Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 36 of 378
Found at i:9028163 original size:111 final size:111
Alignment explanation
Indices: 9027963--9028163 Score: 260
Period size: 111 Copynumber: 1.8 Consensus size: 111
9027953 GAAAGTATAG
* * * * *
9027963 GTAATATTAAATTTAAATGTTTAAAAAGCAGAATAATAATAAATAAATAAATGGACAAAACAAAT
1 GTAATATTAAATTTAAATATTTAAAAAGCAAAAGAATAATAAATAAATAAATAGACAAAACAAAA
** **
9028028 AATATTGAATTTAAGTATTTAAAAAAGGTAAAAGAAAAAGAAACAA
66 AATATAAAATTTAAGTATAAAAAAAAGGTAAAAGAAAAAGAAACAA
* * * * *
9028074 GTAATATTAAATTTAATTATTT-AAAAGTAAAAGAATAAATAAATAAATAGATAGATAAGACAAA
1 GTAATATTAAATTTAAATATTTAAAAAGCAAAAGAAT-AATAAATAAATAAATAGACAAAACAAA
9028138 AAATATAAAATTTAAGTATAAAAAAA
65 AAATATAAAATTTAAGTATAAAAAAA
9028164 TAAATGAATA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
110 11 0.15
111 64 0.85
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.27
Consensus pattern (111 bp):
GTAATATTAAATTTAAATATTTAAAAAGCAAAAGAATAATAAATAAATAAATAGACAAAACAAAA
AATATAAAATTTAAGTATAAAAAAAAGGTAAAAGAAAAAGAAACAA
Found at i:9028175 original size:63 final size:63
Alignment explanation
Indices: 9028076--9028259 Score: 181
Period size: 63 Copynumber: 2.8 Consensus size: 63
9028066 AGAAACAAGT
* * ** * *
9028076 AATATTAAATTTAATTATTTAAAAGTAAAAGAATAAATAAATAAATAGATAGATAAGACAAAA
1 AATATAAAATTTAAGTATAAAAAAATAAAAGAATAAATAAATAAATAAATAGATAAGACAAAA
* *
9028139 AATATAAAATTTAAGTATAAAAAAATAAATGAATAAATAACTAAATAAATAGATAAGACAACTAT
1 AATATAAAATTTAAGTATAAAAAAATAAAAGAATAAATAAATAAATAAATAGATAAGAC-A--A-
9028204 GAA
62 -AA
* * * *
9028207 TAATATCAAATTTAAATATTAAAAAAGGTAAAATAAT-AATAAATAAATAAATA
1 -AATATAAAATTTAAGTA-TAAAAAA-ATAAAAGAATAAATAAATAAATAAATA
9028260 AAATTCTTCA
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
63 51 0.52
64 1 0.01
66 1 0.01
68 2 0.02
69 15 0.15
70 22 0.22
71 7 0.07
ACGTcount: A:0.63, C:0.03, G:0.07, T:0.28
Consensus pattern (63 bp):
AATATAAAATTTAAGTATAAAAAAATAAAAGAATAAATAAATAAATAAATAGATAAGACAAAA
Found at i:9029576 original size:15 final size:16
Alignment explanation
Indices: 9029556--9029600 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
9029546 TGGACTATTT
9029556 TTTTA-TTTTATTATC
1 TTTTATTTTTATTATC
*
9029571 TTTTATTTTTATTATT
1 TTTTATTTTTATTATC
9029587 TGGTTTATTTTTAT
1 T--TTTATTTTTAT
9029601 CCTGGCCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 5 0.19
16 10 0.38
18 11 0.42
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTATTATC
Found at i:9029958 original size:50 final size:50
Alignment explanation
Indices: 9029896--9030118 Score: 144
Period size: 50 Copynumber: 4.6 Consensus size: 50
9029886 TTAGTCTATT
*
9029896 CCACTGGAACTTCAGAGAGATAAGACTTGCTATGGTAGATTTAATCTGAC
1 CCACTGCAACTTCAGAGAGATAAGACTTGCTATGGTAGATTTAATCTGAC
* ** * * * * *
9029946 CCACTGTAACTTCAGAGCTATAGGACTTGC------CGCTTCAGTCTG-C
1 CCACTGCAACTTCAGAGAGATAAGACTTGCTATGGTAGATTTAATCTGAC
* * * * * *
9029989 TCCAC-GCAACTTCAGGGAGATAAGATTTG-TAGCTTGTAGCTTTAGTCT-ATT
1 -CCACTGCAACTTCAGAGAGATAAGACTTGCTA--TGGTAGATTTAATCTGA-C
* * * *
9030040 CCATTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGAC
1 CCACTGCAACTTCAGAGAGATAAGACTTGCTATGGTAGATTTAATCTGAC
*
9030090 CCACTGCAACTTCAAAG-GTATAAGACTTG
1 CCACTGCAACTTCAGAGAG-ATAAGACTTG
9030119 TCGCTTCAAC
Statistics
Matches: 131, Mismatches: 27, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
43 19 0.15
44 12 0.09
49 1 0.01
50 73 0.56
51 24 0.18
52 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (50 bp):
CCACTGCAACTTCAGAGAGATAAGACTTGCTATGGTAGATTTAATCTGAC
Found at i:9030034 original size:144 final size:144
Alignment explanation
Indices: 9029849--9030206 Score: 536
Period size: 144 Copynumber: 2.5 Consensus size: 144
9029839 TCTGCTTTAC
* * * *
9029849 CGCAACTTTAAGGAGATAAGATTTGTAACATGTAACTTTAGTCTATTCCACTGGAACTTCAGAGA
1 CGCAACTTCAAGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTATTCCACTGCAACTTCAGAGA
* * * *
9029914 GATAAGACTTGCTATGGTAGATTTAATCTGACCCACTGTAACTTCAGAGCTATAGGACTTGCCGC
66 GATAAGACTTGCTATGGTAGATTTAATCCGACCCACTGCAACTTCAAAGCTATAAGACTTGCCGC
**
9029979 TTCAGTCTGCTCCA
131 TTCAACCTGCTCCA
* * * *
9029993 CGCAACTTCAGGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTATTCCATTGCAACTTCAGGGA
1 CGCAACTTCAAGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTATTCCACTGCAACTTCAGAGA
* * *
9030058 GATAAGACTTGTTATGGTAGATTTAATCCGACCCACTGCAACTTCAAAGGTATAAGACTTGTCGC
66 GATAAGACTTGCTATGGTAGATTTAATCCGACCCACTGCAACTTCAAAGCTATAAGACTTGCCGC
* *
9030123 TTCAACCTGTTTCA
131 TTCAACCTGCTCCA
9030137 CTGCAACTTCAAGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTATTCCACTGCAACTTCAGAG
1 C-GCAACTTCAAGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTATTCCACTGCAACTTCAGAG
9030202 AGATA
65 AGATA
9030207 GGATTTGTAT
Statistics
Matches: 190, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
144 126 0.66
145 64 0.34
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (144 bp):
CGCAACTTCAAGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTATTCCACTGCAACTTCAGAGA
GATAAGACTTGCTATGGTAGATTTAATCCGACCCACTGCAACTTCAAAGCTATAAGACTTGCCGC
TTCAACCTGCTCCA
Found at i:9030057 original size:51 final size:51
Alignment explanation
Indices: 9029989--9030215 Score: 183
Period size: 51 Copynumber: 4.6 Consensus size: 51
9029979 TTCAGTCTGC
*
9029989 TCCAC-GCAACTTCAGGGAGATAAGATTTGTAGCTTGTAGCTTTAGTCTAT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTAT
* * * * *
9030039 TCCATTGCAACTTCAGGGAGATAAGACTTGTTA--TGGTAGA-TTTAATCCGA-
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTGTA-ACTTTAGT-CTAT
* * * * * * *
9030089 CCCACTGCAACTTCAAAGG-TATAAGACTTGTCGCTT-CAAC-CT-G--T-T
1 TCCACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTAT
*
9030134 T-CACTGCAACTTCAAGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTAT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTAT
* *
9030184 TCCACTGCAACTTCAGAGAGATAGGATTTGTA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTA
9030216 TCTTCAATCC
Statistics
Matches: 135, Mismatches: 25, Indels: 33
0.70 0.13 0.17
Matches are distributed among these distances:
43 4 0.03
44 26 0.19
45 3 0.02
46 1 0.01
47 1 0.01
49 4 0.03
50 38 0.28
51 56 0.41
52 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTGTAACTTTAGTCTAT
Found at i:9030222 original size:95 final size:95
Alignment explanation
Indices: 9030090--9030263 Score: 208
Period size: 95 Copynumber: 1.8 Consensus size: 95
9030080 TTAATCCGAC
* ** *
9030090 CCACTGCAACTTCAAAGGTATAAGACTTGTCGCTTCAA-CCTGTTTCACTGCAACTTCAAGGAGA
1 CCACTGCAACTTCAAAGGTATAAGACTTGTAGCTTCAATCC-ACTCCACTGCAACTTCAAGGAGA
*
9030154 TAAGATTTGTAGCTTGTAACTTTAGTCTATT
65 TAAGATTTATAGCTTGTAACTTTAGTCTATT
* * * * * *
9030185 CCACTGCAACTTCAGAGAG-ATAGGATTTGTATCTTCAATCCACTCCACTGCAACTTTAGGGAGA
1 CCACTGCAACTTCAAAG-GTATAAGACTTGTAGCTTCAATCCACTCCACTGCAACTTCAAGGAGA
*
9030249 TGAGATTTATAGCTT
65 TAAGATTTATAGCTT
9030264 CAACCCGCTC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
95 62 0.95
96 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (95 bp):
CCACTGCAACTTCAAAGGTATAAGACTTGTAGCTTCAATCCACTCCACTGCAACTTCAAGGAGAT
AAGATTTATAGCTTGTAACTTTAGTCTATT
Found at i:9030234 original size:44 final size:45
Alignment explanation
Indices: 9030184--9030307 Score: 164
Period size: 44 Copynumber: 2.8 Consensus size: 45
9030174 TTTAGTCTAT
* * *
9030184 TCCACTGCAACTTCAGAGAGATAG-GATTTGTATCTTCAATCCAC
1 TCCACTGCAACTTCAGAGAGATAGAGATTTATAGCTTCAACCCAC
* * *
9030228 TCCACTGCAACTTTAGGGAGAT-GAGATTTATAGCTTCAACCCGC
1 TCCACTGCAACTTCAGAGAGATAGAGATTTATAGCTTCAACCCAC
*
9030272 TCCACTGCAACTTCAGAGAGATA-AGGTTTATAGCTT
1 TCCACTGCAACTTCAGAGAGATAGAGATTTATAGCTT
9030308 TAATCTGCTC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 68 0.99
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
TCCACTGCAACTTCAGAGAGATAGAGATTTATAGCTTCAACCCAC
Found at i:9030323 original size:44 final size:43
Alignment explanation
Indices: 9030184--9030323 Score: 163
Period size: 44 Copynumber: 3.2 Consensus size: 43
9030174 TTTAGTCTAT
* * *
9030184 TCCACTGCAACTTCAGAGAGATAGGATTTGTATCTTCAATCCAC
1 TCCACTGCAACTTCAGAGAGATAGG-TTTATAGCTTCAATCCGC
* * * *
9030228 TCCACTGCAACTTTAGGGAGATGAGATTTATAGCTTCAACCCGC
1 TCCACTGCAACTTCAGAGAGAT-AGGTTTATAGCTTCAATCCGC
* *
9030272 TCCACTGCAACTTCAGAGAGATAAGGTTTATAGCTTTAATCTGC
1 TCCACTGCAACTTCAGAGAGAT-AGGTTTATAGCTTCAATCCGC
*
9030316 TCTACTGC
1 TCCACTGC
9030324 TGTAACACCC
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
44 78 0.98
45 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
TCCACTGCAACTTCAGAGAGATAGGTTTATAGCTTCAATCCGC
Found at i:9033442 original size:45 final size:44
Alignment explanation
Indices: 9033378--9033541 Score: 127
Period size: 44 Copynumber: 3.7 Consensus size: 44
9033368 ATGTTACAAC
* *
9033378 TGCAACTTCAGAGAGATAAGATTTGCTAACTTCAATCTGCTCCAT
1 TGCAACTTCAGAGAGATAAGACTTG-TAACTTCAACCTGCTCCAT
* * *
9033423 TGCAACTTTAG-GTAGATAAGACTTGTGACTTCAACCTGCTCTAT
1 TGCAACTTCAGAG-AGATAAGACTTGTAACTTCAACCTGCTCCAT
* * * * ** * *
9033467 TGTAACTTCA-AGGAGATAAGGA-TTATAGCTTTAATTTGCTCTAC
1 TGCAACTTCAGA-GAGATAA-GACTTGTAACTTCAACCTGCTCCAT
* * *
9033511 TGCAACTTAAGAGAGATAAGATTTGTGACTT
1 TGCAACTTCAGAGAGATAAGACTTGTAACTT
9033542 GTAACTTTAA
Statistics
Matches: 94, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
43 2 0.02
44 67 0.71
45 25 0.27
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (44 bp):
TGCAACTTCAGAGAGATAAGACTTGTAACTTCAACCTGCTCCAT
Found at i:9033484 original size:44 final size:44
Alignment explanation
Indices: 9033378--9033486 Score: 130
Period size: 44 Copynumber: 2.4 Consensus size: 44
9033368 ATGTTACAAC
* *
9033378 TGCAACTTCAGAGAGATAAGATTTGCTAACTTCAATCTGCTCCAT
1 TGCAACTTCAG-GAGATAAGACTTGCTAACTTCAACCTGCTCCAT
* * *
9033423 TGCAACTTTAGGTAGATAAGACTTG-TGACTTCAACCTGCTCTAT
1 TGCAACTTCAGG-AGATAAGACTTGCTAACTTCAACCTGCTCCAT
*
9033467 TGTAACTTCAAGGAGATAAG
1 TGCAACTTC-AGGAGATAAG
9033487 GATTATAGCT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
44 31 0.56
45 24 0.44
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGGAGATAAGACTTGCTAACTTCAACCTGCTCCAT
Found at i:9039840 original size:16 final size:16
Alignment explanation
Indices: 9039819--9039853 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
9039809 AAGCCAAATC
9039819 ACATGGCTTAGCTTAA
1 ACATGGCTTAGCTTAA
9039835 ACATGGCTTAGCTTAA
1 ACATGGCTTAGCTTAA
9039851 ACA
1 ACA
9039854 CAAAAATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (16 bp):
ACATGGCTTAGCTTAA
Found at i:9040468 original size:45 final size:45
Alignment explanation
Indices: 9040417--9040509 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
9040407 CCTGAGCTGA
* **
9040417 TGAACAGTAAGCTC-TATTGAGCTGAAACGATAAGCTCTTTCGAGC
1 TGAACAGTAAGCTCATA-CGAGCTGAAACGATAAGCTCTCACGAGC
* *
9040462 TGAACAGTAAGCTCATACGAGTTGAAACGGTAAGCTCTCACGAGC
1 TGAACAGTAAGCTCATACGAGCTGAAACGATAAGCTCTCACGAGC
9040507 TGA
1 TGA
9040510 TATATCGGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (45 bp):
TGAACAGTAAGCTCATACGAGCTGAAACGATAAGCTCTCACGAGC
Found at i:9040504 original size:23 final size:22
Alignment explanation
Indices: 9040423--9040524 Score: 89
Period size: 23 Copynumber: 4.4 Consensus size: 22
9040413 CTGATGAACA
*
9040423 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTA-CGAGCTGAAACG
* * *
9040446 ATAAGCTCTTTCGAGCTG-AACA
1 GTAAGCTC-TACGAGCTGAAACG
*
9040468 GTAAGCTCATACGAGTTGAAACG
1 GTAAGCTC-TACGAGCTGAAACG
9040491 GTAAGCTCTCACGAGCTGATATATCG
1 GTAAGCTCT-ACGAGCTGA-A-A-CG
9040517 GTAAGCTC
1 GTAAGCTC
9040525 ATGTGAGCTG
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
22 18 0.29
23 32 0.51
24 2 0.03
25 1 0.02
26 10 0.16
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (22 bp):
GTAAGCTCTACGAGCTGAAACG
Found at i:9045221 original size:23 final size:23
Alignment explanation
Indices: 9045190--9045280 Score: 103
Period size: 23 Copynumber: 3.9 Consensus size: 23
9045180 ATACACAAAT
* * *
9045190 TCCAACCAAACACACTAGAATGA
1 TCCATCCAAACACACCAGAATAA
*
9045213 TCCATCCAAACACACCCAAAATAA
1 TCCATCCAAACACA-CCAGAATAA
*
9045237 TCC-TCCCAAACACACTAGAATAA
1 TCCAT-CCAAACACACCAGAATAA
*
9045260 TCCACCCAAACACACCAGAAT
1 TCCATCCAAACACACCAGAAT
9045281 GGCACTAAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
23 39 0.68
