Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 67 of 345
Found at i:18412723 original size:113 final size:116
Alignment explanation
Indices: 18412408--18412787 Score: 622
Period size: 116 Copynumber: 3.3 Consensus size: 116
18412398 TTTATATTTT
* * *
18412408 ATTACATGAAATAATATAAAAATATTCAAAATATTACTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
* * *
18412473 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* * *
18412524 ATCACGTGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
*
18412589 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
18412640 ATTACATGAAATAATAT-AAAA-A-TCAAAACGTTGCCTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
18412702 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
18412753 ATAACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
18412788 TGTACAAATA
Statistics
Matches: 244, Mismatches: 17, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
113 104 0.43
114 5 0.02
115 5 0.02
116 130 0.53
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:18413823 original size:7 final size:7
Alignment explanation
Indices: 18413813--18413839 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18413803 GTTAAATAAA
18413813 AAATACT
1 AAATACT
18413820 AAATACT
1 AAATACT
18413827 AAATACT
1 AAATACT
18413834 AAATAC
1 AAATAC
18413840 GAATCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:18413824 original size:14 final size:14
Alignment explanation
Indices: 18413805--18413838 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18413795 AAATATTAGT
18413805 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
18413819 TAAATACTAAATAC
1 TAAATAAAAAATAC
18413833 TAAATA
1 TAAATA
18413839 CGAATCCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:18414960 original size:15 final size:15
Alignment explanation
Indices: 18414940--18414970 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18414930 TTTTTATTTT
*
18414940 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
18414955 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
18414970 A
1 A
18414971 GCTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:18415046 original size:20 final size:20
Alignment explanation
Indices: 18414997--18415047 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
18414987 TAACTAGAGT
18414997 TTTGAGAGAAATTTAAGAGAAA
1 TTTGAGAG--ATTTAAGAGAAA
*
18415019 TTTGAGAGATTTGAGAGAAA
1 TTTGAGAGATTTAAGAGAAA
18415039 TTTGAGAGA
1 TTTGAGAGA
18415048 ATATTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 20 0.71
22 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.29
Consensus pattern (20 bp):
TTTGAGAGATTTAAGAGAAA
Found at i:18415054 original size:11 final size:11
Alignment explanation
Indices: 18414997--18415048 Score: 81
Period size: 11 Copynumber: 4.9 Consensus size: 11
18414987 TAACTAGAGT
18414997 TTTGAGAGAAA
1 TTTGAGAGAAA
*
18415008 TTTAAGAGAAA
1 TTTGAGAGAAA
18415019 TTTGAGAG--A
1 TTTGAGAGAAA
18415028 TTTGAGAGAAA
1 TTTGAGAGAAA
18415039 TTTGAGAGAA
1 TTTGAGAGAA
18415049 TATTGAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
9 9 0.24
11 28 0.76
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:18415060 original size:31 final size:31
Alignment explanation
Indices: 18414997--18415060 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
18414987 TAACTAGAGT
*
18414997 TTTGAGAGAAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
18415028 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
18415059 TT
1 TT
18415061 GAAAATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:18415703 original size:17 final size:16
Alignment explanation
Indices: 18415670--18415700 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
18415660 ATTTTAAACA
18415670 TTTACATATTATATAT
1 TTTACATATTATATAT
18415686 TTTACAT-TTATATAT
1 TTTACATATTATATAT
18415701 ATTATGTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTACATATTATATAT
Found at i:18415737 original size:50 final size:49
Alignment explanation
Indices: 18415595--18415738 Score: 154
Period size: 50 Copynumber: 2.9 Consensus size: 49
18415585 ATTAAATTGT
18415595 TTTAT-TATA-TATTATTTTAAATTATTTTACATATTATTTATTTTAAG
1 TTTATATATATTATTATTTTAAATTATTTTACATATTATTTATTTTAAG
* * *
18415642 TTTTCATATACATTATTTATTTTAAA-CA-TTTACATATTATATATTTTACA-
1 -TTT-ATATATATTA-TTATTTTAAATTATTTTACATATTATTTATTTTA-AG
* * *
18415692 TTTATATATATTATGTAGTTTAAATTATTTTATATGTTATTTATTTT
1 TTTATATATATTAT-TATTTTAAATTATTTTACATATTATTTATTTT
18415739 TAACCTTTTA
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
47 1 0.01
48 20 0.25
49 6 0.08
50 38 0.48
51 4 0.05
52 10 0.13
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (49 bp):
TTTATATATATTATTATTTTAAATTATTTTACATATTATTTATTTTAAG
Found at i:18415850 original size:26 final size:25
Alignment explanation
Indices: 18415594--18415852 Score: 122
Period size: 26 Copynumber: 10.2 Consensus size: 25
18415584 CATTAAATTG
*
18415594 TTTTAT-TATATA-TTATTTTAAAT
1 TTTTATATATTTATTTATTTTAAAT
* *
18415617 TATTT-TACATATTATTTATTTTAAGT
1 T-TTTATATAT-TTATTTATTTTAAAT
* * *
18415643 TTTCATATACATTATTTATTTTAAAC
1 TTTTATATA-TTTATTTATTTTAAAT
* * * *
18415669 ATTTACATA-TTATATATTTTACAT
1 TTTTATATATTTATTTATTTTAAAT
* * *
18415693 TTATATATA-TTATGTAGTTTAAAT
1 TTTTATATATTTATTTATTTTAAAT
* *
18415717 TATTT-TATATGTTATTTATTTTTAAC
1 T-TTTATATAT-TTATTTATTTTAAAT
* * *
18415743 CTTT-TATA-TTAGTTATTTAAAACT
1 TTTTATATATTTATTTATTTTAAA-T
* * *
18415767 GTTTTACACATTT-TTTGTTTTAAAT
1 -TTTTATATATTTATTTATTTTAAAT
* *
18415792 TTTTTTTTATGTTATTTATTTCTAACTATT
1 TTTTATATAT-TTATTTATTT-TAA--A-T
*
18415822 TTTTATATATGTTATCTATTTTAAAT
1 TTTTATATAT-TTATTTATTTTAAAT
18415848 TTTTA
1 TTTTA
18415853 CATGTTACTT
Statistics
Matches: 173, Mismatches: 44, Indels: 35
0.69 0.17 0.14
Matches are distributed among these distances:
23 13 0.08
24 46 0.27
25 19 0.11
26 66 0.38
27 6 0.03
29 4 0.02
30 19 0.11
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (25 bp):
TTTTATATATTTATTTATTTTAAAT
Found at i:18415933 original size:25 final size:25
Alignment explanation
Indices: 18415900--18416035 Score: 107
Period size: 25 Copynumber: 5.4 Consensus size: 25
18415890 TTCAAATACT
*
18415900 TTTATTATTTATTGCAAACCTTTTA
1 TTTATTATTTATTTCAAACCTTTTA
*
18415925 TTTATTATTTATTTCAAGCCTTTTA
1 TTTATTATTTATTTCAAACCTTTTA
**
18415950 TTATATTA-TTATTTCAAATTTTTTA
1 TT-TATTATTTATTTCAAACCTTTTA
* * ** *
18415975 -TTATTATATACTTTTAAGTCTTTTC
1 TTTATTATTTA-TTTCAAACCTTTTA
* * *
18416000 TATATTTTTTATTTTAAATCCTTTTA
1 TTTATTATTTATTTCAAA-CCTTTTA
18416026 -TTATTCATTT
1 TTTATT-ATTT
18416036 TAAGATTTCA
Statistics
Matches: 87, Mismatches: 18, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
23 5 0.06
24 3 0.03
25 59 0.68
26 20 0.23
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTATTATTTATTTCAAACCTTTTA
Found at i:18415998 original size:50 final size:48
Alignment explanation
Indices: 18415902--18416030 Score: 123
Period size: 50 Copynumber: 2.6 Consensus size: 48
18415892 CAAATACTTT
* * * *
18415902 TATTATTTATTGCAAACCTTTTATTTATTATTTATTTCAAGCCTTTTATTA
1 TATTA-TTATTTCAAATCTTTTA-TTATTATATATTTCAAGCCTTTT-CTA
* * *
18415953 TATTATTATTTCAAATTTTTTATTATTATATACTTTTAAGTCTTTTCTA
1 TATTATTATTTCAAATCTTTTATTATTATATA-TTTCAAGCCTTTTCTA
* *
18416002 TATTTTTTATTTTAAATCCTTTTATTATT
1 TA-TTATTATTTCAAAT-CTTTTATTATT
18416031 CATTTTAAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
49 13 0.20
50 37 0.57
51 15 0.23
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.61
Consensus pattern (48 bp):
TATTATTATTTCAAATCTTTTATTATTATATATTTCAAGCCTTTTCTA
Found at i:18421711 original size:2 final size:2
Alignment explanation
Indices: 18421704--18421730 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18421694 CTACTTAAAT
18421704 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
18421731 TGGTATTTAA
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:18423188 original size:2 final size:2
Alignment explanation
Indices: 18423183--18423216 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18423173 GAAAGGTAAA
18423183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18423217 TAATACTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18426290 original size:22 final size:22
Alignment explanation
Indices: 18426265--18426307 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18426255 TAACCAAACA
18426265 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
18426287 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
18426308 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:18426311 original size:11 final size:11
Alignment explanation
Indices: 18426272--18426312 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
18426262 ACAATAACAA
18426272 CAAAATAGTAG
1 CAAAATAGTAG
* *
18426283 CAACATAATAG
1 CAAAATAGTAG
*
18426294 TAAAATAGTAG
1 CAAAATAGTAG
18426305 CAAAATAG
1 CAAAATAG
18426313 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:18427979 original size:14 final size:13
Alignment explanation
Indices: 18427957--18427985 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18427947 TGAGTATAGT
18427957 AAAATAT-TTTAA
1 AAAATATATTTAA
18427969 AAAATATATTTAA
1 AAAATATATTTAA
18427982 AAAA
1 AAAA
18427986 AAGAAATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATATATTTAA
Found at i:18428150 original size:20 final size:20
Alignment explanation
Indices: 18428125--18428165 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
18428115 ATTGAAATAA
18428125 TGGAAAATTATTTTAAAAAT
1 TGGAAAATTATTTTAAAAAT
*
18428145 TGGAAAGTTATTTTAAAAAT
1 TGGAAAATTATTTTAAAAAT
18428165 T
1 T
18428166 AGAATTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (20 bp):
TGGAAAATTATTTTAAAAAT
Found at i:18438867 original size:130 final size:130
Alignment explanation
Indices: 18438620--18439347 Score: 843
Period size: 130 Copynumber: 5.6 Consensus size: 130
18438610 GATTAGCCTC
* * * * ** * *
18438620 ATCTCCCTAAGCAGCAGTGGAAT-AGATTGATGATTACAGATTTTATCTCCCTAAGCAGTAGTGG
1 ATCTCCCTAAGCAGTAGTGGAGTAAG-CTGAGGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGG
* * * * *
18438684 AGTAGATCGAAGATGGCAAA-TCTTGTCTCCCTAAGCATTAGTGAAGCAAATTTAAGCCACTACC
65 AGCAGATCGAAGATGGCAAACT-TTGTCTCCCTAAGCAGTAGTGGAGTAAATTTAAGCCACCACC
18438748 CT
129 CT
* * * *
18438750 AACTCCCTAAGCAGTAGCGGAGTAAGCTGAGGATTGTAGATCTTGTCTCCTTAAGCAGTAGAGGA
1 ATCTCCCTAAGCAGTAGTGGAGTAAGCTGAGGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGA
* *
18438815 GCAGATCGAAGATGGCAAACTTTGTCTCCCTAAGCAGTATTGGAGTAGATTTAAGCCACCACCCT
66 GCAGATCGAAGATGGCAAACTTTGTCTCCCTAAGCAGTAGTGGAGTAAATTTAAGCCACCACCCT
* * * * * ** * * *
18438880 ATCTCCTTGAGCAGTAGTGGAGCACGCTGAAGATTACATAT-TATATCTCCCTAAGTAGTAGTGG
1 ATCTCCCTAAGCAGTAGTGGAGTAAGCTGAGGATTGTAGATCT-TGTCTCCCTAAGCAGTAGTGG
* * * * * *
18438944 AGCAGATCAAAGACGGTAAGCCTTATCTCCCTAAGCAGTAGTGGAGTAAATTTAAGCCACCACCC
65 AGCAGATCGAAGATGGCAAACTTTGTCTCCCTAAGCAGTAGTGGAGTAAATTTAAGCCACCACCC
18439009 T
130 T
* * * ** *
18439010 ATCTCCCTAAGTAATAGCGGAGTTGGCTGAGGATTGTAGATCTTGTCTCCCTAAGCAGTAGAGGA
1 ATCTCCCTAAGCAGTAGTGGAGTAAGCTGAGGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGA
* * * * * * * *
18439075 GTAGATCGAAGATGGAAAATTTTGTGTCCCTAAGCAATAGTAGAGTAGATTTAAGCCATCACCCT
66 GCAGATCGAAGATGGCAAACTTTGTCTCCCTAAGCAGTAGTGGAGTAAATTTAAGCCACCACCCT
