Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 18 of 50
Found at i:8590233 original size:16 final size:16
Alignment explanation
Indices: 8590197--8590236 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
8590187 ATATCAGAGA
8590197 TTTTGG-TTTTAAAGC
1 TTTTGGATTTTAAAGC
8590212 -TTTGGATTTTAAAGC
1 TTTTGGATTTTAAAGC
8590227 TTTTGGATTT
1 TTTTGGATTT
8590237 AAAAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.22
15 9 0.39
16 9 0.39
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (16 bp):
TTTTGGATTTTAAAGC
Found at i:8592894 original size:28 final size:27
Alignment explanation
Indices: 8592863--8592915 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
8592853 ATTTGGAGTA
* *
8592863 TAGGGGTAAAATGGTAATTTTGCCACTC
1 TAGGGGCAAAATGATAATTTT-CCACTC
*
8592891 TAGGGGCAAAATTATAATTTTCCAC
1 TAGGGGCAAAATGATAATTTTCCAC
8592916 CACCAGGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (27 bp):
TAGGGGCAAAATGATAATTTTCCACTC
Found at i:8599195 original size:15 final size:15
Alignment explanation
Indices: 8599164--8599211 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
8599154 GTTTGGTACT
8599164 TTACAATGTAATGTGA
1 TTACAA-GTAATGTGA
*
8599180 TTACAAGTAATATGA
1 TTACAAGTAATGTGA
*
8599195 TTGCAAGTAATGTGA
1 TTACAAGTAATGTGA
8599210 TT
1 TT
8599212 GTAGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 23 0.79
16 6 0.21
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (15 bp):
TTACAAGTAATGTGA
Found at i:8599498 original size:14 final size:14
Alignment explanation
Indices: 8599479--8599505 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8599469 CAAAATTTAT
8599479 TAATTAACTAAAAC
1 TAATTAACTAAAAC
8599493 TAATTAACTAAAA
1 TAATTAACTAAAA
8599506 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:8600892 original size:40 final size:40
Alignment explanation
Indices: 8600846--8600926 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
8600836 ATATAATATC
*
8600846 ATCTCTTCAATATATTTTTA-ATGTCATATATTTT-ATTTTT
1 ATCTCTT-AATATAATTTTATATGTCATAT-TTTTAATTTTT
* * *
8600886 ATCTCTTATTATAATTTTATATTTTATATTTTTAATTTTT
1 ATCTCTTAATATAATTTTATATGTCATATTTTTAATTTTT
8600926 A
1 A
8600927 AATATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
39 14 0.40
40 21 0.60
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.63
Consensus pattern (40 bp):
ATCTCTTAATATAATTTTATATGTCATATTTTTAATTTTT
Found at i:8601089 original size:31 final size:31
Alignment explanation
Indices: 8601054--8601135 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 31
8601044 TTTAATGTCA
*
8601054 TATATTTTAT-TTTTATTTCTTATTATAATTT
1 TATATTTTATATTTTATTT-TTAATATAATTT
*
8601085 TATATATTT-TATTTTA-TTTTAATATATTTT
1 TATAT-TTTATATTTTATTTTTAATATAATTT
*
8601115 TAATATTATATATTTTATTTT
1 T-ATATTTTATATTTTATTTT
8601136 AATTTTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
30 13 0.30
31 19 0.44
32 11 0.26
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (31 bp):
TATATTTTATATTTTATTTTTAATATAATTT
Found at i:8601093 original size:22 final size:21
Alignment explanation
Indices: 8601067--8601116 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
8601057 ATTTTATTTT
8601067 TATTTCTTATTATAATTTTATA
1 TATTT-TTATTATAATTTTATA
*
8601089 TA-TTTTATT-TTATTTTAATA
1 TATTTTTATTATAATTTT-ATA
8601109 TATTTTTA
1 TATTTTTA
8601117 ATATTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 7 0.28
22 2 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTTTATTATAATTTTATA
Found at i:8601109 original size:20 final size:19
Alignment explanation
Indices: 8601056--8601220 Score: 85
Period size: 18 Copynumber: 8.4 Consensus size: 19
8601046 TAATGTCATA
8601056 TATTTTATTTT-TAT-TTCT
1 TATTTTATTTTATATATT-T
*
8601074 TATTATAATTTTATATATTT
1 TATT-TTATTTTATATATTT
*
8601094 TATTTTATTTTA-ATATAT
1 TATTTTATTTTATATATTT
* *
8601112 T-TTTAATATTATATATTT
1 TATTTTATTTTATATATTT
8601130 TATTTTAATTTTTTTACCTATAATATAT
1 TATTTT-A---TTTTA--TAT-AT-T-T
*
8601158 AAATTTTAATTTT-TATATTT
1 -TATTTT-ATTTTATATATTT
8601178 TA-TTTATTTTA-AT-TTT
1 TATTTTATTTTATATATTT
* *
8601194 AATTTTTATATTATATATTT
1 TA-TTTTATTTTATATATTT
8601214 TATTTTA
1 TATTTTA
8601221 ATATTTTTTA
Statistics
Matches: 114, Mismatches: 13, Indels: 39
0.69 0.08 0.23
Matches are distributed among these distances:
16 4 0.04
17 15 0.13
18 27 0.24
19 24 0.21
20 14 0.12
21 3 0.03
22 2 0.02
23 7 0.06
25 3 0.03
26 6 0.05
27 1 0.01
28 1 0.01
29 7 0.06
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTATTTTATATATTT
Found at i:8601120 original size:29 final size:29
Alignment explanation
Indices: 8601055--8601230 Score: 109
Period size: 29 Copynumber: 6.0 Consensus size: 29
8601045 TTAATGTCAT
* *
8601055 ATATTTTATTTTTATTTCTTATTATAATTTTA
1 ATATTTTA-TTTTA-TT-TTAATATATTTTTA
8601087 TATATTTTATTTTATTTTAATATATTTTTA
1 -ATATTTTATTTTATTTTAATATATTTTTA
8601117 ATATTATATATTTTATTTTAAT-T-TTTTTA
1 ATATT-T-TATTTTATTTTAATATATTTTTA
* ** * * *
8601146 CCTATAATATATAAATTT--TA-ATTTTT-
1 -ATATTTTATTTTATTTTAATATATTTTTA
*
8601172 ATATTTTA-TTTATTTTAATTTTAATTTTT-
1 ATATTTTATTTTATTTTAA-TAT-ATTTTTA
8601201 ATATTATATATTTTATTTTAATAT-TTTTTA
1 ATATT-T-TATTTTATTTTAATATATTTTTA
8601231 TTTTAATTAT
Statistics
Matches: 113, Mismatches: 16, Indels: 31
0.71 0.10 0.19
Matches are distributed among these distances:
24 5 0.04
25 5 0.04
26 1 0.01
27 6 0.05
28 8 0.07
29 27 0.24
30 18 0.16
31 20 0.18
32 15 0.13
33 8 0.07
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
ATATTTTATTTTATTTTAATATATTTTTA
Found at i:8601123 original size:22 final size:21
Alignment explanation
Indices: 8601060--8601123 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 21
8601050 GTCATATATT
* *
8601060 TTATTTT-TAT-TTCTTATTA
1 TTATTTTATATATTTTTAATA
* *
8601079 TAATTTTATATA-TTTT-ATT
1 TTATTTTATATATTTTTAATA
8601098 TTATTTTAATATATTTTTAATA
1 TTATTTT-ATATATTTTTAATA
8601120 TTAT
1 TTAT
8601124 ATATTTTATT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 13 0.38
20 11 0.32
21 4 0.12
22 6 0.18
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTATTTTATATATTTTTAATA
Found at i:8601174 original size:23 final size:23
Alignment explanation
Indices: 8601148--8601193 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8601138 TTTTTTTACC
8601148 TATAATATATAAATTTTAATTTT
1 TATAATATATAAATTTTAATTTT
* * **
8601171 TATATTTTATTTATTTTAATTTT
1 TATAATATATAAATTTTAATTTT
8601194 AATTTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATAATATATAAATTTTAATTTT
Found at i:8601182 original size:69 final size:69
Alignment explanation
Indices: 8601036--8601174 Score: 165
Period size: 69 Copynumber: 2.0 Consensus size: 69
8601026 TCATCTCTTC
* * * * * *
8601036 AATATATTTTTAATGTCATATATTTTATTTTTATTTCTTATTATAATTTTATATATTTTATTTTA
1 AATATATTTTTAATATCATATATTTTATTTTAATTTCTTACTATAATTATATAAATTTTAATTTA
*
8601101 TTTT
66 TTAT
* *
8601105 AATATATTTTTAATATTATATATTTTATTTTAATTTTTTTACCTATAA-TATATAAATTTTAATT
1 AATATATTTTTAATATCATATATTTTATTTTAA-TTTCTTA-CTATAATTATATAAATTTTAATT
8601169 T-TTAT
64 TATTAT
8601174 A
1 A
8601175 TTTTATTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
69 34 0.58
70 20 0.34
71 5 0.08
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (69 bp):
AATATATTTTTAATATCATATATTTTATTTTAATTTCTTACTATAATTATATAAATTTTAATTTA
TTAT
Found at i:8601186 original size:182 final size:182
Alignment explanation
Indices: 8600819--8601193 Score: 620
Period size: 182 Copynumber: 2.1 Consensus size: 182
8600809 TACTTGTATT
*
8600819 TTTTATTGTTAATTTTTATATAATATCATCTCTTCAATATATTTTTAATGTCATATATTTTATTT
1 TTTTATT-TTAATTTTTAGATAATATCATCTCTTCAATATATTTTTAATGTCATATATTTTATTT
*
8600884 TTATCTCTTATTATAATTTTATATTTTATATTTTTAATTTTTAAATATATTTTTTATATTATATA
65 TTATCTCTTATTATAATTTTATATTTTATATTTTTAATTTTTAAATATATTTTTAATATTATATA
* *
8600949 TTTTATTTTATTTTATTACGTATATTATATAAATTTTAATTTCTTATATTTTA
130 TTTTATTTTATTTTATTACCTATAATATATAAATTTTAATTTCTTATATTTTA
8601002 TTTTATTTTAATTTTTAGATAATATCATCTCTTCAATATATTTTTAATGTCATATATTTTATTTT
1 TTTTATTTTAATTTTTAGATAATATCATCTCTTCAATATATTTTTAATGTCATATATTTTATTTT
*
8601067 TATTTCTTATTATAATTTTATATATTT-TA-TTTT-A-TTTT-AATATATTTTTAATATTATATA
66 TATCTCTTATTATAATTTTATAT-TTTATATTTTTAATTTTTAAATATATTTTTAATATTATATA
*
8601127 TTTTATTTTAATTTTTTTACCTATAATATATAAATTTTAATTT-TTATATTTTA
130 TTTTATTTT-ATTTTATTACCTATAATATATAAATTTTAATTTCTTATATTTTA
8601180 -TTTATTTTAATTTT
1 TTTTATTTTAATTTT
8601194 AATTTTTATA
Statistics
Matches: 184, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
177 14 0.08
178 40 0.22
179 34 0.18
180 1 0.01
181 4 0.02
182 81 0.44
183 10 0.05
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (182 bp):
TTTTATTTTAATTTTTAGATAATATCATCTCTTCAATATATTTTTAATGTCATATATTTTATTTT
TATCTCTTATTATAATTTTATATTTTATATTTTTAATTTTTAAATATATTTTTAATATTATATAT
TTTATTTTATTTTATTACCTATAATATATAAATTTTAATTTCTTATATTTTA
Found at i:8601231 original size:29 final size:29
Alignment explanation
Indices: 8601081--8601231 Score: 138
Period size: 29 Copynumber: 5.3 Consensus size: 29
8601071 TCTTATTATA
*
