Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 165 of 276
Found at i:54014859 original size:38 final size:38
Alignment explanation
Indices: 54014808--54014932 Score: 241
Period size: 38 Copynumber: 3.3 Consensus size: 38
54014798 TGCTTACCTA
54014808 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
54014846 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
54014884 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
*
54014922 TGGCCAAACAT
1 TGGCCGAACAT
54014933 GCATGTCTAT
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 86 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:54028304 original size:40 final size:41
Alignment explanation
Indices: 54028203--54028313 Score: 143
Period size: 40 Copynumber: 2.7 Consensus size: 41
54028193 ACTCAAATTC
* *
54028203 TCGCACACTAAGTGCCAATACATAGCTGAAGCTATTTTAATA
1 TCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTTAATA
*** *
54028245 TATTACACTAAGTGCCATACATAGCCGAAGCTATCTTGA-A
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTAATA
*
54028285 TCGCACACTAAGTACCATACATAGCCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAA
54028314 TTGTCATCAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 26 0.44
41 20 0.34
42 13 0.22
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (41 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTTAATA
Found at i:54032092 original size:40 final size:40
Alignment explanation
Indices: 54032037--54032137 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
54032027 ACTCTCGCAA
*
54032037 TAAGTGCCATACATAGCCGAAGTTATCTCGAAGTGCACAC
1 TAAGTGCCATACATAGCCGAAGCTATCTCGAAGTGCACAC
* *
54032077 TAAGTGCCATACATAGCCAAAGCTATCTCGAATTGCACAC
1 TAAGTGCCATACATAGCCGAAGCTATCTCGAAGTGCACAC
*
54032117 TAAGTGCCATACATAGTCGAA
1 TAAGTGCCATACATAGCCGAA
54032138 TTGTCATCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (40 bp):
TAAGTGCCATACATAGCCGAAGCTATCTCGAAGTGCACAC
Found at i:54035675 original size:40 final size:40
Alignment explanation
Indices: 54035631--54035825 Score: 277
Period size: 40 Copynumber: 4.9 Consensus size: 40
54035621 GGATATAGCT
* * *
54035631 ACTCGCTCAAATGCCTCCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
54035671 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* *
54035711 ACTCGCACAAATGCCTTCGGGACTTATCCCGGATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
* * * *
54035751 ACTCGCACAATTGCCTTCGGG-CTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAATA
*
54035790 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
54035826 CATCCGAATT
Statistics
Matches: 139, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 31 0.22
40 106 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAATA
Found at i:54046101 original size:38 final size:38
Alignment explanation
Indices: 54046057--54046200 Score: 200
Period size: 38 Copynumber: 3.8 Consensus size: 38
54046047 ACTTTAAACT
* * *
54046057 CAGATATAATACCAGCACTAGGCTTGCGGCATTTAACC
1 CAGATATAATACCAGCACTAAGCCTGCGGGATTTAACC
*
54046095 CAGATATAATACCAGCACGAAGCCTGCGGGATTTAACC
1 CAGATATAATACCAGCACTAAGCCTGCGGGATTTAACC
* *
54046133 CGGATATATTACCAGCACTAAGCCTGCGGGATTTAACC
1 CAGATATAATACCAGCACTAAGCCTGCGGGATTTAACC
* *
54046171 CGGATATAATTCCAGCA-TATAGCCTGCGGG
1 CAGATATAATACCAGCACTA-AGCCTGCGGG
54046201 TCTTTAAGCC
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 2 0.02
38 94 0.98
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (38 bp):
CAGATATAATACCAGCACTAAGCCTGCGGGATTTAACC
Found at i:54046149 original size:76 final size:78
Alignment explanation
Indices: 54046059--54046216 Score: 214
Period size: 76 Copynumber: 2.1 Consensus size: 78
54046049 TTTAAACTCA
* *
54046059 GATATAATACCAGCACTAGGCTTGCGGCATTTAACCCAGATATAATACCAGCACGA-AGCCTGCG
1 GATATAATACCAGCACTAAGCCTGCGGCATTTAACCCAGATATAATACCAGCA-GATAGCCTGCG
54046123 GG-ATTTAA-CCCG
65 GGTATTTAAGCCCG
* * * * *
54046135 GATATATTACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGG
1 GATATAATACCAGCACTAAGCCTGCGGCATTTAACCCAGATATAATACCAGCAGATAGCCTGCGG
*
54046200 GTCTTTAAGCCCG
66 GTATTTAAGCCCG
54046213 GATA
1 GATA
54046217 CAATCTCAGC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
75 1 0.01
76 57 0.80
77 5 0.07
78 8 0.11
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (78 bp):
GATATAATACCAGCACTAAGCCTGCGGCATTTAACCCAGATATAATACCAGCAGATAGCCTGCGG
GTATTTAAGCCCG
Found at i:54046227 original size:40 final size:38
Alignment explanation
Indices: 54046059--54046228 Score: 170
Period size: 38 Copynumber: 4.4 Consensus size: 38
54046049 TTTAAACTCA
* * * *
54046059 GATATAATAC-CAGCACTAGGCTTGCGGCATTTAACCCA
1 GATATAAT-CTCAGCACTAAGCCTGCGGGATTTAACCCG
*
54046097 GATATAATAC-CAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATAAT-CTCAGCACTAAGCCTGCGGGATTTAACCCG
*
54046135 GATATATTAC-CAGCACTAAGCCTGCGGGATTTAACCCG
1 GATATAAT-CTCAGCACTAAGCCTGCGGGATTTAACCCG
*
54046173 GATATAAT-TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCG
1 GATATAATCT-CAGCACTA-AGCCTGCGGG-ATTTAA-CCCG
*
54046213 GATACAATCTCAGCAC
1 GATATAATCTCAGCAC
54046229 AATTTATTTT
Statistics
Matches: 115, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
37 2 0.02
38 91 0.79
39 5 0.04
40 16 0.14
41 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (38 bp):
GATATAATCTCAGCACTAAGCCTGCGGGATTTAACCCG
Found at i:54051891 original size:47 final size:46
Alignment explanation
Indices: 54051823--54052090 Score: 190
Period size: 46 Copynumber: 5.7 Consensus size: 46
54051813 TCTGTGTGCT
* * * *
54051823 AGTGTAAGA-CAAGTCTGGGACATGTATTGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCACA-GATGAGAGCC
*
54051869 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCAC-AGATG-AGAGCC
* * * *
54051916 AGTGTAAGA-CATGTCTGGAACATGCATCGGCTAC-GA-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCACAGATGA-GAGCC
* * *
54051960 AATGTAGGACCATGTCTGGGACATGGCATCGG-CACAGATATGGGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCACAG--AT--GAGAGCC
* * * * **
54052010 AGTGTAAGACCATGTCATGGGACATGGCGTCAGCCTCA-ATTTTGATAATC
1 AGTGTAAGACCATGTC-TGGGACAT-GCATCGGCCACAGA---TGAGAGCC
54052060 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
54052091 ACATTATACC
Statistics
Matches: 176, Mismatches: 28, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 11 0.06
45 15 0.09
46 39 0.22
47 37 0.21
48 3 0.02
49 14 0.08
50 35 0.20
51 16 0.09
52 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCACAGATGAGAGCC
Found at i:54058271 original size:17 final size:17
Alignment explanation
Indices: 54058249--54058281 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
54058239 TTTACTTGGT
54058249 AACAAATTAAACATTTC
1 AACAAATTAAACATTTC
54058266 AACAAATTAAACATTT
1 AACAAATTAAACATTT
54058282 TGATACAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (17 bp):
AACAAATTAAACATTTC
Found at i:54060777 original size:15 final size:15
Alignment explanation
Indices: 54060757--54060790 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
54060747 ACTAAGATGA
54060757 TGCCTACCGCAATGT
1 TGCCTACCGCAATGT
54060772 TGCCTACCGCAATGT
1 TGCCTACCGCAATGT
54060787 TGCC
1 TGCC
54060791 ACTCAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.35, G:0.21, T:0.26
Consensus pattern (15 bp):
TGCCTACCGCAATGT
Found at i:54062216 original size:27 final size:27
Alignment explanation
Indices: 54062185--54062407 Score: 275
Period size: 27 Copynumber: 8.3 Consensus size: 27
54062175 GGCCATAATT
* * *
54062185 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
54062212 ATCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
54062239 GTCATTTTACGCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
54062266 GTAATTTTACCCTATAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
54062293 GTCATTTTACCGTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
54062320 GTCATTTTATCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
54062347 GTTATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
54062374 ATCATTTTACCTTATAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
54062401 ATCATTT
1 GTCATTT
54062408 ACCTATTTTG
Statistics
Matches: 171, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 171 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:54062274 original size:54 final size:53