* * *
18439140 ATCTCCCTAAGCAATAGTGGAGTAGGCTGAGGATTGTAGATCTTGTCTCCCTAAGCAATAGTGGA
1 ATCTCCCTAAGCAGTAGTGGAGTAAGCTGAGGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGA
* * * * * *
18439205 GTAGATCAAAGATGGCAAATTTTGTCTCCCTAAGCAGTAGTGGAGCAAATTTAAGCAACCATCCT
66 GCAGATCGAAGATGGCAAACTTTGTCTCCCTAAGCAGTAGTGGAGTAAATTTAAGCCACCACCCT
* * *
18439270 ATCTCCCTAAGCAGTAGTAGAGT-AGACTGAAGATTGTAGATCTTGTCTCTCTAAGCAGTAGTGG
1 ATCTCCCTAAGCAGTAGTGGAGTAAG-CTGAGGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGG
18439334 AGCAGATCGAAGAT
65 AGCAGATCGAAGAT
18439348 CATTCTATCT
Statistics
Matches: 501, Mismatches: 92, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
129 2 0.00
130 495 0.99
131 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (130 bp):
ATCTCCCTAAGCAGTAGTGGAGTAAGCTGAGGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGA
GCAGATCGAAGATGGCAAACTTTGTCTCCCTAAGCAGTAGTGGAGTAAATTTAAGCCACCACCCT
Found at i:18439123 original size:260 final size:259
Alignment explanation
Indices: 18438651--18439623 Score: 1004
Period size: 260 Copynumber: 3.7 Consensus size: 259
18438641 ATAGATTGAT
*
18438651 GATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTGTCTCCCT
1 GATTACAGA-TTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGCAAATCTTGTCTCCCT
* * * * *
18438716 AAGCATTAGTGAAGCAAATTTAAGCCACTACCCTAACTCCCTAAGCAGTAGCGGAGTAAGCTGAG
65 AAGCAGTAGTGGAGCAAATTTAAGCCACCACCCTATCTCCCTAAGCAGTAGCGGAGTAGGCTGAG
* *
18438781 GATTGTAGATCTTGTCTCCTTAAGCAGTAGAGGAGCAGATCGAAGATGGCAAACTTTGTCTCCCT
130 GATTGTAGATCTTGTCTCCCTAAGCAGTAGAGGAGCAGATCGAAGATGGAAAACTTTGTCTCCCT
* * * * * *
18438846 AAGCAGTATTGGAGTAGATTTAAGCCACCACCCTATCTCCTTGAGCAGTAGTGGAGCACGCTGAA
195 AAGCAATAGTAGAGTAGATTTAAGCCACCACCCTATCTCCCTAAGCAATAGTGGAGCACGCTGAA
* * * * * ** *
18438911 GATTACATATTATATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGTAAGCCTTATCTCCCT
1 GATTACAGATT-TATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGCAAATCTTGTCTCCCT
* * * *
18438976 AAGCAGTAGTGGAGTAAATTTAAGCCACCACCCTATCTCCCTAAGTAATAGCGGAGTTGGCTGAG
65 AAGCAGTAGTGGAGCAAATTTAAGCCACCACCCTATCTCCCTAAGCAGTAGCGGAGTAGGCTGAG
* * *
18439041 GATTGTAGATCTTGTCTCCCTAAGCAGTAGAGGAGTAGATCGAAGATGGAAAATTTTGTGTCCCT
130 GATTGTAGATCTTGTCTCCCTAAGCAGTAGAGGAGCAGATCGAAGATGGAAAACTTTGTCTCCCT
* * * *
18439106 AAGCAATAGTAGAGTAGATTTAAGCCATCACCCTATCTCCCTAAGCAATAGTGGAGTAGGCTGAG
195 AAGCAATAGTAGAGTAGATTTAAGCCACCACCCTATCTCCCTAAGCAATAGTGGAGCACGCTGAA
** * * *
18439171 GATTGTAGATCTTGTCTCCCTAAGCAATAGTGGAGTAGATCAAAGATGGCAAATTTTGTCTCCCT
1 GATTACAGAT-TTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGCAAATCTTGTCTCCCT
* * ** * *
18439236 AAGCAGTAGTGGAGCAAATTTAAGCAACCATCCTATCTCCCTAAGCAGTAGTAGAGTAGACTGAA
65 AAGCAGTAGTGGAGCAAATTTAAGCCACCACCCTATCTCCCTAAGCAGTAGCGGAGTAGGCTGAG
* * * *
18439301 GATTGTAGATCTTGTCTCTCTAAGCAGTAGTGGAGCAGATCGAAGAT----CA-TTCTATCTCCC
130 GATTGTAGATCTTGTCTCCCTAAGCAGTAGAGGAGCAGATCGAAGATGGAAAACTT-TGTCTCCC
* *
18439361 TAAGTAGTAGTGGAGTAGGCTGAAGATTGCATATCATAGATTTAAGCCACCACCCTATCTCTCTA
194 T-A--AGCA----A-TA-G-T--AGA--G-------TAGATTTAAGCCACCACCCTATCTCCCTA
* * * * * *
18439426 AGCAGTAGTAGAGTAGGATGAG
238 AGCAATAGTGGAGCACGCTGAA
** * * *
18439448 GATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATTTTGTCTCCCT
1 GATTACAGAT-TTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGCAAATCTTGTCTCCCT
** * ** * * *
18439513 AAATAGTAGTGGAACAAATTTAAGCCACCATTCTATGTCCCTAAGCAGTAGTGGAGTAGGCTGAA
65 AAGCAGTAGTGGAGCAAATTTAAGCCACCACCCTATCTCCCTAAGCAGTAGCGGAGTAGGCTGAG
* * * *
18439578 GATTGTA-AGTCTTGTCTCCTTAGGCAGTGGTGGAGCAGATCGAAGA
130 GATTGTAGA-TCTTGTCTCCCTAAGCAGTAGAGGAGCAGATCGAAGA
18439624 CCATCCTATC
Statistics
Matches: 606, Mismatches: 82, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
255 2 0.00
256 8 0.01
257 1 0.00
259 5 0.01
260 373 0.62
261 1 0.00
263 1 0.00
264 2 0.00
265 1 0.00
266 1 0.00
268 3 0.00
270 1 0.00
276 1 0.00
277 206 0.34
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (259 bp):
GATTACAGATTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGCAAATCTTGTCTCCCTA
AGCAGTAGTGGAGCAAATTTAAGCCACCACCCTATCTCCCTAAGCAGTAGCGGAGTAGGCTGAGG
ATTGTAGATCTTGTCTCCCTAAGCAGTAGAGGAGCAGATCGAAGATGGAAAACTTTGTCTCCCTA
AGCAATAGTAGAGTAGATTTAAGCCACCACCCTATCTCCCTAAGCAATAGTGGAGCACGCTGAA
Found at i:18439384 original size:84 final size:85
Alignment explanation
Indices: 18439185--18439389 Score: 234
Period size: 86 Copynumber: 2.4 Consensus size: 85
18439175 GTAGATCTTG
* * * * * * *
18439185 TCTCCCTAAGCAATAGTGGAGTAGA-TCAAAGATGGCAAATTTTGTCTCCCTAAGCAGTAGTGGA
1 TCTCCCTAAGCAGTAGTAGAGTAGACT-GAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGA
**
18439249 GCAAATTTAAGCAACCATCCTA
65 GCAAATCGAAG-AACCATCCTA
*
18439271 TCTCCCTAAGCAGTAGTAGAGTAGACTGAAGATTGTAGATCTTGTCTCTCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTAGAGTAGACTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAG
* * *
18439336 CAGATCGAAG-ATCATTCTA
66 CAAATCGAAGAACCATCCTA
* * *
18439355 TCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGATTG
1 TCTCCCTAAGCAGTAGTAGAGTAGACTGAAGATTG
18439390 CATATCATAG
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
84 39 0.38
86 62 0.61
87 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (85 bp):
TCTCCCTAAGCAGTAGTAGAGTAGACTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAG
CAAATCGAAGAACCATCCTA
Found at i:18439386 original size:40 final size:42
Alignment explanation
Indices: 18439138--18439387 Score: 134
Period size: 44 Copynumber: 5.9 Consensus size: 42
18439128 AGCCATCACC
* * *
18439138 CTATCTCCCTAAGCAATAGTGGAGTAGGCTGAGGATTGTAGAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGA-TGCAGAT
* * * * *
18439181 CTTGTCTCCCTAAGCAATAGTGGAGTA-GATCAAAGATGGCAAATT
1 C-TATCTCCCTAAGCAGTAGTGGAGTAGGCT-GAAGAT-GCAGA-T
* * * *** * * *
18439226 TTGTCTCCCTAAGCAGTAGTGGAGCAAATTTAAGCA-AC-CAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAG-ATGCAGAT
* * *
18439267 CCTATCTCCCTAAGCAGTAGTAGAGTAGACTGAAGATTGTAGAT
1 -CTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGA-TGCAGAT
* * * * *
18439311 CTTGTCTCTCTAAGCAGTAGTGGAGCA-GATCGAAGAT-CA-TT
1 C-TATCTCCCTAAGCAGTAGTGGAGTAGGCT-GAAGATGCAGAT
*
18439352 CTATCTCCCTAAGTAGTAGTGGAGTAGGCTGAAGAT
1 CTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGAT
18439388 TGCATATCAT
Statistics
Matches: 157, Mismatches: 37, Indels: 29
0.70 0.17 0.13
Matches are distributed among these distances:
40 27 0.17
41 6 0.04
42 29 0.18
43 8 0.05
44 84 0.54
45 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
CTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATGCAGAT
Found at i:18439507 original size:44 final size:44
Alignment explanation
Indices: 18439418--18439705 Score: 148
Period size: 44 Copynumber: 6.7 Consensus size: 44
18439408 CACCACCCTA
* * * * * *
18439418 TCTCTCTAAGCAGTAGTAGAGTAGGATGAGGATTGTAGATCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGATGAAGATGGCAAATCTTG
*
18439462 TCTCCCTAAGCAGTAGTGGAGTA-GATCGAAGATGGCAAATTTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGAT-GAAGATGGCAAATCTTG
** ** * ** * *
18439506 TCTCCCTAAATAGTAGTGGAACA-AATTTA-A-GCCACCATTCTATG
1 TCTCCCTAAGCAGTAGTGGAGTAGGATGAAGATGGCA--AATCT-TG
* * * *
18439550 --TCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAAGTCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGATGAAGATGGCAAATCTTG
* * * * * * *
18439592 TCTCCTTAGGCAGTGGTGGAGCA-GATCGAAGA---C-CATCCTA
1 TCTCCCTAAGCAGTAGTGGAGTAGGAT-GAAGATGGCAAATCTTG
* * * * *
18439632 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCATA
1 TCTCCCTAAGCAGTAGTGGAGTAGGATGAAGATGGCAAATCTTG
* *
18439676 TCTCCCTAAGCAATAGTGGAGTAGGTTGAA
1 TCTCCCTAAGCAGTAGTGGAGTAGGATGAA
18439706 AAGATTGTAG
Statistics
Matches: 181, Mismatches: 48, Indels: 30
0.70 0.19 0.12
Matches are distributed among these distances:
40 27 0.15
41 5 0.03
42 20 0.11
43 16 0.09
44 112 0.62
45 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGATGAAGATGGCAAATCTTG
Found at i:18439614 original size:277 final size:277
Alignment explanation
Indices: 18439120--18439675 Score: 891
Period size: 277 Copynumber: 2.0 Consensus size: 277
18439110 AATAGTAGAG
* * *
18439120 TAGATTTAAGCCATCACCCTATCTCCCTAAGCAATAGTGGAGTAGGCTGAGGATTGTAGATCTTG
1 TAGATTTAAGCCACCACCCTATCTCCCTAAGCAATAGTAGAGTAGGATGAGGATTGTAGATCTTG
* *
18439185 TCTCCCTAAGCAATAGTGGAGTAGATCAAAGATGGCAAATTTTGTCTCCCTAAGCAGTAGTGGAG
66 TCTCCCTAAGCAATAGTGGAGTAGATCAAAGATGGCAAATTTTGTCTCCCTAAACAGTAGTGGAA
18439250 CAAATTTAAGCAACCATCCTATCTCCCTAAGCAGTAGTAGAGTAGACTGAAGATTGTAGATCTTG
131 CAAATTTAAGCAACCATCCTATCTCCCTAAGCAGTAGTAGAGTAGACTGAAGATTGTAGATCTTG
* * *
18439315 TCTCTCTAAGCAGTAGTGGAGCAGATCGAAGATCATTCTATCTCCCTAAGTAGTAGTGGAGTAGG
196 TCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
*
18439380 CTGAAGATTGCATATCA
261 CTGAAGATTGCAGATCA
* *
18439397 TAGATTTAAGCCACCACCCTATCTCTCTAAGCAGTAGTAGAGTAGGATGAGGATTGTAGATCTTG
1 TAGATTTAAGCCACCACCCTATCTCCCTAAGCAATAGTAGAGTAGGATGAGGATTGTAGATCTTG
* * *
18439462 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATTTTGTCTCCCTAAATAGTAGTGGAA
66 TCTCCCTAAGCAATAGTGGAGTAGATCAAAGATGGCAAATTTTGTCTCCCTAAACAGTAGTGGAA
* * * * *
18439527 CAAATTTAAGCCACCATTCTATGTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTA-AGTCTT
131 CAAATTTAAGCAACCATCCTATCTCCCTAAGCAGTAGTAGAGTAGACTGAAGATTGTAGA-TCTT
* *
18439591 GTCTC-CTTAGGCAGTGGTGGAGCAGATCGAAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTA
195 GTCTCTC-TAAGCAGTAGTGGAGCAGATCGAAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTA
18439655 GGCTGAAGATTGCAGATCA
259 GGCTGAAGATTGCAGATCA
18439674 TA
1 TA
18439676 TCTCCCTAAG
Statistics
Matches: 256, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
276 2 0.01
277 254 0.99
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (277 bp):
TAGATTTAAGCCACCACCCTATCTCCCTAAGCAATAGTAGAGTAGGATGAGGATTGTAGATCTTG
TCTCCCTAAGCAATAGTGGAGTAGATCAAAGATGGCAAATTTTGTCTCCCTAAACAGTAGTGGAA
CAAATTTAAGCAACCATCCTATCTCCCTAAGCAGTAGTAGAGTAGACTGAAGATTGTAGATCTTG
TCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG
CTGAAGATTGCAGATCA
Found at i:18439695 original size:84 final size:84
Alignment explanation
Indices: 18439462--18439696 Score: 249
Period size: 84 Copynumber: 2.8 Consensus size: 84
18439452 GTAGATCTTG
* * * **
18439462 TCTCCCTAAGCAGTAGTGGAGTA-GATCGAAGATGGCAAATTTTGTCTCCCTAAATAGTAGTGGA
1 TCTCCCTAAGCAGTAGTGGAGTAGGCT-GAAGATTGC-AATCTTGTCTCCCTAAGCAGTAGTGGA
* ** *
18439526 ACAAATTTAAGCCACCATTCTA
64 GCAAATCGAAG-CACCATCCTA
* * * * *
18439548 TGTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGTAAGTCTTGTCTCCTTAGGCAGTGGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAA-TCTTGTCTCCCTAAGCAGTAGTGGAG
*
18439613 CAGATCGAAG-ACCATCCTA
65 CAAATCGAAGCACCATCCTA
* * *
18439632 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAGATCATATCTCCCTAAGCAATAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCA-ATCTTGTCTCCCTAAGCAGTAGTGGAG
18439697 TAGGTTGAAA
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
84 63 0.51
85 3 0.02
86 55 0.45
87 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (84 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTGCAATCTTGTCTCCCTAAGCAGTAGTGGAGC
AAATCGAAGCACCATCCTA
Found at i:18439786 original size:44 final size:43
Alignment explanation
Indices: 18439630--18440184 Score: 274