8601081 ATTTTATATATT-T-TATTTTATTTTAAT
1 ATTTTTTATATTATATATTTTATTTTAAT
8601108 ATATTTTTAATATTATATATTTTATTTTAAT
1 AT-TTTTT-ATATTATATATTTTATTTTAAT
* **
8601139 -TTTTTTACCTATAATATA-TAAATTTTAAT
1 ATTTTTTA--TATTATATATTTTATTTTAAT
* * *
8601168 -TTTTATATTTTATTTATTTTAATTTT-A-
1 ATTTTTTATATTATATATTTT-ATTTTAAT
8601195 A-TTTTTATATTATATATTTTATTTTAAT
1 ATTTTTTATATTATATATTTTATTTTAAT
8601223 ATTTTTTAT
1 ATTTTTTAT
8601232 TTTAATTATA
Statistics
Matches: 99, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
26 5 0.05
27 25 0.25
28 8 0.08
29 37 0.37
30 10 0.10
31 14 0.14
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (29 bp):
ATTTTTTATATTATATATTTTATTTTAAT
Found at i:8605320 original size:15 final size:15
Alignment explanation
Indices: 8605300--8605339 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
8605290 AAGATATTTT
8605300 GATTTTAAAGCATTA
1 GATTTTAAAGCATTA
* *
8605315 GATTTTAAAGCCTTT
1 GATTTTAAAGCATTA
8605330 GATTTTAAAG
1 GATTTTAAAG
8605340 TTGTTTTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (15 bp):
GATTTTAAAGCATTA
Found at i:8605423 original size:5 final size:5
Alignment explanation
Indices: 8605383--8605422 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
8605373 CCCCAAGTCT
* *
8605383 AGTTA AGTTA AGATA AGTTA AGTTA AGTTA AGTTA GGTTA
1 AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA
8605423 GATTGAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
AGTTA
Found at i:8613854 original size:33 final size:33
Alignment explanation
Indices: 8613816--8613916 Score: 193
Period size: 33 Copynumber: 3.1 Consensus size: 33
8613806 CCATATGTGG
*
8613816 CATCCAATGCTTCAAGTAGTGCATCAATGTGGT
1 CATCCAATGCTTCAAGTAGTGCATCAATGCGGT
8613849 CATCCAATGCTTCAAGTAGTGCATCAATGCGGT
1 CATCCAATGCTTCAAGTAGTGCATCAATGCGGT
8613882 CATCCAATGCTTCAAGTAGTGCATCAATGCGGT
1 CATCCAATGCTTCAAGTAGTGCATCAATGCGGT
8613915 CA
1 CA
8613917 CATCCTCAGC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (33 bp):
CATCCAATGCTTCAAGTAGTGCATCAATGCGGT
Found at i:8617747 original size:175 final size:175
Alignment explanation
Indices: 8617450--8617785 Score: 557
Period size: 175 Copynumber: 1.9 Consensus size: 175
8617440 TTTTCTCCTA
* **
8617450 TCCCTTCATTTTCTTCTTTCCCTTTCTCTCTCTAGCCGTAGCCACCCTCTCACTTCTCTCTAAAC
1 TCCCTTCATTTTCTTATTTCCCTTTCTCTCTCTAGCCACAGCCACCCTCTCACTTCTCTCTAAAC
* * * * *
8617515 TTTTCCCTTCGTCGGTCGCTTTCTCCTTCTCTCTCACCTTCCCTTCCACTAGTGGCTTGAAGCTC
66 TTTTCCCTCCGTCGATCACTTTCTCCTTCTCTCTCACCTTCCCGTCCACCAGTGGCTTGAAGCTC
8617580 GGTCACCCAAAACCCTAAATATCTCTTCCCTTCGTCGACAATCCC
131 GGTCACCCAAAACCCTAAATATCTCTTCCCTTCGTCGACAATCCC
*
8617625 TCCCTTCATTTTCTTATTTCCCTTTCTCTCTCTAGCCACGGCCACCCTCTCACTTCTCTCTAAAC
1 TCCCTTCATTTTCTTATTTCCCTTTCTCTCTCTAGCCACAGCCACCCTCTCACTTCTCTCTAAAC
* *
8617690 TTTTCCCTCCGTCGATCATTTTCTCCTTCTCTCTCACCTTCCCCGT-CACCGGTGGCTTGAAGCT
66 TTTTCCCTCCGTCGATCACTTTCTCCTTCTCTCTCACCTT-CCCGTCCACCAGTGGCTTGAAGCT
8617754 CGGTCACCCAAAACCCTAAATATCTCTTCCCT
130 CGGTCACCCAAAACCCTAAATATCTCTTCCCT
8617786 CCACCGGTAA
Statistics
Matches: 149, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
175 145 0.97
176 4 0.03
ACGTcount: A:0.15, C:0.40, G:0.09, T:0.36
Consensus pattern (175 bp):
TCCCTTCATTTTCTTATTTCCCTTTCTCTCTCTAGCCACAGCCACCCTCTCACTTCTCTCTAAAC
TTTTCCCTCCGTCGATCACTTTCTCCTTCTCTCTCACCTTCCCGTCCACCAGTGGCTTGAAGCTC
GGTCACCCAAAACCCTAAATATCTCTTCCCTTCGTCGACAATCCC
Found at i:8617943 original size:16 final size:15
Alignment explanation
Indices: 8617916--8617967 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
8617906 CCCTCTTGGT
8617916 TTTTTATTTAATTTTA
1 TTTTT-TTTAATTTTA
*
8617932 TTATTTTTTAA-TTAA
1 TT-TTTTTTAATTTTA
*
8617947 TTTTGTTTAATTTTCA
1 TTTTTTTTAATTTT-A
8617963 TTTTT
1 TTTTT
8617968 ATTATATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 7 0.24
15 7 0.24
16 12 0.41
17 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTTTTTAATTTTA
Found at i:8618646 original size:33 final size:33
Alignment explanation
Indices: 8618604--8618669 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
8618594 AAGAAGTTGA
*
8618604 CTACCATTTTCTTCATGTTTAGCAACAAGATTG
1 CTACCATTTTCTTAATGTTTAGCAACAAGATTG
*
8618637 CTACCATTTTCTTAATGTTTAGCAACAATATTG
1 CTACCATTTTCTTAATGTTTAGCAACAAGATTG
8618670 AAAGATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (33 bp):
CTACCATTTTCTTAATGTTTAGCAACAAGATTG
Found at i:8619177 original size:5 final size:5
Alignment explanation
Indices: 8619167--8619192 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8619157 CAAATTAATC
8619167 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
8619193 GAAAACATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:8620762 original size:15 final size:15
Alignment explanation
Indices: 8620742--8620771 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8620732 TTCGTTGGAA
8620742 ATTTCCAACAGAATT
1 ATTTCCAACAGAATT
*
8620757 ATTTCCAATAGAATT
1 ATTTCCAACAGAATT
8620772 TTCCCTCAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.37
Consensus pattern (15 bp):
ATTTCCAACAGAATT
Found at i:8626913 original size:24 final size:25
Alignment explanation
Indices: 8626884--8626934 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
8626874 CTCGTACACA
*
8626884 TGAAAAGAAATTTTTGT-CAATACG
1 TGAAAAGAAACTTTTGTCCAATACG
8626908 TGAAAAGAAACTTTTGTCGCAATACG
1 TGAAAAGAAACTTTTGTC-CAATACG
8626934 T
1 T
8626935 CAAATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
26 8 0.33
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (25 bp):
TGAAAAGAAACTTTTGTCCAATACG
Found at i:8630061 original size:21 final size:21
Alignment explanation
Indices: 8630037--8630076 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8630027 TCTTCTTTTC
*
8630037 CTTATGCCCTTCGAAGGATTT
1 CTTATGCCCTTAGAAGGATTT
8630058 CTTATGCCCTTAGAAGGAT
1 CTTATGCCCTTAGAAGGAT
8630077 CTTCGCTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (21 bp):
CTTATGCCCTTAGAAGGATTT
Found at i:8633243 original size:18 final size:18
Alignment explanation
Indices: 8633220--8633254 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8633210 CGGTACCATG
8633220 CAGGGCCA-AGACAGAGAC
1 CAGGGCCACAG-CAGAGAC
8633238 CAGGGCCACAGCAGAGA
1 CAGGGCCACAGCAGAGA
8633255 AAACAGCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.37, C:0.29, G:0.34, T:0.00
Consensus pattern (18 bp):
CAGGGCCACAGCAGAGAC
Found at i:8636498 original size:2 final size:2
Alignment explanation
Indices: 8636491--8636524 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8636481 ATAATACAGA
8636491 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
8636525 TAAGTATNTC
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:8636596 original size:2 final size:2
Alignment explanation
Indices: 8636589--8636622 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8636579 ATAATACAGA
8636589 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
8636623 TTAAAGGATC
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:8636604 original size:98 final size:97
Alignment explanation
Indices: 8636434--8636623 Score: 371
Period size: 98 Copynumber: 1.9 Consensus size: 97
8636424 TCGAGATGAT
8636434 TTCTAGTCCAAAGATCAATTTAAGGTGTAACTTTGGATATGTAAAATATAATACAGAATATATAT
1 TTCTAGTCCAAAGATCAATTTAAGGTGTAACTTTGGATATGTAAAATATAATACAGAATATATAT
8636499 ATATATATATATATATATATATATATTAAGTA
66 ATATATATATATATATATATATATATTAAGTA
8636531 TNTCTAGTCCAAAGATCAATTTAAGGTGTAACTTTGGATATGTAAAATATAATACAGAATATATA
1 T-TCTAGTCCAAAGATCAATTTAAGGTGTAACTTTGGATATGTAAAATATAATACAGAATATATA
8636596 TATATATATATATATATATATATATATT
65 TATATATATATATATATATATATATATT
8636624 TAAAGGATCT
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 1 0.01
98 91 0.99
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.39
Consensus pattern (97 bp):
TTCTAGTCCAAAGATCAATTTAAGGTGTAACTTTGGATATGTAAAATATAATACAGAATATATAT
ATATATATATATATATATATATATATTAAGTA
Found at i:8638643 original size:33 final size:33
Alignment explanation
Indices: 8638606--8638671 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
8638596 ATCATGCAAA
* *
8638606 ATTAGCACGTTACGTCATCATTAATTATGATAT
1 ATTAGCACGTTACATCATCATCAATTATGATAT
* *
8638639 ATTAGCATGTTACATTATCATCAATTATGATAT
1 ATTAGCACGTTACATCATCATCAATTATGATAT
8638672 GTTGCATACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (33 bp):
ATTAGCACGTTACATCATCATCAATTATGATAT
Found at i:8639193 original size:30 final size:30
Alignment explanation
Indices: 8639150--8639206 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
8639140 ATAATAAAGG
*
8639150 CTTATTTGATTCAAAATAAAAATATAATAA
1 CTTATTCGATTCAAAATAAAAATATAATAA
* *
8639180 CTTATTCGGTTCAAAATAAAAGTATAA
1 CTTATTCGATTCAAAATAAAAATATAA
8639207 AAGTTTGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (30 bp):
CTTATTCGATTCAAAATAAAAATATAATAA
Found at i:8644532 original size:35 final size:35
Alignment explanation
Indices: 8644509--8644582 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
8644499 ACACAAAGTC
*
8644509 ACTAGAGTAAGTGAAACACTACTTCAAACAGAACA