Alignment explanation
Indices: 54062185--54062412 Score: 305
Period size: 54 Copynumber: 4.2 Consensus size: 53
54062175 GGCCATAATT
* * * *
54062185 GTCATTTTACCATACAAGGGTATTACGATCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACC-TACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTATG
* *
54062239 GTCATTTTACGCTACAGGGGCATTATGGTAATTTTACCCTATAGGGGCATTATG
1 GTCATTTTAC-CTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTATG
* *
54062293 GTCATTTTACCGTACAGGGGCATTACGGTCATTTTATCCTATAGGGGCATTACG
1 GTCATTTTACC-TACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTATG
* * *
54062347 GTTATTTTACCCTACAGGGGCATTACGATCATTTTACCTTATAGGGGCATTATG
1 GTCATTTTA-CCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTATG
*
54062401 ATCA-TTTACCTA
1 GTCATTTTACCTA
54062413 TTTTGGGGTT
Statistics
Matches: 154, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
52 4 0.03
53 5 0.03
54 142 0.92
55 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (53 bp):
GTCATTTTACCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGCATTATG
Found at i:54065206 original size:26 final size:27
Alignment explanation
Indices: 54065177--54065238 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
54065167 AAAATCGTCT
*
54065177 CTTTCAAAAACCAAGA-TTT-AGAAAAA
1 CTTTAAAAAACCAA-ATTTTGAGAAAAA
**
54065203 CTTTTGAAAACCAAATTTTGAGAAAAA
1 CTTTAAAAAACCAAATTTTGAGAAAAA
54065230 -TTTAAAAAA
1 CTTTAAAAAA
54065239 AACCCATTCC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
25 1 0.03
26 22 0.73
27 7 0.23
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.27
Consensus pattern (27 bp):
CTTTAAAAAACCAAATTTTGAGAAAAA
Found at i:54080834 original size:39 final size:39
Alignment explanation
Indices: 54080737--54080995 Score: 284
Period size: 39 Copynumber: 6.6 Consensus size: 39
54080727 TTGAATGATG
*
54080737 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
54080775 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
*
54080816 TCCGGGCTAAGCCTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
54080855 TCCGGGCTAAGCCCGAAGG---TTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
54080891 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* *
54080930 TCCGGGTTAAGTCCCGAAGGTATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
54080969 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
54080996 AACGAGGAGC
Statistics
Matches: 192, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
36 36 0.19
39 88 0.46
40 56 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:54080894 original size:75 final size:76
Alignment explanation
Indices: 54080799--54080995 Score: 265
Period size: 75 Copynumber: 2.6 Consensus size: 76
54080789 CCGAAGGCAT
* *
54080799 TTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGATACTAATTCCGGGCTA
1 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTA
54080864 AG-CCCGAAGG
66 AGTCCCGAAGG
* *
54080874 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTA
1 TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTA
54080939 AGTCCCGAAGG
66 AGTCCCGAAGG
* *
54080950 TATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ---TTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTG
54080996 AACGAGGAGC
Statistics
Matches: 109, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
75 63 0.58
76 8 0.07
78 3 0.03
79 21 0.19
80 14 0.13
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (76 bp):
TTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTA
AGTCCCGAAGG
Found at i:54084345 original size:46 final size:46
Alignment explanation
Indices: 54084287--54084506 Score: 422
Period size: 46 Copynumber: 4.8 Consensus size: 46
54084277 ATTTGGGCAT
*
54084287 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
54084333 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
54084379 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
54084425 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
*
54084471 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGG
54084507 GCGGGTTACA
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 172 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
Found at i:54087499 original size:30 final size:30
Alignment explanation
Indices: 54087421--54087508 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
54087411 CATAGTATCG
* * * *
54087421 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
54087451 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
54087481 TATCTTGGATTTCTTTATT-TGGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
54087509 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 9 0.18
30 40 0.80
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:54087507 original size:14 final size:15
Alignment explanation
Indices: 54087430--54087509 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
54087420 GTATCTTGGG
*
54087430 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
54087445 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
54087460 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
54087475 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
54087490 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
54087504 TTTCTT
1 TTTCTT
54087510 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 11 0.20
15 43 0.78
16 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:54092991 original size:30 final size:30
Alignment explanation
Indices: 54092913--54093000 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
54092903 CATAGTATCG
* * * *
54092913 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
54092943 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
54092973 TATCTTGGATTTCTTTATT-TGGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
54093001 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 9 0.18
30 40 0.80
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:54092999 original size:14 final size:15
Alignment explanation
Indices: 54092922--54093001 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
54092912 GTATCTTGGG
*
54092922 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
54092937 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
54092952 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
54092967 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
54092982 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
54092996 TTTCTT
1 TTTCTT
54093002 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 11 0.20
15 43 0.78
16 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:54103122 original size:38 final size:38
Alignment explanation
Indices: 54102992--54103907 Score: 1751
Period size: 38 Copynumber: 24.1 Consensus size: 38
54102982 GCATGGTATT
* * *
54102992 TGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
* * *
54103030 TGGGAATATATCCGGACATGAGGTCCGCAGGCTATGTGC
1 T-GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103069 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 T-GAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103108 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103146 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103184 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103222 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103260 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103298 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103336 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103374 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103412 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103450 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103488 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103526 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103564 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103602 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103640 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103678 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103716 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103754 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103792 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103830 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