Period size: 44 Copynumber: 12.7 Consensus size: 43
18439620 AAGACCATCC
* * * *
18439630 TATCTCCCTAAGCAGTAGTGGAGTAGG-CTGAAGA-TTGCAGATCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAAAGGTG-AG-TCT
* * * * *
18439674 TATCTCCCTAAGCAATAGTGGAGTAGGTTGAAAAGATTGTAGATCA
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAAG-GTG-AG-TCT
* * * *
18439720 TATCTCCCTACGTAGTAATGGAGCAGGTCGAAAACGGTGAGCCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAA-GGTGAGTCT
* * * * *
18439764 TATCTCCCTAAGCAGTAGTGGAGCACG-CTAAAA-ATTA-T-A
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAAGGTGAGTCT
* * * *
18439803 GATCTCCCTAAGTAGTAGTGGAGCAGATC-AAAGATGGTGAGCCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAA-A-GGTGAGTCT
* * * * ** *
18439847 TATCTCCCTAAGCAGTACTAGAGCAAG-CTAAAAATTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAAGGT-GAG-TCT
* * * * **
18439891 TATCTCCTTAAGCAGTAGTGGAGTAGATCGAAGACGGTGACCCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAA-AAGGTGAGTCT
* * * * *
18439935 TATCTCCTTAAGCAGTAGTGAAGCAGG-CTGAAAA-TTACAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAAAGGT--GAGTCT
* * *
18439979 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGTGAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAAGGTGAGTCT
* * * * *
18440022 TATCTCCCAAAGTAGTAGTGGAGCA-GTCTGAAAA-TTACAGATAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAAAGGT-GAG-TCT
* * * * * *
18440066 TATCTCTCTAAGCAGTAGTAGAGCAGATTGAAGACGGTGAGCCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAA-AAGGTGAGTCT
* * * * *
18440110 TATCTCTCTGAGCAGCAGTGGAGCAGG-CTGAAAA-TTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-GAAAAGGT-GAG-TCT
*
18440154 TATCTCCCTAAGCAGTAGTGGAGCAGATCGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGA
18440185 TGATGGTAAA
Statistics
Matches: 382, Mismatches: 99, Indels: 60
0.71 0.18 0.11
Matches are distributed among these distances:
39 26 0.07
40 2 0.01
41 2 0.01
42 8 0.02
43 47 0.12
44 241 0.63
45 13 0.03
46 42 0.11
47 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAAGGTGAGTCT
Found at i:18440080 original size:175 final size:175
Alignment explanation
Indices: 18439733--18440184 Score: 578
Period size: 175 Copynumber: 2.6 Consensus size: 175
18439723 CTCCCTACGT
* * * * * *
18439733 AGTAATGGAGCAGGTCGAAAACGGTGAGCCTTATCTCCCTAAGCAGTAGTGGAGCACGCTAAAAA
1 AGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCTCCTTAAGCAGTAGTGGAGCAGGCTGAAAA
** * * * *
18439798 TT---AT-AGATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGATGGTGAGCCTTATCTCCCTAAG
66 TTACAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCGTGAGCCTTATCTCCCAAAG
*
18439859 CAGTACTAGAGCAAGCTAAAAATTACAGATCTTATCTCCTTAAGC
131 CAGTACTAGAGCAAGCTAAAAATTACAGATATTATCTCCTTAAGC
* * *
18439904 AGTAGTGGAGTAGATCGAAGACGGTGACCCTTATCTCCTTAAGCAGTAGTGAAGCAGGCTGAAAA
1 AGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCTCCTTAAGCAGTAGTGGAGCAGGCTGAAAA
*
18439969 TTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGTGAGTCTTATCTCCCAAA
66 TTAC-AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCGTGAGCCTTATCTCCCAAA
* * * *
18440033 GTAGTAGTGGAGC-AGTCTGAAAATTACAGATATTATCT-CTCTAAGC
130 GCAGTACTAGAGCAAG-CTAAAAATTACAGATATTATCTCCT-TAAGC
* * * *
18440079 AGTAGTAGAGCAGATTGAAGACGGTGAGCCTTATCT-CTCTGAGCAGCAGTGGAGCAGGCTGAAA
1 AGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCTCCT-TAAGCAGTAGTGGAGCAGGCTGAAA
18440143 ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
65 ATTACA-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
18440185 TGATGGTAAA
Statistics
Matches: 244, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
171 58 0.24
174 7 0.03
175 148 0.61
176 31 0.13
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (175 bp):
AGTAGTGGAGCAGATCGAAGACGGTGAGCCTTATCTCCTTAAGCAGTAGTGGAGCAGGCTGAAAA
TTACAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATCGTGAGCCTTATCTCCCAAAG
CAGTACTAGAGCAAGCTAAAAATTACAGATATTATCTCCTTAAGC
Found at i:18440202 original size:88 final size:88
Alignment explanation
Indices: 18439674--18440184 Score: 620
Period size: 88 Copynumber: 5.9 Consensus size: 88
18439664 TTGCAGATCA
* * * ** * * * *
18439674 TATCTCCCTAAGCAATAGTGGAGTAGGTTGAAAAGATTGTAGATCATATCTCCCTACGTAGTAAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTG-AAA-ATTACAGATCTTATCTCCCTAAGCAGTAGT
* *
18439739 GGAGCAGGTCGAAAACGGTGAGCCT
64 GGAGCAGATCGAAGACGGTGAGCCT
* * * *
18439764 TATCTCCCTAAGCAGTAGTGGAGCACGCTAAAAATTATAG-----ATCTCCCTAAGTAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* *
18439824 AGCAGATCAAAGATGGTGAGCCT
66 AGCAGATCGAAGACGGTGAGCCT
* * * * *
18439847 TATCTCCCTAAGCAGTACTAGAGCAAGCTAAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
* *
18439912 AGTAGATCGAAGACGGTGACCCT
66 AGCAGATCGAAGACGGTGAGCCT
* * *
18439935 TATCTCCTTAAGCAGTAGTGAAGCAGGCTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
*
18440000 AGCAGATCGAAGAC-GTGAGTCT
66 AGCAGATCGAAGACGGTGAGCCT
* * * * * *
18440022 TATCTCCCAAAGTAGTAGTGGAGCAGTCTGAAAATTACAGATATTATCTCTCTAAGCAGTAGTAG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
*
18440087 AGCAGATTGAAGACGGTGAGCCT
66 AGCAGATCGAAGACGGTGAGCCT
* * *
18440110 TATCTCTCTGAGCAGCAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
18440175 AGCAGATCGA
66 AGCAGATCGA
18440185 TGATGGTAAA
Statistics
Matches: 361, Mismatches: 54, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
83 73 0.20
87 75 0.21
88 185 0.51
89 3 0.01
90 25 0.07
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (88 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGGTGAGCCT
Found at i:18440287 original size:44 final size:44
Alignment explanation
Indices: 18440239--18440335 Score: 149
Period size: 44 Copynumber: 2.2 Consensus size: 44
18440229 AAGCCACTAG
* * *
18440239 TCTTATCTTTCTAAGCAGTAATGGAACAGGCTGAAGATTGCAGA
1 TCTTATCTCTCGAAGCAGTAAGGGAACAGGCTGAAGATTGCAGA
* *
18440283 TCTTATCTCTCGAAGCAGTAGGGGAGCAGGCTGAAGATTGCAGA
1 TCTTATCTCTCGAAGCAGTAAGGGAACAGGCTGAAGATTGCAGA
18440327 TCTTATCTC
1 TCTTATCTC
18440336 CTTGAAGTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (44 bp):
TCTTATCTCTCGAAGCAGTAAGGGAACAGGCTGAAGATTGCAGA
Found at i:18441762 original size:3 final size:3
Alignment explanation
Indices: 18441756--18441900 Score: 111
Period size: 3 Copynumber: 49.0 Consensus size: 3
18441746 GTTGTTTAAA
* * * * * *
18441756 ATT ATT ATT TTT ATT TTT ATT AAT ATT ATT GTT ATT ATT ACT ATT -GT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
18441803 ATT ACT ATT ATT ATT A-T ATT -TT ATT ACT ATT ATT GTT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
18441849 ATT -TAT ATT GTT GTG ATT ATT ATT ATT CATT ATT -TT ATT ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
18441894 ACTT ATT
1 A-TT ATT
18441901 CATAGTATCA
Statistics
Matches: 111, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
2 8 0.07
3 96 0.86
4 7 0.06
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18441774 original size:21 final size:21
Alignment explanation
Indices: 18441750--18441791 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
18441740 TATTTTGTTG
*
18441750 TTTA-AAATTATTATTTTTATT
1 TTTATAAA-TATTATTGTTATT
*
18441771 TTTATTAATATTATTGTTATT
1 TTTATAAATATTATTGTTATT
18441792 ATTACTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATAAATATTATTGTTATT
Found at i:18441807 original size:11 final size:11
Alignment explanation
Indices: 18441790--18441833 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
18441780 ATTATTGTTA
18441790 TTATTACTATT
1 TTATTACTATT
*
18441801 GTATTACTATT
1 TTATTACTATT
18441812 ATTATTA-TATT
1 -TTATTACTATT
18441823 TTATTACTATT
1 TTATTACTATT
18441834 ATTGTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 6 0.21
11 18 0.62
12 5 0.17
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (11 bp):
TTATTACTATT
Found at i:18441827 original size:22 final size:23
Alignment explanation
Indices: 18441787--18441836 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
18441777 AATATTATTG
18441787 TTATTATTACTATTGTATTACTA
1 TTATTATTACTATTGTATTACTA
*
18441810 TTATTATTA-TATTTTATTACTA
1 TTATTATTACTATTGTATTACTA
18441832 TTATT
1 TTATT
18441837 GTTTTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATTATTACTATTGTATTACTA
Found at i:18446275 original size:25 final size:27
Alignment explanation
Indices: 18446238--18446290 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
18446228 TCAAACATGC
18446238 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
18446264 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
18446290 A
1 A
18446291 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:18447809 original size:26 final size:26
Alignment explanation
Indices: 18447773--18447856 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
18447763 ACATGAATTC
*
18447773 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
18447799 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
18447825 TTATCATGGAACATTTACCTAGCCTA
1 TTATCATGAAACATTTACCTAACCTA
18447851 TTATCA
1 TTATCA
18447857 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:18448986 original size:15 final size:15
Alignment explanation
Indices: 18448956--18448984 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18448946 ACTATTAGTA
18448956 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
18448971 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
18448985 TACCATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:18454794 original size:26 final size:26
Alignment explanation
Indices: 18454763--18454860 Score: 169
Period size: 26 Copynumber: 3.8 Consensus size: 26
18454753 TGAAATGTCC
18454763 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
18454789 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
18454815 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
18454841 ATCATGGAACATTTACCTAA
1 ATCATGGAACATTTACCTAA
18454861 CGCGTTATCA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:18458805 original size:17 final size:17
Alignment explanation
Indices: 18458783--18458831 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
18458773 AACTTCACGC
18458783 TTCACGGTTCACAGTGG
1 TTCACGGTTCACAGTGG
*
18458800 TTCACGGTTCACGGTGG
1 TTCACGGTTCACAGTGG
*
18458817 TTCACAGTTCACAGT
1 TTCACGGTTCACAGT
18458832 TCACACTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (17 bp):
TTCACGGTTCACAGTGG
Found at i:18467053 original size:8 final size:8
Alignment explanation
Indices: 18467011--18467035 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18467001 ATATAGACTA
18467011 AATAAAAT
1 AATAAAAT
18467019 AATAAAAT
1 AATAAAAT
18467027 AATAAAAT
1 AATAAAAT
18467035 A
1 A
18467036 TATTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:18467059 original size:29 final size:31
Alignment explanation
Indices: 18467008--18467077 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 31
18466998 TATATATAGA
*
18467008 CTAAATAAAATAATAAAATAATAA-AATATAT
1 CTAATTAAAATAATAAAATAATAATAAT-TAT
*
18467039 -T-ATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
18467068 CTAATTAAAA
1 CTAATTAAAA
18467078 AACTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
28 6 0.18
29 15 0.45
30 5 0.15
31 7 0.21
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:18467674 original size:34 final size:33
