA
*
13764 TCTCCCTAAAGTTGCAGTGGA
65 TCTCCCTGAAGTTGCAGTGGA
13785 ATAGACTAAG
Statistics
Matches: 347, Mismatches: 64, Indels: 49
0.75 0.14 0.11
Matches are distributed among these distances:
83 2 0.01
84 54 0.16
85 8 0.02
86 1 0.00
87 17 0.05
88 117 0.34
89 127 0.37
90 20 0.06
91 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (88 bp):
GACTAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCTTAT
CTCCCTGAAGTTGCAGTGGAGCG
Found at i:13652 original size:217 final size:220
Alignment explanation
Indices: 13274--13744 Score: 779
Period size: 217 Copynumber: 2.1 Consensus size: 220
13264 TGAAGATGAA
13274 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
* *
13339 GCAGTGAGGCGGACTGAAGATGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGC
66 GCAGTGAGACAGACTGAAGATGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGC
* *
13404 CGACAATCCTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAA
131 CGACAATCCTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAA
* *
13469 GTTGC-AGAGAGCAGA-T-CGTA-TC
196 GTTGCAAG-GAGCAGACTAAGTAGGC
* * *
13491 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAGGCAAGTCTTATCCTCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
* *
13556 GCAGTGAGACAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
66 GCAGTGAGACAGACTGAAGATGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGC
*
13621 CGACAATCCTATCTCCCTGAAGTTGAAGTGGAGCAGATTATAATCACAGATCTTATCTCTCTAAA
131 CGACAATCCTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAA
13686 GTTGCAATGGAGCAGACTAAGTAGGC
196 GTTGCAA-GGAGCAGACTAAGTAGGC
*
13712 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
13745 ATTAAAGCTG
Statistics
Matches: 234, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
217 190 0.81
218 8 0.03
219 2 0.01
220 3 0.01
221 31 0.13
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (220 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
GCAGTGAGACAGACTGAAGATGACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGC
CGACAATCCTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAA
GTTGCAAGGAGCAGACTAAGTAGGC
Found at i:13745 original size:44 final size:44
Alignment explanation
Indices: 13274--13803 Score: 384
Period size: 44 Copynumber: 12.1 Consensus size: 44
13264 TGAAGATGAA
* *
13274 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGC
* * *
13318 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCGGACTGAAG-ATGAC
1 AAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-GGC
* * *
13363 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAA--AGCC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGC
* * * * *
13405 GACAATCCTATCTCCCTGAAGTTGAAGTGGAGCGGATTAAAATCA--C
1 -A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGT-AGGC
* * * * *
13451 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGTA-TC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGC
* * *
13491 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAGGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGC
*
13535 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAG-ATGGC
1 AAATCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGACT-AAGTA-GGC
* *
13580 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AGCC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGC
* * * *
13622 GACAATCCTATCTCCCTGAAGTTGAAGTGGAGCAGATTATAATCA--C
1 -A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTA-AGT-AGGC
* * * *
13668 AGATCTTATCTCTCTAAAGTTGCAATGGAGCAGACTAAGTAGGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGC
* *
13712 AAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAA--A-GC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGC
* * **
13753 TGATAATCCTATCTCCCTAAAGTTGCAGTGGAATAGACTAAGATA-GC
1 --A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-TAGGC
13800 AAAT
1 AAAT
13804 ATTGTTCTTT
Statistics
Matches: 392, Mismatches: 57, Indels: 74
0.75 0.11 0.14
Matches are distributed among these distances:
39 1 0.00
40 23 0.06
41 8 0.02
42 8 0.02
43 23 0.06
44 244 0.62
45 71 0.18
46 9 0.02
47 3 0.01
48 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGGC
Found at i:70235 original size:11 final size:11
Alignment explanation
Indices: 70198--70236 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
70188 GTAGGTAACT
*
70198 TTTTTTTACGG
1 TTTTTTTGCGG
70209 TTTTTTTGTCGG
1 TTTTTTTG-CGG
*
70221 TTTTTTTGCGC