24 18 0.32
ACGTcount: A:0.46, C:0.36, G:0.04, T:0.13
Consensus pattern (23 bp):
TCCATCCAAACACACCAGAATAA
Found at i:9045868 original size:25 final size:26
Alignment explanation
Indices: 9045834--9045882 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
9045824 CACTCTCTGT
9045834 TTCTTTTTATGCT-TTGTTT-CTTTTA
1 TTCTTTTTATG-TGTTGTTTACTTTTA
9045859 TTCTTTTTATGTGTTGTTTACTTT
1 TTCTTTTTATGTGTTGTTTACTTT
9045883 ATTAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 1 0.05
25 17 0.77
26 4 0.18
ACGTcount: A:0.08, C:0.10, G:0.10, T:0.71
Consensus pattern (26 bp):
TTCTTTTTATGTGTTGTTTACTTTTA
Found at i:9045891 original size:25 final size:25
Alignment explanation
Indices: 9045838--9045893 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
9045828 CTCTGTTTCT
**
9045838 TTTTATGCTTTGTTTCTTTTATTCT
1 TTTTATGCTTTGTTTCTTTTATTAG
9045863 TTTTATG-TGTTGTTTAC-TTTATTAG
1 TTTTATGCT-TTGTTT-CTTTTATTAG
9045888 TTTTAT
1 TTTTAT
9045894 AATAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 25 0.93
26 1 0.04
ACGTcount: A:0.12, C:0.07, G:0.11, T:0.70
Consensus pattern (25 bp):
TTTTATGCTTTGTTTCTTTTATTAG
Found at i:9046977 original size:28 final size:31
Alignment explanation
Indices: 9046914--9046983 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 31
9046904 GTACAAAAAT
9046914 ATCACTAAACTATTGACTTTGTTCTATTTTA
1 ATCACTAAACTATTGACTTTGTTCTATTTTA
* * * *
9046945 GTCACTCAATTATT-ACTTT-TTTTA-TTTA
1 ATCACTAAACTATTGACTTTGTTCTATTTTA
9046973 ATCACTAAACT
1 ATCACTAAACT
9046984 TTTCAAAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 12 0.38
29 4 0.12
30 5 0.16
31 11 0.34
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (31 bp):
ATCACTAAACTATTGACTTTGTTCTATTTTA
Found at i:9053131 original size:28 final size:28
Alignment explanation
Indices: 9053074--9053171 Score: 83
Period size: 28 Copynumber: 3.5 Consensus size: 28
9053064 AATTTTAATT
* *
9053074 AAAATT-TTAAATATTAAAAATTAGAAA
1 AAAATTGTAAAATATTAAAAAATAGAAA
* * *
9053101 AAAA-TGTAGAAATGTTAAAAAATATATA
1 AAAATTGTA-AAATATTAAAAAATAGAAA
* *
9053129 AAAATTGTAAAATTTTATAAAAATCGTAAA
1 AAAATTGTAAAATATTA-AAAAATAG-AAA
*
9053159 AAAATTATAAAAT
1 AAAATTGTAAAAT
9053172 GTATAGAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
26 1 0.02
27 5 0.09
28 26 0.46
29 10 0.18
30 14 0.25
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (28 bp):
AAAATTGTAAAATATTAAAAAATAGAAA
Found at i:9053140 original size:19 final size:19
Alignment explanation
Indices: 9053118--9053197 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
9053108 AGAAATGTTA
9053118 AAAAATATATAAAAATTGT
1 AAAAATATATAAAAATTGT
* * *
9053137 AAAATTTTATAAAAATCGT
1 AAAAATATATAAAAATTGT
*
9053156 AAAAAAAT-TATAAAA-TGT
1 AAAAATATATA-AAAATTGT
*
9053174 ATAGAAATATA-AAAAATTAT
1 A-A-AAATATATAAAAATTGT
9053194 AAAA
1 AAAA
9053198 TTTTATAAAG
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
18 7 0.15
19 31 0.66
20 9 0.19
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAAATATATAAAAATTGT
Found at i:9053170 original size:9 final size:9
Alignment explanation
Indices: 9053118--9053197 Score: 56
Period size: 9 Copynumber: 8.4 Consensus size: 9
9053108 AGAAATGTTA
9053118 AAAAATATAT
1 AAAAAT-TAT
*
9053128 AAAAATTGT
1 AAAAATTAT
*
9053137 AAAATTTTAT
1 AAAA-ATTAT
*
9053147 AAAAATCGTAA
1 AAAAAT--TAT
9053158 AAAAATTAT
1 AAAAATTAT
9053167 -AAAATGTAT
1 AAAAAT-TAT
*
9053176 AGAAA-TAT
1 AAAAATTAT
9053184 AAAAAATTAT
1 -AAAAATTAT
9053194 AAAA
1 AAAA
9053198 TTTTATAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
8 8 0.15
9 20 0.36
10 19 0.35
11 8 0.15
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9053229 original size:58 final size:57
Alignment explanation
Indices: 9053110--9053244 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 57
9053100 AAAAATGTAG
* *
9053110 AAATGTTAAA-AAATATATAAAAATTGTAAAATTTTATAAAAATCGTAAAAAAATTATA
1 AAATG-TAAAGAAATATA-AAAAATTATAAAATTTTATAAAAATCGCAAAAAAATTATA
* * *
9053168 AAATGTATAGAAATATAAAAAATTATAAAATTTTAT-AAAGTCGCAAGAAAATTATACA
1 AAATGTAAAGAAATATAAAAAATTATAAAATTTTATAAAAATCGCAAAAAAATTAT--A
9053226 AAATGTAAAGAAATATAAA
1 AAATGTAAAGAAATATAAA
9053245 TTTTGTAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
56 16 0.24
57 21 0.31
58 31 0.46
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (57 bp):
AAATGTAAAGAAATATAAAAAATTATAAAATTTTATAAAAATCGCAAAAAAATTATA
Found at i:9053648 original size:89 final size:89
Alignment explanation
Indices: 9053543--9053709 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 89
9053533 TTTTATTTTC
9053543 AGGGTCTTTTTTATGCATTTTAAAAGTTCAAATACCCAATTGAGTG-GAAAAAAATA-GGGGCTT
1 AGGGTCTTTTTTATGCATTTTAAAAGTTCAAAT-CCCAATTGAGTGCGAAAAAAA-AGGGGGCTT
*
9053606 AATTGCTGTTTTTTTGAAGAAGTTTG
64 AATTGCTATTTTTTTGAAGAAGTTTG
* * *
9053632 AGGGT-TTTTTTGATGCATTTTAAAAGTTCAAGTGCTAATTGAGTGCGAAAAAAAAGGGGGCTTA
1 AGGGTCTTTTTT-ATGCATTTTAAAAGTTCAAATCCCAATTGAGTGCGAAAAAAAAGGGGGCTTA
*
9053696 ATTGTTATTTTTTT
65 ATTGCTATTTTTTT
9053710 AAAGTTTGAG
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
88 17 0.24
89 53 0.76
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (89 bp):
AGGGTCTTTTTTATGCATTTTAAAAGTTCAAATCCCAATTGAGTGCGAAAAAAAAGGGGGCTTAA
TTGCTATTTTTTTGAAGAAGTTTG
Found at i:9054846 original size:21 final size:22
Alignment explanation
Indices: 9054817--9054857 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9054807 TCTTGTAGTT
*
9054817 TTAAGTAGCTTAATTAAGTTCA
1 TTAAGTAGCTCAATTAAGTTCA
9054839 TTAA-TAGCTCAATTAAGTT
1 TTAAGTAGCTCAATTAAGTT
9054858 GAATGTGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (22 bp):
TTAAGTAGCTCAATTAAGTTCA
Found at i:9055722 original size:468 final size:468
Alignment explanation
Indices: 9054941--9055829 Score: 1505
Period size: 468 Copynumber: 1.9 Consensus size: 468
9054931 AACTTTTTGC
*
9054941 CAATTTTATCAAGCAATTGAAACTTGTGAGAATTCAAATCTCCTTGTTCTCTTTGGGACTGATCT
1 CAATTTTATCAAGCAATTGAAACTTGTGAGAATTCAAATCTCCTTGTTCTCTTTGGGAATGATCT
* *
9055006 AACTTATCAAGATAGACTTGTGGCGTCATTTCCTTCCTTTGTTATATGAACTTATCACTTCAAGT
66 AACTTATCAAGATAGACTTGTGGCGTCATTTCCTTCCTTTGCTATACGAACTTATCACTTCAAGT
* ** *
9055071 GTGGCATTCATTTTACCTTTGGTTCCTATCTCGTTAGATAGTGGGTCAAGGTTTATTTGTTGTCT
131 GTGGCATTCATTTTACCTTCGGTTCCTATCTCGTTAGATAGCCGATCAAGGTTTATTTGTTGTCT
*
9055136 TCTAAATCAAATTATCCAACTAAGTGCTTTTAAGACTTAGGTCAACAATCATCTATATTGTTGGT
196 TCTAAATCAAATTATCCAACTAAGTGCTTTTAAGACTTAGGTCAACAATCATCCATATTGTTGGT
* *
9055201 TCATCCTTTGCTTTAGCCAAACCTATCCATCCATTTCCTAAACATTCTTTGAACCTCTGTTTGAG
261 TCAGCCTTTGCCTTAGCCAAACCTATCCATCCATTTCCTAAACATTCTTTGAACCTCTGTTTGAG
*
9055266 CCTATCTTCTA-CTCGTTTTTAGCCTTTCTTGAAACGAAGCACAACTTACTCAATTTCTCAATCG
326 CCTATCTTCTACCT-GTTTTCAGCCTTTCTTGAAACGAAGCACAACTTACTCAATTTCTCAATCG
*
9055330 GGCACACACATACGACTCGAAACTACATCAACCGAGTTTGTATCAAGTGTTATGTTTCAAATACT
390 GGCAAACACATACGACTCGAAACTACATCAACCGAGTTTGTATCAAGTGTTATGTTTCAAATACT
9055395 CATATTTTTTTCTT
455 CATATTTTTTTCTT
9055409 CAATTTTATCAAGCAATTGAAACTTGTGAGAATTCAAATCTCCTTGTTCTCTTTGGGAATGATCT
1 CAATTTTATCAAGCAATTGAAACTTGTGAGAATTCAAATCTCCTTGTTCTCTTTGGGAATGATCT
* * *
9055474 GAA-TTATCAAGTTAGGCTTGTGGCGTCATTTCCTTCCTTTGCTATCCGAACTTATCACTTCAAG
66 -AACTTATCAAGATAGACTTGTGGCGTCATTTCCTTCCTTTGCTATACGAACTTATCACTTCAAG
* * *
9055538 TGTGGCGTTCGTTTTACCTTCGGTTTCTATCTCGTTAGATAGCCGATCAAGGTTTATTTGTTGT-
130 TGTGGCATTCATTTTACCTTCGGTTCCTATCTCGTTAGATAGCCGATCAAGGTTTATTTGTTGTC
* *
9055602 TTCCTAAATTAAATTATCCAACTAAGTGCTTTTAAGACTTGGGTCAACAATCATCCATATTGTTG
195 TT-CTAAATCAAATTATCCAACTAAGTGCTTTTAAGACTTAGGTCAACAATCATCCATATTGTTG
*
9055667 GTTCAGCCTTTGCCTTAGCCAAACCTATCCATCCATTTCTTAAACATTCTTTGAACCTCTGTTTG
259 GTTCAGCCTTTGCCTTAGCCAAACCTATCCATCCATTTCCTAAACATTCTTTGAACCTCTGTTTG
** * *
9055732 AGCCTATCTTCTACCTGTTTTCAGCCTTTCTTGAAACGACTCACAACTTACTCAATTTCTCGATT
324 AGCCTATCTTCTACCTGTTTTCAGCCTTTCTTGAAACGAAGCACAACTTACTCAATTTCTCAATC
9055797 GGGCAAACACATACGACTCGAAACTACATCAAC
389 GGGCAAACACATACGACTCGAAACTACATCAAC
9055830 TGATTTCATA
Statistics
Matches: 393, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
467 2 0.01
468 387 0.98
469 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (468 bp):
CAATTTTATCAAGCAATTGAAACTTGTGAGAATTCAAATCTCCTTGTTCTCTTTGGGAATGATCT
AACTTATCAAGATAGACTTGTGGCGTCATTTCCTTCCTTTGCTATACGAACTTATCACTTCAAGT
GTGGCATTCATTTTACCTTCGGTTCCTATCTCGTTAGATAGCCGATCAAGGTTTATTTGTTGTCT
TCTAAATCAAATTATCCAACTAAGTGCTTTTAAGACTTAGGTCAACAATCATCCATATTGTTGGT
TCAGCCTTTGCCTTAGCCAAACCTATCCATCCATTTCCTAAACATTCTTTGAACCTCTGTTTGAG
CCTATCTTCTACCTGTTTTCAGCCTTTCTTGAAACGAAGCACAACTTACTCAATTTCTCAATCGG
GCAAACACATACGACTCGAAACTACATCAACCGAGTTTGTATCAAGTGTTATGTTTCAAATACTC
ATATTTTTTTCTT
Found at i:9063317 original size:38 final size:38
Alignment explanation
Indices: 9063275--9063352 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
9063265 CTAATTTCAC
9063275 ATCAACAACTATTAAATCATGATATTCCTTCAATGACA
1 ATCAACAACTATTAAATCATGATATTCCTTCAATGACA
*
9063313 ATCAACAACTATTAAATCATGATATTCCTTTAATGACA
1 ATCAACAACTATTAAATCATGATATTCCTTCAATGACA
9063351 AT
1 AT
9063353 GTTAAAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.33
Consensus pattern (38 bp):
ATCAACAACTATTAAATCATGATATTCCTTCAATGACA
Found at i:9063976 original size:18 final size:18
Alignment explanation
Indices: 9063944--9063978 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9063934 AGATTCGAGT
**
9063944 TTGATATTTTGATTTAAA
1 TTGATATTTAAATTTAAA
9063962 TTGATATTTAAATTTAA
1 TTGATATTTAAATTTAA
9063979 TTTTTTATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
TTGATATTTAAATTTAAA
Found at i:9065403 original size:20 final size:19
Alignment explanation
Indices: 9065380--9065450 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 19
9065370 TTTTATTAAT
9065380 TTAATATTAAAGTGATTATA
1 TTAATATTAAAGT-ATTATA
*
9065400 TTAATATTAAATTTAATCTAATA
1 TTAATATTAAA-GT-AT-T-ATA
*
9065423 TTTATATTGATAAGTATTATA
1 TTAATATT-A-AAGTATTATA
9065444 TTAATAT
1 TTAATAT
9065451 AATATTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 11 0.27
21 12 0.29
22 2 0.05
23 12 0.29
24 2 0.05
25 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (19 bp):
TTAATATTAAAGTATTATA
Found at i:9066251 original size:20 final size:20
Alignment explanation
Indices: 9066226--9066277 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
9066216 GGGCACACGA
* *
9066226 CCGTGTGGCCTGGGATATGC
1 CCGTGTGGCCTAGGACATGC
*
9066246 CCGTGTGGTCTAGGACATGC
1 CCGTGTGGCCTAGGACATGC
*
9066266 CCGTTTGGCCTA
1 CCGTGTGGCCTA
9066278 CTTGTGGGCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.27, G:0.35, T:0.27
Consensus pattern (20 bp):
CCGTGTGGCCTAGGACATGC
Found at i:9067141 original size:53 final size:51
Alignment explanation
Indices: 9067071--9067172 Score: 141
Period size: 53 Copynumber: 2.0 Consensus size: 51
9067061 CACATAACAT
*
9067071 ACCGATACCATATCCCAAATATGGTCTTATACGAAATCACATTATCACATCAC
1 ACCGATACCATAGCCCAAATATGGTCTTATACGAAAT-ACA-TATCACATCAC
* * * *
9067124 ACCGATGCCATAGCCCAACTATGGTCTTATATGGAATACATATCACATC
1 ACCGATACCATAGCCCAAATATGGTCTTATACGAAATACATATCACATC
9067173 TTTTCCGTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 9 0.20
52 3 0.07
53 32 0.73
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.26
Consensus pattern (51 bp):
ACCGATACCATAGCCCAAATATGGTCTTATACGAAATACATATCACATCAC
Found at i:9074975 original size:35 final size:35
Alignment explanation
Indices: 9074571--9074972 Score: 513
Period size: 35 Copynumber: 11.5 Consensus size: 35
9074561 GGCAAAGTGC
* *
9074571 GAAATGTAGGTATGGTAT-AACCATACTGAGTTGT
1 GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
* * *
9074605 GAAATGTAGGTATGGTGTCGTCCATACTGAGCT-A
1 GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
* * * * * * *
9074639 TGATACGTAGGTATGGTATTAACCGTACTGAGATGT
1 -GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
* * *
9074675 GAAACGTAGGTATGGTATCATCCATACCGAGTTGT
1 GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
* *
9074710 GAAATGTAGGTATGGTATCATCTATACCGAGTTGA
1 GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
* *
9074745 GAAATGTAGGTATGGTATTATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
* * *
9074780 GAAACGTAAGTATGGTATCATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
*
9074815 GAAACGTAGGTATGGTATCATCCATACTGAGTTGA