Alignment explanation
Indices: 18467629--18467696 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
18467619 ATGACGTATG
*
18467629 TACTGAACTGAAATGGACTAAGGCCCGAACTGC
1 TACTGAACTGAAATGGACTAAGGCCCAAACTGC
** *
18467662 TACTGAAACTGAAATGGGTTTAGGCCCAAACTGC
1 TACTG-AACTGAAATGGACTAAGGCCCAAACTGC
18467696 T
1 T
18467697 TTTGACTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 5 0.17
34 25 0.83
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (33 bp):
TACTGAACTGAAATGGACTAAGGCCCAAACTGC
Found at i:18478508 original size:20 final size:19
Alignment explanation
Indices: 18478472--18478513 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
18478462 GAACAAAAAC
18478472 AAAATAAAAATGAAATAAAT
1 AAAATAAAAATGAAAT-AAT
*
18478492 AAAATAATAAA-GGAATAAT
1 AAAATAA-AAATGAAATAAT
18478511 AAA
1 AAA
18478514 TGAAATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 11 0.55
21 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (19 bp):
AAAATAAAAATGAAATAAT
Found at i:18481055 original size:2 final size:2
Alignment explanation
Indices: 18481048--18481076 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18481038 AAATGAATTA
18481048 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18481077 AGGTTCAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18485963 original size:14 final size:13
Alignment explanation
Indices: 18485944--18486010 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 13
18485934 ATTTTCCCTT
18485944 TTTCTTTTCTCTCC
1 TTTCTTTTCT-TCC
18485958 TTTCTTTTCTTCC
1 TTTCTTTTCTTCC
18485971 TTCTCTGTTTCGTTCC
1 TT-TCT-TTTC-TTCC
*
18485987 TTATTCTGTTTCTTTC
1 -T-TTCT-TTTCTTCC
18486003 TTTCTTTT
1 TTTCTTTT
18486011 ATTTCATTCC
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
13 8 0.17
14 17 0.36
15 5 0.11
16 7 0.15
17 9 0.19
18 1 0.02
ACGTcount: A:0.01, C:0.27, G:0.04, T:0.67
Consensus pattern (13 bp):
TTTCTTTTCTTCC
Found at i:18486052 original size:2 final size:2
Alignment explanation
Indices: 18486045--18486097 Score: 65
Period size: 2 Copynumber: 27.0 Consensus size: 2
18486035 ACTTATGTTT
*
18486045 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TC TA -A TGA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
*
18486086 TA TA TT TA TA TA
1 TA TA TA TA TA TA
18486098 ATAAATAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
1 2 0.05
2 40 0.91
3 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18489388 original size:21 final size:20
Alignment explanation
Indices: 18489351--18489389 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18489341 GGATTGTTGG
* *
18489351 TTGGGTTGGGTAGTTAAATT
1 TTGGGTTAGGTAATTAAATT
18489371 TTGGGTTTAGGTAATTAAA
1 TTGGG-TTAGGTAATTAAA
18489390 ATTATATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (20 bp):
TTGGGTTAGGTAATTAAATT
Found at i:18493566 original size:64 final size:64
Alignment explanation
Indices: 18493473--18493597 Score: 205
Period size: 64 Copynumber: 2.0 Consensus size: 64
18493463 AGTAAAATTC
* *
18493473 ATCTAGGTTTCTGAATACAGGTTTGTCCTTGAGTTTCTGTAGAGTAAATCAACAAAAAGAGTGA
1 ATCTAGGTTTCTGAATACAGCTTTGTCCTTGAGTTTCTGTAGAGCAAATCAACAAAAAGAGTGA
* * *
18493537 ATCTGGGTTTCTGAATGCAGCTTTTTCCTTGAGTTTCTGTAGAGCAAATCAACAAAAAGAG
1 ATCTAGGTTTCTGAATACAGCTTTGTCCTTGAGTTTCTGTAGAGCAAATCAACAAAAAGAG
18493598 CACAAAAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (64 bp):
ATCTAGGTTTCTGAATACAGCTTTGTCCTTGAGTTTCTGTAGAGCAAATCAACAAAAAGAGTGA
Found at i:18495292 original size:21 final size:20
Alignment explanation
Indices: 18495255--18495293 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18495245 AGATTGTTGG
* *
18495255 TTGGGTTGGGTAGTTAAATT
1 TTGGGTTAGGTAATTAAATT
18495275 TTGGGTTTAGGTAATTAAA
1 TTGGG-TTAGGTAATTAAA
18495294 ATAAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (20 bp):
TTGGGTTAGGTAATTAAATT
Found at i:18501207 original size:15 final size:15
Alignment explanation
Indices: 18501189--18501217 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18501179 ATATTTATAA
18501189 AATTATTATTATTAT
1 AATTATTATTATTAT
18501204 AATTATTATTATTA
1 AATTATTATTATTA
18501218 GATAGAAAAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:18503736 original size:60 final size:59
Alignment explanation
Indices: 18503612--18503748 Score: 181
Period size: 60 Copynumber: 2.3 Consensus size: 59
18503602 CCCAACTGTG
*
18503612 CTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
1 CTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
*
18503671 CTGATATGGGCTAGGCCCAATATA-CTCTGTTAC-TGTA-AGGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCTAGGCCCAATATATCTC-G--ACTTGTATA-GGGCTACGGCCCAGATTAATA
*
18503731 TTGATATGGGCTAAGGCC
1 CTGATATGGGCT-AGGCC
18503749 AGTTAACACT
Statistics
Matches: 70, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
58 3 0.04
59 25 0.36
60 35 0.50
61 7 0.10
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (59 bp):
CTGATATGGGCTAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTAATA
Found at i:18510072 original size:3 final size:3
Alignment explanation
Indices: 18510058--18510328 Score: 176
Period size: 3 Copynumber: 90.7 Consensus size: 3
18510048 TGGTTTTAAA
*
18510058 AAT AAA AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * * * * **
18510105 GAT AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT AAT AGC AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
18510152 AAT AAT AAT AAT AAT GAT AGA- AAT AAT AAT TAT AGAA AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * * *
18510198 AAT AGT AAA AAT AAT AAT GAT AGT AAT AAT AAT AAC AAT AAT GAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
* * *
18510244 -AT AAAT AAT AGT AA- AAT AA- AAT AAT AAT AAT AAT AGT AGT AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
18510287 AAT AAT AAC GAT AAT AAAC AAT AAT AGT AAA AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AA
18510329 CATTATTATT
Statistics
Matches: 216, Mismatches: 41, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
2 10 0.05
3 196 0.91
4 10 0.05
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:18512645 original size:21 final size:20
Alignment explanation
Indices: 18512608--18512646 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18512598 GGATTGTTGG
* *
18512608 TTGGGTTGGGTAGTTAAATT
1 TTGGGTTAGGTAATTAAATT
18512628 TTGGGTTTAGGTAATTAAA
1 TTGGG-TTAGGTAATTAAA
18512647 ATTATATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (20 bp):
TTGGGTTAGGTAATTAAATT
Found at i:18513120 original size:28 final size:26
Alignment explanation
Indices: 18513076--18513133 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
18513066 ATATTTTTCT
18513076 TATATTATTTTAATATTTAATAATTTTA
1 TATATTATTTTAATA-TTAA-AATTTTA
* *
18513104 TATATT-TTTTATTTATTAAAATTTTT
1 TATATTATTTTA-ATATTAAAATTTTA
18513130 TATA
1 TATA
18513134 CAGTCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.37
27 9 0.33
28 8 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TATATTATTTTAATATTAAAATTTTA
Found at i:18523203 original size:172 final size:170
Alignment explanation
Indices: 18522919--18523258 Score: 581
Period size: 172 Copynumber: 2.0 Consensus size: 170
18522909 GAAATATTAA
* *
18522919 AATTCTGATCAACAATACTTATATTGATGTGGATAACATGTCTCTTGAATTAAGGCTTTGTTGCT
1 AATTCTGATCAACAATACTTATATTGATGTGGATAACATGCCTATTGAATTAAGGCTTTGTTGCT
*
18522984 AAAAAGCAGTGCCTGTTGAATAACCCATGTGGATGAAGGATTTAAGTTTTGGCATAGCATACCTG
66 AAAAAGCAGTGCCTGTTGAATAACCCATGTGGATGAAGGATTTAAGTTTTGGCATACCATACCTG
18523049 CAACAATTCCTTCTTTCTTGCAATCCCTGTGTCTATCCAC
131 CAACAATTCCTTCTTTCTTGCAATCCCTGTGTCTATCCAC
*
18523089 AATTCTGATCAACCATACTTATATTGATGTGGATAACATATGCCTATTGAATTAAGGCTTTGTTG
1 AATTCTGATCAACAATACTTATATTGATGTGGATAAC--ATGCCTATTGAATTAAGGCTTTGTTG
* * * *
18523154 CTAAAAGGCAGTGCCTGTTGAATAACCCGTGTGGATGAAGGGTTTAAGTTTTGGCATACCATACT
64 CTAAAAAGCAGTGCCTGTTGAATAACCCATGTGGATGAAGGATTTAAGTTTTGGCATACCATACC
*
18523219 TGCAACAATTCCTTCTTTCTTGCAATCCCTGTGTTTATCC
129 TGCAACAATTCCTTCTTTCTTGCAATCCCTGTGTCTATCC
18523259 TCACCTGTAT
Statistics
Matches: 159, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
170 36 0.23
172 123 0.77
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (170 bp):
AATTCTGATCAACAATACTTATATTGATGTGGATAACATGCCTATTGAATTAAGGCTTTGTTGCT
AAAAAGCAGTGCCTGTTGAATAACCCATGTGGATGAAGGATTTAAGTTTTGGCATACCATACCTG
CAACAATTCCTTCTTTCTTGCAATCCCTGTGTCTATCCAC
Found at i:18527757 original size:29 final size:29
Alignment explanation
Indices: 18527715--18527846 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
18527705 AAAATTGTAC
18527715 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
18527744 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
18527773 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
18527803 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
18527832 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
18527847 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:18527811 original size:59 final size:58
Alignment explanation
Indices: 18527715--18527846 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
18527705 AAAATTGTAC
18527715 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
18527773 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
18527832 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
18527847 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:18527835 original size:88 final size:89
Alignment explanation
Indices: 18527685--18527846 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
18527675 GACAAGATTG
* * *
18527685 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
18527750 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
18527774 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
18527838 AAGTGTGCG
66 AAGTGTGCG
18527847 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:18535732 original size:29 final size:29
Alignment explanation
Indices: 18535690--18535821 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
18535680 AAAATTGTAC
18535690 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
18535719 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
18535748 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
18535778 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
18535807 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
18535822 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:18535786 original size:59 final size:58
Alignment explanation
Indices: 18535690--18535821 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
18535680 AAAATTGTAC
18535690 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
18535748 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
18535807 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
18535822 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:18535810 original size:88 final size:89
Alignment explanation
Indices: 18535660--18535821 Score: 272
Period size: 88 Copynumber: 1.8 Consensus size: 89
18535650 GACAAGATTG
* *
18535660 GCACTAAGTGTGCGAGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
18535725 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
18535749 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
18535813 AAGTGTGCG