1 TTTTTTTGCGG
70232 TTTTT
1 TTTTT
70237 GCTTCTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.03, C:0.10, G:0.18, T:0.69
Consensus pattern (11 bp):
TTTTTTTGCGG
Found at i:70866 original size:31 final size:32
Alignment explanation
Indices: 70805--70869 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
70795 GGCAAATTAC
70805 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
70837 AAGAGTAATTGAATCCTAAT-ATAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
70868 AA
1 AA
70870 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:86553 original size:44 final size:43
Alignment explanation
Indices: 86488--86949 Score: 299
Period size: 44 Copynumber: 10.7 Consensus size: 43
86478 CGTAGCCAAT
*
86488 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * ***
86531 AGGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCA-C-C
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* **
86571 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGT-A-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AA-TCAC
* * * * *
86616 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGAC
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCAC
** *
86660 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-AC
* *
86705 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * ***
86748 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCA-AATCGCA-C-C
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* **
86788 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGT-A-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AA-TCAC
* * * * *
86833 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGAC
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCAC
** *
86877 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
*
86921 AATCCTATCTCCCTGAAGTTGCAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
86950 NNNNNNNNNN
Statistics
Matches: 323, Mismatches: 61, Indels: 70
0.71 0.13 0.15
Matches are distributed among these distances:
40 45 0.14
41 15 0.05
42 9 0.03
43 51 0.16
44 140 0.43
45 57 0.18
46 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
Found at i:86635 original size:84 final size:87
Alignment explanation
Indices: 86488--86698 Score: 213
Period size: 84 Copynumber: 2.4 Consensus size: 87
86478 CGTAGCCAAT
* * *
86488 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCACAGGTCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATCACAGGTCTTATCTCTCTAAAGTTG
* *
86553 CAGAGA-GCAGA-TCG-CA-CCT
66 CAGAGAGGCAGACT-GACAGACA
* *
86572 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGT-A-A-GTCTTATC-CTCCTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AA-TCACAGGTCTTATCTCT-CTAAA
* *
86633 GTTGCAGTGAGGCAGACTGAAGATGACA
62 GTTGCAGAGAGGCAGACTG-ACA-GACA
*
86661 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
86699 GCCAATAATC
Statistics
Matches: 105, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
83 2 0.02
84 54 0.51
85 7 0.07
86 4 0.04
87 3 0.03
89 35 0.33
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAATCACAGGTCTTATCTCTCTAAAGTTG
CAGAGAGGCAGACTGACAGACA
Found at i:86725 original size:89 final size:87
Alignment explanation
Indices: 86574--86949 Score: 299
Period size: 89 Copynumber: 4.3 Consensus size: 87
86564 TCGCACCTAG
** ** *
86574 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCT-AAGTAAGTAAGTCTTATC-CTCCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-TAA-TCTTATCTC-CCTGAAGTTG
*
86637 CAGT-GAGGCAGACTGAAGATGACAAA
63 CAGTGGA-GCAGA-TTAAGATGACAAA
*
86663 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAATCTTATCTCCCTGAAGTTGCA
* * * *
86728 GTGGAGCGGATTAAAATCACAGA
65 GTGGAGCAGATTAAGATGACAAA
* * * *** *
86751 TCTTATCTCTCTGAAGTTGCAG-AGAGCAAATCGCA-CC-TAGTCTTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAATCTTATCTCCCTGAAGTTGCAG
** * * *
86813 TGGAGCAGGCTAAG-TAAGTAAG
66 TGGAGCAGATTAAGATGA-CAAA
* * *
86835 TCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGATGACA-AATCTTATCTCCCTGAAGT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCATAATCTTATCTCCCTGAAGT
*
86897 TGCAGTGGAGCAGATTAA-A-GCCATAA
61 TGCAGTGGAGCAGATTAAGATGACA-AA
*
86923 TCCTATCTCCCTGAAGTTGCAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
86950 NNNNNNNNNN
Statistics
Matches: 228, Mismatches: 42, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
83 3 0.01
84 55 0.24
