Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 163 of 213
Found at i:48837221 original size:15 final size:15
Alignment explanation
Indices: 48837183--48837221 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
48837173 TTTAATATTT
48837183 TTAATAAATAAGATA
1 TTAATAAATAAGATA
* * *
48837198 ATAACAAATAATATA
1 TTAATAAATAAGATA
48837213 TTAATAAAT
1 TTAATAAAT
48837222 TTTATATTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (15 bp):
TTAATAAATAAGATA
Found at i:48841908 original size:3 final size:3
Alignment explanation
Indices: 48841900--48841930 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
48841890 AGAGAGAGAG
48841900 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
48841931 TAGAGCATAC
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:48855401 original size:5 final size:5
Alignment explanation
Indices: 48855391--48855417 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
48855381 ATAACTTCCC
48855391 TAATT TAATT TAATT TAATT TAATT TA
1 TAATT TAATT TAATT TAATT TAATT TA
48855418 CTTAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TAATT
Found at i:48855816 original size:29 final size:30
Alignment explanation
Indices: 48855754--48855817 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
48855744 TAAAATAAAT
*
48855754 AAAAACTATTGAAATTTAAAAAGAAAAACT
1 AAAAACTATTGAAATTTAAAAAGAAAAACG
*
48855784 AAAAA-TATTTAAA-TTATAAAAGATAAAA-G
1 AAAAACTATTGAAATTTA-AAAAGA-AAAACG
48855813 AAAAA
1 AAAAA
48855818 AAACTTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 3 0.10
29 18 0.60
30 9 0.30
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.23
Consensus pattern (30 bp):
AAAAACTATTGAAATTTAAAAAGAAAAACG
Found at i:48864370 original size:43 final size:43
Alignment explanation
Indices: 48864282--48864480 Score: 211
Period size: 43 Copynumber: 4.7 Consensus size: 43
48864272 TATACTTCTG
* * * * * * *
48864282 TTTATCTGATGATACACTAT-TTTTCAAATATAATTTCTTCGA
1 TTTATCCGATGATGCACTATGTGTGCCAATATAATTGCTTCAA
48864324 TTTATCCGATGATGCACTATGTGTGCCAATATAATTGCTTCAA
1 TTTATCCGATGATGCACTATGTGTGCCAATATAATTGCTTCAA
* * * * *
48864367 TTTATCGGATGATGCACTACGCGTGCCAATATAATTTCTTCAG
1 TTTATCCGATGATGCACTATGTGTGCCAATATAATTGCTTCAA
* * * * * *
48864410 TTTATCCAATGATGCACTATTTGTACTAGTATAATTGTTTCAA
1 TTTATCCGATGATGCACTATGTGTGCCAATATAATTGCTTCAA
* *
48864453 TTTATCCGATGATACACTACGTGTGCCA
1 TTTATCCGATGATGCACTATGTGTGCCA
48864481 GTAAATTACT
Statistics
Matches: 127, Mismatches: 29, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 18 0.14
43 109 0.86
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (43 bp):
TTTATCCGATGATGCACTATGTGTGCCAATATAATTGCTTCAA
Found at i:48864414 original size:86 final size:86
Alignment explanation
Indices: 48864308--48864505 Score: 256
Period size: 86 Copynumber: 2.3 Consensus size: 86
48864298 CTATTTTTCA
* *
48864308 AATATAATTTCTTCGATTTATCCGATGATGCACTATGTGTGCCAATATAATTGCTTCAATTTATC
1 AATATAATTTCTTCGATTTATCCAATGATGCACTATGTGTACCAATATAATTGCTTCAATTTATC
* *
48864373 GGATGATGCACTACGCGTGCC
66 CGATGATACACTACGCGTGCC
* * * *
48864394 AATATAATTTCTTC-AGTTTATCCAATGATGCACTATTTGTACTAGTATAATTGTTTCAATTTAT
1 AATATAATTTCTTCGA-TTTATCCAATGATGCACTATGTGTACCAATATAATTGCTTCAATTTAT
*
48864458 CCGATGATACACTACGTGTGCC
65 CCGATGATACACTACGCGTGCC
* * * *
48864480 AGTA-AATTACTTCGACTTGTCCAATG
1 AATATAATTTCTTCGATTTATCCAATG
48864506 GTACACTGTG
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
85 18 0.19
86 79 0.81
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (86 bp):
AATATAATTTCTTCGATTTATCCAATGATGCACTATGTGTACCAATATAATTGCTTCAATTTATC
CGATGATACACTACGCGTGCC
Found at i:48874261 original size:94 final size:94
Alignment explanation
Indices: 48874086--48874262 Score: 221
Period size: 94 Copynumber: 1.9 Consensus size: 94
48874076 ACTGTGACTC
* **
48874086 AGTTGGGCCTTACCAATTGGATGAGTGTAGGCCTTGTAATGGGGGCTCATTAAAAGGGTTAGCAA
1 AGTTGGGCCCTACCAATTGGATGAGTGTAGGCCTTGTAATGGGGGCTCACCAAAAGGGTTAGCAA
* * * *
48874151 GGGAAGTTCGCGGTCCTAGTTCGCAACCT
66 AGGAAATTCACAGTCCTAGTTCGCAACCT
* * * * * *
48874180 AGTTGGGCCCTACTAGTTGGATGTGTGTAGGCCTTGTAATGGGGGTTCGCCAAAAGGGCTTA-TA
1 AGTTGGGCCCTACCAATTGGATGAGTGTAGGCCTTGTAATGGGGGCTCACCAAAAGGG-TTAGCA
48874244 AAGGAAATTCACAGTCCTA
65 AAGGAAATTCACAGTCCTA
48874263 ATTTGCATAT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
94 66 0.96
95 3 0.04
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (94 bp):
AGTTGGGCCCTACCAATTGGATGAGTGTAGGCCTTGTAATGGGGGCTCACCAAAAGGGTTAGCAA
AGGAAATTCACAGTCCTAGTTCGCAACCT
Found at i:48876888 original size:137 final size:137
Alignment explanation
Indices: 48876464--48877143 Score: 638
Period size: 137 Copynumber: 5.0 Consensus size: 137
48876454 CACAGCTTCA
* * * * * * * *
48876464 ACACAGCTAGCGAACCTATGCTCCTAGTTGATGTCATAAAGGTTTATCGGTTTAAGATTGCAACC
1 ACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGATTTAAGATCGCAACC
** * * *
48876529 TCCAAAGCAACT-GTGGACCTACGCTCCCAATTGACATTACAAGAGCTTGCAAAGTTAAGCTCAC
66 TCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTACAAGAGCTCGCAGAGTTAAGCTCGC
*
48876593 AAATCCG
131 AGATCCG
* * * *
48876600 ACACAACTAG-TGAGCCTACGCTCCCAGTTGATGTCATAAAGGTTTGTCGGTTTAAGATCACAAC
1 ACACAACTAGCGGA-CCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGATTTAAGATCGCAAC
* *** ** *** * *
48876664 CTCC-AA--ATCTAGCAGACCTGTACTCCCAGCTGACATTACAAGAGCTCATGGAGTTTAGCTCT
65 CTCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTACAAGAGCTCGCAGAGTTAAGCTCG
*
48876726 CAGATCTG
130 CAGATCCG
* * * * * * *
48876734 ACATAGCTAGCGAACCTAGGCTCCCAGCTGATGTTATAAAGGTTTATCGATTTAAGATCGTAACC
1 ACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGATTTAAGATCGCAACC
* ** * *
48876799 TCCAAAGCAACTACCAGACCTACGCTCCCAGCTGACATTATAAGAGCTCACAGAGTTAAGCTCGC
66 TCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTACAAGAGCTCGCAGAGTTAAGCTCGC
*
48876864 AGCTCCG
131 AGATCCG
* * * * * * * * *
48876871 GCACAACCAGTGGACCTACACTCCTAACTTATGTCATAAAGGTTTGTCAATTTAAGATCGCAATC
1 ACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGATTTAAGATCGCAACC
* * * * * *
48876936 TCCAAAGCAGCTAGCGGACCTTCAG-TCTCAATTGACATTACAAGAGCTCGTAAAGTTAAGCTCG
66 TCCAAAGCAACTAGCAGACCTAC-GCTCCCAATTGACATTACAAGAGCTCGCAGAGTTAAGCTCG
* *
48877000 CAGCTCCA
130 CAGATCCG
* * * *
48877008 ACACAGCTAGCAGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTC-AGTTTAAGATCACAAC
1 ACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGA-TTTAAGATCGCAAC
* * * * **
48877072 CTCCAAAGCAACTA-AAGGATCTACGCTCCCAATTGACATTATAAGAGCTTGGGGAGTTAAGCTC
65 CTCCAAAGCAACTAGCA-GACCTACGCTCCCAATTGACATTACAAGAGCTCGCAGAGTTAAGCTC
48877136 GCAGATCC
129 GCAGATCC
48877144 AACATAGCTA
Statistics
Matches: 436, Mismatches: 98, Indels: 19
0.79 0.18 0.03
Matches are distributed among these distances:
133 3 0.01
134 98 0.22
135 6 0.01
136 60 0.14
137 268 0.61
138 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (137 bp):
ACACAACTAGCGGACCTACGCTCCCAGCTGATGTCATAAAGGTTTGTCGATTTAAGATCGCAACC
TCCAAAGCAACTAGCAGACCTACGCTCCCAATTGACATTACAAGAGCTCGCAGAGTTAAGCTCGC
AGATCCG
Found at i:48877084 original size:274 final size:269
Alignment explanation
Indices: 48876450--48877143 Score: 784
Period size: 274 Copynumber: 2.6 Consensus size: 269
48876440 GCATTACAAG
* * * *
48876450 AGCTCACAGCTTCAACACAGCTAGCGAACCTATGCTCCTAGTTGATGTCATAAAGGTTTATCGGT
1 AGCTCACAGCTCCAACACAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAGGTTTATC-GT
* *** *
48876515 TTAAGATTGCAACCTCCAAAGCAACTGTGGACCTACGCTCCCAATTGACATTACAAGAGCTTGCA
65 TTAAGATCGCAACCTCCAAAGCAACTAAAGACCTACGCTCCCAATTGACATTATAAGAGCTTGCA
* * * * * * *
48876580 AAGTTAAGCTCACAAATCCGACACAACTAGTGAGCCTACGCTCCCAGTTGATGTCATAAAGGTTT
130 GAGTTAAGCTCGCAGATCCGACACAACCAGTGAGCCTACACTCCAACTTGATGTCATAAAGGTTT
** * *
48876645 GTCGGTTTAAGATCACAACCTCCAAATCTAGCAGACCTGTACTCCCAGCTGACATTACAAGAGCT
195 GTCAATTTAAGATCACAACCTCCAAAGCTAGCAGACCTGTACTCCCAACTGACATTACAAGAGCT
** *
48876710 CATGGAGTTT
260 CATAAAGTTA
* * ** * * *
48876720 AGCTCTCAGATCTGACATAGCTAGCGAACCTAGGCTCCCAGCTGATGTTATAAAGGTTTATCGAT
1 AGCTCACAGCTCCAACACAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAGGTTTATCG-T
* * ** **
48876785 TTAAGATCGTAACCTCCAAAGCAACTACCAGACCTACGCTCCCAGCTGACATTATAAGAGCTCAC
65 TTAAGATCGCAACCTCCAAAGCAACTA-AAGACCTACGCTCCCAATTGACATTATAAGAGCTTGC
* *
48876850 AGAGTTAAGCTCGCAGCTCCGGCACAACCAGTG-GACCTACACTCCTAACTT-ATGTCATAAAGG
129 AGAGTTAAGCTCGCAGATCCGACACAACCAGTGAG-CCTACACTCC-AACTTGATGTCATAAAGG
* * * * * *
48876913 TTTGTCAATTTAAGATCGCAATCTCCAAAGCAGCTAGCGGACCT-TCAGTCTCAATTGACATTAC
192 TTTGTCAATTTAAGATCACAACCTCC-AA--AGCTAGCAGACCTGT-ACTCCCAACTGACATTAC
*
48876977 AAGAGCTCGTAAAGTTA
253 AAGAGCTCATAAAGTTA
* * *
48876994 AGCTCGCAGCTCCAACACAGCTAGC-AGACCTACGCTCCCAACTGATGTCATAAAGGTTTGTCAG
1 AGCTCACAGCTCCAACACAGCTAGCGA-ACCTACGCTCCCAGCTGATGTCATAAAGGTTTATC-G
* *
48877058 TTTAAGATCACAACCTCCAAAGCAACTAAAGGATCTACGCTCCCAATTGACATTATAAGAGCTTG
64 TTTAAGATCGCAACCTCCAAAGCAACTAAA-GACCTACGCTCCCAATTGACATTATAAGAGCTTG
**
48877123 GGGAGTTAAGCTCGCAGATCC
128 CAGAGTTAAGCTCGCAGATCC
48877144 AACATAGCTA
Statistics
Matches: 350, Mismatches: 63, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
269 1 0.00
270 78 0.22
271 100 0.29
272 5 0.01
273 3 0.01
274 162 0.46