66 AAGTGTGCG
18535822 GATTCACTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
88 52 0.76
89 16 0.24
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:18537346 original size:71 final size:70
Alignment explanation
Indices: 18537262--18537403 Score: 239
Period size: 71 Copynumber: 2.0 Consensus size: 70
18537252 AGATTGGTGG
*
18537262 AATTCCATTAATCAGCATGACCAAATGCAGTTTCTAGTTCTTCAAGATCTGGCCCAGCCAATTAG
1 AATTCCATTAATCAGCATGACCAAATGCAGTTTCTAGTTCTTCAAGATCTGG-CCAGCCAATCAG
18537327 AATCAT
65 AATCAT
* * *
18537333 AATTCCATTAATCAGCATGACCAAATGTAGTTTCTAGTTCTTTAAGATTTGGCCAGCCAATCAGA
1 AATTCCATTAATCAGCATGACCAAATGCAGTTTCTAGTTCTTCAAGATCTGGCCAGCCAATCAGA
18537398 ATCAT
66 ATCAT
18537403 A
1 A
18537404 CATTAACATT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 18 0.27
71 49 0.73
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (70 bp):
AATTCCATTAATCAGCATGACCAAATGCAGTTTCTAGTTCTTCAAGATCTGGCCAGCCAATCAGA
ATCAT
Found at i:18541111 original size:2 final size:2
Alignment explanation
Indices: 18541098--18541133 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
18541088 AAAGGGAAAA
*
18541098 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18541134 GAAGAGAGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18541736 original size:7 final size:7
Alignment explanation
Indices: 18541726--18541752 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18541716 GAGATGAATG
18541726 TGGTGAC
1 TGGTGAC
18541733 TGGTGAC
1 TGGTGAC
18541740 TGGTGAC
1 TGGTGAC
18541747 TGGTGA
1 TGGTGA
18541753 GCAGTGCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.44, T:0.30
Consensus pattern (7 bp):
TGGTGAC
Found at i:18541875 original size:10 final size:10
Alignment explanation
Indices: 18541860--18541890 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
18541850 TAAAGTTAAA
18541860 AATTTAAAAT
1 AATTTAAAAT
18541870 AATTTAAAAT
1 AATTTAAAAT
*
18541880 AAATTAAAAT
1 AATTTAAAAT
18541890 A
1 A
18541891 TTCATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:18543515 original size:2 final size:2
Alignment explanation
Indices: 18543508--18543557 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
18543498 CAACATGTTT
*
18543508 TA TA TA TA TA TA TA TA TA TA TA TA TA -A AA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18543548 TA TA TA TA TA
1 TA TA TA TA TA
18543558 ATAAATAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:18544573 original size:76 final size:76
Alignment explanation
Indices: 18544450--18544593 Score: 200
Period size: 76 Copynumber: 1.9 Consensus size: 76
18544440 GGCGTTAACT
* * * *
18544450 TTTTCATGTTCTCTTGTAATTATTGGACACAAGATAAATATAATGGTTTGAATTTAAATTATTAA
1 TTTTCATGTTCTCTTGTAAATATTGCACACAAGAAAAATATAATGGTTGGAATTTAAATTATTAA
18544515 ATTAGAAAAAC
66 ATTAGAAAAAC
* * **
18544526 TTTTCATGTTCTCTTTTAAATATTTCACACGTGAAAAATCA-AATGGTTGGAATTTAAATTATTA
1 TTTTCATGTTCTCTTGTAAATATTGCACACAAGAAAAAT-ATAATGGTTGGAATTTAAATTATTA
18544590 AATT
65 AATT
18544594 TAAAAGTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
76 58 0.98
77 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (76 bp):
TTTTCATGTTCTCTTGTAAATATTGCACACAAGAAAAATATAATGGTTGGAATTTAAATTATTAA
ATTAGAAAAAC
Found at i:18553539 original size:2 final size:2
Alignment explanation
Indices: 18553532--18553558 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18553522 TTTGTTACGT
18553532 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
18553559 TTGTATTTAT
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:18553739 original size:3 final size:3
Alignment explanation
Indices: 18553731--18553857 Score: 125
Period size: 3 Copynumber: 42.7 Consensus size: 3
18553721 AGTATTTTCC
* * * * *
18553731 ATT ATT ATT ATT AAT ATC ACT ACT ATC ATT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * *
18553778 ACG A-T ACCTT TTT ATT ATT ATT ACT ATT -GT ATT ATT ATT ATT ATT
1 ATT ATT A--TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18553823 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18553858 ATTTCCCTTT
Statistics
Matches: 102, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
2 4 0.04
3 97 0.95
5 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:18553953 original size:20 final size:21
Alignment explanation
Indices: 18553928--18553990 Score: 56
Period size: 26 Copynumber: 2.8 Consensus size: 21
18553918 TATTTTAGCA
18553928 CATTTATTTTATTTATTT-AT
1 CATTTATTTTATTTATTTCAT
18553948 CATTTACTCTCATTATTATTATTTCAT
1 CATTTA-T-T--TTA-T-TTATTTCAT
*
18553975 CATCTATTTTATTTAT
1 CATTTATTTTATTTAT
18553991 AGTTTTTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
20 6 0.17
21 5 0.14
22 2 0.06
23 3 0.09
24 3 0.09
25 2 0.06
26 7 0.20
27 7 0.20
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (21 bp):
CATTTATTTTATTTATTTCAT
Found at i:18560862 original size:15 final size:17
Alignment explanation
Indices: 18560831--18560863 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18560821 TATTTTAAAA
18560831 TATATATATATATATAT
1 TATATATATATATATAT
18560848 TATATATA-ATA-ATAT
1 TATATATATATATATAT
18560863 T
1 T
18560864 TAAGAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 3 0.19
17 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:18560962 original size:24 final size:23
Alignment explanation
Indices: 18560909--18560982 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 23
18560899 CATGGAATAG
*
18560909 TATAAGAAATATATAACTAAT-TGCA
1 TATAAAAAATATATAA-TAATAT--A
18560934 T-TAAAAAATATATACATAATATA
1 TATAAAAAATATATA-ATAATATA
* *
18560957 TATAAAATACATATAAT-ATATA
1 TATAAAAAATATATAATAATATA
18560979 TATA
1 TATA
18560983 CGTATTAGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
22 9 0.21
23 4 0.09
24 27 0.63
25 3 0.07
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (23 bp):
TATAAAAAATATATAATAATATA
Found at i:18560965 original size:11 final size:11
Alignment explanation
Indices: 18560938--18560982 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
18560928 ATTGCATTAA
*
18560938 AAAATATATAC
1 AAAATATATAT
*
18560949 ATAATATATAT
1 AAAATATATAT
*
18560960 AAAATACATAT
1 AAAATATATAT
*
18560971 AATATATATAT
1 AAAATATATAT
18560982 A
1 A
18560983 CGTATTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATATAT
Found at i:18562794 original size:78 final size:77
Alignment explanation
Indices: 18562613--18563037 Score: 526
Period size: 78 Copynumber: 5.5 Consensus size: 77
18562603 AGTGTGTGAT
*
18562613 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAA-ACAGAAATTGAAAAT
*
18562678 ACCTCAGCATGTGAAC
65 ACCTCAGC--GTG-TC
* *
18562694 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAAATAGAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTTGAAAACAGAAATTGAAAAT
*
18562758 ACCTCAACGTGTC
65 ACCTCAGCGTGTC
* ** * *
18562771 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAATTA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATA
18562831 CCTCAGCGTGTC
66 CCTCAGCGTGTC
* * *
18562843 CCGAGGCTCAACTCACCTATCGCAATATGAGTTGA---TTTTTTTGAAAGACAAAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAA-ACAGAAATTGAAAAT
*
18562905 ACCTCAGCATGTC
65 ACCTCAGCGTGTC
* ** * *
18562918 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTTGACAACAGAAATTGAAATT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTTGAAAACAGAAATTGAAAAT
*
18562983 ACCTCAGCATGTC
65 ACCTCAGCGTGTC
* *
18562996 CTGAGGCTCCACTCACCTCTCGCAATATGAATTGATTTTTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
18563038 GAAAGGCAGA
Statistics
Matches: 300, Mismatches: 35, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
72 63 0.21
74 8 0.03
75 55 0.18
77 8 0.03
78 89 0.30
79 10 0.03
80 52 0.17
81 15 0.05
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (77 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAAATA
CCTCAGCGTGTC
Found at i:18562960 original size:225 final size:228
Alignment explanation
Indices: 18562618--18563055 Score: 632
Period size: 225 Copynumber: 1.9 Consensus size: 228
18562608 GTGATCTGAA
* *
18562618 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTATCGCAATATGAGTTGA--TTTTTTTTGAAAGACAAAAATTGAAAATACCTC
*
18562683 AGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAAATAGA
64 AGCATGT--ACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAAACAGA
* * ** *
18562748 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTG
127 AATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATATTTTG
18562812 AAA-ACAGAAATTGAAATTACCTCAGCGTGTCCCGAG
192 AAAGACAGAAATTGAAATTACCTCAGCGTGTCCCGAG
18562848 GCTCAACTCACCTATCGCAATATGAGTTGA-TTTTTTTGAAAGACAAAAATTGAAAATACCTCAG
1 GCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTTGAAAGACAAAAATTGAAAATACCTCAG
* ** * *
18562912 CATGT-CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTTGACAACAGAAAT
66 CATGTAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAAACAGAAAT
* * * *
18562976 TGAAATTACCTCAGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAATTGATTTTTTTGAA
130 TGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGA-TATTTTGAA
*
18563041 AGGCAGAAATTGAAA
194 AGACAGAAATTGAAA
18563056 AACGGAAATT
Statistics
Matches: 186, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
224 1 0.01
225 98 0.53
227 46 0.25
228 12 0.06
230 29 0.16
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (228 bp):
GCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTTGAAAGACAAAAATTGAAAATACCTCAG
CATGTACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAAACAGAAATT
GAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATATTTTGAAAG
ACAGAAATTGAAATTACCTCAGCGTGTCCCGAG
Found at i:18563025 original size:153 final size:151
Alignment explanation
Indices: 18562618--18563056 Score: 602
Period size: 153 Copynumber: 2.9 Consensus size: 151
18562608 GTGATCTGAA
** *
18562618 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAA-ACAGAAATTGAAATTACCTC
* *
18562683 AGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAA-ATAG
65 AGCATGT---CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAGACAG
*
18562747 AAATTGAAAATACCTCAACGTGTCTTGAG
123 AAATTGAAAATACCTCAACATGTCTTGAG
*
18562776 GCTCAACTCATTTCTCGCAATATGAGTTGA-----ATTTTGAAAACAGAAATTGAAATTACCTCA
1 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAATTACCTCA
* * *
18562836 GCGTGTCCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAGACAAAAATTGA
66 GCATGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGA
*
18562901 AAATACCTCAGCATGTCTTGAG
130 AAATACCTCAACATGTCTTGAG
*
18562923 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTTGACAACAGAAATTGAAATTACCTC
1 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTTTTGAAAACAGAAATTGAAATTACCTC
* * *
18562988 AGCATGTCCTGAGGCTCCACTCACCTCTCGCAATATGAATTGATTTTTTTGAAAGGCAGAAATTG
65 AGCATGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTG
18563053 AAAA
129 AAAA
18563057 ACGGAAATTG
Statistics
Matches: 253, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
146 11 0.04
147 59 0.23
150 33 0.13
152 27 0.11
153 95 0.38
158 28 0.11
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (151 bp):
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTGAAAACAGAAATTGAAATTACCTCA
GCATGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
AATACCTCAACATGTCTTGAG
Found at i:18563675 original size:17 final size:18