*
54103868 TGAAATATATCCGGACTTGAAGTCCGCAGGCTACGTGC
1 TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
54103906 TG
1 TG
54103908 GAATGGTACC
Statistics
Matches: 871, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
38 799 0.92
39 72 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (38 bp):
TGAAATATATCCGGACTTGAAGTCCGCAGGCTATGTGC
Found at i:54106239 original size:40 final size:40
Alignment explanation
Indices: 54106159--54107057 Score: 1723
Period size: 40 Copynumber: 22.5 Consensus size: 40
54106149 TTCGGATGAC
* *
54106159 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106198 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106238 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106278 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106318 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106358 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106398 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106438 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106478 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106518 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106558 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106598 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106638 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106678 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106718 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106758 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106798 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106838 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106878 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106918 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
54106958 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
*
54106998 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTAT
* *
54107038 ATCC-GGCTAAATCTCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
54107058 TACTTGGGTT
Statistics
Matches: 853, Mismatches: 5, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
39 37 0.04
40 813 0.95
41 3 0.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
Found at i:54108569 original size:42 final size:43
Alignment explanation
Indices: 54108500--54108612 Score: 151
Period size: 43 Copynumber: 2.6 Consensus size: 43
54108490 ATTGATTTGA
*
54108500 GATTTACATGTAAGACCATGTCTGGGACA-TCGACATCG-TATTT
1 GATTT-CATGTATGACCATGTCTGGGACAGT-GACATCGATATTT
*
54108543 GATTTCATGTATGACCCTGT-TCGGGACAGTGACATCGATATTT
1 GATTTCATGTATGACCATGTCT-GGGACAGTGACATCGATATTT
*
54108586 GATTACATGTATGACCATGTCTGGGAC
1 GATTTCATGTATGACCATGTCTGGGAC
54108613 TTGGCATTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
41 1 0.02
42 26 0.42
43 34 0.55
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (43 bp):
GATTTCATGTATGACCATGTCTGGGACAGTGACATCGATATTT
Found at i:54115706 original size:42 final size:44
Alignment explanation
Indices: 54115636--54115755 Score: 131
Period size: 42 Copynumber: 2.8 Consensus size: 44
54115626 TATAGCTCAT
* * * *
54115636 ACAATGCC-ATATCCCAGATATGTTCTTACATGTTA-TCACATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAACTCACATA
* * * *
54115678 TCGATG-CAATGTCCCAGACATGGTCTTACACG-AACTCATATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAACTCACATA
*
54115720 ACAATGCCAATGTCCCAGACATGGTCTAACATGTAA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAA
54115756 TTACATTTCG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.03
42 34 0.55
43 24 0.39
44 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (44 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACATGTAACTCACATA
Found at i:54119126 original size:18 final size:17
Alignment explanation
Indices: 54119094--54119127 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54119084 ATATTAAATA
*
54119094 TGCATTATTAATCATAT
1 TGCATTATGAATCATAT
54119111 TGCATATATGAATCATA
1 TGCAT-TATGAATCATA
54119128 CCTCAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (17 bp):
TGCATTATGAATCATAT
Found at i:54121728 original size:44 final size:43
Alignment explanation
Indices: 54121637--54121748 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 43
54121627 ATCAAATACT
* * *
54121637 GTCCCAGACAGGGTCTTACAC-AAA-ATAAATACGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATCTAAATACGATGCCAAC
54121678 GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCT-AAATACGATGCCAAC
*
54121722 GTCCCAGACGTGGTCTTACACGAAATC
1 GTCCCAGACATGGTCTTACACGAAATC
54121749 ACATATCAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
41 20 0.32
43 8 0.13
44 31 0.49
45 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCTAAATACGATGCCAAC
Found at i:54132658 original size:19 final size:19
Alignment explanation
Indices: 54132634--54132671 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
54132624 AAACTTACAA
54132634 TTTCATATA-CAACATATAC
1 TTTCATATAGCAA-ATATAC
*
54132653 TTTCATTTAGCAAATATAC
1 TTTCATATAGCAAATATAC
54132672 ATATATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (19 bp):
TTTCATATAGCAAATATAC
Found at i:54136192 original size:28 final size:28
Alignment explanation
Indices: 54136160--54136224 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
54136150 ATTTACTAGA
*
54136160 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
54136188 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
54136216 ATACCCCTA
1 ATACCCCTA
54136225 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:54136431 original size:29 final size:28
Alignment explanation
Indices: 54136330--54136420 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
54136320 AGGAAGCGTC
54136330 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
54136358 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
54136386 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
54136415 CTGGTG
1 CTGGTG
54136421 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:54136445 original size:56 final size:55
Alignment explanation
Indices: 54136330--54136445 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 55
54136320 AGGAAGCGTC
* *
54136330 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * *
54136386 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
54136442 CTGG
1 CTGG
54136446 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
55 9 0.17
56 29 0.56
57 14 0.27
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:54136908 original size:19 final size:19
Alignment explanation
Indices: 54136884--54136922 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54136874 TTTTAATTAT
* *
54136884 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
54136903 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
54136922 T
1 T
54136923 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:54137535 original size:11 final size:10
Alignment explanation
Indices: 54137507--54137540 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
54137497 AGCCTGTAAG
54137507 TATTCTGAAT
1 TATTCTGAAT
*
54137517 TTTTCTGAAT
1 TATTCTGAAT
54137527 ATATTCTGAAT
1 -TATTCTGAAT
54137538 TAT
1 TAT
54137541 CTGTCGGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:54142969 original size:28 final size:28
Alignment explanation
Indices: 54142933--54142992 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
54142923 TACTAGAATC
* *
54142933 CCCCTATGTATGCAAAATTACCATTATA
1 CCCCAATGTATGCAAAATGACCATTATA
* *
54142961 CCCCAATGTATGCTAAATGACCTTTATA
1 CCCCAATGTATGCAAAATGACCATTATA
54142989 CCCC
1 CCCC
54142993 TAGGGTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (28 bp):
CCCCAATGTATGCAAAATGACCATTATA
Found at i:54143646 original size:19 final size:19
Alignment explanation
Indices: 54143622--54143660 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54143612 TTTTAATTAT
* *
54143622 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
54143641 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
54143660 T
1 T
54143661 ATGGTGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:54145700 original size:43 final size:42
Alignment explanation