1 GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
*
9074850 GAAATATAGGTATGGTATCATCCATACTGAGTTGA
1 GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
* *
9074885 GAAATATAGGTATGGTATCATCCATACCGAGTTGA
1 GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
* *
9074920 GAAATGTAGGTATGGCAT-TTCCCATACTGAGTTGA
1 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGA
9074955 GAAATGTAGGTATGGTAT
1 GAAATGTAGGTATGGTAT
9074973 TTCAATGAGG
Statistics
Matches: 324, Mismatches: 40, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
34 18 0.06
35 306 0.94
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATCATCCATACTGAGTTGA
Found at i:9076603 original size:20 final size:20
Alignment explanation
Indices: 9076550--9076603 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
9076540 AGGGGCACAC
*
9076550 GCCCGTGTGGCCTAGGACAT
1 GCCCGTGTGGCCTGGGACAT
9076570 GCCCGTGTGGCCTGGGACAT
1 GCCCGTGTGGCCTGGGACAT
*
9076590 GCCCGTGTAGCCTG
1 GCCCGTGTGGCCTG
9076604 CCCGTGGGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.31, G:0.37, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGGACAT
Found at i:9079403 original size:49 final size:49
Alignment explanation
Indices: 9079287--9079427 Score: 115
Period size: 49 Copynumber: 2.9 Consensus size: 49
9079277 CATGAAACTG
* * * *
9079287 GAACTCGAGACCGTATAACCACCGTCAATTGGGGGCCTAAGTTATATTT
1 GAACTCGTGACCGTATAACCACCGTCAACTGGGAGCCCAAGTTATATTT
*** ** *
9079336 GAAC-CTGTGACTACATAACCATTGTTAACTGGGAGCCCAAGTTATACTTT
1 GAACTC-GTGACCGTATAACCACCGTCAACTGGGAGCCCAAGTTATA-TTT
* * * * *
9079386 -AACTCGTGACCGTATAACTACCGTGAAATGAGATCCCAAGTT
1 GAACTCGTGACCGTATAACCACCGTCAACTGGGAGCCCAAGTT
9079428 GCAATGTGAC
Statistics
Matches: 69, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
48 1 0.01
49 64 0.93
50 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (49 bp):
GAACTCGTGACCGTATAACCACCGTCAACTGGGAGCCCAAGTTATATTT
Found at i:9081254 original size:25 final size:24
Alignment explanation
Indices: 9081226--9081283 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
9081216 CTGCTATCAT
*
9081226 TATTATATT-TTATTTATTAGCATGG
1 TATTATATTATTA-TTATTA-CATAG
*
9081251 TATTATTATTATTATTATTACTTAG
1 TATTA-TATTATTATTATTACATAG
9081276 TATTATAT
1 TATTATAT
9081284 ACATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 3 0.10
25 13 0.45
26 10 0.34
27 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (24 bp):
TATTATATTATTATTATTACATAG
Found at i:9081337 original size:18 final size:19
Alignment explanation
Indices: 9081301--9081338 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9081291 TATCATATAG
*
9081301 TATTATTAATTTGTTTTAA
1 TATTATTAATTTGTGTTAA
*
9081320 TATTATTATTTTG-GTTAA
1 TATTATTAATTTGTGTTAA
9081338 T
1 T
9081339 GTATTTGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (19 bp):
TATTATTAATTTGTGTTAA
Found at i:9082950 original size:22 final size:22
Alignment explanation
Indices: 9082922--9082967 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
9082912 TACCGTTTTT
9082922 TTAAAAAAATGGTTACGACAGC
1 TTAAAAAAATGGTTACGACAGC
9082944 TTAAAAAAATGGTTACGACAGC
1 TTAAAAAAATGGTTACGACAGC
9082966 TT
1 TT
9082968 GGCGACTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (22 bp):
TTAAAAAAATGGTTACGACAGC
Found at i:9093005 original size:1 final size:1
Alignment explanation
Indices: 9092999--9093023 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9092989 TACTTCGCCT
9092999 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
9093024 GGAGAGAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9094087 original size:44 final size:43
Alignment explanation
Indices: 9093892--9094349 Score: 329
Period size: 43 Copynumber: 10.6 Consensus size: 43
9093882 AGATTTACAA
* * *
9093892 ATCTTAATCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGG
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-AGG
* * * * * * *
9093936 GTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCA-G
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-AGG
* * * * **
9093978 ATCCTATCTCTCTAAGCAGTAGGGAAACAGATCGAAGATGAAA
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAGG
*
9094021 ATCTTAACCCCTTAAGCAGTAGGGAAACAGATCGAAGATGATGG
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-GG
* * * * * **
9094065 A-CTTTAACCCCCTATGCAGTAGGGTAACA-AGCCAA-ATTTACA
1 ATC-TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGAGG
* * * * * *
9094107 AGCTTTAACCCCCTGAGCAGTAGGGTAACAG-GCTGAAGATTTACAG
1 ATC-TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-GG
*
9094153 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGG
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-AGG
* * * * * * *
9094197 GTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCA-G
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-AGG
* * * *
9094239 ATCTTATCTCCCTAGGCAGTAGGGAAACAGATCGAAGATGAAG
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAGG
* * *
9094282 ATCTTAACCTCCTAAGCAGTAGGGAAACAGATCAAAGAAGATGG
1 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-GG
**
9094326 GCCTTAACCCCCTAAGCAGTAGGG
1 ATCTTAACCCCCTAAGCAGTAGGG
9094350 TAATAGGCTG
Statistics
Matches: 321, Mismatches: 78, Indels: 30
0.75 0.18 0.07
Matches are distributed among these distances:
42 59 0.18
43 115 0.36
44 108 0.34
45 36 0.11
46 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (43 bp):
ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAGG
Found at i:9094090 original size:129 final size:128
Alignment explanation
Indices: 9093890--9094352 Score: 524
Period size: 129 Copynumber: 3.6 Consensus size: 128
9093880 GAAGATTTAC
* * *
9093890 AAATCTTAATCCCCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGTCTTAAACCCCTAATCGG
1 AAATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGCTCTTAAACCCCTAATCAG
* *
9093955 TAGGGTAACAGACCGAATTGCAGATCCTATCTCTCTAAGCAGTAGGGAAACAGATCGAAGATGA
65 TAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA
* * *
9094019 AAATCTTAACCCCTTAAGCAGTAGGGAAACAGATCGAAGATGATGGACT-TTAACCCCCT-ATGC
1 AAATCTTAACCCC-TAAGCAGTAGGGAAACAGATCGAAGACGAAGG-CTCTTAAACCCCTAAT-C
* * * * * * * *
9094082 AGTAGGGTAACA-AGCCAAATTTACA-AGCTTTAACCCCCTGAGCAGTAGGGTAACAG-GCTGAA
63 AGTAGGGTAACAGA-CCGAA-TTGCAGATC-TTATCTCCCTAAGCAGTAGGGAAACAGATC-GAA
*
9094144 GATTTA
124 GA-TGA
* * *
9094150 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 -AAATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGCTCTTAAACCCCTAATCA
*
9094215 GTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAGGCAGTAGGGAAACAGATCGAAGATGA
64 GTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA
* * * * * *
9094280 AGATCTTAACCTCCTAAGCAGTAGGGAAACAGATCAAAGAAGATGGGC-CTTAACCCCCTAAGCA
1 AAATCTTAACC-CCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGCTCTTAAACCCCTAATCA
9094344 GTAGGGTAA
64 GTAGGGTAA
9094353 TAGGCTGAAA
Statistics
Matches: 277, Mismatches: 40, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
128 9 0.03
129 126 0.45
130 35 0.13
131 34 0.12
132 66 0.24
133 7 0.03
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.20
Consensus pattern (128 bp):
AAATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGCTCTTAAACCCCTAATCAGT
AGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA
Found at i:9094261 original size:42 final size:43
Alignment explanation
Indices: 9093849--9094349 Score: 277
Period size: 44 Copynumber: 11.5 Consensus size: 43
9093839 ATTCATAAGC
* * * * * * *
9093849 CTTAACCCCCTAAGCAGTAGGGTAGCAGGCTGAAGATTTACAAAT
1 CTTAACCTCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* * * *
9093894 CTTAATCC-CCTAAGCAGTAGGGAAACAAATCGAAGACGAAGGGT
1 CTTAA-CCTCCTAAGCAGTAGGGAAACAGACCGAAGATGAA-GAT
* * * * *
9093938 CTTAAACC-CCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTT-AACCTCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * * *
9093980 CCT-ATCTCTCTAAGCAGTAGGGAAACAGATCGAAGATGAAAAT
1 CTTAACCTC-CTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* *
9094023 CTTAACC-CCTTAAGCAGTAGGGAAACAGATCGAAGATGATGGA-
1 CTTAACCTCC-TAAGCAGTAGGGAAACAGACCGAAGATGA-AGAT
* * * * ** * *
9094066 CTTTAACCCCCTATGCAGTAGGGTAACA-AGCCAAATTTACAAGCT
1 C-TTAACCTCCTAAGCAGTAGGGAAACAGA-CCGAAGAT-GAAGAT
* * * * * *
9094111 -TTAACCCCCTGAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTTAACCTCCTAAGCAGTAGGGAAACAGACCGAAGA-TGA-AGAT
* * * *
9094155 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGT
1 CTTAACCTCCTAAGCAGTAGGGAAACAGACCGAAGATGAA-GAT
* * * * *
9094199 CTTAAACC-CCTAATCGGTAGGGTAACAGACCGAA-TTGCAGAT
1 CTT-AACCTCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * *
9094241 CTT-ATCTCCCTAGGCAGTAGGGAAACAGATCGAAGATGAAGAT
1 CTTAACCT-CCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
* * * * **
9094284 CTTAACCTCCTAAGCAGTAGGGAAACAGATCAAAGAAGATGGGC
1 CTTAACCTCCTAAGCAGTAGGGAAACAGACCGAAGATGA-AGAT
*
9094328 CTTAACCCCCTAAGCAGTAGGG
1 CTTAACCTCCTAAGCAGTAGGG
9094350 TAATAGGCTG
Statistics
Matches: 349, Mismatches: 82, Indels: 51
0.72 0.17 0.11
Matches are distributed among these distances:
40 4 0.01
41 1 0.00
42 52 0.15
43 110 0.32
44 114 0.33
45 66 0.19
46 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (43 bp):
CTTAACCTCCTAAGCAGTAGGGAAACAGACCGAAGATGAAGAT
Found at i:9094314 original size:261 final size:261
Alignment explanation
Indices: 9093845--9094352 Score: 865
Period size: 261 Copynumber: 1.9 Consensus size: 261
9093835 GTGAATTCAT
* *
9093845 AAGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTGAAGATTTACAAATCTTAATCCCCTAAGCA
1 AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAGCA
9093910 GTAGGGAAACAAATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
66 GTAGGGAAACAAATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
*
9093975 CAGATCCTATCTCTCTAAGCAGTAGGGAAACAGATCGAAGATGAAAATCTTAACCCCTTAAGCAG
131 CAGATCCTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAAATCTTAACCCCTTAAGCAG
* * * *
9094040 TAGGGAAACAGATCGAAGATGATGGACTTTAACCCCCTATGCAGTAGGGTAACAAGCCAAATTTA
196 TAGGGAAACAGATCAAAGAAGATGGACCTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTA
9094105 C
261 C
* * *
9094106 AAGCTTTAACCCCCTGAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCA
1 AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAGCA
*
9094171 GTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
66 GTAGGGAAACAAATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
* * *
9094236 CAGATCTTATCTCCCTAGGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCTCC-TAAGCA
131 CAGATCCTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAAATCTTAACC-CCTTAAGCA
*
9094300 GTAGGGAAACAGATCAAAGAAGATGGGCCTTAACCCCCTAAGCAGTAGGGTAA
195 GTAGGGAAACAGATCAAAGAAGATGGACCTTAACCCCCTAAGCAGTAGGGTAA
9094353 TAGGCTGAAA
Statistics
Matches: 231, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
261 229 0.99
262 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (261 bp):
AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAAGCA
GTAGGGAAACAAATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAATTG
CAGATCCTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAAATCTTAACCCCTTAAGCAG
TAGGGAAACAGATCAAAGAAGATGGACCTTAACCCCCTAAGCAGTAGGGTAACAAGCCAAATTTA
C
Found at i:9094833 original size:86 final size:86
Alignment explanation
Indices: 9094639--9094924 Score: 310
Period size: 86 Copynumber: 3.3 Consensus size: 86
9094629 TTCATAGGAT
* *** *
9094639 CTTAAACCCCTAAGCAGTAGGGAAACAGACCAAATTGTAGATCTTATCCCCCTAAGCAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCCCCCTAAGCAGTAGTGG
* *
9094704 TGTAGATCGAAGAAGAAGAAC
66 AGCAGATCGAAGAAGAAGAAC
* *
9094725 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCTCCCTAAGCAGTGGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCCCCCTAAGCAGTAGTGG
*
9094790 AGCAGATCGAAGACGAAGAAC
66 AGCAGATCGAAGAAGAAGAAC
* * * * ***
9094811 CTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAGTATACAGATC-TA-AAACCTAAGCAGTAG-G
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAAT-TGCAGATCTTATCCCCCTAAGCAGTAGTG
* * * *
9094873 GAAACAGATCAAAGATGACA-AGC
65 G-AGCAGATCGAAGAAGA-AGAAC
* *
9094896 CTTAATCCCTTAAGCAGTAGGGTAACAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGG
9094925 CTGAAAATTA
Statistics
Matches: 172, Mismatches: 25, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