275 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (269 bp):
AGCTCACAGCTCCAACACAGCTAGCGAACCTACGCTCCCAGCTGATGTCATAAAGGTTTATCGTT
TAAGATCGCAACCTCCAAAGCAACTAAAGACCTACGCTCCCAATTGACATTATAAGAGCTTGCAG
AGTTAAGCTCGCAGATCCGACACAACCAGTGAGCCTACACTCCAACTTGATGTCATAAAGGTTTG
TCAATTTAAGATCACAACCTCCAAAGCTAGCAGACCTGTACTCCCAACTGACATTACAAGAGCTC
ATAAAGTTA
Found at i:48879851 original size:13 final size:13
Alignment explanation
Indices: 48879833--48879893 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
48879823 ATAGGTATTC
48879833 ATTTATTTATAAT
1 ATTTATTTATAAT
48879846 ATTTATTTATAAT
1 ATTTATTTATAAT
* *
48879859 -TTTATTTTTATT
1 ATTTATTTATAAT
* *
48879871 TTTTATTTTTAAAT
1 ATTTATTTAT-AAT
48879885 ATTTTATTT
1 A-TTTATTT
48879894 TAAATTTTAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.24
13 22 0.54
14 2 0.05
15 7 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTATTTATAAT
Found at i:48879895 original size:14 final size:14
Alignment explanation
Indices: 48879857--48879898 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
48879847 TTTATTTATA
*
48879857 ATTTTATTTT-TAT
1 ATTTTATTTTAAAT
*
48879870 TTTTTATTTTTAAAT
1 ATTTTA-TTTTAAAT
48879885 ATTTTATTTTAAAT
1 ATTTTATTTTAAAT
48879899 TTTAGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 5 0.21
14 12 0.50
15 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTATTTTAAAT
Found at i:48879901 original size:28 final size:29
Alignment explanation
Indices: 48879857--48879911 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
48879847 TTTATTTATA
* **
48879857 ATTTTATTTT-TATTTTTTATTTTTAAAT
1 ATTTTATTTTAAATTTTAGATTTTTAAAT
48879885 ATTTTATTTTAAATTTTAGATTTTTAA
1 ATTTTATTTTAAATTTTAGATTTTTAA
48879912 GAATCAAGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (29 bp):
ATTTTATTTTAAATTTTAGATTTTTAAAT
Found at i:48880588 original size:23 final size:26
Alignment explanation
Indices: 48880562--48880612 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 26
48880552 AATGAGAATA
48880562 ATTAATATCT-TAAGT-TTTT-TTAC
1 ATTAATATCTATAAGTATTTTGTTAC
* *
48880585 ATTATTATTTATAAGTATTTTGTTAC
1 ATTAATATCTATAAGTATTTTGTTAC
48880611 AT
1 AT
48880613 AAAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 5 0.22
25 4 0.17
26 6 0.26
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (26 bp):
ATTAATATCTATAAGTATTTTGTTAC
Found at i:48896433 original size:19 final size:19
Alignment explanation
Indices: 48896409--48896462 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
48896399 AATCTTCAAG
48896409 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48896428 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48896447 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48896463 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48896488 original size:22 final size:22
Alignment explanation
Indices: 48896409--48896485 Score: 85
Period size: 19 Copynumber: 3.7 Consensus size: 22
48896399 AATCTTCAAG
48896409 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
48896428 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
48896447 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
48896469 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
48896486 GATTTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 32 0.62
22 8 0.15
23 12 0.23
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:48897092 original size:37 final size:37
Alignment explanation
Indices: 48897016--48897092 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
48897006 CATACATACG
*
48897016 TTTTATAATATATACATATACGTACACATTTTTTAATT
1 TTTTATAATATATACATATACG-ACACATTTTATAATT
* *
48897054 TTTTATAA-ATATATATATAC-ACATACTTTTATATATT
1 TTTTATAATATATACATATACGACACA-TTTTATA-ATT
48897091 TT
1 TT
48897093 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 4 0.12
36 6 0.18
37 16 0.47
38 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.52
Consensus pattern (37 bp):
TTTTATAATATATACATATACGACACATTTTATAATT
Found at i:48897213 original size:23 final size:22
Alignment explanation
Indices: 48897186--48897228 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
48897176 ATAATTCACA
*
48897186 TACATATATATTTTTCTTATAAG
1 TACATATATATATTT-TTATAAG
48897209 TACATATATATATTTTTATA
1 TACATATATATATTTTTATA
48897229 TTTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (22 bp):
TACATATATATATTTTTATAAG
Found at i:48897217 original size:25 final size:27
Alignment explanation
Indices: 48897166--48897225 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 27
48897156 ATATATTTTT
* *
48897166 TATTTTTTTTATAATTCACATACATATA
1 TATTTTTCTTATAAGTCACATA-ATATA
48897194 TATTTTTCTTATAAGT-ACAT-ATATA
1 TATTTTTCTTATAAGTCACATAATATA
48897219 TATTTTT
1 TATTTTT
48897226 ATATTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 12 0.40
27 4 0.13
28 14 0.47
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (27 bp):
TATTTTTCTTATAAGTCACATAATATA
Found at i:48897432 original size:3 final size:3
Alignment explanation
Indices: 48897426--48897454 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
48897416 ATTATTATTA
48897426 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
48897455 CTTGATCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:48903022 original size:22 final size:22
Alignment explanation
Indices: 48902997--48903088 Score: 70
Period size: 20 Copynumber: 4.3 Consensus size: 22
48902987 AAAATTATGA
48902997 AATTATATTTTATTATTTATAT
1 AATTATATTTTATTATTTATAT
* *
48903019 AATTATA-TTTAATA-TAATAT
1 AATTATATTTTATTATTTATAT
*
48903039 AATT-TAAATTT-TTATTTA-AT
1 AATTAT-ATTTTATTATTTATAT
* *
48903059 -ATGATATGTTATATTATTTATTT
1 AATTATAT-TT-TATTATTTATAT
48903082 AATTATA
1 AATTATA
48903089 CAAAATATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
19 4 0.08
20 17 0.32
21 12 0.23
22 14 0.26
23 1 0.02
24 5 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
AATTATATTTTATTATTTATAT
Found at i:48905984 original size:14 final size:15
Alignment explanation
Indices: 48905957--48905985 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48905947 TGATTTGCAG
48905957 GGGAAGAGAGAAAGA
1 GGGAAGAGAGAAAGA
48905972 GGGAAGA-AGAAAGA
1 GGGAAGAGAGAAAGA
48905986 AAATAGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
GGGAAGAGAGAAAGA
Found at i:48906263 original size:3 final size:3
Alignment explanation
Indices: 48906255--48906291 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
48906245 TGAGTGAGAG
48906255 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
48906292 GAGATCAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:48922331 original size:26 final size:29
Alignment explanation
Indices: 48922280--48922335 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
48922270 TTTCCTTTAT
48922280 TCATACATATAACACAATATCACATATCA
1 TCATACATATAACACAATATCACATATCA
48922309 TCATATCAT-TAACA-AAT-TC-CATATCA
1 TCATA-CATATAACACAATATCACATATCA
48922335 T
1 T
48922336 TCCATAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 8 0.31
27 2 0.08
28 3 0.12
29 10 0.38
30 3 0.12
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (29 bp):
TCATACATATAACACAATATCACATATCA
Found at i:48922778 original size:12 final size:12
Alignment explanation
Indices: 48922761--48922790 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48922751 ATTATTATAC
48922761 TTTATTTAATAA
1 TTTATTTAATAA
48922773 TTTATTTAATAA
1 TTTATTTAATAA
*
48922785 TATATT
1 TTTATT
48922791 AATTATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATTTAATAA
Found at i:48929640 original size:13 final size:14
Alignment explanation
Indices: 48929619--48929655 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
48929609 TCCAAGTCAG
48929619 ATAAAATAATTAAA
1 ATAAAATAATTAAA
*
48929633 AT-AAATAACTAAA
1 ATAAAATAATTAAA
48929646 ATAAAATAAT
1 ATAAAATAAT
48929656 AAATCAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAATAATTAAA
Found at i:48935239 original size:9 final size:9
Alignment explanation
Indices: 48935221--48935254 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
48935211 CATGGATCTA
48935221 ATAAACAAT
1 ATAAACAAT
*
48935230 ATAAATAAT
1 ATAAACAAT
*
48935239 ATAAACAAA
1 ATAAACAAT
48935248 ATAAACA
1 ATAAACA
48935255 TAAAGAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (9 bp):
ATAAACAAT
Found at i:48940063 original size:37 final size:37
Alignment explanation
Indices: 48940022--48940092 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
48940012 TTTAAATTTC
*
48940022 AAGTATATGGTTATTTGATATGTGAATGAAAATGAAT
1 AAGTATATGCTTATTTGATATGTGAATGAAAATGAAT
* *
48940059 AAGTATATGCTTATTTTATATGTGTATGAAAATG
1 AAGTATATGCTTATTTGATATGTGAATGAAAATG
48940093 TTCAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.38, C:0.01, G:0.20, T:0.41
Consensus pattern (37 bp):
AAGTATATGCTTATTTGATATGTGAATGAAAATGAAT
Found at i:48941280 original size:26 final size:27
Alignment explanation
Indices: 48941223--48941280 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
48941213 TATAAACAGG
* * * *
48941223 TGTTTTGGTTTTAAGTGTATATATGTA
1 TGTTATGGTTTGAAATGTATATATGGA
*
48941250 AGTTATGGTTTGAAATG-ATATATGGA
1 TGTTATGGTTTGAAATGTATATATGGA
48941276 TGTTA
1 TGTTA
48941281 AAATGGTATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (27 bp):