Indices: 54145653--54145802 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 42
54145643 CCTAGGCGTT
* * * *
54145653 GTCTTACATGCAATCACATATTGATGCCACTATCCCAGACA-G
1 GTCTTACACG-AATCACATATCGATGCCAATATCCCAAACATG
* * *
54145695 AGTCTTACACGAATCAAATA-CAATGCCAATGTCCCAAACATG
1 -GTCTTACACGAATCACATATCGATGCCAATATCCCAAACATG
** * **
54145737 GTCTTACACGTAATCACATATCGATGCCAACGTCCCAGATGTG
1 GTCTTACACG-AATCACATATCGATGCCAATATCCCAAACATG
54145780 GTCTTACACAAGAA-CACATATCG
1 GTCTTACAC--GAATCACATATCG
54145803 GAAATCCTAT
Statistics
Matches: 89, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 25 0.28
42 17 0.19
43 44 0.49
44 2 0.02
45 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
GTCTTACACGAATCACATATCGATGCCAATATCCCAAACATG
Found at i:54146351 original size:63 final size:63
Alignment explanation
Indices: 54146281--54146478 Score: 171
Period size: 63 Copynumber: 3.1 Consensus size: 63
54146271 TACTCAAAAT
54146281 CATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCATAACTCATCAAGTAA
1 CATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCATAACTCATCAAGTAA
* * * ** * * *
54146344 CATAAAAAAACTCAATTATTCATCA-ATGGCA-TAA-CTCAAAATAT-TC-TCCGAGTTACTCA-
1 CAT-AAAAAATTCCA--ATGCAAAACAT---ATTAATC-CAAAACATATCTTTC-A-TAACTCAT
*
54146403 -AA--AT
57 CAAGTAA
54146407 CATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCATAACTCATCAAGTAA
1 CATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCATAACTCATCAAGTAA
54146470 CATAAAAAA
1 CATAAAAAA
54146479 ACTCAATTAT
Statistics
Matches: 99, Mismatches: 18, Indels: 36
0.65 0.12 0.24
Matches are distributed among these distances:
58 1 0.01
59 16 0.16
60 9 0.09
61 6 0.06
62 9 0.09
63 17 0.17
64 9 0.09
65 6 0.06
66 9 0.09
67 16 0.16
68 1 0.01
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (63 bp):
CATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCATAACTCATCAAGTAA
Found at i:54146489 original size:126 final size:126
Alignment explanation
Indices: 54146264--54146515 Score: 504
Period size: 126 Copynumber: 2.0 Consensus size: 126
54146254 TCCAATTTAG
54146264 TCCGAGTTACTCAAAATCATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCA
1 TCCGAGTTACTCAAAATCATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCA
54146329 TAACTCATCAAGTAACATAAAAAAACTCAATTATTCATCAATGGCATAACTCAAAATATTC
66 TAACTCATCAAGTAACATAAAAAAACTCAATTATTCATCAATGGCATAACTCAAAATATTC
54146390 TCCGAGTTACTCAAAATCATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCA
1 TCCGAGTTACTCAAAATCATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCA
54146455 TAACTCATCAAGTAACATAAAAAAACTCAATTATTCATCAATGGCATAACTCAAAATATTC
66 TAACTCATCAAGTAACATAAAAAAACTCAATTATTCATCAATGGCATAACTCAAAATATTC
54146516 ATCAAAATCA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.28
Consensus pattern (126 bp):
TCCGAGTTACTCAAAATCATAAAAAATTCCAATGCAAAACATATTAATCCAAAACATATCTTTCA
TAACTCATCAAGTAACATAAAAAAACTCAATTATTCATCAATGGCATAACTCAAAATATTC
Found at i:54150398 original size:48 final size:48
Alignment explanation
Indices: 54150332--54150501 Score: 184
Period size: 48 Copynumber: 3.6 Consensus size: 48
54150322 AAGCTGACAC
* * * * * *
54150332 CATGTCCCAAATAGGTCTTACACTAGCTTGTAGATCGT-GAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTATACATC-TCAATGCCGATG
* * *
54150380 CATGTCCCAGACATGTCTTACACTAGC-TCT-CCTCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTATACATCTCAATGCCGATG
* * *
54150426 CATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCAATGCCGATG
1 CATGTCCCAAACATGTCTTACACTAGCTTATACATCTCAATGCCGATG
* *
54150474 CATGTCCTAGACATGTCTTACACTAGCT
1 CATGTCCCAAACATGTCTTACACTAGCT
54150502 CTCATGATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
45 1 0.01
46 35 0.34
47 3 0.03
48 63 0.62
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
CATGTCCCAAACATGTCTTACACTAGCTTATACATCTCAATGCCGATG
Found at i:54150440 original size:46 final size:46
Alignment explanation
Indices: 54150373--54150546 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
54150363 AGATCGTGAG
*
54150373 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCCTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAT
* * *
54150419 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TAAATATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT---CATCTCAAT
* *
54150467 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCA--TGATAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA-AT
* * *
54150512 GGCTGATGCATGTCCTAGACAGGTCTTACACTAGC
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC
54150547 ACACATATCA
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
44 2 0.02
45 3 0.03
46 66 0.59
48 39 0.35
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAT
Found at i:54150449 original size:94 final size:94
Alignment explanation
Indices: 54150332--54150546 Score: 256
Period size: 94 Copynumber: 2.3 Consensus size: 94
54150322 AAGCTGACAC
* ** *
54150332 CATGTCCCAAATAGGTCTTACACTAGCTTGTAGATCGT-GAGGCCGATGCATGTCCCAGACATGT
1 CATGTCCCAAACAGGTCTTACACTAGCTTAAAGATC-TCAAGGCCGATGCATGTCCCAGACATGT
54150396 CTTACACTAGCTCTCCTCTCAATGCCGATG
65 CTTACACTAGCTCTCCTCTCAATGCCGATG
* * * * *
54150426 CATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCAATGCCGATGCATGTCCTAGACATGTC
1 CATGTCCCAAACAGGTCTTACACTAGCTTAAAGATCTCAAGGCCGATGCATGTCCCAGACATGTC
* * *
54150491 TTACACTAGCTCT-C-ATGATATGGCTGATG
66 TTACACTAGCTCTCCTCTCA-AT-GCCGATG
* *
54150520 CATGTCCTAGACAGGTCTTACACTAGC
1 CATGTCCCAAACAGGTCTTACACTAGC
54150547 ACACATATCA
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
92 2 0.02
93 4 0.04
94 96 0.94
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (94 bp):
CATGTCCCAAACAGGTCTTACACTAGCTTAAAGATCTCAAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCCTCTCAATGCCGATG
Found at i:54157526 original size:46 final size:45
Alignment explanation
Indices: 54157415--54157581 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 45
54157405 AAGCTGACGC
* * *
54157415 CATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCGCGA-GGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA---CTATGG-CGATG
* * *
54157463 CATGTCCCAGACTTGTCTT-CTACTAGCTCTCGT-CTCAATGTCGATG
1 CATGTCCCAGACATGTCTTAC-ACTAGCTCTCATACT--ATGGCGATG
*
54157509 CATGTCCCAGACATGTCTTACACTGGCTCTCATACTATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATACTATGGC-GATG
54157555 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
54157582 ACACATATCA
Statistics
Matches: 100, Mismatches: 11, Indels: 18
0.78 0.09 0.14
Matches are distributed among these distances:
44 1 0.01
45 4 0.04
46 64 0.64
47 5 0.05
48 25 0.25
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATACTATGGCGATG
Found at i:54169572 original size:50 final size:49
Alignment explanation
Indices: 54169393--54169630 Score: 298
Period size: 49 Copynumber: 4.8 Consensus size: 49
54169383 TAGCCAAAGC
* * * * *
54169393 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
54169442 TGTCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
54169491 TAT-TCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
54169541 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
54169592 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
54169631 TGCGACCTCA
Statistics
Matches: 164, Mismatches: 20, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
48 1 0.01
49 84 0.51
50 42 0.26
51 36 0.22
52 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:54169578 original size:99 final size:100
Alignment explanation
Indices: 54169398--54169637 Score: 324
Period size: 99 Copynumber: 2.4 Consensus size: 100
54169388 AAAGCTATCT
* * * *** * *
54169398 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTGTCTGGTACACGTAGTAGCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAGTAGCC
54169463 TGCACTTAGTACTACACACGTGA-C-CAATTATTC-
66 TGCACTTAGTACTACACACGTGATCACAATT-TTCG
* *
54169496 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCTGATACACGTAGTAGC
*
54169561 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACGTGATCACAATTTTCG
* *
54169597 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
54169638 TCACAATAGA
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
98 36 0.29
99 42 0.34
100 4 0.03
101 41 0.33
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCTGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAATTTTCG
Found at i:54171371 original size:14 final size:15
Alignment explanation
Indices: 54171352--54171416 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
54171342 TAAAGATAAC
54171352 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
54171366 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
*
54171381 GA-AAAACCTAGAATA
1 AAGAAAACC-AGAATA
54171396 AA-AAAATCCAGAATA
1 AAGAAAA-CCAGAATA
54171411 AAGAAA
1 AAGAAA
54171417 CCCAAGATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 14 0.34
15 21 0.51
16 6 0.15
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.11
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:54183043 original size:30 final size:30
Alignment explanation
Indices: 54183007--54183063 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
54182997 TAGGCACTTC
*
54183007 CACACGGGTAAACCACACGCCCGTGTGCCT
1 CACACGGGCAAACCACACGCCCGTGTGCCT
*
54183037 CACACGGGCAGACCACACGCCCGTGTG
1 CACACGGGCAAACCACACGCCCGTGTG
54183064 TCATGGCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.23, C:0.40, G:0.26, T:0.11
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGCCT
Found at i:54187283 original size:40 final size:40
Alignment explanation
Indices: 54187228--54187485 Score: 439
Period size: 40 Copynumber: 6.5 Consensus size: 40
54187218 CGGATGATAA
54187228 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54187268 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54187308 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54187348 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54187388 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54187428 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54187468 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54187486 TACTTGGTTT
Statistics
Matches: 211, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 16 0.08
40 195 0.92
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54196298 original size:40 final size:40
Alignment explanation
Indices: 54196236--54196413 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
54196226 CGGATGATAA
* * *
54196236 CCGGGCCAAGTCCCGAAGGCATTTGTGCGAGTGACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54196276 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54196316 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54196356 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54196396 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54196414 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 16 0.13
40 111 0.87
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54199786 original size:3 final size:3
Alignment explanation
Indices: 54199778--54199807 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
54199768 ATTTAATTTC
54199778 ATT ATT ATT ATT ATT ATT ATT ATT CATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT
54199808 ATTTGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:54201403 original size:6 final size:6
Alignment explanation
Indices: 54201392--54201417 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
54201382 TTAAGTCCAG
54201392 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
54201418 TTAATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:54201424 original size:21 final size:20
Alignment explanation
Indices: 54201395--54201446 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
54201385 AGTCCAGTTA
*
54201395 TTTTTATTTTTATTTTTATT
1 TTTTTATTTTTATCTTTATT
* *
54201415 TTTTTAATTTTATCTTTCTT
1 TTTTTATTTTTATCTTTATT
54201435 TTATTTATTTTT
1 TT-TTTATTTTT
54201447 GAAGACTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTATTTTTATCTTTATT
Found at i:54202443 original size:4 final size:4
Alignment explanation
Indices: 54202429--54202480 Score: 88
Period size: 4 Copynumber: 13.2 Consensus size: 4
54202419 CTTAAAAAAA
*
54202429 ACAT ACTT ACAT ACAT ACAT ACAT ACAT A-AT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
54202476 ACAT A
1 ACAT A
54202481 TTGGTATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 3 0.07
4 42 0.93
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:54202464 original size:23 final size:23
Alignment explanation
Indices: 54202436--54202480 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
54202426 AAAACATACT
54202436 TACATACATACATACATACATAA
1 TACATACATACATACATACATAA
54202459 TACATACATACATACATACATA
1 TACATACATACATACATACATA
54202481 TTGGTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (23 bp):
TACATACATACATACATACATAA
Found at i:54205895 original size:39 final size:39
Alignment explanation
Indices: 54205851--54205935 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
54205841 ATATATGGTG
*
54205851 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGAGA
54205890 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGAGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGAGA
*
54205929 ATCATAT
1 ATTATAT
54205936 TCGAACTTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (39 bp):
ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGAGA
Found at i:54208115 original size:42 final size:41
Alignment explanation
Indices: 54208007--54208126 Score: 100
Period size: 43 Copynumber: 2.9 Consensus size: 41
54207997 GTCTGAGACA
* * *
54208007 TCGTGTAAGACCGTGTCTGGGACACAGGCCTTGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
* * *
54208049 TACGTATAAGACCATGCCTAGGACATCA-GCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* * *
54208092 TCGTGTAAGACCTTGTCTGGGACAGATGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
54208127 ATTGAATTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
41 3 0.05
42 26 0.42
43 28 0.45
44 4 0.06
45 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:54219688 original size:28 final size:28
Alignment explanation
Indices: 54219656--54219725 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
54219646 AATGAGATTG
*
54219656 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
54219684 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
54219712 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54219726 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:54223505 original size:40 final size:40
Alignment explanation
Indices: 54223446--54223634 Score: 247
Period size: 40 Copynumber: 4.8 Consensus size: 40
54223436 GCATGAATAC
*
54223446 AGTTACTATTTCTGGGCTAAGTCCCGAAGGCATTTGTGCG
1 AGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
** *
54223486 AGTTACTATTTCCAAGCTAAGTCCCGAAGGCATTTGTGTG
1 AGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* *
54223526 AGTTGCTATTTCCGGGCTAAGTCCCGAAGGCAATTGTGCG
1 AGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
** *
54223566 AGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCG
1 AGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
* **
54223606 AG-TAGCTATATCC-GGCTAAACCCCGAAGG
1 AGTTA-CTATTTCCGGGCTAAGTCCCGAAGG
54223635 TACTTGGTTG
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 16 0.12
40 115 0.88
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
AGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCG
Found at i:54237511 original size:54 final size:54
Alignment explanation
Indices: 54237405--54237512 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
54237395 ATGCCTTCGG
**
54237405 GACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 GACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
54237459 GACATAGCCTGGTTATAGTAACTCGCACAAATGCCTTTGGGA-CTTAACCCGGAT
1 GACATAGCCCGGTTATAGTAACTCGCACAAATGCC-TTCGGATCTTAACCCGGAT
54237513 TTAGTAACTC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 44 0.90
55 5 0.10
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (54 bp):
GACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
Found at i:54237532 original size:40 final size:39
Alignment explanation
Indices: 54237474--54237577 Score: 154
Period size: 39 Copynumber: 2.6 Consensus size: 39
54237464 AGCCTGGTTA
* *
54237474 TAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGAAT
* *
54237514 TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAAT
*
54237553 TAGTATCTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