84 2 0.01
85 52 0.30
86 111 0.65
87 7 0.04
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (86 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCCCCCTAAGCAGTAGTGG
AGCAGATCGAAGAAGAAGAAC
Found at i:9096440 original size:25 final size:24
Alignment explanation
Indices: 9096412--9096469 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
9096402 CTGCTATCAT
*
9096412 TATTATATT-TTATTTATTAGCATGG
1 TATTATATTATTA-TTATTA-CATAG
*
9096437 TATTATTATTATTATTATTACTTAG
1 TATTA-TATTATTATTATTACATAG
9096462 TATTATAT
1 TATTATAT
9096470 ACATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 3 0.10
25 13 0.45
26 10 0.34
27 3 0.10
ACGTcount: A:0.31, C:0.03, G:0.07, T:0.59
Consensus pattern (24 bp):
TATTATATTATTATTATTACATAG
Found at i:9096523 original size:18 final size:19
Alignment explanation
Indices: 9096487--9096524 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9096477 TATCATATAG
*
9096487 TATTATTAATTTGTTTTAA
1 TATTATTAATTTGTGTTAA
*
9096506 TATTATTATTTTG-GTTAA
1 TATTATTAATTTGTGTTAA
9096524 T
1 T
9096525 GTATTTGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (19 bp):
TATTATTAATTTGTGTTAA
Found at i:9098140 original size:23 final size:23
Alignment explanation
Indices: 9098110--9098153 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
9098100 TACCGTTTTT
9098110 TTAAAAAAAATGGTTACGACAGC
1 TTAAAAAAAATGGTTACGACAGC
9098133 TTAAAAAAAATGGTTACGACA
1 TTAAAAAAAATGGTTACGACA
9098154 ATTAGTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (23 bp):
TTAAAAAAAATGGTTACGACAGC
Found at i:9099983 original size:23 final size:22
Alignment explanation
Indices: 9099948--9099993 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
9099938 CCGAACGTGG
* *
9099948 TTCGGGAAGTGGACATCTCGATT
1 TTCGCGAAATGGACAT-TCGATT
*
9099971 TTCGCGAAATGGAGATTCGATT
1 TTCGCGAAATGGACATTCGATT
9099993 T
1 T
9099994 CTTCGAACTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (22 bp):
TTCGCGAAATGGACATTCGATT
Found at i:9102365 original size:25 final size:25
Alignment explanation
Indices: 9102333--9102382 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9102323 AAATATAATT
9102333 AAATAATTAATATAATTTTCTTCTC
1 AAATAATTAATATAATTTTCTTCTC
9102358 AAATAATTAATATAATTTTCTTCTC
1 AAATAATTAATATAATTTTCTTCTC
9102383 TTGAATTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATAATTAATATAATTTTCTTCTC
Found at i:9102722 original size:29 final size:30
Alignment explanation
Indices: 9102690--9102753 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
9102680 TGTTTATCGG
*
9102690 TAAAATTTTACTTTAA-TTTTTAAAAATAA
1 TAAAATTTTAATTTAATTTTTTAAAAATAA
*
9102719 TAAAATTTTAATTTAATTTTTTAAAAATTA
1 TAAAATTTTAATTTAATTTTTTAAAAATAA
9102749 TAAAA
1 TAAAA
9102754 ATATAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
TAAAATTTTAATTTAATTTTTTAAAAATAA
Found at i:9102763 original size:15 final size:17
Alignment explanation
Indices: 9102742--9102782 Score: 68
Period size: 15 Copynumber: 2.5 Consensus size: 17
9102732 TAATTTTTTA
9102742 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
9102758 -AAATTATAAAAATAAT
1 AAAATTATAAAAATAAT
9102774 AAAATTATA
1 AAAATTATA
9102783 TTTTTACTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.57
16 2 0.09
17 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:9110324 original size:15 final size:15
Alignment explanation
Indices: 9110304--9110344 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
9110294 AATTGGACAG
9110304 TGGATACATCACTAA
1 TGGATACATCACTAA
*
9110319 TGGATACATCACTAG
1 TGGATACATCACTAA
9110334 TGGATACATCA
1 TGGATACATCA
9110345 TTGTTTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (15 bp):
TGGATACATCACTAA
Found at i:9115557 original size:357 final size:358
Alignment explanation
Indices: 9114895--9116302 Score: 2433
Period size: 357 Copynumber: 3.9 Consensus size: 358
9114885 AAGAAATGAT
9114895 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCA
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCA
9114960 CATAAGAACAACAATCGGGGACCCATGACCCATGACCACGAGTGCAGTTTGAAAGACAGTCTAGC
66 CATAAGAACAACAATCGGGGACCCATGA-CCAT------GAGTGCAGTTTGAAAGACAGTCTAGC
*
9115025 AAATCAGGTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTGATTGATC
124 AAATCAGGTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTAATTGATC
* * *
9115090 TATGTCCCTTTCAAGAGAGATTCAAATGAAAACATTCAAATATCAACCAACTAGTAATCAAGAAA
189 TATGTCCCTATCAAGAGAGATTCAAAAGACAACATTCAAATATCAACCAACTAGTAATCAAGAAA
* *
9115155 TAACCAACAATGATTTCAGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCACTGAA
254 TAACCAACAATGATTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCTCTGAA
9115220 CAGGGAACTAAAAGC-AATGCCAAACCATGTTTAATTGCA
319 CAGGGAACTAAAAGCAAATGCCAAACCATGTTTAATTGCA
*
9115259 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTTACATTCCGCATCA
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCA
* *
9115324 CATAAGAGCAACAATCGGGGACCCATGACCATGAGTGCAGTTTGAAAGACAGGCTAGCAAATCAG
66 CATAAGAACAACAATCGGGGACCCATGACCATGAGTGCAGTTTGAAAGACAGTCTAGCAAATCAG
* *
9115389 GTAACGATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTAATTGGTCTATGTCC
131 GTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTAATTGATCTATGTCC
9115454 CTATCAAGAGAGATTCAAAAGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
196 CTATCAAGAGAGATTCAAAAGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
* * *
9115519 CTATGGTTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGCAAGCTCTGAACAGGGAA
261 CAATGATTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCTCTGAACAGGGAA
*
9115584 CTAAAAGCAAATACCAAACCATGTTTAATTGCA
326 CTAAAAGCAAATGCCAAACCATGTTTAATTGCA
* *
9115617 ATAACATACAACTTTTACCTCATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCT
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCA
* *
9115682 CATAAGGACAACAATCGGGGACCCATGACCA-GAGTGCAGTTTGAAAGATAGTCTAGCAAATCAG
66 CATAAGAACAACAATCGGGGACCCATGACCATGAGTGCAGTTTGAAAGACAGTCTAGCAAATCAG
*
9115746 ATAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTAATTGATCTATGTCC
131 GTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTAATTGATCTATGTCC
* * * *
9115811 CGATCAAGAGCGATTCAAATGACAACATTCAAATATCAACCAACTAGTAATCACGAAATAACCAA
196 CTATCAAGAGAGATTCAAAAGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
9115876 CAATGATTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCTCTGAACAGGGAA
261 CAATGATTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCTCTGAACAGGGAA
9115941 CTAAAAGCAAATGCCAAACCATGTTTAATTGCA
326 CTAAAAGCAAATGCCAAACCATGTTTAATTGCA
* * *
9115974 ATAACATACAACTTTTACCTTATGAAGTCAAAACGGCAGTTCATCTAAGTTCACATTCCGCATCA
1 ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCA
* * *
9116039 CAGAAGAACAACAATCGGGGACCCATGACCGTGGGTGCAGTTTGAAAGACAGTCTAGCAAATCAG
66 CATAAGAACAACAATCGGGGACCCATGACCATGAGTGCAGTTTGAAAGACAGTCTAGCAAATCAG
9116104 GTAACTATGTTACAAATTATATCAACAGCATAACAAATTTTCTTGATGACTAATTGATCTATGTC
131 GTAACTATGTTACAAATTATATCAACAGCATAAC-AATTTTCTTGATGACTAATTGATCTATGTC
*
9116169 CCTACCAAGAGAGATTCAAAAGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCA
195 CCTATCAAGAGAGATTCAAAAGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCA
* *
9116234 ACAATGGTTTCGGAACATTATTTCCAGTGGCAAATGTGATTTTGATTGTAAGCTCTGAACAGGGA
260 ACAATGATTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCTCTGAACAGGGA
9116299 ACTA
325 ACTA
9116303 TTGTGATTGT
Statistics
Matches: 990, Mismatches: 51, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
357 560 0.57
358 178 0.18
359 157 0.16
363 4 0.00
364 91 0.09
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.26
Consensus pattern (358 bp):
ATAACATACAACTTTTACCTTATGAGGTCGAAACGGCAGTTCATCTCAGTTCACATTCCGCATCA
CATAAGAACAACAATCGGGGACCCATGACCATGAGTGCAGTTTGAAAGACAGTCTAGCAAATCAG
GTAACTATGTTACAAATTATATCAACAGCATAACAATTTTCTTGATGACTAATTGATCTATGTCC
CTATCAAGAGAGATTCAAAAGACAACATTCAAATATCAACCAACTAGTAATCAAGAAATAACCAA
CAATGATTTCGGAACATTATTTCCAGTGGCAAATGTGATTGTGATTGTAAGCTCTGAACAGGGAA
CTAAAAGCAAATGCCAAACCATGTTTAATTGCA
Found at i:9125298 original size:56 final size:56
Alignment explanation
Indices: 9125192--9125298 Score: 135
Period size: 56 Copynumber: 1.9 Consensus size: 56
9125182 TCCCAGCCCA
* * * *
9125192 TGTGAATATACTGACTTGGGACACACGGCCAAACCACACGCTTGTGTGCTAAGCTG
1 TGTGAATATACTGACTTAGGACACACCGCCAAACCACACGCTCGTATGCTAAGCTG
* * *
9125248 TGTGAGTATACTGACTTAGGTCACACCGCCAAACCATACG-TCCGTATGCTA
1 TGTGAATATACTGACTTAGGACACACCGCCAAACCACACGCT-CGTATGCTA
9125299 GGCCGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 1 0.02
56 42 0.98
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (56 bp):
TGTGAATATACTGACTTAGGACACACCGCCAAACCACACGCTCGTATGCTAAGCTG
Found at i:9128303 original size:3 final size:3
Alignment explanation
Indices: 9128282--9128352 Score: 119
Period size: 3 Copynumber: 24.0 Consensus size: 3
9128272 TTATCTCAAT
9128282 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9128326 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9128353 GTAAATATCT
Statistics
Matches: 65, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.06
3 58 0.89
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:9131098 original size:46 final size:46
Alignment explanation
Indices: 9131060--9131266 Score: 299
Period size: 46 Copynumber: 4.5 Consensus size: 46
9131050 ATGGAATGTG
* *
9131060 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
9131106 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
9131152 TAAGACCATAGTTGAAAGATACCATGGCAACATGACATAAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAT-GAAATGAA
* *
9131199 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAA
* *
9131245 TAAAACCATAGTTGAAAGATAC
1 TAAGACCATGGTTGAAAGATAC
9131267 TATGACATCA
Statistics
Matches: 146, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 104 0.71
47 42 0.29
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
Found at i:9131222 original size:93 final size:92
Alignment explanation
Indices: 9131045--9131266 Score: 329
Period size: 93 Copynumber: 2.4 Consensus size: 92
9131035 AGTGTGTTCT
* * * * * * *
9131045 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAG
1 CTGACATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATAAAATGAATAAG
9131110 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
9131137 CTGACATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATAAAAATGAATAA
1 CTGACATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACATGACAT-AAAATGAATAA
9131202 GACCATGGTTGAAAGATACCATGGCAAC
65 GACCATGGTTGAAAGATACCATGGCAAC
* * *
9131230 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGACATG-AAATGAGTAAGACCATAGTTGAAAGATAC
9131267 TATGACATCA
Statistics
Matches: 118, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
92 48 0.41
93 70 0.59
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (92 bp):
CTGACATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAACATGACATAAAATGAATAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:9132657 original size:25 final size:25
Alignment explanation
Indices: 9132629--9132707 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 25
9132619 AGCTCTTCCA
* *
9132629 AGCTATATAACGAGAAGCTCATGTG
1 AGCTATATAACGGGAAGCTCATGAG
* *
9132654 AGCTAAATAACGGGAAGCTCATGCG
1 AGCTATATAACGGGAAGCTCATGAG
* *
9132679 AGCTGTATATCGGGAAGCTCATGAG
1 AGCTATATAACGGGAAGCTCATGAG
9132704 AGCT
1 AGCT
9132708 GTGGTGTGTC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.22
Consensus pattern (25 bp):
AGCTATATAACGGGAAGCTCATGAG
Found at i:9138117 original size:22 final size:21
Alignment explanation
Indices: 9138071--9138118 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
9138061 CCTTTGTTGG
*
9138071 CCACCACCTTGGCCACCAACT
1 CCACCACCTTGGCCACCAACA
9138092 CCACCACCCTTGGCCACCTAA-A
1 CCACCA-CCTTGGCCACC-AACA
9138114 CCACC
1 CCACC
9138119 CCAACCACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 6 0.25
22 16 0.67
23 2 0.08
ACGTcount: A:0.25, C:0.54, G:0.08, T:0.12
Consensus pattern (21 bp):
CCACCACCTTGGCCACCAACA
Found at i:9138237 original size:22 final size:22
Alignment explanation
Indices: 9138173--9138259 Score: 86
Period size: 22 Copynumber: 3.9 Consensus size: 22
9138163 ACTTTGTTTT
** *
9138173 AGGTTTTTTGGTTTTTTGGAGA