TGTTATGGTTTGAAATGTATATATGGA
Found at i:48942419 original size:13 final size:13
Alignment explanation
Indices: 48942403--48942444 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
48942393 TACATAACAT
*
48942403 GTTCACATATAGG
1 GTTCACATATAAG
* *
48942416 GTTCGCACATAAG
1 GTTCACATATAAG
48942429 GTTCACATATAAG
1 GTTCACATATAAG
48942442 GTT
1 GTT
48942445 TGCATATTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (13 bp):
GTTCACATATAAG
Found at i:48942450 original size:13 final size:13
Alignment explanation
Indices: 48942403--48942451 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
48942393 TACATAACAT
* *
48942403 GTTCACATATAGG
1 GTTCGCATATAAG
*
48942416 GTTCGCACATAAG
1 GTTCGCATATAAG
*
48942429 GTTCACATATAAG
1 GTTCGCATATAAG
*
48942442 GTTTGCATAT
1 GTTCGCATAT
48942452 TGAATCACAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (13 bp):
GTTCGCATATAAG
Found at i:48943291 original size:40 final size:40
Alignment explanation
Indices: 48943228--48943319 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
48943218 TCTCGGGTAG
* *
48943228 CCCGATTTC-ATTGACCTTATTAAATTACCATCCTGGTTTA
1 CCCGATTTCGA-TGACCTTATTAAACTACCATCCCGGTTTA
* * *
48943268 CCCGATTTCGATGGCCTTTTTAAACTATCATCCCGGTTTA
1 CCCGATTTCGATGACCTTATTAAACTACCATCCCGGTTTA
*
48943308 CCCAATTTCGAT
1 CCCGATTTCGAT
48943320 AGCATTACCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (40 bp):
CCCGATTTCGATGACCTTATTAAACTACCATCCCGGTTTA
Found at i:48946515 original size:13 final size:13
Alignment explanation
Indices: 48946467--48946513 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
48946457 CATAACATGC
48946467 TTGCATATAGGGT
1 TTGCATATAGGGT
* *
48946480 TCGCACATAGGGT
1 TTGCATATAGGGT
*
48946493 TTGCATATTGGGT
1 TTGCATATAGGGT
48946506 TTGCATAT
1 TTGCATAT
48946514 TGAATCGCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (13 bp):
TTGCATATAGGGT
Found at i:48950097 original size:31 final size:31
Alignment explanation
Indices: 48950061--48950119 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
48950051 TTATTAGCTG
48950061 CTACAAACCTTCAAGAAAACACAAAAAACTC
1 CTACAAACCTTCAAGAAAACACAAAAAACTC
*
48950092 CTACAACCCTTCAAGAAAACACAAAAAA
1 CTACAAACCTTCAAGAAAACACAAAAAA
48950120 ATTGATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.56, C:0.29, G:0.03, T:0.12
Consensus pattern (31 bp):
CTACAAACCTTCAAGAAAACACAAAAAACTC
Found at i:48951878 original size:24 final size:22
Alignment explanation
Indices: 48951829--48951880 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
48951819 CACGTGATTT
48951829 TATATTTTTTAATTTATTAATAA
1 TATATTTTTTAATTTA-TAATAA
48951852 TATATTTTTATAATTTCA-AAT-A
1 TATATTTTT-TAATTT-ATAATAA
48951874 TATATTT
1 TATATTT
48951881 AAACTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.30
23 12 0.44
24 6 0.22
25 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATTTTTTAATTTATAATAA
Found at i:48952659 original size:35 final size:35
Alignment explanation
Indices: 48952619--48952688 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
48952609 AAAAAAGTCA
48952619 TTTTTA-TAATAATAT-AAATATTAAATTATAATTAT
1 TTTTTACTAATAAT-TGAAA-ATTAAATTATAATTAT
* *
48952654 TTTTTACTGATAATTGTAAATTAAATTATAATTAT
1 TTTTTACTAATAATTGAAAATTAAATTATAATTAT
48952689 CACAAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 23 0.74
36 8 0.26
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TTTTTACTAATAATTGAAAATTAAATTATAATTAT
Found at i:48955923 original size:15 final size:16
Alignment explanation
Indices: 48955885--48955926 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
48955875 ATATTTTATT
*
48955885 TTAATAATTAAAATAA
1 TTAATAAATAAAATAA
*
48955901 TAAATAAATAAAAT-A
1 TTAATAAATAAAATAA
48955916 TTAATAAATAA
1 TTAATAAATAA
48955927 TAAAAGCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAATAAATAAAATAA
Found at i:48958452 original size:27 final size:27
Alignment explanation
Indices: 48958409--48958486 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
48958399 TAGTATTGGC
* *
48958409 GCCTATCTCAGAGGCGCCAATGGTGGT
1 GCCTATCTGAGAAGCGCCAATGGTGGT
* *
48958436 GCCTATCTGAGAAGCGCCATTAGTGGT
1 GCCTATCTGAGAAGCGCCAATGGTGGT
* *
48958463 GTC-ATGCTGAGATGCGCCAATGGT
1 GCCTAT-CTGAGAAGCGCCAATGGT
48958487 CTGATTTTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.05
27 40 0.95
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (27 bp):
GCCTATCTGAGAAGCGCCAATGGTGGT
Found at i:48960837 original size:15 final size:16
Alignment explanation
Indices: 48960819--48960857 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
48960809 CGAATACAAA
* *
48960819 TTTCTTTTT-TTTGTT
1 TTTCTTTTTCTCTGGT
48960834 TTTCTTTTTCTCTGGT
1 TTTCTTTTTCTCTGGT
48960850 TTTCTTTT
1 TTTCTTTT
48960858 GCTGTTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (16 bp):
TTTCTTTTTCTCTGGT
Found at i:48961318 original size:20 final size:22
Alignment explanation
Indices: 48961283--48961324 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
48961273 TGGGTATTAC
48961283 AAAAAGGAAGACAGAAGAAAAA
1 AAAAAGGAAGACAGAAGAAAAA
48961305 AAAAAGGAA-A-AGAAGAAAAA
1 AAAAAGGAAGACAGAAGAAAAA
48961325 GGATAAGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 1 0.05
22 9 0.45
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (22 bp):
AAAAAGGAAGACAGAAGAAAAA
Found at i:48966487 original size:30 final size:29
Alignment explanation
Indices: 48966438--48966528 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 29
48966428 GGGTTGGGAG
48966438 GGGAGAGGAGTCAAAGTTTTGGGGGGAAAGT
1 GGGA-AGGAGT-AAAGTTTTGGGGGGAAAGT
48966469 GGGAAGGAGTAAACGTTTTGGGGGGAAAGT
1 GGGAAGGAGTAAA-GTTTTGGGGGGAAAGT
* *
48966499 GGGAAGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGAGT-AAAGTTTTGGGGGGAAAGT
48966529 AAAAAGGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
29 3 0.05
30 46 0.82
31 7 0.12
ACGTcount: A:0.33, C:0.02, G:0.45, T:0.20
Consensus pattern (29 bp):
GGGAAGGAGTAAAGTTTTGGGGGGAAAGT
Found at i:48967847 original size:20 final size:21
Alignment explanation
Indices: 48967806--48967888 Score: 150
Period size: 21 Copynumber: 4.0 Consensus size: 21
48967796 AAATTACAAT
48967806 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATAC-AAAAA
48967828 ATTACAATATTCATA-AAAAA
1 ATTACAATATTCATACAAAAA
48967848 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
48967869 ATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAA
48967889 TACTAATCCA
Statistics
Matches: 60, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
20 20 0.33
21 25 0.42
22 15 0.25
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:48967860 original size:42 final size:41
Alignment explanation
Indices: 48967806--48967888 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
48967796 AAATTACAAT
48967806 ATTACAATATTCATACAAAAAAATTACAATATTCATAAAAAA
1 ATTACAATATTCATAC-AAAAAATTACAATATTCATAAAAAA
*
48967848 ATTACAATATTCATACAAAAAATTACAATATTCATACAAAA
1 ATTACAATATTCATACAAAAAATTACAATATTCATAAAAAA
48967889 TACTAATCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 24 0.60
42 16 0.40
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAATTACAATATTCATAAAAAA
Found at i:48968178 original size:19 final size:19
Alignment explanation
Indices: 48968151--48968189 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
48968141 CCCTGTTTTA
48968151 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
*
48968170 CCCTTTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
48968189 C
1 C
48968190 TTCCTTCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.46, G:0.10, T:0.44
Consensus pattern (19 bp):
CCCTCTGCCTCTTCTGTTC
Found at i:48971334 original size:16 final size:16
Alignment explanation
Indices: 48971313--48971354 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48971303 TTATTAAATT
*
48971313 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48971329 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48971344 AT-TATGTTTAA
1 ATATAT-TTTAA
48971355 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48971339 original size:15 final size:15
Alignment explanation
Indices: 48971304--48971345 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48971294 TTAAGAATTT
*
48971304 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48971318 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48971332 TATTTAATAATAAT
1 TATTTAATTATAAT
48971346 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48971582 original size:45 final size:44
Alignment explanation
Indices: 48971481--48971590 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
48971471 TTTTCCATTA
48971481 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* ** ***
48971520 TACTATTATGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
48971565 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
48971591 CCTCTAATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 16 0.29
45 24 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:48971590 original size:16 final size:16
Alignment explanation
Indices: 48971571--48971622 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
48971561 GATTTGCTAT
* *
48971571 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