54237578 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.59
40 24 0.41
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAAT
Found at i:54237563 original size:39 final size:40
Alignment explanation
Indices: 54237474--54237630 Score: 160
Period size: 40 Copynumber: 4.0 Consensus size: 40
54237464 AGCCTGGTTA
* *
54237474 TAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* *
54237514 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
* **
54237553 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAAT
* * * *
54237592 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
54237631 CATCATTCAA
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.34
40 52 0.53
41 11 0.11
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAAT
Found at i:54237614 original size:79 final size:80
Alignment explanation
Indices: 54237474--54237630 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
54237464 AGCCTGGTTA
* * * *
54237474 TAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
54237539 G-CTTAGCCCGGAAT
66 GACTTAGCCCGGAAT
* ** * *
54237553 TAGTATCTCGCACAAATGCC-TTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTC
54237616 GGGACTTAGCCCGGA
64 GGGACTTAGCCCGGA
54237631 CATCATTCAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 5 0.08
79 46 0.70
80 15 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:54239318 original size:64 final size:66
Alignment explanation
Indices: 54239215--54239344 Score: 237
Period size: 64 Copynumber: 2.0 Consensus size: 66
54239205 CTTGTCATGG
*
54239215 CCGGCCACTACTAATTAGGGGGGAATTTGACATGCAAGTCCCCTCTTTTTA-TTCATGCACTAAT
1 CCGGCCACTACTAATTAGGGGGGAATTTGACATGCAAGTCCCCCCTTTTTATTTCATGCACTAAT
54239279 A
66 A
54239280 CCGGCCACTACTAATTA-GGGGGAATTTGACATGCAAGTCCCCCCTTTTTATTTCATGCACTAAT
1 CCGGCCACTACTAATTAGGGGGGAATTTGACATGCAAGTCCCCCCTTTTTATTTCATGCACTAAT
54239344 A
66 A
54239345 GGTCCTTATG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
64 32 0.51
65 31 0.49
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (66 bp):
CCGGCCACTACTAATTAGGGGGGAATTTGACATGCAAGTCCCCCCTTTTTATTTCATGCACTAAT
A
Found at i:54244980 original size:27 final size:27
Alignment explanation
Indices: 54244950--54245127 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54244940 ATATTGAGTC
* * * *
54244950 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
54244977 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54245004 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
54245032 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
54245059 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
54245086 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
54245113 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54245128 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:54245089 original size:82 final size:81
Alignment explanation
Indices: 54244971--54245126 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
54244961 TGCTATATAA
* *
54244971 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
54245036 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
54245053 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
54245117 CACTTAGTGC
65 CACTTAGTGC
54245127 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54253479 original size:46 final size:46
Alignment explanation
Indices: 54253429--54254288 Score: 1657
Period size: 46 Copynumber: 18.7 Consensus size: 46
54253419 GTTGAGCATC
54253429 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253475 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253521 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253567 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253613 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253659 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253705 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253751 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253797 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253843 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253889 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253935 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54253981 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54254027 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54254073 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54254119 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
54254165 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
* * **
54254211 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
* * *
54254257 CGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54254289 GGGGCGGGTT
Statistics
Matches: 807, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 807 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
Found at i:54260686 original size:18 final size:19
Alignment explanation
Indices: 54260653--54260688 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
54260643 ATTTGGCCAT
54260653 ATGGGCCAGAATGGGCTAA
1 ATGGGCCAGAATGGGCTAA
*
54260672 ATGGGCCCG-ATGGGCTA
1 ATGGGCCAGAATGGGCTA
54260689 TTAGGCCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (19 bp):
ATGGGCCAGAATGGGCTAA
Found at i:54260852 original size:29 final size:29
Alignment explanation
Indices: 54260755--54260869 Score: 101
Period size: 29 Copynumber: 4.0 Consensus size: 29
54260745 GTGAGGATGA
* * *
54260755 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* * *
54260783 ATATAAATTTGATTTGGGCCTAATGGACC
1 ATATGAATATGATTTGGGCCTAATGGGCC
* * *
54260812 ATAT-ATAGATGATTTGGGCCTATTGGGTC
1 ATATGA-ATATGATTTGGGCCTAATGGGCC
* *
54260841 ATATGAATATGA-TTAGGCTTAATGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCC
54260869 A
1 A
54260870 GATACAGGTA
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
28 24 0.35
29 44 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (29 bp):
ATATGAATATGATTTGGGCCTAATGGGCC
Found at i:54264425 original size:19 final size:19
Alignment explanation
Indices: 54264401--54264443 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
54264391 TCCACTTTTT
54264401 TTAATCACT-TAAAAAAATA
1 TTAATCACTGT-AAAAAATA
*
54264420 TTAATCGCTGTAAAAAATA
1 TTAATCACTGTAAAAAATA
54264439 TTAAT
1 TTAAT
54264444 GATTAAAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (19 bp):
TTAATCACTGTAAAAAATA
Found at i:54268915 original size:12 final size:12
Alignment explanation
Indices: 54268898--54268924 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
54268888 ACATTTTTGG
54268898 CACGGCCTAGCA
1 CACGGCCTAGCA
54268910 CACGGCCTAGCA
1 CACGGCCTAGCA
54268922 CAC
1 CAC
54268925 AGGCATGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.44, G:0.22, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:54269883 original size:16 final size:18
Alignment explanation
Indices: 54269864--54269911 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 18
54269854 GACAAAATTG
*
54269864 AAAAGATGAAAAAAATAA
1 AAAAGATGAAAATAATAA
*
54269882 AAATGAT--AAATAATAA
1 AAAAGATGAAAATAATAA
54269898 AAAAGATGAAAATA
1 AAAAGATGAAAATA
54269912 TCATCATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 14 0.56
18 11 0.44
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
AAAAGATGAAAATAATAA
Found at i:54274734 original size:28 final size:28
Alignment explanation
Indices: 54274693--54274752 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
54274683 TATACATTAT
* *
54274693 CAGT-ACAGTCTGGGCCTTAGCCCTATA
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
*
54274720 CAGTAACAGTGTGGGCCTAAGCCCAATA
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
*
54274748 TAGTA
1 CAGTA
54274753 CCAATACAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCAATA
Found at i:54277112 original size:43 final size:42
Alignment explanation
Indices: 54276991--54277112 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
54276981 ACCATACCAG
* * *
54276991 TGCCATATCCCAGGTATGGTCTTACATGT-AATCTCGTATCGA
1 TGCCATAT-CCAGATATGGTCTTACACGTAAATCTCATATCGA
* * * *
54277033 TGCCAATAGCCTAGCTATAGTCTTACACG-AAGTCTCATATCGA
1 TGCC-ATATCC-AGATATGGTCTTACACGTAAATCTCATATCGA
*
54277076 TGTCATATCTCAGATATGGTCTTACACGTAAATCTCA