1 AGGTTTTTTTTTTTTTTGGAGG
* * *
9138195 AGGATTGTTCTTTGTTTTGGAGG
1 AGG-TTTTTTTTTTTTTTGGAGG
9138218 AGGTTTTTTTTTTTTTTGGAGG
1 AGGTTTTTTTTTTTTTTGGAGG
*
9138240 -TGTTTTTTTTGTTTTTTGGA
1 AGGTTTTTTTT-TTTTTTGGA
9138260 AAGAAGGTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 9 0.17
22 28 0.53
23 16 0.30
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (22 bp):
AGGTTTTTTTTTTTTTTGGAGG
Found at i:9138238 original size:19 final size:21
Alignment explanation
Indices: 9138205--9138255 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
9138195 AGGATTGTTC
*
9138205 TTTG-TTTTGGAGGAGGTTTTT
1 TTTGTTTTTGGAGG-TGTTTTT
*
9138226 TTTTTTTTTGGAGGTGTTTTT
1 TTTGTTTTTGGAGGTGTTTTT
9138247 TTTGTTTTT
1 TTTGTTTTT
9138256 TGGAAAGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.06, C:0.00, G:0.25, T:0.69
Consensus pattern (21 bp):
TTTGTTTTTGGAGGTGTTTTT
Found at i:9138598 original size:3 final size:3
Alignment explanation
Indices: 9138584--9138666 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
9138574 AGACTTTGTT
* *
9138584 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
9138627 TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
9138667 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9138653 original size:12 final size:12
Alignment explanation
Indices: 9138587--9138666 Score: 76
Period size: 12 Copynumber: 6.8 Consensus size: 12
9138577 CTTTGTTTTA
*
9138587 TTATTTTATTAT
1 TTATATTATTAT
* *
9138599 TTTTACTATTAT
1 TTATATTATTAT
9138611 TTATATTATTA-
1 TTATATTATTAT
* *
9138622 TTAT-TTCTCAT
1 TTATATTATTAT
9138633 GTATATATTATTAT
1 -T-TATATTATTAT
9138647 TTATATTATTA-
1 TTATATTATTAT
9138658 TTATATTAT
1 TTATATTAT
9138667 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 13 0.24
12 29 0.53
13 4 0.07
14 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATATTATTAT
Found at i:9141492 original size:19 final size:19
Alignment explanation
Indices: 9141470--9141516 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9141460 CTTCCTTTCT
9141470 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
* *
9141489 TTTGCATTATATTGCAACA
1 TTTGCATTACATTCCAACA
9141508 TTTGCATTA
1 TTTGCATTA
9141517 AACTTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:9141686 original size:24 final size:23
Alignment explanation
Indices: 9141649--9141698 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
9141639 TAGAAAGGAT
* *
9141649 AGAACAAATGCAAAGGGAGATGCA
1 AGAACAAATACAAA-GCAGATGCA
*
9141673 AGAACAATTACAAAGCAGATGCA
1 AGAACAAATACAAAGCAGATGCA
9141696 AGA
1 AGA
9141699 GCAACTGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.52, C:0.14, G:0.24, T:0.10
Consensus pattern (23 bp):
AGAACAAATACAAAGCAGATGCA
Found at i:9144269 original size:6 final size:6
Alignment explanation
Indices: 9144260--9144295 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
9144250 GAGTATATAT
*
9144260 GGCAAT GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
9144296 AAAAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.47, C:0.17, G:0.33, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:9145582 original size:66 final size:66
Alignment explanation
Indices: 9145482--9145608 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
9145472 CATTCATATA
*
9145482 ATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACACATT
1 ATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
9145547 C
66 C
* *
9145548 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
9145609 TAAGCATAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAATTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:9145823 original size:86 final size:86
Alignment explanation
Indices: 9145672--9146572 Score: 599
Period size: 88 Copynumber: 10.3 Consensus size: 86
9145662 ATTCACAAGC
* * * * *
9145672 CTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAG--TTGCAGATCTTAACCCCCTAAGCAGTAG
9145737 GGAAACAGATCGAAGACGAAGGGT
64 GGAAACAGATCGAAGACGAA-GGT
* * * *
9145761 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
* *
9145825 AAACAGATCGAAGATGAAGAT
66 AAACAGATCGAAGACGAAGGT
* * * ** *
9145846 CTT-AACCCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATGGGCTTTAACCCCCTAGGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCA-GATC-TTAACCCCCTAAGCAGTAG
* * * * *
9145909 GGTAACA-AGCCAAATTTAC-AA-GC
64 GGAAACAGA-TCGAA--GACGAAGGT
* * * *
9145932 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAG--TTGCAGATCTTAACCCCCTAAGCAGTAG
9145997 GGAAACAGATCGAAGACGAAAGGT
64 GGAAACAGATCGAAGACG-AAGGT
* * * *
9146021 CTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
* *
9146085 AAACAGATCGAAGATGAAGAT
66 AAACAGATCGAAGACGAAGGT
* * * * * * *
9146106 CTTAACCCCCTAAACAGTAGGGAAACAGATCGAAGATG-ATAGGCTTTAA-CCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGA-TC-TTAACCCCCTAAGCAGTAG
* * ** *
9146169 GGTAACAG-GCTGAAGATTTACAGAT
64 GGAAACAGATC-GAAGA-CGA-AGGT
* * * * * **
9146194 CTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATG-ATGGGCTTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCA-GATC-TTAACCCCCTAAGCAGTAG
* * * *
9146258 GGTAACA-AGCCGAATTCAC-AA-GC
64 GGAAACAGA-TCGAA--GACGAAGGT
* * * * *
9146281 CTTAAACCCCTAAACAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAG--TTGCAGATCTTAACCCCCTAAGCAGTAG
** * * * *
9146346 GGAAACAGATAAAAAATGATGGG
64 GGAAACAGATCGAAGACGAAGGT
* * * * * * *
9146369 CTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAAATTTACAAACCTTAAACCCCTAAGCAGTAG
1 C-TTAAACCCCTAAGCAGTAGGGTAACAGA-CCGAAGTTGCAGATCTTAACCCCCTAAGCAGTAG
* * * ** **
9146433 GGTAACAGGTTGAAGATTTACAAAT
64 GGAAACAGATCGAAGA-CGA-AGGT
* * *** * * * *
9146458 CTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTACAGATCTTAACCCCTTAAGCAGTTGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
* * * *
9146523 AAATAGATCGAAGATGATGGGC
66 AAACAGATCGAAGACGA-AGGT
*
9146545 CTTAAACCCCTAAGTAGTAGGGTAACAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAG
9146573 GCTGGAAATT
Statistics
Matches: 637, Mismatches: 138, Indels: 76
0.75 0.16 0.09
Matches are distributed among these distances:
84 27 0.04
85 46 0.07
86 145 0.23
87 124 0.19
88 173 0.27
89 118 0.19
90 3 0.00
91 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (86 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGACCGAAGTTGCAGATCTTAACCCCCTAAGCAGTAGGG
AAACAGATCGAAGACGAAGGT
Found at i:9145937 original size:43 final size:44
Alignment explanation
Indices: 9145666--9146518 Score: 398
Period size: 43 Copynumber: 19.5 Consensus size: 44
9145656 CAGTGAATTC
* * * *
9145666 ACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTT
1 ACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGC-GAAGATTT
* * **
9145711 AC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-CG
1 ACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAGATTT
* * * * *
9145755 A-AGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-A-TT
1 ACA-AGTCTTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAGATTT
* * * * *
9145797 GC-AGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGA--T
1 ACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAGATTT
* * * *
9145840 -GAAGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGA-TG
1 ACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAGATTT
** * * *
9145883 A-TGGGCTTTAACCCCCTAGGCAGTAGGGTAACAAGCCAA-ATTT
1 ACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAGCGAAGATTT
* *
9145926 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTT
1 ACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGC-GAAGATTT
* * **
9145971 AC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-CG
1 ACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAGATTT
* * * *
9146015 A-AAGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCG-A-A-TT
1 ACAA-GTCTTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAGATTT
* * * * *
9146057 GC-AGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGA--T
1 ACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAGATTT
* * * * *
9146100 -GAAGATCTTAACCCCCTAAACAGTAGGGAAACAGATCGAAGA-TG
1 ACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAGATTT
* * *
9146144 A-TAGGCTTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTT
1 ACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAGC-GAAGATTT
* * * *
9146188 AC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGA-TG
1 ACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACA-AGCGAAGATTT
** * *
9146232 A-TGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCG-A-ATTC
1 ACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAG-CGAAGATTT
* * * **
9146275 ACAAGCCTTAAACCCCTAAACAGTAGGGTAACTGGCTGAAGATTT
1 ACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGC-GAAGATTT
* ** * * *
9146320 AC-AGATCTTAACCCCCTAAGCAGTAGGGAAAC-AGATAAAAAATG
1 ACAAG-TCTTAACCCCCTAAGCAGTAGGGTAACAAG-CGAAGATTT
** * *
9146364 A-TGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCAA-ATTT
1 ACAAGTC-TTAACCCCCTAAGCAGTAGGGTAACAAGCGAAGATTT
** * * *
9146407 ACAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAAGATTT
1 ACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAG-CGAAGATTT
* * **
9146452 ACAAATCTTAACCCCCTAACCAGTAGGGTAAC-AG-GTTGAATTT
1 ACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCGAAG-ATTT
*
9146495 AC-AGATCTTAACCCCTTAAGCAGT
1 ACAAG-TCTTAACCCCCTAAGCAGT
9146519 TGGGAAATAG
Statistics
Matches: 625, Mismatches: 130, Indels: 108
0.72 0.15 0.13
Matches are distributed among these distances:
41 2 0.00
42 92 0.15
43 197 0.32
44 173 0.28
45 158 0.25
46 3 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (44 bp):
ACAAGTCTTAACCCCCTAAGCAGTAGGGTAACAAGCGAAGATTT
Found at i:9146168 original size:260 final size:261
Alignment explanation
Indices: 9145666--9146572 Score: 1077
Period size: 260 Copynumber: 3.5 Consensus size: 261
9145656 CAGTGAATTC
* *
9145666 ACAAGCCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
* * *
9145731 CAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAAT
66 CAGTAGGGAAACAGATCGAAGACGAAAGGCCTTAAACCCCTAATCAGTAGGGTAACAGACCGAAT
9145796 TGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAA-CCCCTAAGC
131 TGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCCTAAGC
* * * *
9145860 AGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAGGCAGTAGGGTAACAAGCCAA-AT
196 AGTAGGGAAACAGATCGAAGATGATAGGCTTTAA-CCCCTAAGCAGTAGGGTAACAGGCGAAGAT
9145924 TT
260 TT
9145926 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
* *
9145991 CAGTAGGGAAACAGATCGAAGACGAAAGGTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAAT
66 CAGTAGGGAAACAGATCGAAGACGAAAGGCCTTAAACCCCTAATCAGTAGGGTAACAGACCGAAT
*
9146056 TGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCCTAAAC
131 TGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCCTAAGC
9146121 AGTAGGGAAACAGATCGAAGATGATAGGCTTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAGAT
196 AGTAGGGAAACAGATCGAAGATGATAGGCTTTAACCCCTAAGCAGTAGGGTAACAGGC-GAAGAT
9146186 TT
260 TT
* * * * * * **
9146188 AC-AGATCTTAACCCCCTAAGCAGTAGGGAAACA-GATCAAAGA-TGA-TGGGCTTTAACCCCCT
1 ACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATC-TTAACCCCCT
* * ** * * *
9146249 AAGCAGTAGGGTAACA-AGCCGAATTC-ACAA-GCCTTAAACCCCTAAACAGTAGGGTAACTGGC
63 AAGCAGTAGGGAAACAGA-TCGAAGACGA-AAGGCCTTAAACCCCTAATCAGTAGGGTAACAGAC
* * * * ** * * **
9146311 TGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAAC
126 CG-A-A-TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATC-TTAAC
* * * * * ** *
9146376 CCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAAC
187 CCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGA-TAGGCTTTAACCCCTAAGCAGTAGGGTAAC
*
9146439 AGGTTGAAGATTT
250 AGG-CGAAGATTT
** * * *
9146452 ACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTG-A-ATTTACAGATCTTAACCCCTTAAG
1 ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
* * * **
9146515 CAGTTGGGAAATAGATCGAAGATGATGGGCCTTAAACCCCTAAGT-AGTAGGGTAACAG
66 CAGTAGGGAAACAGATCGAAGACGAAAGGCCTTAAACCCCTAA-TCAGTAGGGTAACAG
9146573 GCTGGAAATT
Statistics
Matches: 558, Mismatches: 66, Indels: 42
0.84 0.10 0.06
Matches are distributed among these distances:
260 236 0.42
261 82 0.15
262 39 0.07
263 78 0.14