Alignment explanation
Indices: 18563650--18563683 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18563640 ATATCACTCT
18563650 TTTGCCCTTG-GTTGAGC
1 TTTGCCCTTGCGTTGAGC
*
18563667 TTTGTCCTTGCGTTGAG
1 TTTGCCCTTGCGTTGAG
18563684 GCTCTTGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.06, C:0.21, G:0.29, T:0.44
Consensus pattern (18 bp):
TTTGCCCTTGCGTTGAGC
Found at i:18573329 original size:15 final size:15
Alignment explanation
Indices: 18573291--18573329 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18573281 AAATATTAGG
*
18573291 AAATGTACATAAAAA
1 AAATATACATAAAAA
*
18573306 ATATATACATAAAAA
1 AAATATACATAAAAA
*
18573321 AAATTTACA
1 AAATATACA
18573330 ACAATAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (15 bp):
AAATATACATAAAAA
Found at i:18573604 original size:13 final size:12
Alignment explanation
Indices: 18573586--18573630 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
18573576 TTGCATTAAA
18573586 AATATATATACAT
1 AATATATATA-AT
18573599 AATATATATAA-
1 AATATATATAAT
*
18573610 AATACATATAAT
1 AATATATATAAT
18573622 -ATATATATA
1 AATATATATA
18573631 CGTATTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 18 0.62
12 1 0.03
13 10 0.34
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATATATAAT
Found at i:18573618 original size:24 final size:22
Alignment explanation
Indices: 18573584--18573630 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
18573574 AATTGCATTA
*
18573584 AAAATATATATACATAATATATAT
1 AAAATACATATA-AT-ATATATAT
18573608 AAAATACATATAATATATATAT
1 AAAATACATATAATATATATAT
18573630 A
1 A
18573631 CGTATTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
23 2 0.09
24 11 0.50
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATACATATAATATATATAT
Found at i:18574591 original size:17 final size:18
Alignment explanation
Indices: 18574569--18574609 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
18574559 AAATGGGTAA
18574569 TGGGTTAAG-GGTTTTAG-
1 TGGGTTAAGAGG-TTTAGT
*
18574586 TGGGTTTAGAGGTTTAGT
1 TGGGTTAAGAGGTTTAGT
18574604 TGGGTT
1 TGGGTT
18574610 TTGATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (18 bp):
TGGGTTAAGAGGTTTAGT
Found at i:18577221 original size:41 final size:38
Alignment explanation
Indices: 18577160--18577591 Score: 310
Period size: 41 Copynumber: 10.6 Consensus size: 38
18577150 ATGCCACTAT
*
18577160 AAGTC-GAGAAATAGCGGCGTTTTCGGAAAAACGCCGCAA
1 AAGTCTGAGAATTAGCGGCGTTTTC--AAAAACGCCGCAA
18577199 CAAGTCCT-AGAATTAGCGGCGTTTTTCAAGAAACGCCGCAAA
1 -AAGT-CTGAGAATTAGCGGCG-TTTTCAA-AAACGCCGC-AA
18577241 AAGTCTGAGAATTAGCGGCGTTTTTCAAGAAACGCCGCAAA
1 AAGTCTGAGAATTAGCGGCG-TTTTCAA-AAACGCCGC-AA
* * *
18577282 AAGTCTGAGAATTCGCGGCATTTTTCCAAAAATGCCGCCAA
1 AAGTCTGAGAATTAGCGGC-GTTTT-CAAAAACGCCG-CAA
* * * *
18577323 AAGTCTGAGCATTAGCTGCATTTTTAGAAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGC-GTTTT-CAAAAACGCCG-CAA
* * *
18577364 AAGTCTGAGCATTAGCGGCGTTTTTATAAAAACGCTGCCAA
1 AAGTCTGAGAATTAGCGGCG-TTTT-CAAAAACGCCG-CAA
* ** *
18577405 AGGTCTGAGCGTTAGCGGCGTTTTTTACCAAAACGCCGCTAA
1 AAGTCTGAGAATTAGCGGCG--TTTT-CAAAAACGCCGC-AA
** * * *
18577447 TGGTCTGAGCATTAGCGGCGTTTTTATAAAAATGCCGCCAA
1 AAGTCTGAGAATTAGCGGCG-TTTT-CAAAAACGCCG-CAA
* * * *
18577488 AAGTCTGAGCATTAGCGGCGTTTTTATAAAAACACTGCCAA
1 AAGTCTGAGAATTAGCGGCG-TTTT-CAAAAACGCCG-CAA
** *
18577529 AAGTCTGAGCGTTAGCGGCGTTTTTAAAAACGCCGCCAA
1 AAGTCTGAGAATTAGCGGCGTTTTCAAAAACGCCG-CAA
** *
18577568 TGGTCTGAGCATTAGCGGCGTTTT
1 AAGTCTGAGAATTAGCGGCGTTTT
18577592 TGTCTGAGTA
Statistics
Matches: 344, Mismatches: 35, Indels: 27
0.85 0.09 0.07
Matches are distributed among these distances:
39 34 0.10
40 12 0.03
41 252 0.73
42 46 0.13
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (38 bp):
AAGTCTGAGAATTAGCGGCGTTTTCAAAAACGCCGCAA
Found at i:18577274 original size:82 final size:78
Alignment explanation
Indices: 18577171--18577592 Score: 434
Period size: 82 Copynumber: 5.2 Consensus size: 78
18577161 AGTCGAGAAA
*
18577171 TAGCGGCG-TTTTCGGAAAAACGCCGCAACAAGTCCT-AGAATTAGCGGCGTTTTTCAAGAAACG
1 TAGCGGCGTTTTTC--AAAAACGCCGCAA-AAGT-CTGAGCATTAGCGGCGTTTTT-AA-AAACG
* *
18577234 CCGCAAAAAGTCTGAGAAT
60 CCGCCAAAAGTCTGAGCAT
* * * *
18577253 TAGCGGCGTTTTTCAAGAAACGCCGCAAAAAGTCTGAGAATTCGCGGCATTTTTCCAAAAATGCC
1 TAGCGGCGTTTTTCAA-AAACGCCGC-AAAAGTCTGAGCATTAGCGGCGTTTTT--AAAAACGCC
18577318 GCCAAAAGTCTGAGCAT
62 GCCAAAAGTCTGAGCAT
* * * *
18577335 TAGCTGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTATAAAAACGCT
1 TAGCGGCGTTTTT-CAAAAACGCCG-CAAAAGTCTGAGCATTAGCGGCG-TTTT-TAAAAACGCC
* *
18577400 GCCAAAGGTCTGAGCGT
62 GCCAAAAGTCTGAGCAT
* ** *
18577417 TAGCGGCGTTTTTTACCAAAACGCCGCTAATGGTCTGAGCATTAGCGGCGTTTTTATAAAAATGC
1 TAGCGGCG-TTTTT-CAAAAACGCCGC-AAAAGTCTGAGCATTAGCGGCG-TTTT-TAAAAACGC
18577482 CGCCAAAAGTCTGAGCAT
61 CGCCAAAAGTCTGAGCAT
* * * *
18577500 TAGCGGCGTTTTTATAAAAACACTGCCAAAAGTCTGAGCGTTAGCGGCGTTTTTAAAAACGCCGC
1 TAGCGGCGTTTTT-CAAAAACGCCG-CAAAAGTCTGAGCATTAGCGGCGTTTTTAAAAACGCCGC
**
18577565 CAATGGTCTGAGCAT
64 CAAAAGTCTGAGCAT
18577580 TAGCGGCGTTTTT
1 TAGCGGCGTTTTT
18577593 GTCTGAGTAT
Statistics
Matches: 293, Mismatches: 35, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
80 37 0.13
81 8 0.03
82 157 0.54
83 90 0.31
84 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (78 bp):
TAGCGGCGTTTTTCAAAAACGCCGCAAAAGTCTGAGCATTAGCGGCGTTTTTAAAAACGCCGCCA
AAAGTCTGAGCAT
Found at i:18577488 original size:124 final size:122
Alignment explanation
Indices: 18577210--18577592 Score: 513
Period size: 124 Copynumber: 3.1 Consensus size: 122
18577200 AAGTCCTAGA
* * * *
18577210 ATTAGCGGCGTTTTTCAAGAAACGCCGCAAAAAGTCTGAGAATTAGCGGCGTTTTTCA-AGAAAC
1 ATTAGCGGCGTTTTT-AAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTT-ATAAAAAC
* * ** * * * **
18577274 GCCGCAAAAAGTCTGAGAATTCGCGGCATTTTT-CCAAAAATGCCGCCAAAAGTCTGAGC
64 GCTGCCAAAAGTCTGAGCGTTAGCGGCGTTTTTACC-AAAACGCCGCCAATGGTCTGAGC
* *
18577333 ATTAGCTGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTATAAAAACG
1 ATTAGCGGCGTTTTTA-AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTATAAAAACG
* *
18577398 CTGCCAAAGGTCTGAGCGTTAGCGGCGTTTTTTACCAAAACGCCGCTAATGGTCTGAGC
65 CTGCCAAAAGTCTGAGCGTTAGCGGCG-TTTTTACCAAAACGCCGCCAATGGTCTGAGC
* *
18577457 ATTAGCGGCGTTTTTATAAAAATGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTATAAAAACA
1 ATTAGCGGCGTTTTTA-AAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTATAAAAACG
18577522 CTGCCAAAAGTCTGAGCGTTAGCGGCGTTTTTA--AAAACGCCGCCAATGGTCTGAGC
65 CTGCCAAAAGTCTGAGCGTTAGCGGCGTTTTTACCAAAACGCCGCCAATGGTCTGAGC
18577578 ATTAGCGGCGTTTTT
1 ATTAGCGGCGTTTTT
18577593 GTCTGAGTAT
Statistics
Matches: 232, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
121 37 0.16
122 2 0.01
123 81 0.35
124 110 0.47
125 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (122 bp):
ATTAGCGGCGTTTTTAAAAAACGCCGCCAAAAGTCTGAGCATTAGCGGCGTTTTTATAAAAACGC
TGCCAAAAGTCTGAGCGTTAGCGGCGTTTTTACCAAAACGCCGCCAATGGTCTGAGC
Found at i:18577604 original size:23 final size:23
Alignment explanation
Indices: 18577570--18577614 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
18577560 GCCGCCAATG
18577570 GTCTGAGCATTAGCGGCGTTTTT
1 GTCTGAGCATTAGCGGCGTTTTT
*
18577593 GTCTGAGTATTAGCGGCGTTTT
1 GTCTGAGCATTAGCGGCGTTTT
18577615 GGAGAAACGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.16, G:0.31, T:0.40
Consensus pattern (23 bp):
GTCTGAGCATTAGCGGCGTTTTT
Found at i:18577799 original size:7 final size:7
Alignment explanation
Indices: 18577789--18577814 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18577779 TGGGTTTGAG
18577789 GTTTAGT
1 GTTTAGT
18577796 GTTTAGT
1 GTTTAGT
18577803 GTTTAGT
1 GTTTAGT
18577810 GTTTA
1 GTTTA
18577815 TGATCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
GTTTAGT
Found at i:18578751 original size:46 final size:46
Alignment explanation
Indices: 18578698--18578792 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
18578688 TGATACTGAC
18578698 ATGAAAACCTACAAGGTAATCCACATAACATGATACTATTTTTTAT
1 ATGAAAACCTACAAGGTAATCCACATAACATGATACTATTTTTTAT
18578744 ATGAAAACCTACAAGGTAATCCACATAACATGATACTATTTTTTAT
1 ATGAAAACCTACAAGGTAATCCACATAACATGATACTATTTTTTAT
18578790 ATG
1 ATG
18578793 TTAAATTAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (46 bp):
ATGAAAACCTACAAGGTAATCCACATAACATGATACTATTTTTTAT
Found at i:18579014 original size:22 final size:22
Alignment explanation
Indices: 18578989--18579043 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
18578979 TATCTAGAAT
18578989 TTAGGGTTTAAT-GTTTATAAGG
1 TTAGGGTTTAATGGTTTA-AAGG
* *
18579011 TTAGGGGTTT-ATGGTTTAGAGT
1 TTA-GGGTTTAATGGTTTAAAGG
18579033 TTAGGGTTTAA
1 TTAGGGTTTAA
18579044 ATTTAGGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 6 0.21
22 11 0.39
23 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTAATGGTTTAAAGG
Found at i:18579034 original size:14 final size:14
Alignment explanation
Indices: 18579017--18579056 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
18579007 AAGGTTAGGG
*
18579017 GTTTATGGTTTAGA
1 GTTTAGGGTTTAGA
18579031 GTTTAGGGTTTA-A
1 GTTTAGGGTTTAGA
*
18579044 ATTTAGGGTTTAG
1 GTTTAGGGTTTAG
18579057 GGTCTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:18580483 original size:25 final size:26
Alignment explanation
Indices: 18580455--18580510 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
18580445 AATTTTTTTA
* *
18580455 ATTAAT-CGAAATTTTTTTATCTAAT
1 ATTAATCCGAAATTTTTATATATAAT
* *
18580480 ATT-ATCCTAAATTTTTATATATTAT
1 ATTAATCCGAAATTTTTATATATAAT
18580505 ATTAAT
1 ATTAAT
18580511 TTAATTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 2 0.08
25 21 0.84
26 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.54
Consensus pattern (26 bp):
ATTAATCCGAAATTTTTATATATAAT
Found at i:18583852 original size:9 final size:9
Alignment explanation
Indices: 18583789--18583925 Score: 103
Period size: 9 Copynumber: 14.6 Consensus size: 9
18583779 ATTGATCATT
*
18583789 ACTTAAATA
1 ACTTACATA
*
18583798 AGTTACATA
1 ACTTACATA
* **
18583807 ACTCATGTA
1 ACTTACATA
18583816 ACTTACATA
1 ACTTACATA
*
18583825 ATTTACATAACA
1 ACTTACAT---A
*
18583837 ACCTACATA
1 ACTTACATA
18583846 ACTTACATA
1 ACTTACATA
18583855 ACTTACATA
1 ACTTACATA
* *
18583864 ATTTATATA
1 ACTTACATA
*
18583873 ACTCACATA
1 ACTTACATA
* *
18583882 ACGTATATAACA
1 AC-T-TA-CATA
18583894 ACTTACATA
1 ACTTACATA
*
18583903 ACTCACATA
1 ACTTACATA
18583912 ACTTACATA
1 ACTTACATA
18583921 ACTTA
1 ACTTA
18583926 ACTAATACAT
Statistics
Matches: 97, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
9 81 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:18583863 original size:57 final size:57
Alignment explanation
Indices: 18583789--18583923 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 57
18583779 ATTGATCATT
* * * * **
18583789 ACTTAAATAAGTTACATAACTCATGTAACTTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
* * * *
18583846 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
*
18583903 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
18583924 TAACTAATAC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 66 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTACATA
Found at i:18589507 original size:21 final size:21
Alignment explanation
Indices: 18589483--18589542 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