1 TGCCATATC-CAGATATGGTCTTACACGTAAATCTCA
54277113 GTAACTCTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
42 25 0.39
43 39 0.61
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
TGCCATATCCAGATATGGTCTTACACGTAAATCTCATATCGA
Found at i:54279252 original size:27 final size:27
Alignment explanation
Indices: 54279217--54279268 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
54279207 TGATTCGATA
*
54279217 GTTTAATTGCAATAT-TTTATTATAGTG
1 GTTTAATTGAAATATATTTA-TATAGTG
*
54279244 GTTTTATTGAAATATATTTATATAG
1 GTTTAATTGAAATATATTTATATAG
54279269 GTCAACTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (27 bp):
GTTTAATTGAAATATATTTATATAGTG
Found at i:54286903 original size:22 final size:22
Alignment explanation
Indices: 54286875--54286919 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
54286865 TGTTATGGCA
*
54286875 AAGACATGGAGTTGAAGAGGCT
1 AAGACATGGAGTCGAAGAGGCT
54286897 AAGACATGGAGTCGAAGAGGCT
1 AAGACATGGAGTCGAAGAGGCT
54286919 A
1 A
54286920 CGTGGGAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.36, T:0.16
Consensus pattern (22 bp):
AAGACATGGAGTCGAAGAGGCT
Found at i:54290244 original size:117 final size:118
Alignment explanation
Indices: 54290086--54290324 Score: 462
Period size: 117 Copynumber: 2.0 Consensus size: 118
54290076 CAAAAACGAG
*
54290086 TAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCACAAGTACATGTTAGAGTGAGAATTTGATG
1 TAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCACAAGTACATGTTAGAGTGAGAATTTGACG
54290151 TTGCCATAGAAGAGAAAAGTGATCAGCATGTTGTAAAACATAAGAATAAGG-A
66 TTGCCATAGAAGAGAAAAGTGATCAGCATGTTGTAAAACATAAGAATAAGGAA
54290203 TAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCACAAGTACATGTTAGAGTGAGAATTTGACG
1 TAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCACAAGTACATGTTAGAGTGAGAATTTGACG
54290268 TTGCCATAGAAGAGAAAAGTGATCAGCATGTTGTAAAACATAAGAATAAGGAA
66 TTGCCATAGAAGAGAAAAGTGATCAGCATGTTGTAAAACATAAGAATAAGGAA
54290321 TAAA
1 TAAA
54290325 TTTTAATCCC
Statistics
Matches: 120, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
117 115 0.96
118 5 0.04
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (118 bp):
TAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCACAAGTACATGTTAGAGTGAGAATTTGACG
TTGCCATAGAAGAGAAAAGTGATCAGCATGTTGTAAAACATAAGAATAAGGAA
Found at i:54301080 original size:42 final size:42
Alignment explanation
Indices: 54300980--54301105 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 42
54300970 AACTCGTACA
* * **
54300980 ATGCCAACGTCCCTGACGTGGTCTTACATGTTATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATA-CG
* * ** * *
54301023 ATACCACTGTCCCAGACAAGGTCTTACACGAAATCATATACG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATACG
*
54301065 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCACATAC
1 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATAC
54301106 CAGAATCTTA
Statistics
Matches: 67, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 37 0.55
43 30 0.45
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCAAATACG
Found at i:54303986 original size:29 final size:29
Alignment explanation
Indices: 54303927--54303984 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
54303917 CAAATAGCCG
*
54303927 AAGCTAGTTAAATTGCACACTTAGTGCCC
1 AAGCTAGTTAAATCGCACACTTAGTGCCC
54303956 AAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAGCTAG-TTAAATCGCACACTTAGTGCC
54303985 AAAACTTCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCC
Found at i:54308324 original size:42 final size:42
Alignment explanation
Indices: 54308215--54308335 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
54308205 AAAAAGATGC
* **
54308215 CAATACCATGTCCCAGACATAGTCTTACATGGGATCTCACAT
1 CAATGCCATGTCCCAGACATAGTCTTACATGAAATCTCACAT
* ** * * * **
54308257 CAATGCCATATCCCAGATTTTGTCTTATACGAAATCTCATTT
1 CAATGCCATGTCCCAGACATAGTCTTACATGAAATCTCACAT
* *
54308299 CAATGCCATGTCCCAGACGTGGTCTTACATGAAATCT
1 CAATGCCATGTCCCAGACATAGTCTTACATGAAATCT
54308336 TATATCAACT
Statistics
Matches: 62, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
CAATGCCATGTCCCAGACATAGTCTTACATGAAATCTCACAT
Found at i:54308417 original size:90 final size:90
Alignment explanation
Indices: 54308301--54308505 Score: 263
Period size: 90 Copynumber: 2.3 Consensus size: 90
54308291 TCTCATTTCA
* * * *
54308301 ATGCCATGTCCCAGACG-TGGTCTTACATGAAATCTTATATCAACT-CCATAGCCCAGATAGGGT
1 ATGCCATGTCCCA-AAGTTGGTCTTACATGAAACCTCATATCAA-TGCCATAGCCCAGATAGGGC
* * * *
54308364 CTTACATTATAACACATATCGATGTCG
64 CTTACATGATAAAACATACCGATGCCG
* *
54308391 ATGCCATGTCCCAAAGTTGGTCTTACATGAAACCTCATATCAATGCCATAGCCTAGATATGGCCT
1 ATGCCATGTCCCAAAGTTGGTCTTACATGAAACCTCATATCAATGCCATAGCCCAGATAGGGCCT
54308456 TACATGATAAAACATACCGATGCCG
66 TACATGATAAAACATACCGATGCCG
*
54308481 ATGCCATATCCCAAA-TATGGTCTTA
1 ATGCCATGTCCCAAAGT-TGGTCTTA
54308506 TACGGGATCT
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
89 4 0.04
90 97 0.96
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (90 bp):
ATGCCATGTCCCAAAGTTGGTCTTACATGAAACCTCATATCAATGCCATAGCCCAGATAGGGCCT
TACATGATAAAACATACCGATGCCG
Found at i:54320395 original size:108 final size:107
Alignment explanation
Indices: 54320206--54320418 Score: 372
Period size: 108 Copynumber: 2.0 Consensus size: 107
54320196 GTGCTACTCG
* * *
54320206 GTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTATATGT
1 GTTTTAAGCGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGA
54320271 TAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAAGTGATTA
66 TAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAA-TGATTA
*
54320314 GTTTTAAGCGAAAACGAGTAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGA
1 GTTTTAAGCGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGA
*
54320379 TAGAGTGTGAATTTGATGTTGCCATAGAAGGGAAAATGAT
66 TAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAATGAT
54320419 CAGCATGTCA
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
107 4 0.04
108 96 0.96
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (107 bp):
GTTTTAAGCGAAAACGAGCAAAAGGGCTTAATCGGTAAAAATACCTAATAGTCATAAGTACATGA
TAGAGTGAGAATTTGATGTTGCCATAGAAGGGAAAATGATTA
Found at i:54331838 original size:28 final size:27
Alignment explanation
Indices: 54331745--54331954 Score: 312
Period size: 28 Copynumber: 7.6 Consensus size: 27
54331735 ATATTAAGTC
* * *
54331745 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
54331772 CGCACACTTAGTGCTACTACATAGTGAACT
1 CGCACACTTAGTG---CTACATAGTCAACT
54331802 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
54331830 TGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
54331858 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
54331885 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
54331913 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
54331940 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54331955 GCACAATTTA
Statistics
Matches: 170, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
27 66 0.39
28 80 0.47
30 24 0.14
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:54331892 original size:83 final size:82
Alignment explanation
Indices: 54331745--54331954 Score: 330
Period size: 83 Copynumber: 2.5 Consensus size: 82
54331735 ATATTAAGTC
* * * *
54331745 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACTACATAGTGAACTCGCACACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG---CTACATAGTCAACTCGCACACT
54331810 TAGTGCTACATAGTCAAACT
63 TAGTGCTACATAGTCAAACT
*
54331830 TGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACTCGCACACTTA
54331895 GTGCTACATAGTCAAACT
65 GTGCTACATAGTCAAACT
*
54331913 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
54331955 GCACAATTTA
Statistics
Matches: 117, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
82 18 0.15
83 63 0.54
85 19 0.16
86 17 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAG
TGCTACATAGTCAAACT
Found at i:54331893 original size:55 final size:55
Alignment explanation
Indices: 54331745--54331954 Score: 323
Period size: 55 Copynumber: 3.8 Consensus size: 55
54331735 ATATTAAGTC
* * * *
54331745 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACTACATAGT-GAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG---CTACATAGTCAAACT
*