264 120 0.22
265 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (261 bp):
ACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAG
CAGTAGGGAAACAGATCGAAGACGAAAGGCCTTAAACCCCTAATCAGTAGGGTAACAGACCGAAT
TGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCCTAAGC
AGTAGGGAAACAGATCGAAGATGATAGGCTTTAACCCCTAAGCAGTAGGGTAACAGGCGAAGATT
T
Found at i:9146317 original size:349 final size:346
Alignment explanation
Indices: 9145712--9146572 Score: 1000
Period size: 349 Copynumber: 2.5 Consensus size: 346
9145702 TGAAGATTTA
* * *
9145712 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCG
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGATCTTAAACCCCTAAACA
* * *
9145777 GTAGGGTAACAGACCGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA
66 GTAGGGAAACAGACCGAAATGCAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA
* *
9145842 AGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAGGCAGT
131 AGATCTTAACCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGT
* * *
9145907 AGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTA
196 AGGGTAACAAGCCAAATTCACAAGCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTTA
9145972 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAAGGTCTTAAACCCCTAATCG
261 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAAGGTCTTAAACCCCTAATCG
9146037 GTAGGGTAACAGACCGAATTG
326 GTAGGGTAACAGACCGAATTG
* * * *
9146058 CAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GATCTTAACCCCCTAAACA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGATCTTAAACCCCTAAACA
* * * * *
9146122 GTAGGGAAACAGATCGAAGATG-ATAGGCTTTAAC-CCCTAAGCAGTAGGGTAACAG-GCTGAAG
66 GTAGGGAAACAGACCGAA-ATGCAGA-TC-TTAACTCCCTAAGCAGTAGGGAAACAGATC-GAAG
*
9146184 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCT
127 A-TGA-AGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCT
* *
9146249 AAGCAGTAGGGTAACAAGCCGAATTCACAAGCCTTAAACCCCTAAACAGTAGGGTAACTGGCTGA
189 AAGCAGTAGGGTAACAAGCCAAATTCACAAGCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGA
** * * * * *
9146314 AGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATG-ATGGGCTTTAACCC
254 AGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAAGGTC-TTAAACC
* * * *
9146378 CCTAAGCAGTAGGGTAACA-AGCCAAATTTA
318 CCTAATCGGTAGGGTAACAGA-CCGAA-TTG
* * * * * * ** * * *
9146408 CAAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAAGATTTACA-AATCTTAACCCCCTAAC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGA-AGGATCTTAAACCCCTAAA
* *** * * * *
9146472 CAGTAGGGTAACAGGTTGAATTTACAGATCTTAAC-CCCTTAAGCAGTTGGGAAATAGATCGAAG
64 CAGTAGGGAAACAGACCGAA-ATGCAGATCTTAACTCCC-TAAGCAGTAGGGAAACAGATCGAAG
* ** * *
9146536 ATGATGGGCCTTAAACCCCTAAGTAGTAGGGTAACAG
127 ATGA-AGATCTT-AACCCCTAAGCAGTAGGGAAACAG
9146573 GCTGGAAATT
Statistics
Matches: 435, Mismatches: 64, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
345 34 0.08
346 70 0.16
347 6 0.01
348 14 0.03
349 180 0.41
350 35 0.08
351 36 0.08
352 57 0.13
353 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (346 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGATCTTAAACCCCTAAACA
GTAGGGAAACAGACCGAAATGCAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA
AGATCTTAACCCCTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGT
AGGGTAACAAGCCAAATTCACAAGCCTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTTA
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAAGGTCTTAAACCCCTAATCG
GTAGGGTAACAGACCGAATTG
Found at i:9146572 original size:132 final size:130
Alignment explanation
Indices: 9145713--9146574 Score: 852
Period size: 132 Copynumber: 6.6 Consensus size: 130
9145703 GAAGATTTAC
* * * *
9145713 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGTCTTAAACCCCTAATCG
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATA-GGCCTTAAACCCCTAAGCA
* * * *
9145777 GTAGGGTAACAGACCG-AA-TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGAT
65 GTAGGGTAACAGGCCGAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-AT
9145840 GA
129 GA
* * * *
9145842 AGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAGGCAG
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCCTTAAACCCCTAAGCAG
* * * *
9145906 TAGGGTAACAAGCC-AAATTTACA-AGCCTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGA
66 TAGGGTAACAGGCCGAAATTTACAGA-TCTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAA-A
*
9145968 TTTA
128 -TGA
* * * * *
9145972 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAAGGTCTTAAACCCCTAATCG
1 -AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCCTTAAACCCCTAAGCA
* * * *
9146037 GTAGGGTAACAGACCG-AA-TTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGAT
65 GTAGGGTAACAGGCCGAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-AT
9146100 GA
129 GA
* *
9146102 AGATCTTAACCCCCTAAACAGTAGGGAAACAGATCGAAGATGATAGG-CTTTAACCCCTAAGCAG
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCCTTAAACCCCTAAGCAG
* *
9146166 TAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGAT
66 TAGGGTAACAGGCCGAA-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA-AT
9146231 GA
129 GA
* ** * * * * * * *
9146233 TGGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTCACAAGCCTTAAACCCCTAAAC
1 AGATC-TTAACCCCCTAAGCAGTAGGGAAACAGA-TCGAAGATGATAGGCCTTAAACCCCTAAGC
* * **
9146296 AGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAA
64 AGTAGGGTAACAGGCCGAA-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGAT-CGAA
9146361 ATGA
127 ATGA
* ** * * * * * **
9146365 TGGGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACAAACCTTAAACCCCTAAGC
1 AGATC-TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATAGGCCTTAAACCCCTAAGC
** * * * * * *
9146428 AGTAGGGTAACAGGTTGAAGATTTACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTGAAT
64 AGTAGGGTAACAGGCCGAA-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAA
*
9146493 TTA
128 TGA
* * * * *
9146496 CAGATCTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGCCTTAAACCCCTAAGTA
1 -AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCCTTAAACCCCTAAGCA
9146561 GTAGGGTAACAGGC
65 GTAGGGTAACAGGC
9146575 TGGAAATTAC
Statistics
Matches: 618, Mismatches: 93, Indels: 41
0.82 0.12 0.05
Matches are distributed among these distances:
128 89 0.14
129 88 0.14
130 5 0.01
131 122 0.20
132 310 0.50
133 4 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (130 bp):
AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCCTTAAACCCCTAAGCAG
TAGGGTAACAGGCCGAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAATGA
Found at i:9146711 original size:68 final size:68
Alignment explanation
Indices: 9146590--9146788 Score: 285
Period size: 68 Copynumber: 2.9 Consensus size: 68
9146580 ATTACAAATT
* * *
9146590 TCTTTT-TCCCTGAAATGACATTGGAGCGGCTAAAAGCCACAGCAGATCCCCTTGAAGTTTCAG-
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
*
9146653 AGGA
66 A-AA
* *
9146657 TCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
9146722 AAA
66 AAA
* * * *
9146725 CCTCTTCTTCCAGAAATGGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG
9146789 TGGAAGAAGA
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
67 6 0.05
68 111 0.94
69 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (68 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGC
AAA
Found at i:9147078 original size:132 final size:132
Alignment explanation
Indices: 9146841--9147630 Score: 1463
Period size: 132 Copynumber: 6.0 Consensus size: 132
9146831 AGGAGCAGAC
*
9146841 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
9146906 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
9146971 AT
131 AT
9146973 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* *
9147038 CCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAG
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
9147103 AT
131 AT
* * * * *
9147105 CGAAGATAGCAGATTTGGCATCCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
9147170 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
9147235 AT
131 AT
*
9147237 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
9147302 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
9147367 AT
131 AT
9147369 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
* *
9147434 CCCTGTGCTTATAGGGAACAAATTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
9147499 AT
131 AT
9147501 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
*
9147566 CCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
9147631 GTTGAAAACA
Statistics
Matches: 640, Mismatches: 18, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 640 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
AT
Found at i:9147740 original size:132 final size:132
Alignment explanation
Indices: 9147604--9147860 Score: 469
Period size: 132 Copynumber: 1.9 Consensus size: 132
9147594 ACATCAGATT
9147604 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAAG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAAG
*
9147669 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAAATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
9147734 CA
131 CA
*
9147736 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAAG
** *
9147801 GAACGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATTAAAGAT
66 GAACAAATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
9147861 AGCGGATATC
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 120 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAAG
GAACAAATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
CA
Found at i:9147840 original size:264 final size:262
Alignment explanation
Indices: 9146841--9147762 Score: 1395
Period size: 264 Copynumber: 3.5 Consensus size: 262
9146831 AGGAGCAGAC
* * *
9146841 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
* *
9146906 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAAC-AGATGAAAACATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAA
9146971 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
129 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
9147036 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
194 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
9147101 -AGAT
259 AAG-T
*
9147105 CGAAGATAGCAGATTTGGCATCCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
* * *
9147170 CCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAG
66 CCCTGTGCTTATAGGGAAC-AGATGAAAACATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAA
*
9147235 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGC
129 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
*
9147300 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
194 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
*
9147365 AAAT
259 AAGT
* * * *
9147369 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
*
9147434 CCCTGTGCTTATAGGGAACAAATTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAA
66 CCCTGTGCTTATAGGGAACAGA-TGAAAACATCAGA-TTGGCATCCCTGTGCTTATAGGGAACAA
9147499 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
129 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGC
*
9147564 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAAC
194 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAAC
9147629 AAGT
259 AAGT
* * * * * * ** *
9147633 TGAAAACATCAGATTTGGCATCCCTGTGCTTATAAG-GAA-CAAATCGAAGATAGCAG-ATCTGA
1 CGAAGATAGCAGATTTGGCATCCCTGTGCTTA-CAGTGAAGCAGATCGAAGATTTCAGCA--TGG
* * * * **
9147695 CATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGA
63 CATCCCTGTGCTTATAGGGAA-CAGATGAAA-ACATCAG-ATTGGCATCCCTGTGCTTATAGGGA
9147759 ACAA
125 ACAA
9147763 GTTGAAAACA
Statistics
Matches: 610, Mismatches: 40, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
262 1 0.00
263 14 0.02
264 583 0.96
265 11 0.02
266 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (262 bp):
CGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAGATGAAAACATCAGATTGGCATCCCTGTGCTTATAGGGAACAAAT
CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCAT
CCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAA
GT
Found at i:9147897 original size:176 final size:176
Alignment explanation
Indices: 9146900--9147840 Score: 1046
Period size: 176 Copynumber: 5.3 Consensus size: 176