48971587 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48971603 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48971619 TACA
1 TACA
48971623 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48971797 original size:3 final size:3
Alignment explanation
Indices: 48971791--48971825 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
48971781 TTTTTTTTCT
48971791 TTC TTC TTC TTC TTC TTC -TC TTC TTC -TC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
48971826 CCTTTCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:48971814 original size:8 final size:8
Alignment explanation
Indices: 48971787--48971835 Score: 66
Period size: 8 Copynumber: 6.2 Consensus size: 8
48971777 TACCTTTTTT
48971787 TTCTT-TC
1 TTCTTCTC
48971794 TTCTTCTTC
1 TTCTTC-TC
48971803 TTCTTCTC
1 TTCTTCTC
48971811 TTCTTCTC
1 TTCTTCTC
48971819 TTCTTCTC
1 TTCTTCTC
*
48971827 CT-TTCTC
1 TTCTTCTC
48971834 TT
1 TT
48971836 TTTTTTCTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
7 11 0.29
8 19 0.50
9 8 0.21
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (8 bp):
TTCTTCTC
Found at i:48971985 original size:27 final size:27
Alignment explanation
Indices: 48971954--48972014 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
48971944 AGAAGGCCAC
48971954 CATTGGCGCCTCCCTATGAGCCACATT
1 CATTGGCGCCTCCCTATGAGCCACATT
* * *
48971981 CATTGGCGCCTCTCTATGAGGCACCTT
1 CATTGGCGCCTCCCTATGAGCCACATT
48972008 CATTGGC
1 CATTGGC
48972015 ACCTACCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.16, C:0.34, G:0.21, T:0.28
Consensus pattern (27 bp):
CATTGGCGCCTCCCTATGAGCCACATT
Found at i:48972100 original size:22 final size:21
Alignment explanation
Indices: 48972070--48972123 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
48972060 TATTTTTATT
*
48972070 TAATTTTTTTAAAAATAAAAAA
1 TAATATTTTTAAAAA-AAAAAA
** *
48972092 TAATATTTTATTTAAAAAAAAT
1 TAATATTTT-TAAAAAAAAAAA
48972114 TAATATTTTT
1 TAATATTTTT
48972124 TTATTCATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.81
23 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAATATTTTTAAAAAAAAAAA
Found at i:48972110 original size:21 final size:21
Alignment explanation
Indices: 48972086--48972126 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
48972076 TTTTAAAAAT
48972086 AAAAAA-TAATATTTTATTTAA
1 AAAAAATTAATATTTT-TTTAA
48972107 AAAAAATTAATATTTTTTTA
1 AAAAAATTAATATTTTTTTA
48972127 TTCATTGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAAAAATTAATATTTTTTTAA
Found at i:48973905 original size:9 final size:9
Alignment explanation
Indices: 48973891--48973921 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48973881 GTATTGATTC
48973891 AATTCGGGT
1 AATTCGGGT
48973900 AATTCGGGT
1 AATTCGGGT
*
48973909 AATTCGGTT
1 AATTCGGGT
48973918 AATT
1 AATT
48973922 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:48974440 original size:2 final size:2
Alignment explanation
Indices: 48974433--48974492 Score: 111
Period size: 2 Copynumber: 29.5 Consensus size: 2
48974423 TGGGGAGTTT
48974433 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
48974475 TC TC TC TC TC TC TGC TC T
1 TC TC TC TC TC TC T-C TC T
48974493 TTCTTCAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 55 0.96
3 2 0.04
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:48977922 original size:25 final size:25
Alignment explanation
Indices: 48977890--48978009 Score: 84
Period size: 25 Copynumber: 4.9 Consensus size: 25
48977880 AGCCCTCTCT
48977890 CGAGCCATATAACGGGAAGCTCATG
1 CGAGCCATATAACGGGAAGCTCATG
* * * *
48977915 TGAGCCATGTAATGGGAAGCTTAT-
1 CGAGCCATATAACGGGAAGCTCATG
* ** * * *
48977939 CCAGGCTGTATAACAGGAATCTCATA
1 CGA-GCCATATAACGGGAAGCTCATG
** *
48977965 AAAGCCATA-ATCGGGAAGCTCATG
1 CGAGCCATATAACGGGAAGCTCATG
*
48977989 CGAGCCA-ATAACGGGTAGCTC
1 CGAGCCATATAACGGGAAGCTC
48978010 CAAAGATCCA
Statistics
Matches: 67, Mismatches: 25, Indels: 7
0.68 0.25 0.07
Matches are distributed among these distances:
23 1 0.01
24 27 0.40
25 38 0.57
26 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.20
Consensus pattern (25 bp):
CGAGCCATATAACGGGAAGCTCATG
Found at i:48978115 original size:26 final size:26
Alignment explanation
Indices: 48978086--48978150 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
48978076 AAAGCTCTAG
48978086 AGAGCCATTAATCAAGAAGCTCACAA
1 AGAGCCATTAATCAAGAAGCTCACAA
* *** *
48978112 AGAGCCTTTAATTGGGAAGCTCACGA
1 AGAGCCATTAATCAAGAAGCTCACAA
*
48978138 AGAACCATATAAT
1 AGAGCCAT-TAAT
48978151 GAGACGCTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCAAGAAGCTCACAA
Found at i:48978283 original size:24 final size:25
Alignment explanation
Indices: 48978227--48978288 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
48978217 GAAGAGATAT
*
48978227 TAACGGGAAGCTCACAGGAACCATA
1 TAACGGGAAGCTCACAGGAACCAAA
*
48978252 TAACGGGAAGCTCA-A-GAAGGCAAA
1 TAACGGGAAGCTCACAGGAA-CCAAA
*
48978276 TAACGGGATGCTC
1 TAACGGGAAGCTC
48978289 TTTTGAGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.09
24 16 0.48
25 14 0.42
ACGTcount: A:0.39, C:0.21, G:0.27, T:0.13
Consensus pattern (25 bp):
TAACGGGAAGCTCACAGGAACCAAA
Found at i:48987492 original size:19 final size:19
Alignment explanation
Indices: 48987448--48987493 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
48987438 TTTAGACTTG
* *
48987448 GTGAATTGTCTGTATTCAG
1 GTGAATTGTCTATATTCAA
*
48987467 GTTAATTGTCTATATTCAA
1 GTGAATTGTCTATATTCAA
48987486 GTGAATTG
1 GTGAATTG
48987494 AGTTGCATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (19 bp):
GTGAATTGTCTATATTCAA
Found at i:48994023 original size:16 final size:16
Alignment explanation
Indices: 48994002--48994035 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48993992 GGGATCGAAT
48994002 AGGTATAAAATGGTTA
1 AGGTATAAAATGGTTA
48994018 AGGTATAAAATGGTTA
1 AGGTATAAAATGGTTA
48994034 AG
1 AG
48994036 TTATGATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (16 bp):
AGGTATAAAATGGTTA
Found at i:48995894 original size:39 final size:40
Alignment explanation
Indices: 48995690--48995912 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
48995680 TTGAATGCTG
* * * * * *
48995690 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
48995730 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
48995770 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
48995810 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
48995850 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
48995889 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48995913 TGAACGAGGA
Statistics
Matches: 163, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 36 0.22
40 119 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:48995932 original size:79 final size:80
Alignment explanation
Indices: 48995764--48995947 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
48995754 TGTGCGAGAT
* * *
48995764 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
** *
48995829 GCATTCGTGCGAGTT
66 GCATTCGAACGAGTG
* * * *
48995844 ATTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
*
48995908 GCATTTGAACGAG-G
66 GCATTCGAACGAGTG
* *
48995922 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
48995948 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 15 0.17
79 45 0.51
80 28 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAG
GCATTCGAACGAGTG
Found at i:49014543 original size:22 final size:21
Alignment explanation
Indices: 49014482--49014543 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
49014472 CAATTACCAA
*
49014482 AATGGCTAAGAGCCGTAAACAG
1 AATGGCTAA-AGCCATAAACAG
* * * *
49014504 GATAGCTATAAACTATAAACAG
1 AATGGCTA-AAGCCATAAACAG
49014526 AATGGCTACAAGCCATAA
1 AATGGCTA-AAGCCATAA
49014544 GTACAGTAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.18
Consensus pattern (21 bp):
AATGGCTAAAGCCATAAACAG
Found at i:49014629 original size:32 final size:32
Alignment explanation
Indices: 49014535--49014641 Score: 110
Period size: 32 Copynumber: 3.4 Consensus size: 32
49014525 GAATGGCTAC
* * *
49014535 AAGCCATAAGT-ACAGTAATATGATTGGCATA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * *
49014566 AAGCCATCAGTAGCAGTGATATGAACTGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
49014598 CAA-CCATTAGTAACGGTAATATGATCGGCACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
49014630 AAGCCATCAGTA
1 AAGCCATCAGTA
49014642 GACTCACAGC
Statistics
Matches: 59, Mismatches: 14, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
31 12 0.20
32 45 0.76
33 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:49014791 original size:24 final size:24
Alignment explanation
Indices: 49014760--49014861 Score: 98
Period size: 24 Copynumber: 4.2 Consensus size: 24
49014750 ACCACGCTCA
49014760 AAATCAGTCATACACATCACAAAC
1 AAATCAGTCATACACATCACAAAC
* *
49014784 AAATCAGTAATAC-CAATCACAGAC
1 AAATCAGTCATACAC-ATCACAAAC
* ** *
49014808 AAATCATTCATTTAAATCACAAAC
1 AAATCAGTCATACACATCACAAAC
* * **
49014832 AAATCAGTCATTCATATCACGGAC
1 AAATCAGTCATACACATCACAAAC
49014856 AAATCA
1 AAATCA
49014862 ACCATTTACA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
23 1 0.02
24 62 0.98
ACGTcount: A:0.48, C:0.25, G:0.06, T:0.22