85 3 0.01
86 3 0.01
87 10 0.04
88 52 0.23
89 92 0.40
90 9 0.04
91 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAGATGACAAA
Found at i:86795 original size:173 final size:172
Alignment explanation
Indices: 86616--86944 Score: 386
Period size: 173 Copynumber: 1.9 Consensus size: 172
86606 TAAGTAAGTA
*
86616 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAG-ATGACAAATCTTAT-CTCCCTGA
1 AGTCTTATCTC-CCTAAAGTTGCAGTGGA-GCAGACT-AAGTAAG-CAAATCTTATCCT-CCTGA
* * *
86677 AGTTGCAGTG-GAGCAGA-TTAA-A-GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGA
61 AGTTGCAGTGAG-GCAGACTGAAGATGAC-A-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * *
86738 TTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGCACCT
123 TTAAAACCACA-ATCCTATCTCCCTGAAGTTGCAGAGAGCAAATCGCACCT
* * * *
86789 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGTAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCCTCCTGAAGTTG
* * *
86854 CAGTGAGGTAGACTGAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC
66 CAGTGAGGCAGACTGAAGATGACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
*
86919 ATAATCCTATCTCCCTGAAGTTGCAG
131 ACAATCCTATCTCCCTGAAGTTGCAG
86945 TGGAGNNNNN
Statistics
Matches: 133, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
172 51 0.38
173 75 0.56
174 5 0.04
175 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (172 bp):
AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCCTCCTGAAGTTG
CAGTGAGGCAGACTGAAGATGACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
ACAATCCTATCTCCCTGAAGTTGCAGAGAGCAAATCGCACCT
Found at i:86856 original size:217 final size:217
Alignment explanation
Indices: 86481--86949 Score: 868
Period size: 217 Copynumber: 2.2 Consensus size: 217
86471 ATAAATCCGT
* *
86481 AGCCAATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCACAGGTCTTATCTCTCT
1 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCACAGATCTTATCTCTCT
*
86546 GAAGTTGCAGAGAGCAGATCGCACCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
66 GAAGTTGCAGAGAGCAAATCGCACCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
86611 AAGTAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
131 AAGTAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
86676 AAGTTGCAGTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
**
86698 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCACAGATCTTATCTCTCT
86763 GAAGTTGCAGAGAGCAAATCGCACCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
66 GAAGTTGCAGAGAGCAAATCGCACCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
* *
86828 AAGTAAGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTGAAGATGACAAATCTTATCTCCCTG
131 AAGTAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
86893 AAGTTGCAGTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
86915 AGCC-ATAATCCTATCTCCCTGAAGTTGCAGTGGAG
1 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAG
86950 NNNNNNNNNN
Statistics
Matches: 245, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
216 31 0.13
217 214 0.87
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCACAGATCTTATCTCTCT
GAAGTTGCAGAGAGCAAATCGCACCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
AAGTAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
AAGTTGCAGTGGAGCAGATTAA
Found at i:87166 original size:44 final size:44
Alignment explanation
Indices: 87096--87346 Score: 155
Period size: 44 Copynumber: 5.8 Consensus size: 44
87086 AGATGGCAAA
* *
87096 TCTTATCTTCCTGAAGTTGCACTGGAGCAGACTAAAGCCGACAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCC-ACAAT
* * **
87141 TC-TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCACA-AT
* * * * * *
87184 TCTTATCTCTCT-AACATTGCAG-AGAGCAGA-T--TG-CATCTAG
1 TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACTAAAGCCA-CAAT
* *
87224 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAGGCA-AA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AGCCACAAT
* * * * *
87268 TCTTATCTTCTTGAAGTTGCAGTGGAGCAGATTAAAGCTA-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCACA-AT
* * **
87312 TCCTATCTCCCTGAAATTGCAGTGGAATAGACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
87347 GATAGCAAAT
Statistics
Matches: 159, Mismatches: 32, Indels: 31
0.72 0.14 0.14
Matches are distributed among these distances:
39 3 0.02
40 17 0.11
41 9 0.06
42 6 0.04
43 14 0.09
44 104 0.65
45 3 0.02
46 1 0.01
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCACAAT
Found at i:87331 original size:128 final size:128
Alignment explanation
Indices: 87096--87333 Score: 302
Period size: 128 Copynumber: 1.9 Consensus size: 128
87086 AGATGGCAAA
* * * *
87096 TCTTATCTTCCTGAAGTTGCACTGGAGCAGACTAAAGCCGACAATTCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGCAGACAAATCTATCTCCCTGAAGTTGCA
* * * *
87161 GTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAACATTGCAGAGAGCAGATTGCATCTAG
66 GTGGAGCAGATTAAAATAACAGATCCTATCTCCCTAACATTGCAGAGAGCAGATTGCATCTAG
* * * *
87224 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGTAGGCAAATCTTATCTTCTTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGCAGACAAATC-TATCTCCCTGAAGTTGC
* *
87288 AGTGGAGCAGATTAAAGCTAATA-ATCCTATCTCCCTGAA-ATTGCAG
65 AGTGGAGCAGATTAAA-ATAACAGATCCTATCTCCCT-AACATTGCAG
87334 TGGAATAGAC
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
127 9 0.10
128 79 0.85
129 5 0.05
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAAGCAGACAAATCTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAATAACAGATCCTATCTCCCTAACATTGCAGAGAGCAGATTGCATCTAG
Found at i:112825 original size:46 final size:46
Alignment explanation
Indices: 112742--113174 Score: 259
Period size: 44 Copynumber: 9.8 Consensus size: 46
112732 ATTATACATG
* * * * **
112742 TCTTATTTCCCTGAGACTACAGTGGAACAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAATTTCAGA
* *
112788 TCTTATCTCCCTGAGATTACTGCGGAGCAGATTGAAG-ATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAAT-TTCAGA
* * * **
112832 TCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AA-AA-TGAAGGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAATTTCA-GA
* * * * * *
112876 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-T--CG--TGTCAGG
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGAATTTCAGA
* * * *
112917 TCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAATTTCAGA
* *
112963 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAAT-TTCAGA
* * * **
113007 TCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AA-AA-TGAAGGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAATTTCA-GA
* * * * * *
113051 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-CG----TCAGG
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGAATTTCAGA
* * * **
113092 TCTTATTTCCCTGAGATTACAGTGG-GACACACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAG-CAGATTGAAGAATTTCAGA
113138 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
113175 CCAGTAATTC
Statistics
Matches: 285, Mismatches: 72, Indels: 60
0.68 0.17 0.14
Matches are distributed among these distances:
40 1 0.00
41 48 0.17
42 7 0.02
43 8 0.03
44 111 0.39
45 5 0.02
46 104 0.36
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAATTTCAGA
Found at i:112937 original size:85 final size:85
Alignment explanation
Indices: 112839--113116 Score: 337
Period size: 85 Copynumber: 3.2 Consensus size: 85
112829 TAATCCTATC
112839 TCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
1 TCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
*
112904 AGATCGTGTCAGGTCTTATT
66 AGATCGAGTCAGGTCTTATT
* * * ** * *
112924 TCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCA-GATCTTATCTCCCTG-AGATTACAGCG
1 TCCCTGAGATTACAGTGGAGCGGAT-TAA-AA-TGAAGGATCTTATCTCTCTGAAG-TTACAGCA
* * * * *
112987 GAGCAGATTGAAG-CTAGTAATCCTATC
62 GAGTAGATCG-AGTC-AG--GTCTTATT
113014 TCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
1 TCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
*
113079 AGATCGCGTCAGGTCTTATT
66 AGATCGAGTCAGGTCTTATT
113099 TCCCTGAGATTACAGTGG
1 TCCCTGAGATTACAGTGG
113117 GACACACCGA
Statistics
Matches: 156, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
85 46 0.29
86 4 0.03
87 37 0.24
88 37 0.24
89 4 0.03
90 28 0.18
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (85 bp):
TCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
AGATCGAGTCAGGTCTTATT
Found at i:113014 original size:131 final size:129
Alignment explanation
Indices: 112783--113028 Score: 275
Period size: 131 Copynumber: 1.9 Consensus size: 129
112773 CCGAAGAATT
* * *
112783 TCAGATCTTATCTCCCTGAGATTACTGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATCGAAGATAGTAATCCTATCTCCCTGAGA
* * * * *
112848 TTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGTG
66 TTACAGCGGAGCAGATTAAAATGAAGAATCCTATCTCCCTGAGA-TTACAGCAGAGTAGATCGTG
* * * * *