1 ACTAAAGTAAGTGAAACACTACTTCAAACAGAACA
* * *
8644544 ATTAAAGTAAGTGAAACACTATTTCATACAGAACA
1 ACTAAAGTAAGTGAAACACTACTTCAAACAGAACA
8644579 ACTA
1 ACTA
8644583 GAACAAGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.22
Consensus pattern (35 bp):
ACTAAAGTAAGTGAAACACTACTTCAAACAGAACA
Found at i:8645871 original size:102 final size:101
Alignment explanation
Indices: 8645598--8645884 Score: 324
Period size: 102 Copynumber: 2.8 Consensus size: 101
8645588 TTATAAAAAA
* * * *
8645598 AATCATATTCAACCACTAGCTTTATCGCTTATATTTTAGCTGTAATTATATTATACTATTAGTTG
1 AATCATATTCAACCACTAGCTTTATAGCTCATATTTTGGCTGTAATGATATTATACTATTAGTTG
*
8645663 CAAGCTTTATCGCTCATTCTTTGACCATAGTTCATC
66 CAAGCTTTATCGCTCATTCTTTGACCATAATTCATC
* * * ** * * *
8645699 AATCTTACTTCAACTACAAGCTTTATAGCTCATATTTTGGCTACAATGATATTTTTCTATTGGTT
1 AATCATA-TTCAACCACTAGCTTTATAGCTCATATTTTGGCTGTAATGATATTATACTATTAGTT
* * * *
8645764 GCAAGCGTTATCACTCATTCTTTGACTATAATTTATC
65 GCAAGCTTTATCGCTCATTCTTTGACCATAATTCATC
* * * * * * *
8645801 ATTCATATTCCAACCACTAGCTTTGTTGCTCATAATTTGGCTGTAATGATGTTATGCTATTAGCC
1 AATCATATT-CAACCACTAGCTTTATAGCTCATATTTTGGCTGTAATGATATTATACTATTAG-T
8645866 T-CAAGCTTTATCGCTCATT
64 TGCAAGCTTTATCGCTCATT
8645885 TCTTGGCCAT
Statistics
Matches: 150, Mismatches: 33, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
101 8 0.05
102 141 0.94
103 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.42
Consensus pattern (101 bp):
AATCATATTCAACCACTAGCTTTATAGCTCATATTTTGGCTGTAATGATATTATACTATTAGTTG
CAAGCTTTATCGCTCATTCTTTGACCATAATTCATC
Found at i:8649920 original size:2 final size:2
Alignment explanation
Indices: 8649913--8649947 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
8649903 CTATTTGAAC
* *
8649913 AT AT AT AT AT AT AT TT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8649948 AATCTCTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:8649931 original size:10 final size:10
Alignment explanation
Indices: 8649913--8649946 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
8649903 CTATTTGAAC
*
8649913 ATATATATAT
1 ATATTTATAT
8649923 ATATTTATAT
1 ATATTTATAT
8649933 ATATTTATAT
1 ATATTTATAT
8649943 ATAT
1 ATAT
8649947 AAATCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATTTATAT
Found at i:8650186 original size:17 final size:17
Alignment explanation
Indices: 8650152--8650204 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
8650142 TGAACCGACC
8650152 TTGCTCTTGCTCTA-AATT
1 TTGCT-TTGCT-TAGAATT
8650170 TTGCTTTGCTTAGAATT
1 TTGCTTTGCTTAGAATT
* * *
8650187 TTGTTTTACTTTGAATT
1 TTGCTTTGCTTAGAATT
8650204 T
1 T
8650205 AAATGAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 24 0.77
18 5 0.16
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.57
Consensus pattern (17 bp):
TTGCTTTGCTTAGAATT
Found at i:8650766 original size:26 final size:26
Alignment explanation
Indices: 8650730--8650787 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
8650720 AGAACAATTA
*
8650730 GAACAAGTAAAGTATTACTTCATTTG
1 GAACAAGTAAAGTACTACTTCATTTG
*
8650756 GAACAATTAAAGTACTACTTCATTTG
1 GAACAAGTAAAGTACTACTTCATTTG
8650782 GAACAA
1 GAACAA
8650788 CTATTTCGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (26 bp):
GAACAAGTAAAGTACTACTTCATTTG
Found at i:8653652 original size:15 final size:15
Alignment explanation
Indices: 8653632--8653676 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
8653622 AAATTACAAA
8653632 TAAAAATTATTAAATT
1 TAAAAA-TATTAAATT
* *
8653648 AAAAAAAAATTAAATT
1 -TAAAAATATTAAATT
8653664 TAAAAATATTAAA
1 TAAAAATATTAAA
8653677 AATAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 11 0.46
16 8 0.33
17 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAATATTAAATT
Found at i:8653652 original size:16 final size:15
Alignment explanation
Indices: 8653632--8653676 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
8653622 AAATTACAAA
*
8653632 TAAAAATTATTAAAT
1 TAAAAAATATTAAAT
*
8653647 TAAAAAAAAATTAAAT
1 T-AAAAAATATTAAAT
*
8653663 TTAAAAATATTAAA
1 TAAAAAATATTAAA
8653677 AATAAACTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAAAATATTAAAT
Found at i:8666487 original size:17 final size:17
Alignment explanation
Indices: 8666465--8666499 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
8666455 AATTATTATC
*
8666465 TTATTTTTTATAGCATA
1 TTATTTTTTATAACATA
8666482 TTATTTTTTATAACATA
1 TTATTTTTTATAACATA
8666499 T
1 T
8666500 ATATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (17 bp):
TTATTTTTTATAACATA
Found at i:8681255 original size:15 final size:15
Alignment explanation
Indices: 8681229--8681319 Score: 69
Period size: 15 Copynumber: 6.1 Consensus size: 15
8681219 TTGATTGAGA
*
8681229 ATGAAGAAGATGAA-
1 ATGAAAAAGATGAAG
8681243 ATGCAAAAAGATGAAG
1 ATG-AAAAAGATGAAG
* *
8681259 ATGAAGAAGATG-AC
1 ATGAAAAAGATGAAG
**
8681273 ATGGAAGGAGATGAAG
1 AT-GAAAAAGATGAAG
* *
8681289 ATGAAGAAGAAGAAG
1 ATGAAAAAGATGAAG
* *
8681304 AAGAAAAAGTTGAAG
1 ATGAAAAAGATGAAG
8681319 A
1 A
8681320 CGAAGATGAA
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.10
15 50 0.81
16 6 0.10
ACGTcount: A:0.55, C:0.02, G:0.31, T:0.12
Consensus pattern (15 bp):
ATGAAAAAGATGAAG
Found at i:8681263 original size:30 final size:29
Alignment explanation
Indices: 8681229--8681325 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 29
8681219 TTGATTGAGA
8681229 ATGAAGAAGATGAAATGCAAAAAGATGAAG
1 ATGAAGAAGATGAAATG-AAAAAGATGAAG
* **
8681259 ATGAAGAAGATGACATGGAAGGAGATGAAG
1 ATGAAGAAGATGAAAT-GAAAAAGATGAAG
* * *
8681289 ATGAAGAAGAAGAAGAAGAAAAAGTTGAAG
1 ATGAAGAAGATGAA-ATGAAAAAGATGAAG
*
8681319 ACGAAGA
1 ATGAAGA
8681326 TGAAGAAACT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
30 53 0.96
31 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.31, T:0.11
Consensus pattern (29 bp):
ATGAAGAAGATGAAATGAAAAAGATGAAG
Found at i:8681306 original size:12 final size:12
Alignment explanation
Indices: 8681285--8681332 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
8681275 GGAAGGAGAT
8681285 GAAGATGAAGAA
1 GAAGATGAAGAA
*
8681297 GAAGAAGAAGAA
1 GAAGATGAAGAA
* * *
8681309 AAAGTTGAAGAC
1 GAAGATGAAGAA
8681321 GAAGATGAAGAA
1 GAAGATGAAGAA
8681333 ACTTGTTGTG
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.58, C:0.02, G:0.31, T:0.08
Consensus pattern (12 bp):
GAAGATGAAGAA
Found at i:8686974 original size:26 final size:27
Alignment explanation
Indices: 8686945--8687007 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
8686935 AATATATTTT
8686945 TATTTTTTTAATTA-TATTAAATCAAA
1 TATTTTTTTAATTATTATTAAATCAAA
*
8686971 TATTTTTATT--TTATTTTTAAATCAAA
1 TATTTTT-TTAATTATTATTAAATCAAA
**
8686997 TAAATTTTTAA
1 TATTTTTTTAA
8687008 AATTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
25 5 0.17
26 23 0.77
27 2 0.07
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTTTTTTAATTATTATTAAATCAAA
Found at i:8687066 original size:67 final size:67
Alignment explanation
Indices: 8686946--8687112 Score: 266
Period size: 67 Copynumber: 2.5 Consensus size: 67
8686936 ATATATTTTT
* *
8686946 ATTTTTTTAATTA-TATTAAATCAAATATTTTTATTTTATTTTTAAATCAAATAAATTTTTAAAA
1 ATTTTATTAATTATTATT-AATCAAA-A-TATTATTTTATTTTTAAATCAAATAAATTTTTAAAA
8687010 TTAAA
63 TTAAA
8687015 ATTTTATTAATTATTATTAATCAAAATATTANTTTTA-TTTTAAATCAAATAAATTTTTAAAATT
1 ATTTTATTAATTATTATTAATCAAAATATTA-TTTTATTTTTAAATCAAATAAATTTTTAAAATT
8687079 AAA
65 AAA
8687082 ATTTTATTAATTATTATTAATCAAAATATTA
1 ATTTTATTAATTATTATTAATCAAAATATTA
8687113 ACATTAAATA
Statistics
Matches: 94, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
67 65 0.69
68 6 0.06
69 19 0.20
70 4 0.04
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.51
Consensus pattern (67 bp):
ATTTTATTAATTATTATTAATCAAAATATTATTTTATTTTTAAATCAAATAAATTTTTAAAATTA
AA
Found at i:8704840 original size:2 final size:2
Alignment explanation
Indices: 8704833--8704858 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8704823 TGATGATGTC
8704833 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
8704859 GACTGAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8705708 original size:14 final size:14
Alignment explanation
Indices: 8705680--8705717 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
8705670 AGAATAAATG
8705680 AATAAATAGAATAAA
1 AATAAATA-AATAAA
8705695 AATAAATAAATAAA
1 AATAAATAAATAAA
*
8705709 TATAAATAA
1 AATAAATAA
8705718 TAATATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
AATAAATAAATAAA
Found at i:8707020 original size:2 final size:2
Alignment explanation
Indices: 8707013--8707049 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8707003 AAAATTGTTA
8707013 AT AT AT AT 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 AT AT AT AT A
8707050 NCACTTTGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8707243 original size:251 final size:250
Alignment explanation
Indices: 8706800--8707297 Score: 978
Period size: 251 Copynumber: 2.0 Consensus size: 250
8706790 GGAATAGATT