9146890 GATTTCAGCA
* *
9146900 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
9146965 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
*
9147030 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * *
9147076 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATTTGGCATCCCTGTGCTTA-CGG
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
* ** * * * * * * **
9147140 TGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACA
66 -GAA-CAAATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATT
* * * * * *
9147201 GCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAGATC
127 TCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACATCAGATT
* * * * * * ***
9147252 TGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATA
1 TGGCATCCCTGTGCTTATAGGGAA-CAAATCGAAAACAGCAG-ATTTGGCATCCCTGTGCTTATA
* * * * * * * * * * * **
9147315 GGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAATCGAAGATAGC
64 GGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTC
* * * * * * **
9147379 AG-ATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
129 AGCA--TGGCATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACATCAG-ATT
* *
9147428 TGGCATCCCTGTGCTTATAGGGAACAAATTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
9147493 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
9147558 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
* * * *
9147604 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAAG
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
9147669 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
9147734 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
131 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
** * * * * * *
9147780 TGGCATCCCTGTGCTTATAGGGAACGGATCGAAGATAGCAAATCTGACATTCCTGTGCTTA
1 TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATTTGGCATCCCTGTGCTTA
9147841 CAGTGAAGCA
Statistics
Matches: 645, Mismatches: 97, Indels: 46
0.82 0.12 0.06
Matches are distributed among these distances:
174 3 0.00
175 42 0.07
176 545 0.84
177 52 0.08
178 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (176 bp):
TGGCATCCCTGTGCTTATAGGGAACAAATCGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGG
GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATT
Found at i:9148246 original size:22 final size:22
Alignment explanation
Indices: 9148206--9148247 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9148196 TGGCCACCCA
*
9148206 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
9148228 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
9148248 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:9148320 original size:23 final size:23
Alignment explanation
Indices: 9148302--9148392 Score: 121
Period size: 23 Copynumber: 3.9 Consensus size: 23
9148292 ACTTTGTTTT
9148302 AGGTTTTTTTTGTTTTTTGGAGG
1 AGGTTTTTTTTGTTTTTTGGAGG
9148325 AGGTTTTTTTTGTTTTTTGGAGG
1 AGGTTTTTTTTGTTTTTTGGAGG
* *
9148348 -TGTTTTTTTTGTTTTTTGGAAAGA
1 AGGTTTTTTTTGTTTTTTGG--AGG
* *
9148372 AGGTTATTTTTGTTTCTTGGA
1 AGGTTTTTTTTGTTTTTTGGA
9148393 AAGGCTAGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
22 18 0.30
23 24 0.40
24 2 0.03
25 16 0.27
ACGTcount: A:0.12, C:0.01, G:0.26, T:0.60
Consensus pattern (23 bp):
AGGTTTTTTTTGTTTTTTGGAGG
Found at i:9148382 original size:47 final size:45
Alignment explanation
Indices: 9148304--9148392 Score: 133
Period size: 47 Copynumber: 1.9 Consensus size: 45
9148294 TTTGTTTTAG
* * *
9148304 GTTTTTTTTGTTTTTTGGAGGAGGTTTTTTTTGTTTTTTGGAGGT
1 GTTTTTTTTGTTTTTTGGAGAAGGTTATTTTTGTTTCTTGGAGGT
9148349 GTTTTTTTTGTTTTTTGGAAAGAAGGTTATTTTTGTTTCTTGGA
1 GTTTTTTTTGTTTTTTGG--AGAAGGTTATTTTTGTTTCTTGGA
9148393 AAGGCTAGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 18 0.46
47 21 0.54
ACGTcount: A:0.11, C:0.01, G:0.26, T:0.62
Consensus pattern (45 bp):
GTTTTTTTTGTTTTTTGGAGAAGGTTATTTTTGTTTCTTGGAGGT
Found at i:9148707 original size:3 final size:3
Alignment explanation
Indices: 9148693--9148775 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
9148683 GAACTTTGTT
* *
9148693 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
9148737 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
9148776 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9148753 original size:21 final size:18
Alignment explanation
Indices: 9148693--9148775 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
9148683 GAACTTTGTT
*
9148693 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
9148713 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
9148731 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
9148752 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
9148770 -TATTAT
1 TTATTAT
9148776 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:9148778 original size:27 final size:26
Alignment explanation
Indices: 9148692--9148779 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
9148682 AGAACTTTGT
* * *
9148692 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
9148719 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
9148744 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
9148770 TATTATATAT
1 T-TTATATAT
9148780 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:9149031 original size:12 final size:12
Alignment explanation
Indices: 9148998--9149040 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
9148988 TATATTAGTG
* *
9148998 TATATTTTTATG
1 TATATTTATATA
*
9149010 TATATATATATA
1 TATATTTATATA
9149022 TATATTTATATA
1 TATATTTATATA
9149034 TAGTATT
1 TA-TATT
9149041 GTTTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (12 bp):
TATATTTATATA
Found at i:9149133 original size:2 final size:2
Alignment explanation
Indices: 9149128--9149163 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9149118 GTATTTCTAT
* *
9149128 TA TA TA CA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9149164 GTATTATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9150112 original size:15 final size:15
Alignment explanation
Indices: 9150092--9150132 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
9150082 TAAGAGAGTG
9150092 TAATTACTACTTTAA
1 TAATTACTACTTTAA
* *
9150107 TAATTATTACTCTAA
1 TAATTACTACTTTAA
9150122 TAATTAC-ACTT
1 TAATTACTACTT
9150133 ATATTCAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (15 bp):
TAATTACTACTTTAA
Found at i:9150329 original size:35 final size:35
Alignment explanation
Indices: 9150290--9150356 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
9150280 GAATCGAGGA
* * *
9150290 TTTAGGATTT-AAGATTTACAATTTAATGTTTAAAT
1 TTTA-GATTTCAAGACTTAAAATTTAATATTTAAAT
9150325 TTTAGATTTCAAGACTTAAAATTTAATATTTA
1 TTTAGATTTCAAGACTTAAAATTTAATATTTA
9150357 GGATGTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 5 0.18
35 23 0.82
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (35 bp):
TTTAGATTTCAAGACTTAAAATTTAATATTTAAAT
Found at i:9156477 original size:19 final size:18
Alignment explanation
Indices: 9156434--9156477 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
9156424 TTCCACTTAC
9156434 TTTCTTTATTCTTTTATT
1 TTTCTTTATTCTTTTATT
*
9156452 TTACTTTAATTCTTTT-TCT
1 TTTCTTT-ATTCTTTTAT-T
9156471 TTTCTTT
1 TTTCTTT
9156478 TATTATAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTCTTTATTCTTTTATT
Found at i:9158593 original size:31 final size:32
Alignment explanation
Indices: 9158539--9158601 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
9158529 TTAATTTTTT
*
9158539 ATAATATCTACTTTACCCCTATTAACT-TTAA
1 ATAATACCTACTTTACCCCTATTAACTCTTAA
***
9158570 ATAATACCTACTTTACGTTTATTAACTCTTAA
1 ATAATACCTACTTTACCCCTATTAACTCTTAA
9158602 TAACTCCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.43
Consensus pattern (32 bp):
ATAATACCTACTTTACCCCTATTAACTCTTAA
Found at i:9158604 original size:31 final size:31
Alignment explanation
Indices: 9158524--9158585 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
9158514 ATAAAATTGT
* ** *
9158524 CCCTATTAATTTTTTATAATATCTACTTTAC
1 CCCTATTAACTTTAAATAATACCTACTTTAC
9158555 CCCTATTAACTTTAAATAATACCTACTTTAC
1 CCCTATTAACTTTAAATAATACCTACTTTAC
9158586 GTTTATTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (31 bp):
CCCTATTAACTTTAAATAATACCTACTTTAC
Found at i:9160030 original size:5 final size:5
Alignment explanation
Indices: 9160020--9160057 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
9160010 ACACTTAAAC
9160020 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
9160058 GTATAATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:9160168 original size:12 final size:12
Alignment explanation
Indices: 9160136--9160168 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9160126 AGGGAAAAAG
9160136 GGAGAAAAGAAA
1 GGAGAAAAGAAA
9160148 -GAGAGAAAGAAA
1 GGAGA-AAAGAAA
9160160 GGAGAAAAG
1 GGAGAAAAG
9160169 TTAGGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.21
12 11 0.58
13 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (12 bp):
GGAGAAAAGAAA
Found at i:9161131 original size:15 final size:17
Alignment explanation
Indices: 9161093--9161131 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9161083 TAAAAATTTA
*
9161093 AATAATAATATTAATTG
1 AATATTAATATTAATTG
9161110 AATATTAAT-TTAATTG
1 AATATTAATATTAATTG
9161126 -ATATTA
1 AATATTA
9161132 TTATCAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 7 0.33
17 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
AATATTAATATTAATTG
Found at i:9162719 original size:2 final size:2
Alignment explanation
Indices: 9162714--9162742 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9162704 TTATTTTATG
9162714 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 T
9162743 TTAAACTGTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9168613 original size:21 final size:21
Alignment explanation
Indices: 9168589--9168629 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9168579 TTTAGTTGTA
9168589 AAATAAAA-ATTATTATTTTAT
1 AAATAAAATA-TATTATTTTAT
9168610 AAATAAAATATATTATTTTA
1 AAATAAAATATATTATTTTA
9168630 AATGTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATAAAATATATTATTTTAT
Found at i:9170217 original size:25 final size:27
Alignment explanation
Indices: 9170182--9170233 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
9170172 GTGAGGGGAA
*
9170182 ATTATATTATGGATT-TTTTTTATTAT
1 ATTATATTATGGATTATTTTTAATTAT
9170208 ATTAT-TTATGGATTATTTTTAATTAT
1 ATTATATTATGGATTATTTTTAATTAT
9170234 TTAATGATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (27 bp):
ATTATATTATGGATTATTTTTAATTAT
Found at i:9170232 original size:21 final size:23
Alignment explanation
Indices: 9170181--9170236 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
9170171 TGTGAGGGGA
*
9170181 AATTATATTATGGATTTTTTTTATT
1 AATTAT-TTATGGA-TTTATTTATT
9170206 ATATTATTTATGGA-TTATTT-TT
1 A-ATTATTTATGGATTTATTTATT
9170228 AATTATTTA
1 AATTATTTA
9170237 ATGATATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 8 0.28
22 3 0.10
23 5 0.17
25 8 0.28
26 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (23 bp):
AATTATTTATGGATTTATTTATT
Found at i:9170364 original size:20 final size:20
Alignment explanation
Indices: 9170348--9170386 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9170338 ATCCTAAATC
*
9170348 ATGAACTTGAACTCTAAACT
1 ATGAACCTGAACTCTAAACT
*
9170368 TTGAACCTGAACTCTAAAC
1 ATGAACCTGAACTCTAAAC
9170387 CTTAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (20 bp):
ATGAACCTGAACTCTAAACT
Found at i:9170420 original size:20 final size:21
Alignment explanation
Indices: 9170377--9170421 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
9170367 TTTGAACCTG
* *
9170377 AACTCTAAACCTTAAATTTTA
1 AACTCTAAACCTTAAATCTCA
9170398 AACTCTAAA-CTTAAATCTCA
1 AACTCTAAACCTTAAATCTCA
9170418 AACT
1 AACT
9170422 TAGAAATCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (21 bp):
AACTCTAAACCTTAAATCTCA
Found at i:9170831 original size:3 final size:3
Alignment explanation
Indices: 9170823--9170853 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
9170813 GATCATTGCC
9170823 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9170854 TGTGTTTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9171629 original size:3 final size:3