112912 TCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGA-ATTTCAGATCTTATCTCCCTG
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATCGAAGATA-GT-A-ATCCTATCTCCCTG
* *
112976 AGATTACAGCGGAGCAGATT-GAA-GCTAGTAATCCTATCTCCCTGAGATTACAG
63 AGATTACAGCGGAGCAGATTAAAATG-AAG-AATCCTATCTCCCTGAGATTACAG
113029 TGGAGCGGAT
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
128 1 0.01
129 39 0.41
130 5 0.05
131 50 0.52
132 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATCGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGCGGAGCAGATTAAAATGAAGAATCCTATCTCCCTGAGATTACAGCAGAGTAGATCGTG
Found at i:113032 original size:175 final size:175
Alignment explanation
Indices: 112741--113195 Score: 829
Period size: 175 Copynumber: 2.6 Consensus size: 175
112731 CATTATACAT
*
112741 GTCTTATTTCCCTGAGACTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
1 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
* *
112806 ACTGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATG
66 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATG
*
112871 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCAG
131 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAG
*
112916 GTCTTATTTCCCTGAGATTACAGTGGAACAGATCGAAGAATTTCAGATCTTATCTCCCTGAGATT
1 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
112981 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATG
66 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATG
113046 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAG
131 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAG
* *
113091 GTCTTATTTCCCTGAGATTACAGTGGGACACACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
1 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
* *
113156 ACAGCGGAGCAGATTGAAGCCAGTAATTCTATCTCCCTGA
66 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGA
113196 CGTTGCGGAG
Statistics
Matches: 270, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
175 270 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (175 bp):
GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATG
AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAG
Found at i:114713 original size:3 final size:3
Alignment explanation
Indices: 114705--114768 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
114695 TTTAGCAATT
* *
114705 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
114753 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
114769 AATTGTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:115085 original size:10 final size:10
Alignment explanation
Indices: 115066--115097 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
115056 TTGTAAATAC
*
115066 ATATATATAT
1 ATATACATAT
115076 ATATACATAT
1 ATATACATAT
115086 ATATACATAT
1 ATATACATAT
115096 AT
1 AT
115098 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATACATAT
Found at i:144842 original size:3 final size:3
Alignment explanation
Indices: 144834--144891 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
144824 TTTAGCAATT
* *
144834 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
144882 TTA TTA TTA T
1 TTA TTA TTA T
144892 AATTGTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:145180 original size:32 final size:32
Alignment explanation
Indices: 145144--145204 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
145134 AATATTTATG
* * *
145144 CCTTTCTTAATATATATATGTACATATTTTAA
1 CCTTTCTAAATACATATATATACATATTTTAA
* *
145176 CCTTTGTAAATACATATATATATATATTT
1 CCTTTCTAAATACATATATATACATATTT
145205 ATATATATAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.49
Consensus pattern (32 bp):
CCTTTCTAAATACATATATATACATATTTTAA
Found at i:221514 original size:31 final size:32
Alignment explanation
Indices: 221453--221517 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
221443 GGCAAATTAC
221453 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
221485 AAGAGTAATTGAATCCTAAT-ATAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
221516 AA
1 AA
221518 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:231659 original size:44 final size:43
Alignment explanation
Indices: 231594--232661 Score: 620
Period size: 44 Copynumber: 24.7 Consensus size: 43
231584 CGTAGCCGAT
*
231594 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * ***
231637 AGGTCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCA-C-C