8706800 CACTTTGGTCAAATAGACAATTAGGAAAGCCTATCTTATATATGTTACGAGAGATCTAAGGGTTG
1 CACTTTGGTCAAATAGACAATTAGGAAAGCCTATCTTATATATGTTACGAGAGATCTAAGGGTTG
8706865 GACGTGAAAGAGGGTTAACGGGATGAACTAATTTATGAAATAGGATATCCTTTATTACGTAATTT
66 GACGTGAAAGAGGGTTAACGGGATGAACTAATTTATGAAATAGGATATCCTTTATTACGTAATTT
8706930 AAAATATTTGTCTATGAAAAAACAAAATTATATTAGTAATTCTGTAAATAATAAATTATAGAATA
131 AAAATATTTGTCTATGAAAAAACAAAATTATATTAGTAATTCTGTAAATAATAAATTATAGAATA
8706995 AAGAAATCAAAATTGTTAATATATATATATATATATATATATATATATATATATA
196 AAGAAATCAAAATTGTTAATATATATATATATATATATATATATATATATATATA
8707050 NCACTTTGGTCAAATAGACAATTAGGAAAGCCTATCTTATATATGTTACGAGAGATCTAAGGGTT
1 -CACTTTGGTCAAATAGACAATTAGGAAAGCCTATCTTATATATGTTACGAGAGATCTAAGGGTT
8707115 GGACGTGAAAGAGGGTTAACGGGATGAACTAATTTATGAAATAGGATATCCTTTATTACGTAATT
65 GGACGTGAAAGAGGGTTAACGGGATGAACTAATTTATGAAATAGGATATCCTTTATTACGTAATT
8707180 TAAAATATTTGTCTATGAAAAAACAAAATTATATTAGTAATTCTGTAAATAATAAATTATAGAAT
130 TAAAATATTTGTCTATGAAAAAACAAAATTATATTAGTAATTCTGTAAATAATAAATTATAGAAT
*
8707245 AAAGAAATCAAAATTGTTTATATATATATATATATATATATATATATATATAT
195 AAAGAAATCAAAATTGTTAATATATATATATATATATATATATATATATATAT
8707298 TGGATTTAGA
Statistics
Matches: 246, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
251 246 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (250 bp):
CACTTTGGTCAAATAGACAATTAGGAAAGCCTATCTTATATATGTTACGAGAGATCTAAGGGTTG
GACGTGAAAGAGGGTTAACGGGATGAACTAATTTATGAAATAGGATATCCTTTATTACGTAATTT
AAAATATTTGTCTATGAAAAAACAAAATTATATTAGTAATTCTGTAAATAATAAATTATAGAATA
AAGAAATCAAAATTGTTAATATATATATATATATATATATATATATATATATATA
Found at i:8707270 original size:2 final size:2
Alignment explanation
Indices: 8707263--8707297 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8707253 CAAAATTGTT
8707263 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8707298 TGGATTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8709995 original size:33 final size:33
Alignment explanation
Indices: 8709953--8710019 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
8709943 AATCTTTTTG
8709953 ATTAACTTGGCTGCATAGGTTATGCACTATGTT
1 ATTAACTTGGCTGCATAGGTTATGCACTATGTT
8709986 ATTAACTTGGCTGCATAGGTTATGCACTATGTT
1 ATTAACTTGGCTGCATAGGTTATGCACTATGTT
8710019 A
1 A
8710020 CATCATGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (33 bp):
ATTAACTTGGCTGCATAGGTTATGCACTATGTT
Found at i:8714265 original size:31 final size:31
Alignment explanation
Indices: 8714230--8714617 Score: 261
Period size: 31 Copynumber: 12.5 Consensus size: 31
8714220 CAACTATTTA
*
8714230 GCGTGTGACAACATTTGACTTGATATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* * * *
8714261 GCGTGTCATAACATATAACTTGTTACT-CATG
1 GCGTGTCACAACATTTGACTTGATA-TGCATG
* * ** * * *
8714292 GCGTGTTAGAACATTTTTCTTGTTATCCTTG
1 GCGTGTCACAACATTTGACTTGATATGCATG
** * *
8714323 GCGTGTCACAAGTGTTTG-CTTGTTATGGATG
1 GCGTGTCACAA-CATTTGACTTGATATGCATG
* * *
8714354 GCGCGTCACAACATTTAACTTGTTATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* * * *
8714385 ACGTGTCATAACAATTTG-CTTGTTATGAATG
1 GCGTGTCACAAC-ATTTGACTTGATATGCATG
* * *
8714416 GCGTGTCACAACGTTTTACTT-ATTATGCATT
1 GCGTGTCACAACATTTGACTTGA-TATGCATG
* ** * *
8714447 GCGTGTCACAATAATTT-TTTTGTTATGGATG
1 GCGTGTCACAA-CATTTGACTTGATATGCATG
*
8714478 GCATGTCACAACATTTTG-CTT-ATTATGCATG
1 GCGTGTCACAACA-TTTGACTTGA-TATGCATG
* * * ** *
8714509 CCGTGTCACAGCATTTTA-GGGTATGTGCATG
1 GCGTGTCACAACATTTGACTTG-ATATGCATG
*
8714540 GCGTGTCACAACATTTTACTTGATATGCATG
1 GCGTGTCACAACATTTGACTTGATATGCATG
* * * *
8714571 GCGTGTGACAACATCTAACTTGATATGCACG
1 GCGTGTCACAACATTTGACTTGATATGCATG
8714602 GCGTGTCACAACATTT
1 GCGTGTCACAACATTT
8714618 TACTGTTTAT
Statistics
Matches: 275, Mismatches: 66, Indels: 32
0.74 0.18 0.09
Matches are distributed among these distances:
30 11 0.04
31 251 0.91
32 13 0.05
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (31 bp):
GCGTGTCACAACATTTGACTTGATATGCATG
Found at i:8714572 original size:93 final size:93
Alignment explanation
Indices: 8714230--8714628 Score: 317
Period size: 93 Copynumber: 4.3 Consensus size: 93
8714220 CAACTATTTA
* * * * * *
8714230 GCGTGTGACAACATTTGACTTGA-TATGCATGGCGTGTCATAACATATAACTTGTTACT-CATGG
1 GCGTGTCACAACATTTTACGT-ATTATGCATGGCGTGTCACAACATTTTACTTGTTA-TGCATGG
* * * * * *
8714293 CGTGTTAGAACATTTTTCTTGTTATCCTTG
64 CGTGTCACAACATTTTGCTTATTATGCATG
* * * * * * * *
8714323 GCGTGTCACAA-GTGTTTGCTTGTTATGGATGGCGCGTCACAACATTTAACTTGTTATGCATGAC
1 GCGTGTCACAACAT-TTTACGTATTATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGC
* * * *
8714387 GTGTCATAACAATTTGCTTGTTATGAATG
65 GTGTCACAACATTTTGCTTATTATGCATG
* * * * * *
8714416 GCGTGTCACAACGTTTTACTTATTATGCATTGCGTGTCACAATAATTTT-TTTGTTATGGATGGC
1 GCGTGTCACAACATTTTACGTATTATGCATGGCGTGTCACAA-CATTTTACTTGTTATGCATGGC
*
8714480 ATGTCACAACATTTTGCTTATTATGCATG
65 GTGTCACAACATTTTGCTTATTATGCATG
* * * * *
8714509 CCGTGTCACAGCATTTTAGGGTA-TGTGCATGGCGTGTCACAACATTTTACTTGATATGCATGGC
1 GCGTGTCACAACATTTTA-CGTATTATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGC
* * ** *
8714573 GTGTGACAACATCTAACTTGA-TATGCACG
65 GTGTCACAACATTTTGCTT-ATTATGCATG
8714602 GCGTGTCACAACATTTTACTGT-TTATG
1 GCGTGTCACAACATTTTAC-GTATTATG
8714629 GTTTGTGGTA
Statistics
Matches: 243, Mismatches: 53, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
92 7 0.03
93 227 0.93
94 9 0.04
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (93 bp):
GCGTGTCACAACATTTTACGTATTATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCG
TGTCACAACATTTTGCTTATTATGCATG
Found at i:8716208 original size:17 final size:16
Alignment explanation
Indices: 8716186--8716235 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
8716176 TTTTTTTAAT
*
8716186 ACAATTAATTTTATAC
1 ACAATTTATTTTATAC
** *
8716202 ACAAATTTATGGTAAAC
1 AC-AATTTATTTTATAC
8716219 ACAATTTATTTTATAC
1 ACAATTTATTTTATAC
8716235 A
1 A
8716236 ATTCATTGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (16 bp):
ACAATTTATTTTATAC
Found at i:8716249 original size:30 final size:32
Alignment explanation
Indices: 8716186--8716258 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 32
8716176 TTTTTTTAAT
*
8716186 ACAATTAATTTTATACACAAATTTATGGTAAAC
1 ACAATTAATTTTATA-ACAAATTCATGGTAAAC
* *
8716219 ACAATTTATTTTAT-AC-AATTCATTGTAAAC
1 ACAATTAATTTTATAACAAATTCATGGTAAAC
*
8716249 AGAATTAATT
1 ACAATTAATT
8716259 CTTTCTGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 20 0.57
31 2 0.06
33 13 0.37
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (32 bp):
ACAATTAATTTTATAACAAATTCATGGTAAAC
Found at i:8716543 original size:31 final size:31
Alignment explanation
Indices: 8716508--8716574 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
8716498 TGTGATGTCG
8716508 TAAATCCAATAACACTCAGCGTGTCAACCCA
1 TAAATCCAATAACACTCAGCGTGTCAACCCA
* * ** *
8716539 TAAATCTACTTGCACTTAGCGTGTCAACCCA
1 TAAATCCAATAACACTCAGCGTGTCAACCCA
8716570 TAAAT
1 TAAAT
8716575 TTGCTTCCAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.25
Consensus pattern (31 bp):
TAAATCCAATAACACTCAGCGTGTCAACCCA
Found at i:8716594 original size:31 final size:31
Alignment explanation
Indices: 8716520--8716595 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
8716510 AATCCAATAA
* *
8716520 CACTCAGCGTGTCAACCCATAAATCTACTTG
1 CACTCAACGTGTCAACCCATAAATCTACTTC
* * * *
8716551 CACTTAGCGTGTCAACCCATAAATTTGCTTC
1 CACTCAACGTGTCAACCCATAAATCTACTTC
*
8716582 CACTCAATGTGTCA
1 CACTCAACGTGTCA
8716596 GAACGATTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.29
Consensus pattern (31 bp):
CACTCAACGTGTCAACCCATAAATCTACTTC
Found at i:8716759 original size:31 final size:31
Alignment explanation
Indices: 8716717--8716868 Score: 151
Period size: 31 Copynumber: 4.7 Consensus size: 31
8716707 CCCACGATAC
* *
8716717 TGCATGACGTGTCATAACCTTTTACTTGTTA
1 TGCATGGCGTGTCATAACCTTTAACTTGTTA
* ** *
8716748 TGCATGGCGTGTCACAATGTTTAACTTATTATGCA
1 TGCATGGCGTGTCATAACCTTTAACTT-GT-T--A
**
8716783 TGGCATGGCGTGTCATAACCTTTTGCTTGTTA
1 T-GCATGGCGTGTCATAACCTTTAACTTGTTA
* * **
8716815 TGCATGGCATGTCACAAAGTTTAACTTGTTA
1 TGCATGGCGTGTCATAACCTTTAACTTGTTA
8716846 TGCATGGCGTGTCATAACCTTTA
1 TGCATGGCGTGTCATAACCTTTA
8716869 GCAGACAAAT
Statistics
Matches: 94, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
31 65 0.69
32 3 0.03
33 1 0.01
34 1 0.01
35 3 0.03
36 21 0.22
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (31 bp):
TGCATGGCGTGTCATAACCTTTAACTTGTTA
Found at i:8716796 original size:36 final size:36
Alignment explanation
Indices: 8716749--8716853 Score: 112
Period size: 36 Copynumber: 3.1 Consensus size: 36
8716739 TACTTGTTAT
* *
8716749 GCATGGCGTGTCACAATGTTTAACTTATTATGCATG
1 GCATGGCGTGTCACAAAGTTTAACTTGTTATGCATG
* ** **
8716785 GCATGGCGTGTCATAACCTTTTGCTTGTTATGCATG
1 GCATGGCGTGTCACAAAGTTTAACTTGTTATGCATG
8716821 GCA-----TGTCACAAAGTTTAACTTGTTATGCATG
1 GCATGGCGTGTCACAAAGTTTAACTTGTTATGCATG
8716852 GC
1 GC
8716854 GTGTCATAAC
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
31 25 0.43
36 33 0.57
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (36 bp):