Alignment explanation
Indices: 9171621--9171675 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
9171611 TGTCTCGAAC
9171621 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9171669 TAA TAA T
1 TAA TAA T
9171676 CTTGATGTGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9172336 original size:9 final size:9
Alignment explanation
Indices: 9172322--9172355 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
9172312 AAAATTGGGT
9172322 AATTAACCG
1 AATTAACCG
9172331 AATTAACCG
1 AATTAACCG
9172340 AATTAACCG
1 AATTAACCG
9172349 AACTTAA
1 AA-TTAA
9172356 TAAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:9176173 original size:17 final size:17
Alignment explanation
Indices: 9176151--9176188 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
9176141 AGAATATACA
9176151 TAAGTTAATTAAATAGT
1 TAAGTTAATTAAATAGT
*
9176168 TAAGTTAATTTAATAGT
1 TAAGTTAATTAAATAGT
9176185 TAAG
1 TAAG
9176189 GTAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (17 bp):
TAAGTTAATTAAATAGT
Found at i:9176750 original size:18 final size:18
Alignment explanation
Indices: 9176729--9176789 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
9176719 ACGATGCTAT
*
9176729 TGAAGAAGACGATGAAGA
1 TGAAGAAGAAGATGAAGA
*
9176747 TGAAGATGAAGATGAAGA
1 TGAAGAAGAAGATGAAGA
* *
9176765 CGAATACGAAGAAGACGAAGA
1 TG-A-A-GAAGAAGATGAAGA
9176786 TGAA
1 TGAA
9176790 AACGACGACG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 17 0.50
19 2 0.06
20 2 0.06
21 13 0.38
ACGTcount: A:0.51, C:0.07, G:0.31, T:0.11
Consensus pattern (18 bp):
TGAAGAAGAAGATGAAGA
Found at i:9176763 original size:27 final size:26
Alignment explanation
Indices: 9176733--9176794 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
9176723 TGCTATTGAA
* *
9176733 GAAGACGATGAAGATGAAGATGAAGAT
1 GAAGACGAT-AAGAAGAAGACGAAGAT
*
9176760 GAAGACGAATACGAAGAAGACGAAGAT
1 GAAGACG-ATAAGAAGAAGACGAAGAT
*
9176787 GAAAACGA
1 GAAGACGA
9176795 CGACGTCTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 27 0.90
28 2 0.07
ACGTcount: A:0.52, C:0.08, G:0.31, T:0.10
Consensus pattern (26 bp):
GAAGACGATAAGAAGAAGACGAAGAT
Found at i:9176778 original size:21 final size:21
Alignment explanation
Indices: 9176754--9176794 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9176744 AGATGAAGAT
* *
9176754 GAAGATGAAGACGAATACGAA
1 GAAGACGAAGACGAAAACGAA
*
9176775 GAAGACGAAGATGAAAACGA
1 GAAGACGAAGACGAAAACGA
9176795 CGACGTCTTG
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:0.54, C:0.10, G:0.29, T:0.07
Consensus pattern (21 bp):
GAAGACGAAGACGAAAACGAA
Found at i:9176784 original size:6 final size:6
Alignment explanation
Indices: 9176729--9176764 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
9176719 ACGATGCTAT
* *
9176729 TGAAGA AGACGA TGAAGA TGAAGA TGAAGA TGAAGA
1 TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA TGAAGA
9176765 CGAATACGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.33, T:0.14
Consensus pattern (6 bp):
TGAAGA
Found at i:9176794 original size:12 final size:12
Alignment explanation
Indices: 9176742--9176794 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
9176732 AGAAGACGAT
*
9176742 GAAGATGAAGAT
1 GAAGATGAAGAC
9176754 GAAGATGAAGAC
1 GAAGATGAAGAC
*
9176766 GAATACGAAGAAGAC
1 G-A-A-GATGAAGAC
*
9176781 GAAGATGAAAAC
1 GAAGATGAAGAC
9176793 GA
1 GA
9176795 CGACGTCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 21 0.62
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.53, C:0.08, G:0.30, T:0.09
Consensus pattern (12 bp):
GAAGATGAAGAC
Found at i:9179198 original size:28 final size:28
Alignment explanation
Indices: 9179158--9179213 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
9179148 AGCATTAATG
*
9179158 GTGCAATTGACTGCTAGATGGAAGTTTA
1 GTGCAATTGACTGCCAGATGGAAGTTTA
9179186 GTGCAATTGACTGCCAGATGGAAGTTTA
1 GTGCAATTGACTGCCAGATGGAAGTTTA
9179214 CGTATTGTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (28 bp):
GTGCAATTGACTGCCAGATGGAAGTTTA
Found at i:9184260 original size:7 final size:6
Alignment explanation
Indices: 9184232--9184279 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
9184222 AAATCTTCTC
* *
9184232 CCCTTT -CCTCTT CCCCTT CCCTTTT CCCTTT CCCTTT CCCTTC CCCTT
1 CCCTTT CCCT-TT CCCTTT CCC-TTT CCCTTT CCCTTT CCCTTT CCCTT
9184280 GGGTTGCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
5 3 0.08
6 26 0.72
7 7 0.19
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (6 bp):
CCCTTT
Found at i:9185313 original size:84 final size:84
Alignment explanation
Indices: 9185172--9185343 Score: 272
Period size: 84 Copynumber: 2.0 Consensus size: 84
9185162 TTGTAGGCTA
*
9185172 TATTAATATAGATGTAATGTAATTTAGCTAATGACAAAGAAGATGGTTCAAATTTGAACTAGTTT
1 TATTAATATAGATGTAATGTAATTCAGCTAATGACAAAGAAGATGGTTCAAATTTGAACTAGTTT
9185237 TGCATATTCATTTTGATTT
66 TGCATATTCATTTTGATTT
* * * * * *
9185256 TATTAATATAGATGTAATGTAATTCAGTTGATGCCAGAGAAGATGGTTCAGATTTGAACTGGTTT
1 TATTAATATAGATGTAATGTAATTCAGCTAATGACAAAGAAGATGGTTCAAATTTGAACTAGTTT
*
9185321 TGCATCTTCATTTTGATTT
66 TGCATATTCATTTTGATTT
9185340 TATT
1 TATT
9185344 GGCAATAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (84 bp):
TATTAATATAGATGTAATGTAATTCAGCTAATGACAAAGAAGATGGTTCAAATTTGAACTAGTTT
TGCATATTCATTTTGATTT
Found at i:9185850 original size:14 final size:13
Alignment explanation
Indices: 9185824--9185849 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9185814 GTTTCATTTA
9185824 AAATAGTTTTTTT
1 AAATAGTTTTTTT
9185837 AAATAGTTTTTTT
1 AAATAGTTTTTTT
9185850 TTTGAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
AAATAGTTTTTTT
Found at i:9185852 original size:17 final size:16
Alignment explanation
Indices: 9185830--9185862 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9185820 TTTAAAATAG
9185830 TTTTTTT-AAATAGTTT
1 TTTTTTTGAAATA-TTT
9185846 TTTTTTTGAAATATTT
1 TTTTTTTGAAATATTT
9185862 T
1 T
9185863 CAAGAAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (16 bp):
TTTTTTTGAAATATTT
Found at i:9185962 original size:105 final size:105
Alignment explanation
Indices: 9185764--9185967 Score: 313
Period size: 105 Copynumber: 1.9 Consensus size: 105
9185754 CACTTTGTTT
*
9185764 AGTGAATTTAGCTAAACAATTAAATGAAAAAAAAACTCAAATATATGTTTGTTTCATTTAAAATA
1 AGTGAATTTAGCTAAACAATTAAAAGAAAAAAAAACTCAAATATATGTTTGTTTCATTTAAAATA
**
9185829 GTTTTTTTAAATAGTTTTTTTTTTGAAATATTTTCAAGAA
66 GTTTTTTTAAATAGTAATTTTTTTGAAATATTTTCAAGAA
* * * *
9185869 AGTGAATTTAGCTAAACAATTAAAAGACAAGAAAAATTCAAATGTATGTTTGTTTCGTTTAAAAT
1 AGTGAATTTAGCTAAACAATTAAAAGA-AAAAAAAACTCAAATATATGTTTGTTTCATTTAAAAT
9185934 AGCTTTTTTTAAA-A-TAATTTTTTTGAAATATTTT
65 AG-TTTTTTTAAATAGTAATTTTTTTGAAATATTTT
9185968 TAGGAAATCT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
105 44 0.49
106 36 0.40
107 10 0.11
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (105 bp):
AGTGAATTTAGCTAAACAATTAAAAGAAAAAAAAACTCAAATATATGTTTGTTTCATTTAAAATA
GTTTTTTTAAATAGTAATTTTTTTGAAATATTTTCAAGAA
Found at i:9185966 original size:13 final size:14
Alignment explanation
Indices: 9185926--9185968 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
9185916 GTTTGTTTCG
*
9185926 TTTAAAATAGCTTTT
1 TTTAAAATA-ATTTT
9185941 TTTAAAATAATTTT
1 TTTAAAATAATTTT
*
9185955 TTTGAAAT-ATTTT
1 TTTAAAATAATTTT
9185968 T
1 T
9185969 AGGAAATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 6 0.23
14 11 0.42
15 9 0.35
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (14 bp):
TTTAAAATAATTTT
Found at i:9187431 original size:2 final size:2
Alignment explanation
Indices: 9187424--9187455 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9187414 AAATAATAAA
9187424 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
9187456 GGCAACTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9204484 original size:21 final size:21
Alignment explanation
Indices: 9204420--9204484 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
9204410 AATTAACTTG
*
9204420 TATGAGTTTCAGTTTAACCC-
1 TATGAGTTTCCGTTTAACCCT
* * * *
9204440 TATTGGGTTTCCGTTCAGCTCT
1 TA-TGAGTTTCCGTTTAACCCT
*
9204462 TATGAGCTTCCGTTTAACCCT
1 TATGAGTTTCCGTTTAACCCT
9204483 TA
1 TA
9204485 CGGGTTTCTA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (21 bp):
TATGAGTTTCCGTTTAACCCT
Found at i:9204506 original size:42 final size:42
Alignment explanation
Indices: 9204420--9204507 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
9204410 AATTAACTTG
* * * *
9204420 TATGAGTTTCAGTTTAACCCTATTGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTATCGGGTTTCCATTCAGCACT
* * *
9204462 TATGAGCTTCCGTTTAACCCT-TACGGGTTTCTATTTAGCACT
1 TATGAGCTTCAGTTTAACCCTAT-CGGGTTTCCATTCAGCACT
9204504 TATG
1 TATG
9204508 TCTTTAGTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTATCGGGTTTCCATTCAGCACT
Found at i:9209816 original size:3 final size:3
Alignment explanation
Indices: 9209808--9209874 Score: 125
Period size: 3 Copynumber: 22.0 Consensus size: 3
9209798 ATATCCATGT
9209808 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9209856 TTA TTA TTA TTA TGTA TTA
1 TTA TTA TTA TTA T-TA TTA
9209875 GTTTACGTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9210338 original size:2 final size:2
Alignment explanation
Indices: 9210326--9210355 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9210316 ATTATTAGTC
*
9210326 AT AT TT 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
9210356 TATTCCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:9222780 original size:74 final size:71
Alignment explanation
Indices: 9222659--9223008 Score: 316
Period size: 74 Copynumber: 4.9 Consensus size: 71
9222649 TTTGGGTACT
* * * *
9222659 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
9222724 GGTCACACG
65 GG--ACACG
* * * **
9222733 CTGAGGTATTTTTAGTTTATGTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCA
1 CTGAGGTATTTTTAATTTATGTTTC-AAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
*
9222798 GGTCACG
65 GGACACG
* * *
9222805 CTGAGGTATTTTTAATTCCCGT-TGTTTCAAAAATCAGCTCATATTGTGAGAAGTGAGTTGAGCC
1 CTGAGGTATTTTTAATT----TATGTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCC
*
9222869 TCA--AGACG
62 TCAGGACACG
* * * * * ** * *
9222877 TTGAGGTAATTTTAATTCATG-TTCCAAAATCAACTCATATTGTAAGAGGTGAGTTGAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
*
9222941 GGCACG
66 GACACG
* * * *
9222947 CTGAGGTATTTTTATTTTATGTTT-AGAAAATTGACTCATCTTGCGA-AAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCA-AAAATTAACTCATATTGCGAGAA-GTGAGTTGAGCCT
9223009 TTTAATTTCT
Statistics
Matches: 223, Mismatches: 42, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
68 37 0.17
69 2 0.01
70 21 0.09
71 29 0.13
72 38 0.17
73 4 0.02
74 85 0.38
75 6 0.03
76 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
GACACG
Found at i:9222951 original size:142 final size:143
Alignment explanation
Indices: 9222659--9222960 Score: 358
Period size: 142 Copynumber: 2.1 Consensus size: 143
9222649 TTTGGGTACT
* *
9222659 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTCACGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * * ** *
9222724 GGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAAATTGACTCATATTGCGAGAGGTGAGT
66 -G--ACACGCTGAGGTAATTTTAATTCATGTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGT
*
9222789 CAAGCCTCAGGTCACG
128 CAAGCCTCAGGGCACG
* * * *
9222805 CTGAGGTATTTTTAATTCCCGTTGTTTCAAAAATCAGCTCATATTGTGAGAAGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATTCACG-T-TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* * * * *
9222870 CA-AGACGTTGAGGTAATTTTAATTCATG-TTC-CAAAATCAACTCATATTGTAAGAGGTGAGTT
64 CAGACACGCTGAGGTAATTTTAATTCATGTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTC
* *
9222932 GAGCCTCGGGGCACG
129 AAGCCTCAGGGCACG
9222947 CTGAGGTATTTTTA
1 CTGAGGTATTTTTA
9222961 TTTTATGTTT
Statistics
Matches: 134, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
142 51 0.38
143 3 0.02
144 21 0.16
146 18 0.13
147 1 0.01
148 40 0.30
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (143 bp):
CTGAGGTATTTTTAATTCACGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
GACACGCTGAGGTAATTTTAATTCATGTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTCAA
GCCTCAGGGCACG
Done.