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* **
231677 TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGT-A-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AA-TCAC
* * * * *
231722 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGAC
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCAC
** *
231766 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-AC
* *
231811 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * *** *
231854 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGGA--CGCATC-T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTAAAATCAC
* ** *
231895 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCAC
* * *
231939 AGTCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGATTGAAGATGGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATT-AAAAT--CAC
* * ** *
231984 AATCTTACCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-AC
* *
232028 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * * *** *
232071 AGATCTTATCTCTCTAAAGTTGCAG-AGAGCAG-GTCGCATC-T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* ** *
232112 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCAC
* *
232156 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGATTGAAGATGGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATT-AAAAT--CAC
* * ** *
232201 AATCTTACCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-AC
* * *
232245 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * ** *
232288 AGATCTTATCTCTCTGAAGTTGCAG-AGAGTAGATT-GCATC-T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * *
232329 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCAC
* * *
232373 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT--CAC
* * **
232418 AATCTTATCTTCCTGAAGTTGCACTGGAGCAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-AC
* *
232462 AATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * * ** *
232505 AGATCTTATCTCTCTAAAGTTGTAG-AGAGCAGATT-GCATC-T
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
* * * **
232546 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAGGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCAC
* * * * * *
232590 AATCTTATCTTCTTGAAGTTGCAATGGAGCAGATTAAAGCTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCAC
* *
232634 AATCCTATCTCCCTGAAATTGCAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
232662 ATAGACTATG
Statistics
Matches: 783, Mismatches: 169, Indels: 145
0.71 0.15 0.13
Matches are distributed among these distances:
40 104 0.13
41 38 0.05
42 22 0.03
43 62 0.08
44 426 0.54
45 120 0.15
46 11 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCAC
Found at i:231979 original size:217 final size:217
Alignment explanation
Indices: 231587--232661 Score: 1717
Period size: 217 Copynumber: 5.0 Consensus size: 217
231577 ATAAATCCGT
* ** *
231587 AGCCGATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCACAGGTCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
*
231652 GAAGTTGCAGAGAGCAGATCGCACCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
* * * *
231717 AAGTAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGACAAATCTTATCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTG
231782 AAGTTGCAGTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
*
231804 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
231869 GAAGTTGCAGAGAGCAGGA-CGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG
66 GAAGTTGCAGAGAGCA-GATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAG
* *
231933 TAAGCAAGTCTTATCCTCCTGAAGTTGCAATGAGGCAGATTGAAGATGGCAAATCTTACCTCCCT
130 TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCT
*
231998 GAAGTTGCAGTGGAGTAGATTAA
195 GAAGTTGCAGTGGAGCAGATTAA
*
232021 AGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* *
232086 AAAGTTGCAGAGAGCAGGTCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
*
232151 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTACCTCCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTG
*
232216 AAGTTGCAGTGGAGTAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
*
232238 AGCCGATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* * *
232303 GAAGTTGCAGAGAGTAGATTGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
* *
232368 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTTCCTG
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTG
*
232433 AAGTTGCACTGGAGCAGATTAA