GCATGGCGTGTCACAAAGTTTAACTTGTTATGCATG
Found at i:8716797 original size:67 final size:67
Alignment explanation
Indices: 8716718--8716853 Score: 227
Period size: 67 Copynumber: 2.0 Consensus size: 67
8716708 CCACGATACT
* *
8716718 GCATGACGTGTCATAACCTTTTACTTGTTATGCATGGCGTGTCACAATGTTTAACTTATTATGCA
1 GCATGACGTGTCATAACCTTTTACTTGTTATGCATGGCATGTCACAAAGTTTAACTTATTATGCA
8716783 TG
66 TG
* * *
8716785 GCATGGCGTGTCATAACCTTTTGCTTGTTATGCATGGCATGTCACAAAGTTTAACTTGTTATGCA
1 GCATGACGTGTCATAACCTTTTACTTGTTATGCATGGCATGTCACAAAGTTTAACTTATTATGCA
8716850 TG
66 TG
8716852 GC
1 GC
8716854 GTGTCATAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (67 bp):
GCATGACGTGTCATAACCTTTTACTTGTTATGCATGGCATGTCACAAAGTTTAACTTATTATGCA
TG
Found at i:8720101 original size:23 final size:23
Alignment explanation
Indices: 8720025--8720098 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
8720015 AAATGTTGTA
8720025 ACACGCCATGCATCAGTATCGTG
1 ACACGCCATGCATCAGTATCGTG
8720048 ACACGCCATGCATCAGTATCGTG
1 ACACGCCATGCATCAGTATCGTG
*
8720071 ACACGTCATGCATCAGTATCGTG
1 ACACGCCATGCATCAGTATCGTG
8720094 ACACG
1 ACACG
8720099 TCAATCACTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (23 bp):
ACACGCCATGCATCAGTATCGTG
Found at i:8720224 original size:55 final size:55
Alignment explanation
Indices: 8720147--8720292 Score: 184
Period size: 55 Copynumber: 2.7 Consensus size: 55
8720137 GTGACACACT
*
8720147 AAAAACCCAAAAAACCAGTTAACCCACGACACGCCAAGAACAGTCGTGACATGCC
1 AAAAACCCAAAAAACCAATTAACCCACGACACGCCAAGAACAGTCGTGACATGCC
* ** * * *
8720202 AAAAACCCATAAATTCAATTAACCCACGACATGCCAAGAACAGTCGTGACACGCT
1 AAAAACCCAAAAAACCAATTAACCCACGACACGCCAAGAACAGTCGTGACATGCC
* * * * *
8720257 AATAACTCAAAAAACTAGTTAACCCACAACACGCCA
1 AAAAACCCAAAAAACCAATTAACCCACGACACGCCA
8720293 TGAAAAACTG
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 75 1.00
ACGTcount: A:0.45, C:0.31, G:0.12, T:0.13
Consensus pattern (55 bp):
AAAAACCCAAAAAACCAATTAACCCACGACACGCCAAGAACAGTCGTGACATGCC
Found at i:8722660 original size:23 final size:25
Alignment explanation
Indices: 8722634--8722679 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8722624 TATGATCAAT
8722634 TTAAA-TAAAA-AATATTTAAAAAA
1 TTAAATTAAAATAATATTTAAAAAA
*
8722657 TTAAATTAAAATAATTTTTAAAA
1 TTAAATTAAAATAATATTTAAAA
8722680 TTAAAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 5 0.25
25 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
TTAAATTAAAATAATATTTAAAAAA
Found at i:8723599 original size:30 final size:30
Alignment explanation
Indices: 8723545--8723602 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8723535 ACAATTAGTA
*
8723545 ATAAGAACTAATTTGACTCAAAATAAAAAT
1 ATAAGAACTAATTTAACTCAAAATAAAAAT
* * *
8723575 ATAATAACTTATTTAACTTAAAATAAAA
1 ATAAGAACTAATTTAACTCAAAATAAAA
8723603 GTATTGAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (30 bp):
ATAAGAACTAATTTAACTCAAAATAAAAAT
Found at i:8724487 original size:3 final size:3
Alignment explanation
Indices: 8724472--8724501 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8724462 CTTAAACATT
*
8724472 TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8724502 AAGTTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:8740360 original size:14 final size:14
Alignment explanation
Indices: 8740341--8740367 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8740331 TAAATCCCTT
8740341 CAAACTACCAAAAA
1 CAAACTACCAAAAA
8740355 CAAACTACCAAAA
1 CAAACTACCAAAA
8740368 CCAGTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.30, G:0.00, T:0.07
Consensus pattern (14 bp):
CAAACTACCAAAAA
Found at i:8740971 original size:22 final size:22
Alignment explanation
Indices: 8740922--8740974 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
8740912 TTGGAGAATG
8740922 TAGAGGTTTTAGAAAGTACACC
1 TAGAGGTTTTAGAAAGTACACC
* * ** *
8740944 TCGAGGTTTTAGATAGTGTACT
1 TAGAGGTTTTAGAAAGTACACC
8740966 TAGAGGTTT
1 TAGAGGTTT
8740975 CATAAGTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.36
Consensus pattern (22 bp):
TAGAGGTTTTAGAAAGTACACC
Found at i:8741086 original size:21 final size:20
Alignment explanation
Indices: 8741048--8741096 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
8741038 AGATTGTATT
8741048 TGAAGG-TTTCATAAGTACA
1 TGAAGGTTTTCATAAGTACA
* *
8741067 TGAAGGTTTTACATATGTACC
1 TGAAGGTTTT-CATAAGTACA
*
8741088 TGGAGGTTT
1 TGAAGGTTT
8741097 GAAGATGTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.24
20 3 0.12
21 16 0.64
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (20 bp):
TGAAGGTTTTCATAAGTACA
Found at i:8741265 original size:23 final size:23
Alignment explanation
Indices: 8741235--8741325 Score: 100
Period size: 23 Copynumber: 4.1 Consensus size: 23
8741225 TGATGTTAGT
8741235 TACCTAGAGGTTTTATAAGAATG
1 TACCTAGAGGTTTTATAAGAATG
*
8741258 TACCTAGAGGTTTCATAAGAATG
1 TACCTAGAGGTTTTATAAGAATG
*
8741281 TA-CTCGGAGGTTTTA-AA-AATG
1 TACCT-AGAGGTTTTATAAGAATG
* * *
8741302 TACTTAGAGATTTT-TGAGAATG
1 TACCTAGAGGTTTTATAAGAATG
8741324 TA
1 TA
8741326 ATTGGAGGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
21 14 0.25
22 11 0.19
23 32 0.56
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (23 bp):
TACCTAGAGGTTTTATAAGAATG
Found at i:8741303 original size:21 final size:21
Alignment explanation
Indices: 8741241--8741474 Score: 78
Period size: 22 Copynumber: 10.8 Consensus size: 21
8741231 TAGTTACCTA
*
8741241 GAGGTTTTATAAGAATGTAC-CTA
1 GAGGTTTTA-AA-AATGTACTC-G
*
8741264 GAGGTTTCATAAGAATGTACTCG
1 GAGGTTT--TAAAAATGTACTCG
**
8741287 GAGGTTTTAAAAATGTACTTA
1 GAGGTTTTAAAAATGTACTCG
* * * * *
8741308 GAGATTTTTGAGAATGTAATTG
1 GAG-GTTTTAAAAATGTACTCG
** * *
8741330 GAGGTTTTGGAGATGTACTTG
1 GAGGTTTTAAAAATGTACTCG
* * * * *
8741351 AAAGTTTTAGAGATATACTCG
1 GAGGTTTTAAAAATGTACTCG
* * * * *
8741372 AAGGTTTTGAATACGTA-TATG
1 GAGGTTTTAAAAATGTACT-CG
* *
8741393 GAGGTTTTAGAACATGTACCCG
1 GAGGTTTTA-AAAATGTACTCG
* * *
8741415 AAGGTTTTAGAACATGTACCCG
1 GAGGTTTTA-AAAATGTACTCG
* *
8741437 AAGGTTTTAGAAAATGCACTCG
1 GAGGTTTTA-AAAATGTACTCG
*
8741459 AAGGTTTT-AAAATGTA
1 GAGGTTTTAAAAATGTA
8741475 TACTTGGAGG
Statistics
Matches: 166, Mismatches: 38, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
20 8 0.05
21 62 0.37
22 71 0.43
23 21 0.13
24 2 0.01
25 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (21 bp):
GAGGTTTTAAAAATGTACTCG
Found at i:8741333 original size:43 final size:46
Alignment explanation
Indices: 8741241--8741337 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 46
8741231 TAGTTACCTA
* *
8741241 GAGGTTTTATAAGAATGTACCTAGAGGTTTCATAAGAATGTACTCG
1 GAGGTTTTATAAGAATGTACCTAGAGATTTCATAAGAATGTAATCG
* * * *
8741287 GAGGTTTTA-AA-AATGTACTTAGAGATTT-TTGAGAATGTAATTG
1 GAGGTTTTATAAGAATGTACCTAGAGATTTCATAAGAATGTAATCG
8741330 GAGGTTTT
1 GAGGTTTT
8741338 GGAGATGTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 19 0.42
44 15 0.33
45 2 0.04
46 9 0.20
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (46 bp):
GAGGTTTTATAAGAATGTACCTAGAGATTTCATAAGAATGTAATCG
Found at i:8741422 original size:22 final size:22
Alignment explanation
Indices: 8741394--8741474 Score: 121
Period size: 22 Copynumber: 3.8 Consensus size: 22
8741384 ACGTATATGG
8741394 AGGTTTTAGAACATGTACCCGA
1 AGGTTTTAGAACATGTACCCGA
8741416 AGGTTTTAGAACATGTACCCGA
1 AGGTTTTAGAACATGTACCCGA
* * *
8741438 AGGTTTTAGAAAATGCACTCGA
1 AGGTTTTAGAACATGTACCCGA
8741460 AGGTTTTA-AA-ATGTA
1 AGGTTTTAGAACATGTA
8741475 TACTTGGAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.07
21 2 0.04
22 49 0.89
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (22 bp):
AGGTTTTAGAACATGTACCCGA
Found at i:8741486 original size:44 final size:43
Alignment explanation
Indices: 8741367--8741487 Score: 120
Period size: 44 Copynumber: 2.8 Consensus size: 43
8741357 TTAGAGATAT
* * * *
8741367 ACTCGAAGGTTTTGAATACGTATA-TGGAGGTTTTAGAACATGT
1 ACTCGAAGGTTTT-AAAATGTATACTGGAGGTTTTAGAAAATGC
* * * *
8741410 ACCCGAAGGTTTTAGAACATGTA-CCCGAAGGTTTTAGAAAATGC
1 ACTCGAAGGTTTTA-AA-ATGTATACTGGAGGTTTTAGAAAATGC
8741454 ACTCGAAGGTTTTAAAATGTATACTTGGAGGTTT
1 ACTCGAAGGTTTTAAAATGTATAC-TGGAGGTTT
8741488 CATAAGAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
42 6 0.10
43 16 0.26
44 39 0.64
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.32
Consensus pattern (43 bp):
ACTCGAAGGTTTTAAAATGTATACTGGAGGTTTTAGAAAATGC
Found at i:8743964 original size:14 final size:14
Alignment explanation
Indices: 8743941--8743973 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8743931 ATTGACTCAC
*
8743941 TTAAATTAATTAAA
1 TTAAAATAATTAAA
8743955 TTAAAATAATTAAA
1 TTAAAATAATTAAA
8743969 -TAAAA
1 TTAAAA
8743974 CTTACTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TTAAAATAATTAAA
Found at i:8744570 original size:126 final size:125
Alignment explanation
Indices: 8744389--8744639 Score: 493
Period size: 126 Copynumber: 2.0 Consensus size: 125
8744379 TGTTCCATCA
8744389 AACACTTCAAAAATTCAAACTTGGTCCAAAATGAATTGAATGATTTAAAAGGATAATTTTGGCAA