Consensus pattern (24 bp):
AAATCAGTCATACACATCACAAAC
Found at i:49014868 original size:48 final size:48
Alignment explanation
Indices: 49014775--49014869 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
49014765 AGTCATACAC
**
49014775 ATCACAAACAAATCAGTAATACCAATCACAGACAAATCATTCATTTAA
1 ATCACAAACAAATCAGTAATACCAATCACAGACAAATCAACCATTTAA
* * *
49014823 ATCACAAACAAATCAGTCAT-TCATATCACGGACAAATCAACCATTTA
1 ATCACAAACAAATCAGTAATACCA-ATCACAGACAAATCAACCATTTA
49014870 CATTGAAGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.23
Consensus pattern (48 bp):
ATCACAAACAAATCAGTAATACCAATCACAGACAAATCAACCATTTAA
Found at i:49014931 original size:27 final size:27
Alignment explanation
Indices: 49014888--49015114 Score: 161
Period size: 27 Copynumber: 8.4 Consensus size: 27
49014878 GGGCAAAATA
* *
49014888 GTCA-TTTACCCTCCAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
49014914 GTCATTTTAACTTACAGGAGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * ** * *
49014941 GTTATTTAACCTTATGGGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
49014968 GTCATTTTACCCTATAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
49014995 ATCATTTTACCCTATAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
49015022 GTCATTTTACCCTACGGGGGCATTATA
1 GTCATTTTACCCTACAGGGGCATTACG
* * ** *
49015049 GTTATTTTACCCTA-TGAGGGTTTTTCG
1 GTCATTTTACCCTACAG-GGGCATTACG
* * *
49015076 GACATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
*
49015103 GTAATTTTACCC
1 GTCATTTTACCC
49015115 ATTGGGGGTA
Statistics
Matches: 158, Mismatches: 40, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
26 5 0.03
27 152 0.96
28 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:49015082 original size:81 final size:81
Alignment explanation
Indices: 49014885--49015114 Score: 198
Period size: 81 Copynumber: 2.9 Consensus size: 81
49014875 AAGGGGCAAA
** * * * * * * *
49014885 ATAGTCA-TTTACCCTCCAGGGGCATTATGGTCATTTTAACTTACAG-GAGTATTACGGTTATTT
1 ATAGTCATTTTACCCTATAGAGGCATTACGATCATTTTACCCTACAGAG-GCATTACGGTAATTT
* * * *
49014948 AACCTTATGGGGGTATT
65 TACCCTACGGGGGCATT
* * *
49014965 ATGGTCATTTTACCCTATAGAGGCATTACGATCATTTTACCCTATAGAGGCATTACGGTCATTTT
1 ATAGTCATTTTACCCTATAGAGGCATTACGATCATTTTACCCTACAGAGGCATTACGGTAATTTT
49015030 ACCCTACGGGGGCATT
66 ACCCTACGGGGGCATT
* ** * * * *
49015046 ATAGTTATTTTACCCTAT-GAGGGTTTTTCGGA-CATTTTACCCTACAGGGGTATTTCGGTAATT
1 ATAGTCATTTTACCCTATAGA-GGCATTAC-GATCATTTTACCCTACAGAGGCATTACGGTAATT
49015109 TTACCC
64 TTACCC
49015115 ATTGGGGGTA
Statistics
Matches: 121, Mismatches: 25, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
80 8 0.07
81 110 0.91
82 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
ATAGTCATTTTACCCTATAGAGGCATTACGATCATTTTACCCTACAGAGGCATTACGGTAATTTT
ACCCTACGGGGGCATT
Found at i:49015122 original size:27 final size:27
Alignment explanation
Indices: 49015052--49015410 Score: 319
Period size: 27 Copynumber: 13.3 Consensus size: 27
49015042 CATTATAGTT
* *
49015052 ATTTTACCCTAT-GAGGGTTTTTCGG-A
1 ATTTTACCC-ATCGGGGGTATTTCGGTA
*
49015078 CATTTTACCC-TACAGGGGTATTTCGGTA
1 -ATTTTACCCAT-CGGGGGTATTTCGGTA
* ***
49015106 ATTTTACCCATTGGGGGTATTTTAATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
*
49015133 ATTTTACCCATCGGGGGTATTTCAGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* * * *
49015160 ATTTTACCCATTGGGAGTATTTTGATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *
49015187 ATTTTTCCCATCAGGGGTATTTCGGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *** * *
49015214 ATTTTACCAATAAAGGGCATTTCGATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* ** *
49015241 ATTTTTCCCATCCAGGGTATTTTGGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* * **
49015268 ATTTTAGCCATCGAGGGTATTTCAATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *
49015295 ATCTTACCCATCGGGGGTATTTTGGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *
49015322 ATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGGGGGTATTTCGGTA
*** *
49015349 ATTTTACTGTTCGGGGGTATTTCAGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
* *
49015376 ATTTTACCCATCGAGAGTATTTCGGTA
1 ATTTTACCCATCGGGGGTATTTCGGTA
49015403 ATTATTAC
1 ATT-TTAC
49015411 GACCTCATAA
Statistics
Matches: 264, Mismatches: 63, Indels: 9
0.79 0.19 0.03
Matches are distributed among these distances:
25 1 0.00
27 257 0.97
28 6 0.02
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACCCATCGGGGGTATTTCGGTA
Found at i:49015137 original size:54 final size:54
Alignment explanation
Indices: 49015052--49015410 Score: 368
Period size: 54 Copynumber: 6.6 Consensus size: 54
49015042 CATTATAGTT
* *
49015052 ATTTTACCCTAT-GAGGGTTTTTCGGA-CATTTTACCC-TACAGGGGTATTTCGGTA
1 ATTTTACCC-ATCGAGGGTATTTC-GATAATTTTACCCAT-CAGGGGTATTTCGGTA
* * ** * *
49015106 ATTTTACCCATTGGGGGTATTTTAATAATTTTACCCATCGGGGGTATTTCAGTA
1 ATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCAGGGGTATTTCGGTA
* * *
49015160 ATTTTACCCATTG-GGAGTATTTTGATAATTTTTCCCATCAGGGGTATTTCGGTA
1 ATTTTACCCATCGAGG-GTATTTCGATAATTTTACCCATCAGGGGTATTTCGGTA
* ** * * *
49015214 ATTTTACCAATAAAGGGCATTTCGATAATTTTTCCCATCCA-GGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT-CAGGGGTATTTCGGTA
* * * * *
49015268 ATTTTAGCCATCGAGGGTATTTCAATAATCTTACCCATCGGGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCAGGGGTATTTCGGTA
*** * *
49015322 ATTTTACCCATCGAGGGTATTTCGATAATTTTACTGTTCGGGGGTATTTCAGTA
1 ATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCAGGGGTATTTCGGTA
* *
49015376 ATTTTACCCATCGAGAGTATTTCGGTAATTATTAC
1 ATTTTACCCATCGAGGGTATTTCGATAATT-TTAC
49015411 GACCTCATAA
Statistics
Matches: 261, Mismatches: 36, Indels: 15
0.84 0.12 0.05
Matches are distributed among these distances:
53 6 0.02
54 246 0.94
55 9 0.03
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (54 bp):
ATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATCAGGGGTATTTCGGTA
Found at i:49015634 original size:17 final size:18
Alignment explanation
Indices: 49015612--49015645 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
49015602 TTCACCCGTG
49015612 TGGGCCCACA-AGCCCAC
1 TGGGCCCACACAGCCCAC
49015629 TGGGCCCACACAGCCCA
1 TGGGCCCACACAGCCCA
49015646 TTTCGGCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.24, C:0.47, G:0.24, T:0.06
Consensus pattern (18 bp):
TGGGCCCACACAGCCCAC
Found at i:49018037 original size:13 final size:13
Alignment explanation
Indices: 49018019--49018044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49018009 CCTTATCACC
49018019 AAAATTGAATTTT
1 AAAATTGAATTTT
49018032 AAAATTGAATTTT
1 AAAATTGAATTTT
49018045 CCTAAATAGG
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AAAATTGAATTTT
Found at i:49018517 original size:29 final size:29
Alignment explanation
Indices: 49018484--49018539 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
49018474 ATAAAACAAA
*
49018484 AAATAAAAAAACAAATTAAT-AAGAAAAGG
1 AAAT-AAAAAACAAATAAATAAAGAAAAGG
* *
49018513 AAATATAAAATAAATAAATAAAGAAAA
1 AAATAAAAAACAAATAAATAAAGAAAA
49018540 TAAAGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (29 bp):
AAATAAAAAACAAATAAATAAAGAAAAGG
Found at i:49023659 original size:357 final size:357
Alignment explanation
Indices: 49023017--49023707 Score: 931
Period size: 357 Copynumber: 1.9 Consensus size: 357
49023007 TAGTTCATAG
* * * *
49023017 TCCTGATTAGAAACATCTCAAAGTCAGAAAAACCACAATACATAAAGAAACTCAATAAAATTTTG
1 TCCTGAATAGAAACATCTCAAAGTCAGAAAAACCACAAGACATAAAGAAACTCAATAAAATCTTC
* * * *
49023082 AAAGAAATTAAAAAGAGGTCTTCAATCTTGATGGAGATCCACTTTCGAGTTGATTCTGATGGTCT
66 AAAGAAATTAAAAAGAGGTCTTCAATCTTGATGAAGATCCACTTCCAAGTTGATTCCGATGGTCT
* * * *
49023147 TCTTCGAGTGTTTTCTTCGATCTTCTTTGATTGTCCCCTTATGTCTTCTTTTAATGGGTATTTAA
131 TCTTCGAGTGTTTTCTTCAATCTTCTCTGATTGTCCCCTTATGTCTTATTCTAATGGGTATTTAA
* * * ** *
49023212 AGAATTTCGAATGCTTAGAGACCCTAAAAATTGGGTTTTCCACGTATTTGGGAAGTAGGGTGTGA
196 AGAATTTAGAATGCTCAGAAACCCTAAAAATTGGGTTTTCCACGTATTTAAGAAGTAGGGTGCGA
* * * * **
49023277 AATCAGCACCGGCTAGCAGATGGGCATGTAT-CTAGCCCGTGTGGAAATGCCCAGGTTGTGTGGA
261 AATCAGCACAGGCTAGCACATGGGCATGTATGC-AGCCCATATGGAAATGCCCAGGCCGTGTGGA
49023341 TCCTGAAAACAACTCTAGGGAATAAGTTTGAAA
325 TCCTGAAAACAACTCTAGGGAATAAGTTTGAAA
*
49023374 TCCTGAATAGAAACATCTCAAATTCAGAAAAACCACAAGACATAAAGAAACTCAATAAAA-CTTC
1 TCCTGAATAGAAACATCTCAAAGTCAGAAAAACCACAAGACATAAAGAAACTCAATAAAATCTTC
*
49023438 AAATGAAATT-AAAAGAAGGTCTTCAATCTTGATGAAGATCTACTTCCAAGTTGATTCCGATGGT
66 AAA-GAAATTAAAAAG-AGGTCTTCAATCTTGATGAAGATCCACTTCCAAGTTGATTCCGATGGT
* * *
49023502 GTTTTTTGAGTGTTTTCTTCAATCTTCTCTGATTGT-CCCTTATGTCTTATTCTAATGGGTATTT
129 CTTCTTCGAGTGTTTTCTTCAATCTTCTCTGATTGTCCCCTTATGTCTTATTCTAATGGGTATTT
* * * ** * * **
49023566 ATAGACTTTAGAATTCTCAGAAACTGTAAAAATTAGGTTTTTTCGTGTATTTAAGAAGTAGGGTG
194 AAAGAATTTAGAATGCTCAGAAACCCTAAAAATT-GGGTTTTCCACGTATTTAAGAAGTAGGGTG
* * * * *
49023631 CGAAATCGGCATAGGCTGGCACATGGGCATGTGTGCAGCCCATATGGAAATGCCTAGGCCGTGTG
258 CGAAATCAGCACAGGCTAGCACATGGGCATGTATGCAGCCCATATGGAAATGCCCAGGCCGTGTG
49023696 GATCCTGAAAAC
323 GATCCTGAAAAC
49023708 TACTTTATTT
Statistics
Matches: 287, Mismatches: 43, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
356 62 0.22
357 224 0.78
358 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (357 bp):