18589473 CTAGCAGATA
*
18589483 CAGCTGAGAGGGAGGCAGCGG
1 CAGCAGAGAGGGAGGCAGCGG
* *
18589504 CAGCAGTGAAGGAGGCAGCGG
1 CAGCAGAGAGGGAGGCAGCGG
* *
18589525 CAGCAGCGAGAGAGGCAG
1 CAGCAGAGAGGGAGGCAG
18589543 AGCAGAGCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.20, G:0.48, T:0.03
Consensus pattern (21 bp):
CAGCAGAGAGGGAGGCAGCGG
Found at i:18589958 original size:43 final size:41
Alignment explanation
Indices: 18589862--18590291 Score: 203
Period size: 43 Copynumber: 10.4 Consensus size: 41
18589852 AATCTGTAAA
* * * *
18589862 TTTAGCGGCATTTGTGGGGAAAGCGCCGCTAAAGGACTCTACT
1 TTTAGCGGCGTTT-T-GGTAAAGCGCCGCTAAAGGTCTGTACT
* * *
18589905 TTTGGAGGCGTTGTGGATAAAGCGCCGCTAAAAGGTCTGTACT
1 TTTAGCGGCGTTTTGG-TAAAGCGCCGCT-AAAGGTCTGTACT
* * * **
18589948 TTTGGCGGCGTTTTTGGTGTAAGCGCCGCTATAGGTCTGTAAA
1 TTTAGCGGCG-TTTTGGT-AAAGCGCCGCTAAAGGTCTGTACT
** *
18589991 TTTAGCGGTTTTTTGGGCTAAAGCTCCGCTAAAGGTCTGTACT
1 TTTAGCGGCGTTTT-GG-TAAAGCGCCGCTAAAGGTCTGTACT
** * * *
18590034 TTTAGCGGCG--CCGCTAAAG-G--TCT--A---C---ACC
1 TTTAGCGGCGTTTTGGTAAAGCGCCGCTAAAGGTCTGTACT
* * * * *
18590062 TTTAGTGGCGTTTTTGGATAAAACGCCGCTAAAGGACTGCACC
1 TTTAGCGGCG-TTTTGG-TAAAGCGCCGCTAAAGGTCTGTACT
* *
18590105 TTCAGCGGCGTTTTTTTCGGT-AAGCGCCGCTAAAGGTATGTGA-T
1 TTTAGCGGCG---TTTT-GGTAAAGCGCCGCTAAAGGTCTGT-ACT
* * * *
18590149 TTTAACGGCG-TTTGTTTACTAAGCGCCGCTAAAGGTCTGCACC
1 TTTAGCGGCGTTTTG-GTA--AAGCGCCGCTAAAGGTCTGTACT
* * *
18590192 TTTAGCAGCGTTTTTTGGGT-AAGGGCCGCTAAAGGTATGTGA-T
1 TTTAGCGGCG--TTTT-GGTAAAGCGCCGCTAAAGGTCTGT-ACT
* *
18590235 TTTAGCGGCGTTTATGGTAAAGCGCCGCTAAAGGTATCTACT
1 TTTAGCGGCGTTT-TGGTAAAGCGCCGCTAAAGGTCTGTACT
18590277 TTTAGCGGCGTTTTG
1 TTTAGCGGCGTTTTG
18590292 ACGTTCAAAC
Statistics
Matches: 291, Mismatches: 58, Indels: 78
0.68 0.14 0.18
Matches are distributed among these distances:
28 11 0.04
31 2 0.01
32 4 0.01
33 1 0.00
34 1 0.00
35 2 0.01
36 2 0.01
37 1 0.00
39 6 0.02
40 6 0.02
41 11 0.04
42 50 0.17
43 139 0.48
44 41 0.14
45 7 0.02
46 6 0.02
47 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTGGTAAAGCGCCGCTAAAGGTCTGTACT
Found at i:18590065 original size:28 final size:28
Alignment explanation
Indices: 18590016--18590071 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
18590006 GGCTAAAGCT
** *
18590016 CCGCTAAAGGTCTGTACTTTTAGCGGCG
1 CCGCTAAAGGTCTACACCTTTAGCGGCG
*
18590044 CCGCTAAAGGTCTACACCTTTAGTGGCG
1 CCGCTAAAGGTCTACACCTTTAGCGGCG
18590072 TTTTTGGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (28 bp):
CCGCTAAAGGTCTACACCTTTAGCGGCG
Found at i:18590244 original size:86 final size:86
Alignment explanation
Indices: 18590068--18590269 Score: 273
Period size: 86 Copynumber: 2.3 Consensus size: 86
18590058 CACCTTTAGT
* * * *
18590068 GGCGTTTTTGGATAAAACGCCGCTAAAGGACTGCACCTTCAGCGGCGTTTTTTTCGGTAAGCGCC
1 GGCGTTTATGG-TAAAGCGCCGCTAAAGGTCTGCACCTTCAGCAGCGTTTTTTTCGGTAAGCGCC
18590133 GCTAAAGGTATGTGATTTTAAC
65 GCTAAAGGTATGTGATTTTAAC
* * * * *
18590155 GGCGTTTGT-TTACTAAGCGCCGCTAAAGGTCTGCACCTTTAGCAGCG-TTTTTTGGGTAAGGGC
1 GGCGTTTATGGTA--AAGCGCCGCTAAAGGTCTGCACCTTCAGCAGCGTTTTTTTCGGTAAGCGC
*
18590218 CGCTAAAGGTATGTGATTTTAGC
64 CGCTAAAGGTATGTGATTTTAAC
18590241 GGCGTTTATGGTAAAGCGCCGCTAAAGGT
1 GGCGTTTATGGTAAAGCGCCGCTAAAGGT
18590270 ATCTACTTTT
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
85 18 0.18
86 44 0.44
87 39 0.39
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (86 bp):
GGCGTTTATGGTAAAGCGCCGCTAAAGGTCTGCACCTTCAGCAGCGTTTTTTTCGGTAAGCGCCG
CTAAAGGTATGTGATTTTAAC
Found at i:18590306 original size:86 final size:85
Alignment explanation
Indices: 18590085--18590310 Score: 224
Period size: 86 Copynumber: 2.6 Consensus size: 85
18590075 TTGGATAAAA
* * ** *
18590085 CGCCGCTAAAGG-ACTGCACCTTCAGCGGCGTTTTTTTCGGTAAGCGCCGCTAAAGGTATGTGAT
1 CGCCGCTAAAGGTA-TGCACCTTTAGCAGCG-TTTTGACGGTAAACGCCGCTAAAGGTATGTGAT
* *
18590149 TTTAACGGCGTTTGTTTACTAAG
64 TTTAACGGCGTTTATGTAC-AAG
* *** **
18590172 CGCCGCTAAAGGTCTGCACCTTTAGCAGCGTTTTTTGGGTAAGGGCCGCTAAAGGTATGTGATTT
1 CGCCGCTAAAGGTATGCACCTTTAGCAGCGTTTTGACGGTAAACGCCGCTAAAGGTATGTGATTT
*
18590237 TAGCGGCGTTTATGGTA-AAG
66 TAACGGCGTTTAT-GTACAAG
* * *
18590257 CGCCGCTAAAGGTAT-CTACTTTTAGCGGCGTTTTGACGTTCAAACGCCGCTAAA
1 CGCCGCTAAAGGTATGC-ACCTTTAGCAGCGTTTTGACGGT-AAACGCCGCTAAA
18590311 AGTGATGACT
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
84 1 0.01
85 34 0.29
86 55 0.47
87 28 0.24
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (85 bp):
CGCCGCTAAAGGTATGCACCTTTAGCAGCGTTTTGACGGTAAACGCCGCTAAAGGTATGTGATTT
TAACGGCGTTTATGTACAAG
Found at i:18590322 original size:44 final size:41
Alignment explanation
Indices: 18590216--18590334 Score: 100
Period size: 42 Copynumber: 2.8 Consensus size: 41
18590206 TTGGGTAAGG
* *
18590216 GCCGCTAAAGGTATGTGA-TTTTAGCGGCGTTTATGGTAAAGC
1 GCCGCTAAAAGTAT-CGACTTTTAGCGGCGTTT-TGGTAAAGC
* *
18590258 GCCGCTAAAGGTATCTACTTTTAGCGGCGTTTTGACGTTCAAA-C
1 GCCGCTAAAAGTATCGACTTTTAGCGGCGTTTTG--G-T-AAAGC
* *
18590302 GCCGCTAAAAGTGAT-GACTTTTGGTGGCGTTTT
1 GCCGCTAAAAGT-ATCGACTTTTAGCGGCGTTTT
18590335 TTTCACATAA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
41 3 0.05
42 28 0.43
43 1 0.02
44 28 0.43
45 5 0.08
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (41 bp):
GCCGCTAAAAGTATCGACTTTTAGCGGCGTTTTGGTAAAGC
Found at i:18593661 original size:10 final size:9
Alignment explanation
Indices: 18593616--18593680 Score: 57
Period size: 10 Copynumber: 7.3 Consensus size: 9
18593606 AATAATTTTT
18593616 AAAA-ATTA
1 AAAATATTA
18593624 AAAA-ATT-
1 AAAATATTA
18593631 AAAATAGTTA
1 AAAATA-TTA
*
18593641 AAATTATTA
1 AAAATATTA
18593650 AAAATATATA
1 AAAATAT-TA
*
18593660 AAAATATTTT
1 AAAATA-TTA
18593670 AAAA-ATTA
1 AAAATATTA
18593678 AAA
1 AAA
18593681 TTTTAATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
7 4 0.08
8 13 0.27
9 12 0.25
10 18 0.38
11 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATATTA
Found at i:18597618 original size:20 final size:20
Alignment explanation
Indices: 18597595--18597633 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18597585 TATTCGTTTG
*
18597595 GGGTTTCATCATGTCGTCAT
1 GGGTTTCATCACGTCGTCAT
18597615 GGGTTTCATCACGTCGTCA
1 GGGTTTCATCACGTCGTCA
18597634 CAATGTCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.23, G:0.26, T:0.36
Consensus pattern (20 bp):
GGGTTTCATCACGTCGTCAT
Found at i:18612082 original size:21 final size:21
Alignment explanation
Indices: 18612058--18612098 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18612048 GGATCAATTA
*
18612058 GAAAATATCACATGTCAAGTC
1 GAAAATATCACAGGTCAAGTC
* *
18612079 GAAATTATCCCAGGTCAAGT
1 GAAAATATCACAGGTCAAGT
18612099 TAAAATTACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (21 bp):
GAAAATATCACAGGTCAAGTC
Found at i:18615893 original size:10 final size:10
Alignment explanation
Indices: 18615874--18615963 Score: 64
Period size: 9 Copynumber: 9.3 Consensus size: 10
18615864 GATACATTCT
18615874 AAAATTATAA
1 AAAATTATAA
*
18615884 AAAATCAT-A
1 AAAATTATAA
18615893 AAAATTATAAA
1 AAAATTAT-AA
18615904 AAAATT-T-A
1 AAAATTATAA
*
18615912 AAATTTAT-A
1 AAAATTATAA
*
18615921 AAAATTATTA
1 AAAATTATAA
* *
18615931 GAAATTAATTA
1 AAAATT-ATAA
* *
18615942 AACATCATAA
1 AAAATTATAA
18615952 AAAATT-TAA
1 AAAATTATAA
18615961 AAA
1 AAA
18615964 GTATTATTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
8 6 0.09
9 23 0.36
10 21 0.33
11 14 0.22
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (10 bp):
AAAATTATAA
Found at i:18615898 original size:19 final size:19
Alignment explanation
Indices: 18615874--18615963 Score: 69
Period size: 19 Copynumber: 4.7 Consensus size: 19
18615864 GATACATTCT
18615874 AAAATTATAAAAAATCATA
1 AAAATTATAAAAAATCATA
*
18615893 AAAATTATAAAAAAAT-TTA
1 AAAATTAT-AAAAAATCATA
* *
18615912 AAATTTAT-AAAAATTATTA
1 AAAATTATAAAAAATCA-TA
* * *
18615931 GAAATTAATTAAACATCATAA
1 AAAATT-ATAAAAAATCAT-A
18615952 AAAATT-TAAAAA
1 AAAATTATAAAAA
18615964 GTATTATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
17 6 0.11
19 27 0.49
20 10 0.18
21 12 0.22
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAAAATCATA
Found at i:18616188 original size:26 final size:28
Alignment explanation
Indices: 18616159--18616222 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
18616149 TTTATATTAA
18616159 TTTCTA-AATATTTTT-ATAAATTATTT
1 TTTCTATAATATTTTTAATAAATTATTT
**
18616185 TTTCTATTTTTATTTTTAATAAATTATTT
1 TTTCTA-TAATATTTTTAATAAATTATTT
18616214 TCTT-TATAA
1 T-TTCTATAA
18616223 ATTATGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
26 6 0.20
28 8 0.27
29 14 0.47
30 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTCTATAATATTTTTAATAAATTATTT
Found at i:18617866 original size:9 final size:9
Alignment explanation
Indices: 18617852--18617877 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18617842 TCAATTTAAT
18617852 ATTAAAATC
1 ATTAAAATC
18617861 ATTAAAATC
1 ATTAAAATC
18617870 ATTAAAAT
1 ATTAAAAT
18617878 AATATTATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAAATC
Found at i:18622714 original size:23 final size:24
Alignment explanation
Indices: 18622683--18622729 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
18622673 GGAAATAACC
18622683 ATTTGAAAAAC-ATATATATTTAAT
1 ATTTGAAAAACAATAT-TATTTAAT
*
18622707 ATTT-AAAAATAATATTATTTAAT
1 ATTTGAAAAACAATATTATTTAAT
18622730 TTTCATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTTGAAAAACAATATTATTTAAT
Found at i:18623925 original size:16 final size:19
Alignment explanation
Indices: 18623906--18623943 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18623896 ATATGGTTAA
18623906 ATTTTT-AA-AAAT-ATTT
1 ATTTTTGAATAAATAATTT
18623922 ATTTTTGAATAAATAATTT
1 ATTTTTGAATAAATAATTT
18623941 ATT
1 ATT
18623944 AAGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 2 0.11
18 4 0.21
19 7 0.37
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATTTTTGAATAAATAATTT
Found at i:18631876 original size:22 final size:20
Alignment explanation
Indices: 18631838--18631886 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
18631828 CATATATTGT
18631838 TAAAATTTATATAAAAATTTAA
1 TAAAATTTATATAAAAA--TAA
*
18631860 TAAAATTT-TGATTAAAATAA
1 TAAAATTTAT-ATAAAAATAA
18631880 TAAAATT
1 TAAAATT
18631887 GAGTGATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
22 14 0.56
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TAAAATTTATATAAAAATAA
Found at i:18631882 original size:20 final size:21
Alignment explanation
Indices: 18631857--18631900 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
18631847 TATAAAAATT
*
18631857 TAATAAAATT-TTGATTAAAA
1 TAATAAAATTAGTGATTAAAA
18631877 TAATAAAATTGAGTGATTAAAA
1 TAATAAAATT-AGTGATTAAAA
18631899 TA
1 TA
18631901 TTGGTTCAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
22 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (21 bp):
TAATAAAATTAGTGATTAAAA
Found at i:18633916 original size:16 final size:17
Alignment explanation
Indices: 18633882--18633922 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
18633872 CAATTGAACT
18633882 AATTTTTATCTATTTTG
1 AATTTTTATCTATTTTG
18633899 AATTTTTAT-T-TTTATG
1 AATTTTTATCTATTT-TG
18633915 AATTTTTA
1 AATTTTTA
18633923 ATGATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.13
16 11 0.48
17 9 0.39