1 AACACTTCAAAAATTCAAACTTGGTCCAAAATGAATTGAATGATTTAAAAGGATAATTTTGGCAA
8744454 AAAAAAAGAAGTCAAGGTCTCACTTTATATATGATGATCTCTTTTTATAAGAAAGTTCTT
66 AAAAAAAGAAGTCAAGGTCTCACTTTATATATGATGATCTCTTTTTATAAGAAAGTTCTT
8744514 NAACACTTCAAAAATTCAAACTTGGTCCAAAATGAATTGAATGATTTAAAAGGATAATTTTGGCA
1 -AACACTTCAAAAATTCAAACTTGGTCCAAAATGAATTGAATGATTTAAAAGGATAATTTTGGCA
8744579 AAAAAAAAGAAGTCAAGGTCTCACTTTATATATGATGATCTCTTTTTATAAGAAAGTTCTT
65 AAAAAAAAGAAGTCAAGGTCTCACTTTATATATGATGATCTCTTTTTATAAGAAAGTTCTT
8744640 TAATTTAAGT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 125 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (125 bp):
AACACTTCAAAAATTCAAACTTGGTCCAAAATGAATTGAATGATTTAAAAGGATAATTTTGGCAA
AAAAAAAGAAGTCAAGGTCTCACTTTATATATGATGATCTCTTTTTATAAGAAAGTTCTT
Found at i:8749844 original size:19 final size:19
Alignment explanation
Indices: 8749820--8749856 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8749810 CTTCTAAACT
8749820 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
8749839 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
8749857 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:8769635 original size:46 final size:45
Alignment explanation
Indices: 8769560--8769655 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 45
8769550 CACAAGCTAA
*
8769560 AATTAAAAAATCTTACCTTTACTTACTTGATTCCTTGAAATCCAAC
1 AATT-AAAAAGCTTACCTTTACTTACTTGATTCCTTGAAATCCAAC
*
8769606 AANTTAAAAAGCTTACCTTTACTTGCTTGATTCCTTGAAATCCAAC
1 AA-TTAAAAAGCTTACCTTTACTTACTTGATTCCTTGAAATCCAAC
8769652 AATT
1 AATT
8769656 TCTCTTAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
45 2 0.04
46 43 0.91
47 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.36
Consensus pattern (45 bp):
AATTAAAAAGCTTACCTTTACTTACTTGATTCCTTGAAATCCAAC
Found at i:8781394 original size:19 final size:19
Alignment explanation
Indices: 8781367--8781413 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
8781357 TACCAAAGAG
*
8781367 ATAAGATAAAATTTGTA-GA
1 ATAAAATAAAATTT-TATGA
* *
8781386 ATAAAATAATATTTTATTA
1 ATAAAATAAAATTTTATGA
8781405 ATAAAATAA
1 ATAAAATAA
8781414 TATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
ATAAAATAAAATTTTATGA
Found at i:8781984 original size:2 final size:2
Alignment explanation
Indices: 8781977--8782012 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8781967 GAAAGAAATA
8781977 AT 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 AT
8782013 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8791053 original size:28 final size:29
Alignment explanation
Indices: 8790997--8791055 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
8790987 TTTTTGAAAT
* *
8790997 TTACACTTTTACCCCTATAAAGTAAAAAA
1 TTACACTTTTACCCCTAAAAACTAAAAAA
* *
8791026 TTACATTTTTACCCC-AAAAACTGAAAAA
1 TTACACTTTTACCCCTAAAAACTAAAAAA
8791054 TT
1 TT
8791056 GCCCATTGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.32
Consensus pattern (29 bp):
TTACACTTTTACCCCTAAAAACTAAAAAA
Found at i:8791245 original size:19 final size:19
Alignment explanation
Indices: 8791221--8791258 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8791211 CTGCCAAACC
*
8791221 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
8791240 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
8791259 AGTTAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:8791827 original size:34 final size:34
Alignment explanation
Indices: 8791788--8791862 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
8791778 GGAAAAGAGA
**
8791788 GCCATTTAAGGGCTGATTTTAAAGGCTGAAAAGT
1 GCCATTTAAGGGCTGATTTTAAAGGCCAAAAAGT
**** *
8791822 GCCATTTTTTTGCTGATTTTAGAGGCCAAAAAGT
1 GCCATTTAAGGGCTGATTTTAAAGGCCAAAAAGT
8791856 GCCATTT
1 GCCATTT
8791863 TTCTACTGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (34 bp):
GCCATTTAAGGGCTGATTTTAAAGGCCAAAAAGT
Found at i:8791863 original size:34 final size:34
Alignment explanation
Indices: 8791799--8791890 Score: 121
Period size: 34 Copynumber: 2.7 Consensus size: 34
8791789 CCATTTAAGG
* ** *
8791799 GCTGATTTTAAAGGCTGAAAAGTGCCATTTTTTT
1 GCTGATTTTAGAGGCCAAAAAGTGCCATTTTTCT
8791833 GCTGATTTTAGAGGCCAAAAAGTGCCATTTTTCT
1 GCTGATTTTAGAGGCCAAAAAGTGCCATTTTTCT
* * *
8791867 ACTGGTTTTGGAGGCCAAAAAGTG
1 GCTGATTTTAGAGGCCAAAAAGTG
8791891 TAAAATTTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 51 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (34 bp):
GCTGATTTTAGAGGCCAAAAAGTGCCATTTTTCT
Found at i:8795766 original size:37 final size:37
Alignment explanation
Indices: 8795662--8795782 Score: 120
Period size: 37 Copynumber: 3.2 Consensus size: 37
8795652 AATTCTAATG
* * * *
8795662 AAAAATTCCATTAGAAATTCATTAGTAATTTTCAACA
1 AAAAATTCCATTGGAAATCCATTCGTAATTTCCAACA
* * *
8795699 GAAAATTTCGA-AGGAAAATCCATTCGTAATTTCCAACA
1 -AAAAATTCCATTGG-AAATCCATTCGTAATTTCCAACA
*
8795737 AAAAATTCCATTGGAAATCCA-TCGTTAATTTCCAACG
1 AAAAATTCCATTGGAAATCCATTCG-TAATTTCCAACA
*
8795774 AAAATTTCC
1 AAAAATTCC
8795783 GTCGAACATT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
36 3 0.04
37 35 0.51
38 30 0.44
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (37 bp):
AAAAATTCCATTGGAAATCCATTCGTAATTTCCAACA
Found at i:8797916 original size:60 final size:59
Alignment explanation
Indices: 8797854--8798252 Score: 419
Period size: 60 Copynumber: 6.6 Consensus size: 59
8797844 TCTGAAATAA
* * *
8797854 GTCGAACCTAGATTAAGTCTAAGAATTTCAAATTTCTAAGTCAAATCTGTTTTGAGATAA
1 GTCGAACCTAGATTAAGTCTAAGAATTTCAAATTT-TAAATCAAACCTGTTTTGAGATAG
* * *
8797914 GTC-AAGCCTAGATTATGTCTATGAATTTCAAATTTTTAAATCAAACCTGTTTTAAGATAG
1 GTCGAA-CCTAGATTAAGTCTAAGAATTTCAAA-TTTTAAATCAAACCTGTTTTGAGATAG
* * * *
8797974 GTCGAGCCTAAATTAAGTCTAAGAATTTCAAAATTTTAAATCAATCCAT-TTTTCAGATAG
1 GTCGAACCTAGATTAAGTCTAAGAATTTC-AAATTTTAAATCAAACC-TGTTTTGAGATAG
* * *
8798034 GTCGAGA-ATAGATTAAGTCTAGGAATTTCAAATTTCTAAATCAAACCTGTTTTGAGATAA
1 GTCGA-ACCTAGATTAAGTCTAAGAATTTCAAATTT-TAAATCAAACCTGTTTTGAGATAG
* * * * * *
8798094 CTCAAACGTAGATTAAGTCT-AGAAATTTCAAATTTCTAAATCAAACTTATTTAGAGATAG
1 GTCGAACCTAGATTAAGTCTAAG-AATTTCAAATTT-TAAATCAAACCTGTTTTGAGATAG
** * * * *
8798154 GTTAAACCTAGATTAAGTTTAGGATTTTCAAATTTTCAAATCAAACCTATTTTGAGATAG
1 GTCGAACCTAGATTAAGTCTAAGAATTTCAAATTTT-AAATCAAACCTGTTTTGAGATAG
* * *
8798214 GTCGAGCCTAGATTAAGTCTAAAAATTTTAAACTTTTAA
1 GTCGAACCTAGATTAAGTCTAAGAATTTCAAA-TTTTAA
8798253 GTAAATTCGA
Statistics
Matches: 283, Mismatches: 43, Indels: 26
0.80 0.12 0.07
Matches are distributed among these distances:
59 12 0.04
60 258 0.91
61 13 0.05
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (59 bp):
GTCGAACCTAGATTAAGTCTAAGAATTTCAAATTTTAAATCAAACCTGTTTTGAGATAG
Found at i:8798171 original size:180 final size:180
Alignment explanation
Indices: 8797862--8798241 Score: 500
Period size: 180 Copynumber: 2.1 Consensus size: 180
8797852 AAGTCGAACC
* * * *
8797862 TAGATTAAGTCTAAGAATTTCAAATTTCTAAGTCAAATCTGTTTTGAGATAAGTCAAGCCTAGAT
1 TAGATTAAGTCTAAGAATTTCAAATTTCTAAATCAAACCTGTTTTGAGATAACTCAAACCTAGAT
* * * *
8797927 TATGTCTATGAATTTCAAATTTTTAAATCAAACCTGTTTTAAGATAGGTCGAGCCTAAATTAAGT
66 TAAGTCTATGAATTTCAAATTTCTAAATCAAACCTGTTTTAAGATAGGTCAAACCTAAATTAAGT
*
8797992 CTAAGAATTTCAAAATTTT-AAATCAATCC-ATTTTTCAGATAGGTCGAGAA
131 CTAAGAATTTC-AAATTTTCAAATCAAACCTA-TTTTCAGATAGGTCGAGAA
* *
8798042 TAGATTAAGTCTAGGAATTTCAAATTTCTAAATCAAACCTGTTTTGAGATAACTCAAACGTAGAT
1 TAGATTAAGTCTAAGAATTTCAAATTTCTAAATCAAACCTGTTTTGAGATAACTCAAACCTAGAT
* *
8798107 TAAGTCTA-GAAATTTCAAATTTCTAAATCAAA-CT-TATTTAGAGATAGGTTAAACCTAGATTA
66 TAAGTCTATG-AATTTCAAATTTCTAAATCAAACCTGT-TTTA-AGATAGGTCAAACCTAAATTA
* * * * **
8798169 AGTTTAGGATTTTCAAATTTTCAAATCAAACCTATTTTGAGATAGGTCGAGCC
128 AGTCTAAGAATTTCAAATTTTCAAATCAAACCTATTTTCAGATAGGTCGAGAA
*
8798222 TAGATTAAGTCTAAAAATTT
1 TAGATTAAGTCTAAGAATTT
8798242 TAAACTTTTA
Statistics
Matches: 174, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
178 1 0.01
179 14 0.08
180 158 0.91
181 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.36
Consensus pattern (180 bp):
TAGATTAAGTCTAAGAATTTCAAATTTCTAAATCAAACCTGTTTTGAGATAACTCAAACCTAGAT
TAAGTCTATGAATTTCAAATTTCTAAATCAAACCTGTTTTAAGATAGGTCAAACCTAAATTAAGT
CTAAGAATTTCAAATTTTCAAATCAAACCTATTTTCAGATAGGTCGAGAA
Found at i:8811830 original size:19 final size:19
Alignment explanation
Indices: 8811806--8811843 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8811796 CTGCCAAACC
*
8811806 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
8811825 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
8811844 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:8814237 original size:19 final size:20
Alignment explanation
Indices: 8814213--8814252 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
8814203 CCATTTGACT
8814213 TATTGGAGTATGATTT-AAG
1 TATTGGAGTATGATTTGAAG
8814232 TATTGGAGTATGATTTGAAG
1 TATTGGAGTATGATTTGAAG
8814252 T
1 T
8814253 TTAGAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (20 bp):
TATTGGAGTATGATTTGAAG
Found at i:8818501 original size:28 final size:27