TCCTGAATAGAAACATCTCAAAGTCAGAAAAACCACAAGACATAAAGAAACTCAATAAAATCTTC
AAAGAAATTAAAAAGAGGTCTTCAATCTTGATGAAGATCCACTTCCAAGTTGATTCCGATGGTCT
TCTTCGAGTGTTTTCTTCAATCTTCTCTGATTGTCCCCTTATGTCTTATTCTAATGGGTATTTAA
AGAATTTAGAATGCTCAGAAACCCTAAAAATTGGGTTTTCCACGTATTTAAGAAGTAGGGTGCGA
AATCAGCACAGGCTAGCACATGGGCATGTATGCAGCCCATATGGAAATGCCCAGGCCGTGTGGAT
CCTGAAAACAACTCTAGGGAATAAGTTTGAAA
Found at i:49038149 original size:94 final size:94
Alignment explanation
Indices: 49037988--49038179 Score: 375
Period size: 94 Copynumber: 2.0 Consensus size: 94
49037978 CTTTGATTGG
*
49037988 TGAACCCCCAATTCATAACTCAACTGGTGAACCCTAGCTTGCCAAACGTTCTAGAGAACCCTCTT
1 TGAACCCCCAATTCATAACTCAACTGGTGAACCCTAGCTTGCCAAACATTCTAGAGAACCCTCTT
49038053 ATCATTTCTTTTGGTGTACATAGTAGCCC
66 ATCATTTCTTTTGGTGTACATAGTAGCCC
49038082 TGAACCCCCAATTCATAACTCAACTGGTGAACCCTAGCTTGCCAAACATTCTAGAGAACCCTCTT
1 TGAACCCCCAATTCATAACTCAACTGGTGAACCCTAGCTTGCCAAACATTCTAGAGAACCCTCTT
49038147 ATCATTTCTTTTGGTGTACATAGTAGCCC
66 ATCATTTCTTTTGGTGTACATAGTAGCCC
49038176 TGAA
1 TGAA
49038180 AGACTTGGTG
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 97 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (94 bp):
TGAACCCCCAATTCATAACTCAACTGGTGAACCCTAGCTTGCCAAACATTCTAGAGAACCCTCTT
ATCATTTCTTTTGGTGTACATAGTAGCCC
Found at i:49041635 original size:12 final size:12
Alignment explanation
Indices: 49041618--49041642 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49041608 AAACAAACGA
49041618 ATTCACTTTTCC
1 ATTCACTTTTCC
49041630 ATTCACTTTTCC
1 ATTCACTTTTCC
49041642 A
1 A
49041643 ACTAAAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTCACTTTTCC
Found at i:49043138 original size:22 final size:23
Alignment explanation
Indices: 49043087--49043144 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
49043077 CCTAATCTCA
*
49043087 TCGCGAC-GACATACATTCAATG
1 TCGCGACAGACATACACTCAATG
** *
49043109 TCATGACAG-CATACACTCGATG
1 TCGCGACAGACATACACTCAATG
49043131 TCGCGACATGACAT
1 TCGCGACA-GACAT
49043145 CCTGTTTTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
22 22 0.81
23 2 0.07
24 3 0.11
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (23 bp):
TCGCGACAGACATACACTCAATG
Found at i:49046940 original size:87 final size:86
Alignment explanation
Indices: 49046795--49046957 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 86
49046785 GTACATGCTA
* *
49046795 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTAGATGGTCATATTGAGATGAACT
1 AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAAAGTTTAGATGGTCATAATGAGATGAACT
49046860 TAATGAATTCATCGACATGTG
66 TAATGAATTCATCGACATGTG
* * * * * **
49046881 AGGTTAAGTTTCTTACTCTTAATGAGTTCATATCCTAAAGTTTGGGTGGTCCTAATGAGATGGGC
1 AGGTTAAG-TTCTTACTCTTAATGAATTCATATCCCAAAGTTTAGATGGTCATAATGAGATGAAC
*
49046946 TTGATGAATTCA
65 TTAATGAATTCA
49046958 CCGAATTTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 8 0.12
87 58 0.88
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (86 bp):
AGGTTAAGTTCTTACTCTTAATGAATTCATATCCCAAAGTTTAGATGGTCATAATGAGATGAACT
TAATGAATTCATCGACATGTG
Found at i:49048654 original size:14 final size:13
Alignment explanation
Indices: 49048635--49048679 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 13
49048625 AATCTTTAAA
49048635 ATATTTTTAAATTT
1 ATATTTTT-AATTT
49048649 ATATTTTTAATTT
1 ATATTTTTAATTT
*
49048662 -T-TTTATAATTT
1 ATATTTTTAATTT
49048673 ATATTTT
1 ATATTTT
49048680 CTTTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 9 0.33
12 2 0.07
13 8 0.30
14 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTTTTAATTT
Found at i:49055641 original size:20 final size:20
Alignment explanation
Indices: 49055587--49055644 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 20
49055577 CCATGTCAAC
49055587 GTATTTTAACAATG-T--TA
1 GTATTTTAACAATGTTGGTA
** *
49055604 GTATAATACCAA-GTTGGTA
1 GTATTTTAACAATGTTGGTA
49055623 GTATTTTAACAATGTTGGTA
1 GTATTTTAACAATGTTGGTA
49055643 GT
1 GT
49055645 CAATGCCATG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 1 0.03
17 10 0.32
19 11 0.35
20 9 0.29
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (20 bp):
GTATTTTAACAATGTTGGTA
Found at i:49057801 original size:71 final size:71
Alignment explanation
Indices: 49057685--49057820 Score: 218
Period size: 71 Copynumber: 1.9 Consensus size: 71
49057675 CTTGATAGAC
* * * *
49057685 TTGTCCGACAACAAAATTCCTTTTACCATATAAAGCATTTGAGCTCTAACATATCAATCAATCTC
1 TTGTCCGACAACAAAATTCATCTTACCATATAAAGCATTCGAGCTCTAACATATCAACCAATCTC
49057750 ACAAAT
66 ACAAAT
* *
49057756 TTGTCCGACAACAACATTCATCTTACCATCTAAAGCATTCGAGCTCTAACATATCAACCAATCTC
1 TTGTCCGACAACAAAATTCATCTTACCATATAAAGCATTCGAGCTCTAACATATCAACCAATCTC
49057821 CTTCACAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.29
Consensus pattern (71 bp):
TTGTCCGACAACAAAATTCATCTTACCATATAAAGCATTCGAGCTCTAACATATCAACCAATCTC
ACAAAT
Found at i:49065596 original size:18 final size:18
Alignment explanation
Indices: 49065573--49065627 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
49065563 AAAGTTCCCT
*
49065573 AACCTGAATCCGAATCGG
1 AACCTGAATCCGAATCCG
* *
49065591 AACCTGAAGCCGAACCCG
1 AACCTGAATCCGAATCCG
* *
49065609 AACCAGAATCGGAATCCG
1 AACCTGAATCCGAATCCG
49065627 A
1 A
49065628 TTTACGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.36, C:0.31, G:0.22, T:0.11
Consensus pattern (18 bp):
AACCTGAATCCGAATCCG
Found at i:49068474 original size:33 final size:34
Alignment explanation
Indices: 49068427--49068490 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
49068417 AATAAATTGC
*
49068427 TCCCCTTTAAT-AAAATTCATTTTCAATTTAAACT
1 TCCCCTATAATAAAAATT-ATTTTCAATTTAAACT
49068461 TCCCCTAT-ATAAAAATTATTTTCAATTTAA
1 TCCCCTATAATAAAAATTATTTTCAATTTAA
49068491 GGCATAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (34 bp):
TCCCCTATAATAAAAATTATTTTCAATTTAAACT
Found at i:49070205 original size:43 final size:43
Alignment explanation
Indices: 49070080--49070225 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
49070070 TATCTCAAAT
* * * * * *
49070080 ATGGTTTTACATGTTATCACATATCGATGCCACTATCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
* * * *
49070123 AGGGTCTTATATG-AA-ATCATATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAGAC
*
49070165 ATGGTCTTACACGTAATCTCATATTGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
*
49070208 ATGGTCTTACACGAAATC
1 ATGGTCTTACACGTAATC
49070226 ACACCTCGGG
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.06
42 28 0.33
43 47 0.55
44 6 0.07
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:49077507 original size:85 final size:85
Alignment explanation
Indices: 49077362--49077519 Score: 192
Period size: 85 Copynumber: 1.9 Consensus size: 85
49077352 ATACAATGTC
* * * * * * * *
49077362 ATATCTCAGATATGGTGTTACATGTTATCACATATCGATGCCATTGTCCCAGACTGGGTCTTATA
1 ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAACTGGGTCTTACA
*
49077427 TGAAATCATATACGATGCCA
66 CGAAATCATATACGATGCCA
* * *
49077447 ATATCCCAGACATGGTCTTACACGTAATCTCATATTGATGCCAATGTCTCAAAC-GTGGTCTTAC
1 ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAACTG-GGTCTTAC
49077511 ACGAAATCA
65 ACGAAATCA
49077520 CACCTCGAGA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
84 1 0.02
85 59 0.98
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (85 bp):
ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAACTGGGTCTTACA
CGAAATCATATACGATGCCA
Found at i:49077936 original size:9 final size:9
Alignment explanation
Indices: 49077916--49077958 Score: 77
Period size: 9 Copynumber: 4.7 Consensus size: 9
49077906 GTCCCTATTT
49077916 CAAAACTACA
1 CAAAA-TACA
49077926 CAAAATACA
1 CAAAATACA
49077935 CAAAATACA
1 CAAAATACA
49077944 CAAAATACA
1 CAAAATACA
49077953 CAAAAT
1 CAAAAT
49077959 TTCATCATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 28 0.85
10 5 0.15
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
CAAAATACA
Found at i:49082780 original size:17 final size:17
Alignment explanation
Indices: 49082758--49082791 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49082748 TTAAAAAATA
49082758 ATTATTAGTTTTATTTT
1 ATTATTAGTTTTATTTT
* *
49082775 ATTATTATTTTTGTTTT
1 ATTATTAGTTTTATTTT
49082792 GAACTACTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
ATTATTAGTTTTATTTT
Found at i:49085638 original size:8 final size:8
Alignment explanation
Indices: 49085625--49085650 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
49085615 TCAAATCAAA
49085625 AATAAAAT
1 AATAAAAT
49085633 AATAAAAT
1 AATAAAAT
49085641 AATAAAAT
1 AATAAAAT
49085649 AA
1 AA
49085651 AACCAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAAAAT
Found at i:49087437 original size:14 final size:14
Alignment explanation
Indices: 49087405--49087433 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
49087395 TTAAAAAAAA
49087405 TTATTAGTTTTATT
1 TTATTAGTTTTATT
49087419 TTATTA-TTTTATT
1 TTATTAGTTTTATT
49087432 TT
1 TT
49087434 TATTTTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (14 bp):
TTATTAGTTTTATT
Found at i:49094761 original size:32 final size:32
Alignment explanation
Indices: 49094724--49094790 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
49094714 TTAGGGGTAA
*