196 AAGTTGCAGTGGAGCAGATTAA
* * *
232455 AGCCGACAATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCT
1 AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
* * * * *
232520 AAAGTTGTAGAGAGCAGATTGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGT
66 GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
* * * * * * * *
232585 AGGCAAATCTTATCTTCTTGAAGTTGCAATG-GAGCAGATTAAAGCT-G-ATAATCCTATCTCCC
131 AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAG-GCAGATTGAAGATGGCA-AATCTTATCTCCC
*
232647 TGAAATTGCAGTGGA
194 TGAAGTTGCAGTGGA
232662 ATAGACTATG
Statistics
Matches: 808, Mismatches: 46, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
215 1 0.00
216 27 0.03
217 778 0.96
218 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (217 bp):
AGCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCT
GAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGT
AAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTG
AAGTTGCAGTGGAGCAGATTAA
Found at i:232609 original size:84 final size:84
Alignment explanation
Indices: 231596--232612 Score: 404
Period size: 84 Copynumber: 11.8 Consensus size: 84
231586 TAGCCGATAA
* * * **
231596 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAATCA-CAGGTCTTATC-TCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGT-AGCAAATCTTATCTTCT-TGAAGTTG
* * *
231659 CAGAGAGCAGATCG-CACCTAG
63 CAGAGAGCAGATTGACATCAAG
* * * * * *
231680 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGTAAGTCTTATCCTCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT-AGCAAATCTTATCTTCTTGAAGTTGCA
* * * *
231745 GTGAGGCAGACTGAAGATGACAAA
65 GAGA-GCAGATTG-ACAT--CAAG
* * * *
231769 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AGCCAATAATCCTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAG-C-A-AATCTTATCTTCTTGAAGTTG
* * * *
231832 CAGTGGAGCGGATTAAAATCACAG
63 CAG-AGAGCAGATTGACATCA-AG
* * * * * * * *
231856 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGGAC---GCATCTAGTCTTATCTCCCTGAAGTTGC
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTAAGTAGCAAATCTTATCTTCTTGAAGTTGC
* * * *
231917 AGTGGAGCAGGCTAAGTA-AGCAAG
64 AG-AGAGCA-GAT-TG-ACATCAAG
* * * * * *
231941 TCTTATC-CTCCTGAAGTTGCAAT-GAGGCAGATTGAAGATGGCAAATCTTACCTCCCTGAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAG-TAGCAAATCTTATCTTCTTGAAGTT
* * *
232004 GCAGTGGAGTAGATTAAAGCCAAT-AA-
62 GCAG-AGAGCAGATT---GAC-ATCAAG
* * * * * *
232030 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCA-CAGATCTTATC-TCTCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGT-AGCAAATCTTATCTTCT-TGAAGTTG
* * *
232093 CAGAGAGCAGGTCG-CATCTAG
63 CAGAGAGCAGATTGACATCAAG
* * * *
232114 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGT-AGCAAATCTTATCTTCTTGAAGTTGCA
* * *
232179 GTGAGGCAGATTGAAGATGGCAAA
65 GAGA-GCAGATTG-ACAT--CAAG
* * * * *
232203 TCTTACCTCCCTGAAGTTGCAGTGGAGTAGATTAA--AGCCGATAATCCTATCTCCTTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAG-C-A-AATCTTATCTTCTTGAAGTTG
* * * *
232266 CAGTGGAGCGGATTAAAATCACAG
63 CAG-AGAGCAGATTGACATCA-AG
* * * * * * * * * *
232290 ATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T-TGCATCTAGTCTTATCTCCCTGAAGTTGCA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGCAAATCTTATCTTCTTGAAGTTGCA
* * *
232352 GTGGAGCAGACTAAGTA-AGCAAG
65 G-AGAGCAGA-T-TG-ACATCAAG
* *
232375 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTTCCTGAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAG-TAGCAAATCTTATCTTCTTGAAGTT
*
232438 GCACTG-GAGCAGATTAAAGCCGA-CAA-
62 GCA--GAGAGCAGATT---GAC-ATCAAG
* * * * * *
232464 TCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAATCA-CAGATCTTATC-TCTCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGT-AGCAAATCTTATCTTCT-TGAAGTTG
* *
232527 TAGAGAGCAGATTG-CATCTAG
63 CAGAGAGCAGATTGACATCAAG
*
232548 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGTAGGCAAATCTTATCTTCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA-GCAAATCTTATCTTCTTGAAGTTGCA
232613 ATGGAGCAGA
Statistics
Matches: 708, Mismatches: 145, Indels: 160
0.70 0.14 0.16
Matches are distributed among these distances:
82 4 0.01
83 18 0.03
84 250 0.35
85 33 0.05
86 19 0.03
87 40 0.06
88 95 0.13
89 229 0.32
90 17 0.02
91 3 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (84 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAGCAAATCTTATCTTCTTGAAGTTGCAG
AGAGCAGATTGACATCAAG
Done.