Alignment explanation
Indices: 8818462--8818514 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
8818452 ATGTCCTGAT
*
8818462 GGTGGAAAATTACAATTTTGCCCTTGG
1 GGTGGAAAATTACAATTTTACCCTTGG
*
8818489 GGTGGCAAAATTACCATTTTACCCTT
1 GGTGG-AAAATTACAATTTTACCCTT
8818515 TTACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCTTGG
Found at i:8818584 original size:20 final size:20
Alignment explanation
Indices: 8818559--8818604 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
8818549 CTTCTAAACC
8818559 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
8818579 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
8818599 TCAAAT
1 TCAAAT
8818605 GGGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:8819298 original size:17 final size:17
Alignment explanation
Indices: 8819279--8819311 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8819269 TTTTTAAATA
*
8819279 AAAAT-ACATATGTAGG
1 AAAATAACATATATAGG
8819295 AAAATAACATATATAGG
1 AAAATAACATATATAGG
8819312 TATCTATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.24
Consensus pattern (17 bp):
AAAATAACATATATAGG
Found at i:8819670 original size:20 final size:20
Alignment explanation
Indices: 8819623--8819670 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
8819613 AAAAAAAAGC
8819623 ATAAAATAAAAAAGAAAATA
1 ATAAAATAAAAAAGAAAATA
** *
8819643 ATTTAATAAAAAA-ATAATA
1 ATAAAATAAAAAAGAAAATA
8819662 ATGAAAATA
1 AT-AAAATA
8819671 GGGTATGAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (20 bp):
ATAAAATAAAAAAGAAAATA
Found at i:8822543 original size:21 final size:20
Alignment explanation
Indices: 8822519--8822566 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
8822509 ATCTTACCTT
*
8822519 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
8822540 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
8822561 TTTTTC
1 TTTTTC
8822567 CATCTAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:8822566 original size:22 final size:22
Alignment explanation
Indices: 8822524--8822564 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8822514 ACCTTTTTTT
*
8822524 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
8822546 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
8822565 TCCATCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:8826073 original size:32 final size:33
Alignment explanation
Indices: 8826037--8826105 Score: 97
Period size: 32 Copynumber: 2.1 Consensus size: 33
8826027 GTCATATAAT
8826037 CAATTCC-CTTTTCAAGGTGGACAAGAAAATC-A
1 CAATTCCTC-TTTCAAGGTGGACAAGAAAATCAA
* *
8826069 CAATTTCTCTTTCAGGGTGGACAAGAAAATCAA
1 CAATTCCTCTTTCAAGGTGGACAAGAAAATCAA
8826102 CAAT
1 CAAT
8826106 GGATATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 27 0.82
33 6 0.18
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (33 bp):
CAATTCCTCTTTCAAGGTGGACAAGAAAATCAA
Found at i:8826137 original size:96 final size:95
Alignment explanation
Indices: 8825974--8826164 Score: 319
Period size: 96 Copynumber: 2.0 Consensus size: 95
8825964 ATCAAATGAT
* *
8825974 CAATTTCTCTTTCAGGATGAACAAGAAATCAACAATGGATATTTCTATTGCTAGTCATATAATCA
1 CAATTTCTCTTTCAGGATGAACAAGAAATCAACAATGGATATTTCTATTACTAATCATATAATCA
*
8826039 ATTCCCTTTTCAAGGTGGACAAGAAAATCA
66 ATTCACTTTTCAAGGTGGACAAGAAAATCA
* *
8826069 CAATTTCTCTTTCAGGGTGGACAAGAAAATCAACAATGGATATTTCTATTACTAATCATATAATC
1 CAATTTCTCTTTCAGGATGAACAAG-AAATCAACAATGGATATTTCTATTACTAATCATATAATC
*
8826134 AATTCATTTTTCAAGGTGGACAAGAAAATCA
65 AATTCACTTTTCAAGGTGGACAAGAAAATCA
8826165 ACAACATATT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 23 0.26
96 66 0.74
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (95 bp):
CAATTTCTCTTTCAGGATGAACAAGAAATCAACAATGGATATTTCTATTACTAATCATATAATCA
ATTCACTTTTCAAGGTGGACAAGAAAATCA
Found at i:8826421 original size:27 final size:27
Alignment explanation
Indices: 8826378--8826447 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
8826368 TCTTGTGGGT
*
8826378 TAGTGGGCT-AAGGTATCCATCCACTTC
1 TAGTGGG-TAAAGTTATCCATCCACTTC
*
8826405 TAGTGGGTAAAGTTATCTATCCACTTC
1 TAGTGGGTAAAGTTATCCATCCACTTC
*
8826432 TAGTGGATAAAGTTAT
1 TAGTGGGTAAAGTTAT
8826448 TATTAGAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (27 bp):
TAGTGGGTAAAGTTATCCATCCACTTC
Found at i:8827124 original size:16 final size:17
Alignment explanation
Indices: 8827103--8827137 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
8827093 GATTAAATTA
*
8827103 TAATCTTCATCC-AATC
1 TAATCTACATCCAAATC
8827119 TAATCTACATCCAAATC
1 TAATCTACATCCAAATC
8827136 TA
1 TA
8827138 GATATACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (17 bp):
TAATCTACATCCAAATC
Found at i:8828234 original size:14 final size:15
Alignment explanation
Indices: 8828205--8828246 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
8828195 CAATAGCATT
*
8828205 TTTTTAAAGAACAAA
1 TTTTTAAAGAAAAAA
8828220 TTTTTAAA-AAAAAA
1 TTTTTAAAGAAAAAA
*
8828234 -TCTTAAAGAAAAA
1 TTTTTAAAGAAAAA
8828247 CTCCAAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (15 bp):
TTTTTAAAGAAAAAA
Found at i:8848656 original size:27 final size:26
Alignment explanation
Indices: 8848507--8848695 Score: 101
Period size: 27 Copynumber: 7.0 Consensus size: 26
8848497 CAAAAACGCG
* * *
8848507 CAGGGGTGTTCCAAACGTGGAAGCGCC
1 CAGGGGCGTTCCAAGCGTAGAAGCG-C
* *
8848534 CAGGGGCATTCCAAGCATAGAAGCGC
1 CAGGGGCGTTCCAAGCGTAGAAGCGC
**
8848560 CTAGGGGCGTTCCAAGTATAGAAGTAC-C
1 C-AGGGGCGTTCCAAGCGTAGAAG--CGC
* * * * * *
8848588 CAAGGACGTTCCAAGAGCATAAGTGC
1 CAGGGGCGTTCCAAGCGTAGAAGCGC
* * *
8848614 CTAGGGGCATTTCAAGCGTGGAAGCGC
1 C-AGGGGCGTTCCAAGCGTAGAAGCGC
* * * *
8848641 TCAGGGGCGTTCCAAGTGCAAAAGCAC
1 -CAGGGGCGTTCCAAGCGTAGAAGCGC
* * *
8848668 CTAAGGGTGTTCCAAGCGTAAAAGCGC
1 C-AGGGGCGTTCCAAGCGTAGAAGCGC
8848695 C
1 C
8848696 CAAAGAGCGT
Statistics
Matches: 120, Mismatches: 35, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
26 5 0.04
27 111 0.93
28 3 0.03
29 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.31, T:0.16
Consensus pattern (26 bp):
CAGGGGCGTTCCAAGCGTAGAAGCGC
Found at i:8848680 original size:81 final size:81
Alignment explanation
Indices: 8848535--8848683 Score: 192
Period size: 81 Copynumber: 1.8 Consensus size: 81
8848525 GGAAGCGCCC
* * *
8848535 AGGGGCATTCCAAGCATAGAAGCGCCTAGGGGCGTTCCAAGTATAGAAGTACCCAAGGACGTTCC
1 AGGGGCATTCCAAGCATAGAAGCGCCTAGGGGCGTTCCAAGTACAAAAGCACCCAAGGACGTTCC
8848600 AAGAGCATAAGTGCCT
66 AAGAGCATAAGTGCCT
* * * * * **
8848616 AGGGGCATTTCAAGCGTGGAAGCG-CTCAGGGGCGTTCCAAGTGCAAAAGCACCTAAGGGTGTTC
1 AGGGGCATTCCAAGCATAGAAGCGCCT-AGGGGCGTTCCAAGTACAAAAGCACCCAAGGACGTTC
8848680 CAAG
65 CAAG
8848684 CGTAAAAGCG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 2 0.04
81 55 0.96
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (81 bp):
AGGGGCATTCCAAGCATAGAAGCGCCTAGGGGCGTTCCAAGTACAAAAGCACCCAAGGACGTTCC
AAGAGCATAAGTGCCT
Found at i:8848686 original size:54 final size:53
Alignment explanation
Indices: 8848508--8848697 Score: 157
Period size: 54 Copynumber: 3.5 Consensus size: 53
8848498 AAAAACGCGC
* * *
8848508 AGGGGTGTTCCAAACGTGGAAGCGCCCAGGGGCATTCCAA-GCATAGAAGCGCCT
1 AGGGGCGTTCCAAGCGTGGAAGCGCCCAGGGGCGTTCCAAGGCA-A-AAGCGCCT
** * ** * * * *
8848562 AGGGGCGTTCCAAGTATAGAAGTACCCAAGGACGTTCCAAGAGCATAAGTGCCT
1 AGGGGCGTTCCAAGCGTGGAAGCGCCCAGGGGCGTTCCAAG-GCAAAAGCGCCT
* * * *
8848616 AGGGGCATTTCAAGCGTGGAAGCGCTCAGGGGCGTTCCAAGTGCAAAAGCACCT
1 AGGGGCGTTCCAAGCGTGGAAGCGCCCAGGGGCGTTCCAAG-GCAAAAGCGCCT
* * **
8848670 AAGGGTGTTCCAAGCGTAAAAGCGCCCA
1 AGGGGCGTTCCAAGCGTGGAAGCGCCCA
8848698 AAGAGCGTTA
Statistics
Matches: 101, Mismatches: 33, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
54 98 0.97
56 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.31, T:0.16
Consensus pattern (53 bp):
AGGGGCGTTCCAAGCGTGGAAGCGCCCAGGGGCGTTCCAAGGCAAAAGCGCCT
Found at i:8849833 original size:27 final size:26
Alignment explanation
Indices: 8849803--8849885 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
8849793 TGCGCTATTA
8849803 GCCACAAGTTTAATCGCTCACTTCTTG
1 GCCACAAGTTT-ATCGCTCACTTCTTG
* * ** * *
8849830 GCCA-TAGTTT-GCTATTCACATATTG
1 GCCACAAGTTTATC-GCTCACTTCTTG
8849855 GCCACAAGCTTTATCGCTCACTTCTTG
1 GCCACAAG-TTTATCGCTCACTTCTTG
8849882 GCCA
1 GCCA
8849886 TGGTTTGCTA
Statistics
Matches: 40, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
24 1 0.03
25 12 0.30
26 7 0.17
27 19 0.47
28 1 0.03
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.34
Consensus pattern (26 bp):
GCCACAAGTTTATCGCTCACTTCTTG
Found at i:8849860 original size:52 final size:52
Alignment explanation
Indices: 8849798--8849901 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
8849788 AATATTGCGC
8849798 TATTAGCCACAAG-TTTAATCGCTCACTTCTTGGCCATAGTTTGCTATTCACA
1 TATTAGCCACAAGCTTT-ATCGCTCACTTCTTGGCCATAGTTTGCTATTCACA
* *
8849850 TATTGGCCACAAGCTTTATCGCTCACTTCTTGGCCATGGTTTGCTATTCACA
1 TATTAGCCACAAGCTTTATCGCTCACTTCTTGGCCATAGTTTGCTATTCACA
8849902 AAAAGGCCGT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 46 0.94