49094724 TATGTATGTAAATTAATGATTTATGTTATGTT
1 TATGTATGTAAATTAATGATTTATGTTATATT
*
49094756 TATGTATGTGAATTAATGATTTATGTTATATT
1 TATGTATGTAAATTAATGATTTATGTTATATT
49094788 TAT
1 TAT
49094791 ATTAATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (32 bp):
TATGTATGTAAATTAATGATTTATGTTATATT
Found at i:49096414 original size:34 final size:34
Alignment explanation
Indices: 49096376--49096445 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
49096366 TTACAGTGTT
* * *
49096376 ATTTGGTGTGCTGGATGGATTTGCTCATACGAGC
1 ATTTGGTGTGCTGGATGGACTGGCTCATACAAGC
*
49096410 ATTTGGTGTGCTGGATGGGCTGGCTCATACAAGC
1 ATTTGGTGTGCTGGATGGACTGGCTCATACAAGC
49096444 AT
1 AT
49096446 ATAGTATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGACTGGCTCATACAAGC
Found at i:49124343 original size:18 final size:18
Alignment explanation
Indices: 49124320--49124359 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49124310 AATCGTGTCG
*
49124320 TTCATTTCCAAAACATTA
1 TTCATTTACAAAACATTA
* *
49124338 TTCATTTACAAATCGTTA
1 TTCATTTACAAAACATTA
49124356 TTCA
1 TTCA
49124360 ATTTTCAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (18 bp):
TTCATTTACAAAACATTA
Found at i:49130848 original size:12 final size:13
Alignment explanation
Indices: 49130836--49130873 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
49130826 ATTTTTTATT
49130836 TTTAGTTTAATTTA
1 TTTAGTTTAA-TTA
49130850 TTTAG-TTAATTA
1 TTTAGTTTAATTA
*
49130862 TTTAGTGTAATT
1 TTTAGTTTAATT
49130874 GATCACATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 8 0.36
13 9 0.41
14 5 0.23
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (13 bp):
TTTAGTTTAATTA
Found at i:49130858 original size:13 final size:13
Alignment explanation
Indices: 49130836--49130873 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
49130826 ATTTTTTATT
49130836 TTTAGTTTAATTTA
1 TTTAG-TTAATTTA
49130850 TTTAGTTAA-TTA
1 TTTAGTTAATTTA
49130862 TTTAGTGTAATT
1 TTTAGT-TAATT
49130874 GATCACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
13 7 0.32
14 6 0.27
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (13 bp):
TTTAGTTAATTTA
Found at i:49134531 original size:45 final size:46
Alignment explanation
Indices: 49134472--49134569 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 46
49134462 TCTTTTCATT
* * *
49134472 TCCATTT-TGAGAAAATTACATTCATTTC-GAAATG-ATTCCATTTC
1 TCCATTTCGGAGAAAATCACAATCATTTCTG-AATGTATTCCATTTC
* *
49134516 TCCATTTCGGAGAAAATCATAATCATTTCTGAATGTTTTCCATTTC
1 TCCATTTCGGAGAAAATCACAATCATTTCTGAATGTATTCCATTTC
*
49134562 TCTATTTC
1 TCCATTTC
49134570 TATTCATTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 7 0.16
45 21 0.47
46 17 0.38
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (46 bp):
TCCATTTCGGAGAAAATCACAATCATTTCTGAATGTATTCCATTTC
Found at i:49135190 original size:17 final size:17
Alignment explanation
Indices: 49135168--49135203 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
49135158 AATCAAATTC
49135168 ATATATTAATTTTATCT
1 ATATATTAATTTTATCT
49135185 ATATATTAATTTTATCT
1 ATATATTAATTTTATCT
49135202 AT
1 AT
49135204 GTTCTCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTAATTTTATCT
Found at i:49137590 original size:50 final size:50
Alignment explanation
Indices: 49137519--49137659 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 50
49137509 TTAAAGGAAT
* *
49137519 GAGGTCCCATGTAAGAACATGTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * *
49137569 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
** * * *
49137619 GAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
49137660 ATACAAGAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA
Found at i:49141888 original size:42 final size:42
Alignment explanation
Indices: 49141841--49141929 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
49141831 ACTGTCACAT
*
49141841 TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGTTGA
1 TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGATGA
* *
49141883 TGCTCCTAAGCACAAGCCTAAACAGTTCATCCAGAATGATGA
1 TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGATGA
49141925 TGCTC
1 TGCTC
49141930 TTAAACATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
TGCTCCTAAGCACAAGCCTAAACAATTCATCCAAAATGATGA
Found at i:49146430 original size:31 final size:31
Alignment explanation
Indices: 49146392--49146450 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
49146382 AATTGATTAT
** *
49146392 TGAACTATTCGAATGCTTTCATTTAAGTCAC
1 TGAACTATTAAAAAGCTTTCATTTAAGTCAC
*
49146423 TGAACTATTAAAAAGCTTTTATTTAAGT
1 TGAACTATTAAAAAGCTTTCATTTAAGT
49146451 TACTAGGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (31 bp):
TGAACTATTAAAAAGCTTTCATTTAAGTCAC
Found at i:49149647 original size:14 final size:14
Alignment explanation
Indices: 49149628--49149658 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
49149618 AGCTTGGCAA
49149628 TTGGGAACTATTTG
1 TTGGGAACTATTTG
49149642 TTGGGAACTATTTG
1 TTGGGAACTATTTG
49149656 TTG
1 TTG
49149659 TTAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGAACTATTTG
Found at i:49150608 original size:91 final size:89
Alignment explanation
Indices: 49150447--49150652 Score: 261
Period size: 91 Copynumber: 2.3 Consensus size: 89
49150437 TTGATTTTAG
* *
49150447 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATCACTATTAAATTATAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATCACTATTAAATTATAT
* *
49150512 TTAAT-ATTAATTATTTTAAATTGTA
65 GTAATAATT-ATTATTTTAAATTATA
* * * *
49150537 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAA--TTATATCACTATTAAATTATA
49150602 TGTAATAATTATTATTTTAAATTATA
64 TGTAATAATTATTATTTTAAATTATA
* * * *
49150628 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
49150653 GTTATAATTA
Statistics
Matches: 101, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
89 22 0.22
90 16 0.16
91 60 0.59
92 3 0.03
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (89 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATCACTATTAAATTATATG
TAATAATTATTATTTTAAATTATA
Found at i:49150701 original size:16 final size:17
Alignment explanation
Indices: 49150682--49150713 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49150672 TTATTAAATC
49150682 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
49150698 ATATATTTAATATTAA
1 ATATATTTAATATTAA
49150714 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:49150777 original size:66 final size:63
Alignment explanation
Indices: 49150706--49150918 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
49150696 AAATATATTT
49150706 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
49150770 AG
62 AG
* * * * * * *
49150772 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
49150832 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
49150892 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
49150919 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:49150792 original size:120 final size:119
Alignment explanation
Indices: 49150668--49150959 Score: 471
Period size: 120 Copynumber: 2.4 Consensus size: 119
49150658 AATTATTTTA
* *
49150668 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTT-AATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
49150731 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
49150788 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
49150853 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
49150908 AATTTTATTAAATTATATATTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTAATTAAAATATATTTAATAATAATTATGTT
49150960 TAAATATGAT
Statistics
Matches: 160, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
119 35 0.22
120 120 0.75
121 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:49150820 original size:18 final size:17
Alignment explanation
Indices: 49150789--49150823 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49150779 ATTATTAAGA
49150789 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
49150806 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
49150824 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:49150929 original size:17 final size:17
Alignment explanation
Indices: 49150909--49150942 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49150899 ATTATTAAGA
* *
49150909 ATTTTATTAAATTATAT
1 ATTTAATTAAAATATAT
49150926 ATTTAATTAAAATATAT
1 ATTTAATTAAAATATAT
49150943 TTAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTAATTAAAATATAT
Found at i:49151061 original size:146 final size:149
Alignment explanation
Indices: 49150897--49151170 Score: 491
Period size: 147 Copynumber: 1.9 Consensus size: 149
49150887 ATAAGAATAT
*
49150897 TAATTATTAAGAATTTTATTAAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
49150961 AAATATGATGAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATGAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
49151024 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
49151043 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
* *
49151108 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATGAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
49151171 CAATAATCAT
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
146 30 0.25