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (17 bp):
AATTTTTATCTATTTTG
Found at i:18645646 original size:132 final size:131
Alignment explanation
Indices: 18645404--18645669 Score: 284
Period size: 132 Copynumber: 2.0 Consensus size: 131
18645394 TTGCCTCGCC
* * * * * * *
18645404 TTAGAAAACATAAGTGAAATTCCAACGGGATATTTGATTATTTTAAATAAACGGGAGATTGCAAC
1 TTAGAAAACATAAGTGAAATTCCAAAGGAACATTCGATTATTTTAAACAAACGAGAAATTGCAAC
* * * * ** *
18645469 CCAGCACGATAGGGCACTATTCCCCAAATTTCCAAACATCGAACATTTCCTTCGTTTTAAAGAGT
66 CCAGCACGATAGGGCACGATTCACCAAATTGCCAAACATCAAACATCACCTTCG-TTTAAAGAAT
18645534 TT
130 TT
* *
18645536 TTAGAAAACATGAA-TGAAA-TCCTAAAGGAACATTCGATTATTTTGAGCAAACGAGAAATTGCA
1 TTAGAAAACAT-AAGTGAAATTCC-AAAGGAACATTCGATTATTTTAAACAAACGAGAAATTGCA
* * * * ***
18645599 ACGCAGCATGTTAGGGCACGATTCAGCAAATTGCCAATTGTCAAACATCACCTTCGTTTAAAGAA
64 ACCCAGCACGATAGGGCACGATTCACCAAATTGCCAAACATCAAACATCACCTTCGTTTAAAGAA
18645664 TTT
129 TTT
18645667 TTA
1 TTA
18645670 AAAGAATAAT
Statistics
Matches: 109, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
131 17 0.16
132 90 0.83
133 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (131 bp):
TTAGAAAACATAAGTGAAATTCCAAAGGAACATTCGATTATTTTAAACAAACGAGAAATTGCAAC
CCAGCACGATAGGGCACGATTCACCAAATTGCCAAACATCAAACATCACCTTCGTTTAAAGAATT
T
Found at i:18648207 original size:15 final size:15
Alignment explanation
Indices: 18648189--18648219 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18648179 ATAACTAAAG
18648189 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
18648204 AAAAAATAGATAGAT
1 AAAAAATAGATAGAT
18648219 A
1 A
18648220 GATGAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAAAATAGATAGAT
Found at i:18660547 original size:41 final size:42
Alignment explanation
Indices: 18660477--18660561 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 42
18660467 ATCTGCCCAA
* *
18660477 CTACTACTTAGGGAGATAAGATCTGTAGTTCATCCTGTTACC
1 CTACTACTTAGGGAGATAAGATCTATAGTTCAGCCTGTTACC
* * *
18660519 CTACTGCTTAGGG-GGTAAGATCTATAGTTTAGCCTGTTACC
1 CTACTACTTAGGGAGATAAGATCTATAGTTCAGCCTGTTACC
18660560 CT
1 CT
18660562 CTTGCCTAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
41 26 0.68
42 12 0.32
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (42 bp):
CTACTACTTAGGGAGATAAGATCTATAGTTCAGCCTGTTACC
Found at i:18660693 original size:88 final size:88
Alignment explanation
Indices: 18660589--18661330 Score: 816
Period size: 88 Copynumber: 8.4 Consensus size: 88
18660579 AGGCTCACCG
* * * * * *
18660589 TCTTTGATCTGTTCCACTACAACTTCT-GGGAAACAAGATCTGCAATCTTCAGCCCGTTACCCTA
1 TCTTCGATTTGTTCCACTACAGCTT-TAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTA
*
18660653 CTACTTAGGGGGTTAAGGCTTGCT
65 CCACTTAGGGGGTTAAGGCTTGCT
* * * *
18660677 TCTTCGATTTGCTCCACTACTG-TTTAGGAAGACAAGATCTACAATCTTCAGCCTATTACCCTAC
1 TCTTCGATTTGTTCCACTACAGCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTAC
* ** ** *
18660741 TACTTAAAGGGTTAAGGCTCACCG
66 CACTTAGGGGGTTAAGGCT-TGCT
* * * * * * * *
18660765 TCTTTGATCTATTCCACTGCAGCTTCAGGGACACAAGATCTGCAATCTTCAGCCTATTACCCTAC
1 TCTTCGATTTGTTCCACTACAGCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTAC
* **
18660830 TACTTAAAGGGTTAAGGCTTGCT
66 CACTTAGGGGGTTAAGGCTTGCT
* * *
18660853 TTTTCGATTTGTTCCACTACTG-TTTAGGGAGACAAGATCTACAATCTTTAGCCTGTTACCCTAC
1 TCTTCGATTTGTTCCACTACAGCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTAC
** *
18660917 CACTTAGGGGGTTAAGGCTCACCG
66 CACTTAGGGGGTTAAGGCT-TGCT
* * * *
18660941 TCTTTGATCTGTTCCACTACAGCTTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTAC
1 TCTTCGATTTGTTCCACTACAGCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTAC
* * *
18661006 CACTTAGGGAGTTAAAGCTTACT
66 CACTTAGGGGGTTAAGGCTTGCT
* * *
18661029 TCTTCGATTTTGCTCCACTACTG-TTTAGGGAGATAAGATCTACAATCTTCAGCCTGTTACCCTA
1 TCTTCGA-TTTGTTCCACTACAGCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTA
* ** *
18661093 CCACTTA-GGGGTTAAGGGTCACCG
65 CCACTTAGGGGGTTAAGGCT-TGCT
* * **
18661117 TCTTTGATTTGTTCCACTGCAGCTTTAGGGAGACAAGATCTGTAATCTTCAGCCTGTTACCCTAC
1 TCTTCGATTTGTTCCACTACAGCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTAC
* *
18661182 CACTTAGGGAGTTAAAGCTTGCT
66 CACTTAGGGGGTTAAGGCTTGCT
* *
18661205 TCTTCGATTTTGCTCCAATACTA--TTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCT
1 TCTTCGA-TTTGTTCCACTAC-AGCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCT
*
18661268 ACCACTTAAGGGGTTAAGGCTTGCTT
64 ACCACTTAGGGGGTTAAGGCTTGC-T
* * *
18661294 TCTTCGATCTGTTCCACTACTG-TTTAGGGAGAAAAGA
1 TCTTCGATTTGTTCCACTACAGCTTTAGGGAGACAAGA
18661331 CTTGTAATTC
Statistics
Matches: 544, Mismatches: 97, Indels: 26
0.82 0.15 0.04
Matches are distributed among these distances:
86 1 0.00
87 126 0.23
88 264 0.49
89 152 0.28
90 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (88 bp):
TCTTCGATTTGTTCCACTACAGCTTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTAC
CACTTAGGGGGTTAAGGCTTGCT
Found at i:18660774 original size:176 final size:177
Alignment explanation
Indices: 18660571--18661330 Score: 1116
Period size: 176 Copynumber: 4.3 Consensus size: 177
18660561 TCTTGCCTAG
* * * *
18660571 AGGGGTCAAGGCTCACCGTCTTTGATCTGTTCCACTACAACTTCTGGGAAACAAGATCTGCAATC
1 AGGGGTTAAGGCTCACCGTCTTTGATCTGTTCCACTACAGCTTCAGGGAGACAAGATCTGCAATC
* * * *
18660636 TTCAGCCCGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCGA-TTTGCTCCACTACTGT
66 TTCAGCCTGTTACCCTACCACTTAGGGAGTTAAAGCTTGCTTCTTCGATTTTGCTCCACTACTGT
* * *
18660700 TTAGGAAGACAAGATCTACAATCTTCAGCCTATTACCCTACTACTTA
131 TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACCACTTA
* * * *
18660747 AAGGGTTAAGGCTCACCGTCTTTGATCTATTCCACTGCAGCTTCAGGGACACAAGATCTGCAATC
1 AGGGGTTAAGGCTCACCGTCTTTGATCTGTTCCACTACAGCTTCAGGGAGACAAGATCTGCAATC
* * * * * *
18660812 TTCAGCCTATTACCCTACTACTTAAAGG-GTTAAGGCTTGCTTTTTCGA-TTTGTTCCACTACTG
66 TTCAGCCTGTTACCCTACCACTT-AGGGAGTTAAAGCTTGCTTCTTCGATTTTGCTCCACTACTG
*
18660875 TTTAGGGAGACAAGATCTACAATCTTTAGCCTGTTACCCTACCACTTA
130 TTTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACCACTTA
*
18660923 GGGGGTTAAGGCTCACCGTCTTTGATCTGTTCCACTACAGCTTCAGGGAGACAAGATCTGCAATC
1 AGGGGTTAAGGCTCACCGTCTTTGATCTGTTCCACTACAGCTTCAGGGAGACAAGATCTGCAATC
*
18660988 TTCAGCCTGTTACCCTACCACTTAGGGAGTTAAAGCTTACTTCTTCGATTTTGCTCCACTACTGT
66 TTCAGCCTGTTACCCTACCACTTAGGGAGTTAAAGCTTGCTTCTTCGATTTTGCTCCACTACTGT
*
18661053 TTAGGGAGATAAGATCTACAATCTTCAGCCTGTTACCCTACCACTT-
131 TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACCACTTA
* * * * *
18661099 AGGGGTTAAGGGTCACCGTCTTTGATTTGTTCCACTGCAGCTTTAGGGAGACAAGATCTGTAATC
1 AGGGGTTAAGGCTCACCGTCTTTGATCTGTTCCACTACAGCTTCAGGGAGACAAGATCTGCAATC
* *
18661164 TTCAGCCTGTTACCCTACCACTTAGGGAGTTAAAGCTTGCTTCTTCGATTTTGCTCCAATACTAT
66 TTCAGCCTGTTACCCTACCACTTAGGGAGTTAAAGCTTGCTTCTTCGATTTTGCTCCACTACTGT
18661229 TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACCACTTA
131 TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACCACTTA
** ** * * * *
18661276 AGGGGTTAAGGCTTGCTTTCTTCGATCTGTTCCACTACTG-TTTAGGGAGAAAAGA
1 AGGGGTTAAGGCTCACCGTCTTTGATCTGTTCCACTACAGCTTCAGGGAGACAAGA
18661331 CTTGTAATTC
Statistics
Matches: 530, Mismatches: 50, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
175 3 0.01
176 434 0.82
177 93 0.18
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (177 bp):
AGGGGTTAAGGCTCACCGTCTTTGATCTGTTCCACTACAGCTTCAGGGAGACAAGATCTGCAATC
TTCAGCCTGTTACCCTACCACTTAGGGAGTTAAAGCTTGCTTCTTCGATTTTGCTCCACTACTGT
TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACCACTTA
Found at i:18661101 original size:44 final size:44
Alignment explanation
Indices: 18660876--18661275 Score: 157
Period size: 44 Copynumber: 9.1 Consensus size: 44
18660866 CCACTACTGT
* *
18660876 TTAGGGAGACAAGATCTACAATCTTTAGCCTGTTACCCTACCAC
1 TTAGGGAGATAAGATCTACAATCTTCAGCCTGTTACCCTACCAC
* * * ** * *
18660920 TTAGGGGGTTAAG-GCTCACCGTCTT-TGATCTGTT-CCACTA-CAGC
1 TTAGGGAGATAAGATCT-ACAATCTTCAG-CCTGTTACC-CTACCA-C
* *
18660964 TTCAGGGAGACAAGATCTGCAATCTTCAGCCTGTTACCCTACCAC
1 TT-AGGGAGATAAGATCTACAATCTTCAGCCTGTTACCCTACCAC
* * * *** * ***
18661009 TTAGGGAGTTAA-AGCTTAC-TTCTTCGATTTTGCT-CCACTACTGT
1 TTAGGGAGATAAGATC-TACAATCTTC-AGCCTGTTACC-CTACCAC
18661053 TTAGGGAGATAAGATCTACAATCTTCAGCCTGTTACCCTACCAC
1 TTAGGGAGATAAGATCTACAATCTTCAGCCTGTTACCCTACCAC
* * ** * ** *
18661097 TTAGGG-GTTAAGGGTC-ACCGTCTT-TGATTTGTT-CCACT-GCAGC
1 TTAGGGAGATAA-GATCTACAATCTTCAG-CCTGTTACC-CTACCA-C
* **
18661140 TTTAGGGAGACAAGATCTGTAATCTTCAGCCTGTTACCCTACCAC
1 -TTAGGGAGATAAGATCTACAATCTTCAGCCTGTTACCCTACCAC
* * * * * * * * *
18661185 TTAGGGAGTTAA-AGCTTGC-TTCTTC-G-ATTTTGCTCCAATACTAT
1 TTAGGGAGATAAGATC-TACAATCTTCAGCCTGTTAC-CC--TACCAC
*
18661229 TTAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACCAC
1 TTAGGGAGATAAGATCTACAATCTTCAGCCTGTTACCCTACCAC
18661273 TTA
1 TTA
18661276 AGGGGTTAAG
Statistics
Matches: 245, Mismatches: 78, Indels: 66
0.63 0.20 0.17
Matches are distributed among these distances:
41 4 0.02
42 8 0.03
43 40 0.16
44 120 0.49
45 54 0.22
46 15 0.06
47 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (44 bp):
TTAGGGAGATAAGATCTACAATCTTCAGCCTGTTACCCTACCAC
Found at i:18663150 original size:1 final size:1
Alignment explanation
Indices: 18663144--18663200 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
18663134 TCTTCCACGA
* * * * ** *
18663144 TTTTTTTATTATTTTTTTTTGTTTTTTTTTTTTTTGTTTTTTTGGTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
18663201 GGTTTATTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:18663168 original size:8 final size:8
Alignment explanation
Indices: 18663157--18663201 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 8
18663147 TTTTATTATT
18663157 TTTTTTTG
1 TTTTTTTG
18663165 TTTTTTT-
1 TTTTTTTG
18663172 TTTTTTTG
1 TTTTTTTG
18663180 TTTTTTTG
1 TTTTTTTG
*
18663188 --GTTTTG
1 TTTTTTTG
18663194 TTTTTTTG
1 TTTTTTTG
18663202 GTTTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 5 0.16
7 7 0.22
8 20 0.62
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:18663173 original size:15 final size:15
Alignment explanation
Indices: 18663155--18663200 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
18663145 TTTTTTATTA
18663155 TTTTTTTTTGTTTTT
1 TTTTTTTTTGTTTTT
18663170 TTTTTTTTTG-TTTT
1 TTTTTTTTTGTTTTT
**
18663184 TTTGGTTTTGTTTTT
1 TTTTTTTTTGTTTTT
18663199 TT
1 TT
18663201 GGTTTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTGTTTTT
Found at i:18663192 original size:14 final size:14
Alignment explanation
Indices: 18663160--18663205 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
18663150 TATTATTTTT
**
18663160 TTTTGTTTTTTTTTT
1 TTTTG-TTTTTTTGG
18663175 TTTTGTTTTTTTGG
1 TTTTGTTTTTTTGG
18663189 TTTTGTTTTTTTGG
1 TTTTGTTTTTTTGG
18663203 TTT
1 TTT
18663206 ATTATTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 24 0.83
15 5 0.17
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTGTTTTTTTGG
Found at i:18663205 original size:23 final size:23
Alignment explanation
Indices: 18663157--18663205 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
18663147 TTTTATTATT
* * *
18663157 TTTTTTTGTTTTTTTTTTTTTTG
1 TTTTTTTGGTTTTGTTTTTTTGG
18663180 TTTTTTTGGTTTTGTTTTTTTGG
1 TTTTTTTGGTTTTGTTTTTTTGG
18663203 TTT
1 TTT
18663206 ATTATTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (23 bp):
TTTTTTTGGTTTTGTTTTTTTGG
Done.