53 3 0.06
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (52 bp):
TATTAGCCACAAGCTTTATCGCTCACTTCTTGGCCATAGTTTGCTATTCACA
Found at i:8849925 original size:52 final size:52
Alignment explanation
Indices: 8849803--8849927 Score: 126
Period size: 52 Copynumber: 2.4 Consensus size: 52
8849793 TGCGCTATTA
* * * * **
8849803 GCCACAAGTTTAATCGCTCACTTCTTGGCCATAGTTTGCTATTCACATATTG
1 GCCACAAGCTGAAACGCTCACTTCTTGGCCATAGTTTGCTATTCACAAAAAG
** * *
8849855 GCCACAAGCTTTATCGCTCACTTCTTGGCCATGGTTTGCTATTCACAAAAAG
1 GCCACAAGCTGAAACGCTCACTTCTTGGCCATAGTTTGCTATTCACAAAAAG
**
8849907 GCCGTAA-CATGAAACGCTCAC
1 GCCACAAGC-TGAAACGCTCAC
8849928 ATAATATGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 1 0.02
52 60 0.98
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (52 bp):
GCCACAAGCTGAAACGCTCACTTCTTGGCCATAGTTTGCTATTCACAAAAAG
Found at i:8854061 original size:39 final size:39
Alignment explanation
Indices: 8854006--8854097 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 39
8853996 CGAGATTTAA
***
8854006 TCTCGCTGCAGCGAAATTGTGACCCAGAAACAGAAAGTT
1 TCTCGCTGCAGCGAAATTAAAACCCAGAAACAGAAAGTT
* *
8854045 TCTCGCTGCAGTGAAATTAAAACCCAGAAATAGAAAGTT
1 TCTCGCTGCAGCGAAATTAAAACCCAGAAACAGAAAGTT
*
8854084 TCTCACTGCAGCGA
1 TCTCGCTGCAGCGA
8854098 GAATGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (39 bp):
TCTCGCTGCAGCGAAATTAAAACCCAGAAACAGAAAGTT
Found at i:8854538 original size:43 final size:44
Alignment explanation
Indices: 8854490--8854598 Score: 161
Period size: 43 Copynumber: 2.5 Consensus size: 44
8854480 TCACTAGCTC
** *
8854490 ATGCGCACTCCCTACTCGCACATGGCT-GGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATGAATCGGGTCATC-CTCGGCTT
8854533 ATGCGCACTCCCTACTCGCACA-GAATCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATGAATCGGGTCATCCTCGGCTT
8854576 ATGCGCACTCCCTACTCGCACAT
1 ATGCGCACTCCCTACTCGCACAT
8854599 AGCCGAGTCA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
42 3 0.05
43 57 0.95
ACGTcount: A:0.18, C:0.38, G:0.21, T:0.23
Consensus pattern (44 bp):
ATGCGCACTCCCTACTCGCACATGAATCGGGTCATCCTCGGCTT
Found at i:8858437 original size:44 final size:42
Alignment explanation
Indices: 8858334--8858442 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 42
8858324 GTGCTAGTAG
* *
8858334 TGTGCGGTGTGGGAGTGCAC---ACGCTGATGATATATGCCA
1 TGTGCGGTGTGGGAGTGCACATGATGCTGATGATATATGCAA
* ** *
8858373 TGTGCGGTGTAGGAAAGCACATGATGCTGATGATGATATTGTAA
1 TGTGCGGTGTGGGAGTGCACATGATGCTGATGAT-ATA-TGCAA
*
8858417 TGTGCAGTGTGGGAGTGCACATGATG
1 TGTGCGGTGTGGGAGTGCACATGATG
8858443 ACCTAGCTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
39 17 0.31
42 10 0.18
43 3 0.05
44 25 0.45
ACGTcount: A:0.24, C:0.13, G:0.36, T:0.28
Consensus pattern (42 bp):
TGTGCGGTGTGGGAGTGCACATGATGCTGATGATATATGCAA
Found at i:8861430 original size:5 final size:5
Alignment explanation
Indices: 8861420--8861444 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8861410 CTCCTTTTAT
8861420 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
8861445 CAAGTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:8862874 original size:19 final size:19
Alignment explanation
Indices: 8862850--8862887 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8862840 CCATTTGACT
8862850 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
8862869 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
8862888 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:8865122 original size:2 final size:2
Alignment explanation
Indices: 8865115--8865139 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8865105 TGACTATAAA
8865115 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 A
8865140 ATAAATAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8865491 original size:27 final size:27
Alignment explanation
Indices: 8865418--8865496 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
8865408 ATTCCCACTT
* *
8865418 GGGGTGTTCCAAACGTGGAAGTGCCTA
1 GGGGTGTTCCAAGCGTAGAAGTGCCTA
** * *
8865445 GGGGCATTCCAAGCATAGAAGTGTCTA
1 GGGGTGTTCCAAGCGTAGAAGTGCCTA
* *
8865472 GGGGTGTTCCAAGCGCAGAAATGCC
1 GGGGTGTTCCAAGCGTAGAAGTGCC
8865497 CAAGGGCGTT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.20
Consensus pattern (27 bp):
GGGGTGTTCCAAGCGTAGAAGTGCCTA
Found at i:8865517 original size:54 final size:54
Alignment explanation
Indices: 8865418--8865538 Score: 125
Period size: 54 Copynumber: 2.2 Consensus size: 54
8865408 ATTCCCACTT
* ** * * * * *
8865418 GGGGTGTTCCAAACGTGGAAGTGCCTAGGGGCATTCCAAGCATAGAAGTGTCTA
1 GGGGTGTTCCAAGCGCAGAAATGCCCAAGGGCATTCCAAGCATAGAAGCGTCCA
* * *
8865472 GGGGTGTTCCAAGCGCAGAAATGCCCAAGGGCGTTCTAAGTATAGAAGCGTCCA
1 GGGGTGTTCCAAGCGCAGAAATGCCCAAGGGCATTCCAAGCATAGAAGCGTCCA
* *
8865526 AGAGTGTTCCAAG
1 GGGGTGTTCCAAG
8865539 TGTGGAAGCA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (54 bp):
GGGGTGTTCCAAGCGCAGAAATGCCCAAGGGCATTCCAAGCATAGAAGCGTCCA
Found at i:8865588 original size:27 final size:27
Alignment explanation
Indices: 8865473--8865588 Score: 88
Period size: 27 Copynumber: 4.3 Consensus size: 27
8865463 AAGTGTCTAG
* **
8865473 GGGTGTTCCAAGCGCAGAAATGCCCAA
1 GGGTGTTCCAAGTGCAGAAGCGCCCAA
* * ** *
8865500 GGGCGTTCTAAGTATAGAAGCGTCCAA
1 GGGTGTTCCAAGTGCAGAAGCGCCCAA
* ** *
8865527 GAGTGTTCCAAGTGTGGAAGCACCCAA
1 GGGTGTTCCAAGTGCAGAAGCGCCCAA
** * *
8865554 AAGCGTTCCAAGTGCATAAGCGCCCAA
1 GGGTGTTCCAAGTGCAGAAGCGCCCAA
8865581 GGGTGTTC
1 GGGTGTTC
8865589 TAAGCGTAGA
Statistics
Matches: 65, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.19
Consensus pattern (27 bp):
GGGTGTTCCAAGTGCAGAAGCGCCCAA
Found at i:8866561 original size:27 final size:26
Alignment explanation
Indices: 8866483--8866563 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
8866473 TAATTCAATT
* *
8866483 TTTGATTAATTCAATCATTTTTTTAAA
1 TTTGATAAATTCGATCA-TTTTTTAAA
* * * * *
8866510 TTTGATCAGTTCGATCCTCTCTTTAAG
1 TTTGATAAATTCGATCAT-TTTTTAAA
8866537 TTTGATAAATTCGATCGATTTTTTAAA
1 TTTGATAAATTCGATC-ATTTTTTAAA
8866564 GAAATCCGTT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.49
Consensus pattern (26 bp):
TTTGATAAATTCGATCATTTTTTAAA
Found at i:8871076 original size:4 final size:4
Alignment explanation
Indices: 8871067--8871091 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8871057 GGAAACATCT
8871067 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
8871092 CTTTTCATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:8889812 original size:35 final size:35
Alignment explanation
Indices: 8889773--8889894 Score: 136
Period size: 35 Copynumber: 3.5 Consensus size: 35
8889763 AACAACCATT
* * *
8889773 ACAAGTGAAACACTATTTTATGCAAAACAACTAAA
1 ACAAGTGAAGCACTACTTCATGCAAAACAACTAAA
* * *
8889808 ACAAGTGAAGTACTACTTCATGCAGAACAACTAGA
1 ACAAGTGAAGCACTACTTCATGCAAAACAACTAAA
* * **
8889843 ACAAGTGAAGCACTACTTCACGTAAAACATTTAAA
1 ACAAGTGAAGCACTACTTCATGCAAAACAACTAAA
* *
8889878 ATAAGTGGAGCACTACT
1 ACAAGTGAAGCACTACT
8889895 CTATATGGAA
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (35 bp):
ACAAGTGAAGCACTACTTCATGCAAAACAACTAAA
Found at i:8890159 original size:29 final size:29
Alignment explanation
Indices: 8890126--8890194 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
8890116 TGTTCTCGTA
*
8890126 TACCTATTCACATACACCTTCTTTTCTTG
1 TACCTATTCACATACACCTTCTTTTATTG
** *
8890155 TACCTATTCATGTACAGCTTCTTTTATTG
1 TACCTATTCACATACACCTTCTTTTATTG
*
8890184 TACCTTTTCAC
1 TACCTATTCAC
8890195 GTATACCTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.20, C:0.28, G:0.06, T:0.46
Consensus pattern (29 bp):
TACCTATTCACATACACCTTCTTTTATTG
Found at i:8895909 original size:30 final size:30
Alignment explanation
Indices: 8895875--8895943 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
8895865 AGACAGCTAC
* *
8895875 ATGTTACTACCTAAAGCATTATTGGCTAAG
1 ATGTTACTACCTAAAGCATTACTAGCTAAG
* * * *
8895905 ATGTTACTATCTAAGGTATTACTAGTTAAG
1 ATGTTACTACCTAAAGCATTACTAGCTAAG
8895935 ATGTTACTA
1 ATGTTACTA
8895944 ACCAAGGTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (30 bp):
ATGTTACTACCTAAAGCATTACTAGCTAAG
Found at i:8895918 original size:15 final size:16
Alignment explanation
Indices: 8895900--8895943 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
8895890 GCATTATTGG
8895900 CTAAGATGTTACTA-T
1 CTAAGATGTTACTAGT
* *
8895915 CTAAGGTATTACTAGT
1 CTAAGATGTTACTAGT
8895931 -TAAGATGTTACTA
1 CTAAGATGTTACTA
8895944 ACCAAGGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (16 bp):
CTAAGATGTTACTAGT
Found at i:8904297 original size:23 final size:23
Alignment explanation
Indices: 8904271--8904333 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
8904261 GTGAAACAGT
8904271 ATGGTGGGAATGTGTGACATGGC
1 ATGGTGGGAATGTGTGACATGGC
*
8904294 ATGGTGGGAATGTGTGACATGTC
1 ATGGTGGGAATGTGTGACATGGC
* *
8904317 ATGGTGAGAATATGTGA
1 ATGGTGGGAATGTGTGA
8904334 TACGGCTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.25, C:0.06, G:0.40, T:0.29
Consensus pattern (23 bp):
ATGGTGGGAATGTGTGACATGGC
Done.