147 59 0.49
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATGAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:49151083 original size:18 final size:17
Alignment explanation
Indices: 49151055--49151089 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49151045 ATTATTAAGA
*
49151055 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49151072 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49151090 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:49151341 original size:45 final size:44
Alignment explanation
Indices: 49151251--49151345 Score: 131
Period size: 45 Copynumber: 2.1 Consensus size: 44
49151241 TTACACCTCT
*
49151251 ATTACATTCAACCAAACACAGTTTTAGTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGTTTTAGTATTACACCTCTATTCC
*
49151295 ATTACATTCAACC-AA-ACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGTT--TTAG-TATTACACCTCTATTCC
49151340 ATTACA
1 ATTACA
49151346 CCTCTAATCC
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
42 6 0.13
43 2 0.04
44 16 0.35
45 22 0.48
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGTTTTAGTATTACACCTCTATTCC
Found at i:49151345 original size:16 final size:16
Alignment explanation
Indices: 49151326--49151377 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
49151316 GATTTGCTAT
* *
49151326 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
49151342 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49151358 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49151374 TACA
1 TACA
49151378 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:49151787 original size:21 final size:20
Alignment explanation
Indices: 49151759--49151801 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
49151749 ATCTCACTGC
*
49151759 TAATTTTAATTTCACCATTA
1 TAATTTTAATCTCACCATTA
*
49151779 TAATATTTAATCTCACCTTTA
1 TAAT-TTTAATCTCACCATTA
49151800 TA
1 TA
49151802 GTAACTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTTTAATCTCACCATTA
Found at i:49161151 original size:16 final size:16
Alignment explanation
Indices: 49161130--49161163 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
49161120 CTTCTCCATG
49161130 GAACTTTTAATTTTTA
1 GAACTTTTAATTTTTA
49161146 GAACTTTTAATTTTTA
1 GAACTTTTAATTTTTA
49161162 GA
1 GA
49161164 GTGAGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (16 bp):
GAACTTTTAATTTTTA
Found at i:49163680 original size:128 final size:128
Alignment explanation
Indices: 49163507--49163741 Score: 391
Period size: 128 Copynumber: 1.8 Consensus size: 128
49163497 ATGTTAGTTA
49163507 TCTATAATTGAATAAAATGAATCTTTTTATGATGTTTTGTGACCAATTAGGCCAATTTGAGCCTA
1 TCTATAATTGAATAAAATGAATCTTTTTATGATGTTTTGTGACCAATTAGGCCAATTTGAGCCTA
** * *
49163572 ATGAATTCTAATGAGTTGATGTAGTGTGCAATAAATTACTTGCACACTAATGAATAAAATGAG
66 ATGAATTCTAACAAGTTGATGTAGTATGCAAGAAATTACTTGCACACTAATGAATAAAATGAG
* *
49163635 TCTATAATTGAATAAAATGAGTCTTTTTATGATGTTTCT-TGACCAATTAGTCCAATTTGAGCCT
1 TCTATAATTGAATAAAATGAATCTTTTTATGATGTTT-TGTGACCAATTAGGCCAATTTGAGCCT
*
49163699 AATGAATTCTAACAAGTTGTTGTAGTATGCAAGAAATTACTTG
65 AATGAATTCTAACAAGTTGATGTAGTATGCAAGAAATTACTTG
49163742 AACTAAATAA
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
128 98 0.99
129 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (128 bp):
TCTATAATTGAATAAAATGAATCTTTTTATGATGTTTTGTGACCAATTAGGCCAATTTGAGCCTA
ATGAATTCTAACAAGTTGATGTAGTATGCAAGAAATTACTTGCACACTAATGAATAAAATGAG
Found at i:49169102 original size:101 final size:101
Alignment explanation
Indices: 49168988--49169170 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
49168978 TGATTTTCAT
*
49168988 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGAAT-G-ATGGGTCGCATGTGTAGTACTA
1 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGG-ATGGAAT-GGTCACATGTGTAGTACTA
49169051 TGTGCAGGCTACTATGTGTACCGGATAGCTTCGATCAC
64 TGTGCAGGCTACTATGTGTACCGGATAGCTTCGATCAC
* * *
49169089 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAATGGTCACTTGTGTAGTACTGT
1 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGG-AATGGTCACATGTGTAGTACTAT
*
49169154 GTGTAGGCTACTATGTG
65 GTGCAGGCTACTATGTG
49169171 AATCGGGTAC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 37 0.50
102 33 0.45
103 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATGGAATGGTCACATGTGTAGTACTATG
TGCAGGCTACTATGTGTACCGGATAGCTTCGATCAC
Found at i:49169106 original size:51 final size:49
Alignment explanation
Indices: 49168988--49169176 Score: 200
Period size: 51 Copynumber: 3.8 Consensus size: 49
49168978 TGATTTTCAT
* *
49168988 GTGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGA-ATGATGGGTCGC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATA-GAT-GGTCAC
* * * * *
49169038 ATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGCTTCGATCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-AT-GGTCAC
*
49169089 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAATGGTCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT--AGATGGTCAC
* * * * *
49169140 TTGTGTAGTACTGTGTGTAGGCTACTATGTGAATCGG
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG
49169177 GTACCATTGA
Statistics
Matches: 116, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 35 0.30
51 79 0.68
52 1 0.01
53 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATGGTCAC
Found at i:49177240 original size:28 final size:27
Alignment explanation
Indices: 49177176--49177355 Score: 288
Period size: 28 Copynumber: 6.6 Consensus size: 27
49177166 TTATTAAGTC
* * *
49177176 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
49177203 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
49177231 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49177258 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
49177286 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
49177314 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
49177341 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49177356 GCACAATTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:49177260 original size:55 final size:54
Alignment explanation
Indices: 49177176--49177355 Score: 288
Period size: 55 Copynumber: 3.3 Consensus size: 54
49177166 TTATTAAGTC
* * * *
49177176 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCA-ACT
49177231 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
*
49177286 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
49177341 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49177356 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
55 90 0.76
56 28 0.24
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:49177296 original size:83 final size:82
Alignment explanation
Indices: 49177176--49177355 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
49177166 TTATTAAGTC
* * *
49177176 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
49177241 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
49177258 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
49177323 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
49177341 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49177356 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 20 0.22
83 71 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:49185130 original size:28 final size:27
Alignment explanation
Indices: 49185066--49185245 Score: 288
Period size: 28 Copynumber: 6.6 Consensus size: 27
49185056 TTATTAAGTC
* * *
49185066 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
49185093 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
49185121 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
49185148 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
49185176 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
49185204 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
49185231 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49185246 GCACAATTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:49185150 original size:55 final size:54
Alignment explanation
Indices: 49185066--49185245 Score: 288
Period size: 55 Copynumber: 3.3 Consensus size: 54
49185056 TTATTAAGTC
* * * *
49185066 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCA-ACT
49185121 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
*
49185176 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
49185231 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49185246 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
55 90 0.76
56 28 0.24
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:49185186 original size:83 final size:82
Alignment explanation
Indices: 49185066--49185245 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
49185056 TTATTAAGTC
* * *
49185066 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
49185131 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
49185148 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
49185213 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
49185231 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49185246 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 20 0.22
83 71 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Done.