54331802 CGCACACTTAGTGCTACATAGTCAAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
54331858 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
54331913 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
54331955 GCACAATTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
55 81 0.56
56 27 0.19
57 20 0.14
58 16 0.11
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:54340043 original size:28 final size:27
Alignment explanation
Indices: 54339976--54340127 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
54339966 ATATTAAGTC
* *
54339976 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
54340003 CGCACACTTAGTGCTACATAATCATACC
1 CGCACACTTAGTGCTACATAATCA-ACT
* *
54340031 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
54340058 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
54340086 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
54340113 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54340128 GCACAATTTA
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
27 62 0.55
28 50 0.45
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:54340059 original size:55 final size:55
Alignment explanation
Indices: 54339975--54340148 Score: 249
Period size: 55 Copynumber: 3.1 Consensus size: 55
54339965 TATATTAAGT
*
54339975 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATAC
1 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAAC
*
54340030 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAGTCAAAC
1 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAAC
* * * * * * * *
54340085 TCGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAA-TCAAAC
54340141 CCGCACAC
1 CCGCACAC
54340149 GTAGCGCCAA
Statistics
Matches: 106, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 94 0.89
56 12 0.11
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.25
Consensus pattern (55 bp):
CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAAC
Found at i:54348716 original size:25 final size:23
Alignment explanation
Indices: 54348680--54348727 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
54348670 TATCTAATGA
54348680 ATGAAAAAATTTTCCAAATAACAT
1 ATGAAAAAA-TTTCCAAATAACAT
54348704 ATGACAAAAATTTCCAAATAACAT
1 ATGA-AAAAATTTCCAAATAACAT
54348728 TCGTGTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (23 bp):
ATGAAAAAATTTCCAAATAACAT
Found at i:54349103 original size:69 final size:69
Alignment explanation
Indices: 54348760--54349336 Score: 324
Period size: 69 Copynumber: 8.4 Consensus size: 69
54348750 AGCAAAGTGT
* * **
54348760 CATAGCCTTCAACACAATTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGG--CATGCAGATG
1 CATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCA--CAGGCG
*
54348823 AAGTGC
64 AAGAGC
*** * * * *** *
54348829 TGCAGCCTCTAACACAGTTAATGAGAGCAAAGCTCCCAGCTGTCATATTAAGGTTTGTAGGCAAA
1 CATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAGGCGAA
54348894 GAGC
66 GAGC
** * * * * * * * ** *
54348898 CGCATCCTCTAATAGATTTAGCGAGAGCAAAGCTCCCAACTATCATATTAAGGTTCGTAGGAGAA
1 CATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAGGCGAA
*
54348963 AAGC
66 GAGC
* * * ** ** * *
54348967 CACAACATCCAACACAGTTAGCAAGAGCAAAGCTCCCAGTTGTCATATTAAGG--CACGTAGGAC
1 CATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCAC--AGG-C
54349030 -AAGAGC
63 GAAGAGC
* * * *
54349036 CATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCCCAACTATTATATTAAGATTCACACGCGAA
1 CATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAGGCGAA
*
54349101 GAGT
66 GAGC
* * * * ** * * *
54349105 CGTAGCCTTTAACACAATTAGCG-GAAGCAAATCTCTTAGCTATCATATTAAGGTTCGCAAGCTA
1 CATAGCCTTTAACACAGTTAGTGAG-AGCAAAGCTCCCAGCTATCATATTAAGGTTCACAGGCGA
54349169 AGAGC
65 AGAGC
* * * ** * * * * **
54349174 CATAG-CTTTGAACAGAGTTAGTGAAAGAAAAGCTCCCAATTTTCATATTAATGCTCGCAGATGA
1 CATAGCCTTT-AACACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAGGCGA
54349238 AGAGC
65 AGAGC
** * ** * ** * * * *
54349243 CGCAGCC-TCAACACAGTTAGCAAGAGCAAAGTTCCCAATTGTCATATTAAGGCTCATAAGCGAA
1 CATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAGGCGAA
54349307 GAGC
66 GAGC
* * * * *
54349311 AACAGCCTTCAATATAGTTAGTGAGA
1 CATAGCCTTTAACACAGTTAGTGAGA
54349337 ATTAAAAACT
Statistics
Matches: 385, Mismatches: 110, Indels: 26
0.74 0.21 0.05
Matches are distributed among these distances:
67 1 0.00
68 57 0.15
69 323 0.84
70 1 0.00
71 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (69 bp):
CATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCCCAGCTATCATATTAAGGTTCACAGGCGAA
GAGC
Found at i:54349119 original size:138 final size:138
Alignment explanation
Indices: 54348731--54349336 Score: 463
Period size: 138 Copynumber: 4.4 Consensus size: 138
54348721 ATAACATTCG
* * * * * * *
54348731 TGTCATACTAAGGCTCGCAAGCAAAGTGTCATAGCCTTCAACACAATTAGTGAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCGTAGGCAAAGAGCCATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCC
* * * * * * ***
54348796 CAGCTATCATATTAAGGCATGCAGA-TGAAGTGCTGCAGCCTCTAACACAGTTAATGAGAGCAAA
66 CAACTATCATATTAAGG-ATTCACAGTGAAGAGCCGCAGCCTCCAACACAGTTAGCAAGAGCAAA
54348860 GCTCCCAGC
130 GCTCCCAGC
* * ** * * * * * *
54348869 TGTCATATTAAGGTTTGTAGGCAAAGAGCCGCATCCTCTAATAGATTTAGCGAGAGCAAAGCTCC
1 TGTCATATTAAGGCTCGTAGGCAAAGAGCCATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCC
** * * * * *
54348934 CAACTATCATATTAAGG-TTCGTAGGAGAAAAGCCACAACATCCAACACAGTTAGCAAGAGCAAA
66 CAACTATCATATTAAGGATTCACA-GTGAAGAGCCGCAGCCTCCAACACAGTTAGCAAGAGCAAA
*
54348998 GCTCCCAGT
130 GCTCCCAGC
*
54349007 TGTCATATTAAGGCACGTAGG-ACAAGAGCCATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTC
1 TGTCATATTAAGGCTCGTAGGCA-AAGAGCCATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTC
* * * * ** * *
54349071 CCAACTATTATATTAA-GATTCACACGCGAAGAGTCGTAGCCTTTAACACAATTAGC-GGAAGCA
65 CCAACTATCATATTAAGGATTCACA-GTGAAGAGCCGCAGCCTCCAACACAGTTAGCAAG-AGCA
* **
54349134 AATCTCTTAGC
128 AAGCTCCCAGC
* * * * * * * *
54349145 TATCATATTAAGGTTCGCAAGCTAAGAGCCATAG-CTTTGAACAGAGTTAGTGAAAGAAAAGCTC
1 TGTCATATTAAGGCTCGTAGGCAAAGAGCCATAGCCTTT-AACACAGTTAGTGAGAGCAAAGCTC
* * * * *
54349209 CCAATTTTCATATTAATG-CTCGCAGATGAAGAGCCGCAGCCT-CAACACAGTTAGCAAGAGCAA
65 CCAACTATCATATTAAGGATTCACAG-TGAAGAGCCGCAGCCTCCAACACAGTTAGCAAGAGCAA
* **
54349272 AGTTCCCAAT
129 AGCTCCCAGC
* * * * * * * *
54349282 TGTCATATTAAGGCTCATAAGCGAAGAGCAACAGCCTTCAATATAGTTAGTGAGA
1 TGTCATATTAAGGCTCGTAGGCAAAGAGCCATAGCCTTTAACACAGTTAGTGAGA
54349337 ATTAAAAACT
Statistics
Matches: 358, Mismatches: 99, Indels: 23
0.75 0.21 0.05
Matches are distributed among these distances:
136 3 0.01
137 68 0.19
138 286 0.80
139 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (138 bp):
TGTCATATTAAGGCTCGTAGGCAAAGAGCCATAGCCTTTAACACAGTTAGTGAGAGCAAAGCTCC
CAACTATCATATTAAGGATTCACAGTGAAGAGCCGCAGCCTCCAACACAGTTAGCAAGAGCAAAG
CTCCCAGC
Found at i:54349476 original size:58 final size:59
Alignment explanation
Indices: 54349357--54349553 Score: 237
Period size: 58 Copynumber: 3.4 Consensus size: 59
54349347 CCCAGTTGTC
*
54349357 TTATATTTCAAAATTTTCTTAAGTATAAAACAACTCACAGAGTAACATCCCCAGCTATG
1 TTATCTTTCAAAATTTTCTTAAGTATAAAACAACTCACAGAGTAACATCCCCAGCTATG
* * ** * * *
54349416 TTAT-TTGTCAAAATTTTCTTAATTAT-AAACAACTTATTGAGTAACATCCCTATCTGTG
1 TTATCTT-TCAAAATTTTCTTAAGTATAAAACAACTCACAGAGTAACATCCCCAGCTATG
* *
54349474 TTATCTTTCAAAATTTT-TTAAGTATAAAACAACTCGCGGAGTAA-AT---CAGCTATG
1 TTATCTTTCAAAATTTTCTTAAGTATAAAACAACTCACAGAGTAACATCCCCAGCTATG
*
54349528 TTATCTTTCAAAATTTTCTTCAGTAT
1 TTATCTTTCAAAATTTTCTTAAGTAT
54349554 GAAATAGCTT
Statistics
Matches: 118, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
54 22 0.19
55 7 0.06
57 9 0.08
58 56 0.47
59 24 0.20
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (59 bp):
TTATCTTTCAAAATTTTCTTAAGTATAAAACAACTCACAGAGTAACATCCCCAGCTATG
Found at i:54349590 original size:112 final size:115
Alignment explanation
Indices: 54349357--54349612 Score: 281
Period size: 112 Copynumber: 2.2 Consensus size: 115
54349347 CCCAGTTGTC
*
54349357 TTATATTTCAAAATTTTCTTAAGTATAAAACAACTCACAGAGTAACATCCCCAGCTATGTTATTT
1 TTATCTTTCAAAATTTTCTTAAGTATAAAACAACTCACAGAGTAACAT--CCAGCTATGTTATTT
* * * *
54349422 GTCAAAATTTTCTTAATTATAAACAACTTATTGAGTAACATCCCTATCTGTG
64 GTCAAAATTTTCTTAAGTATAAACAACTTATGGAGTAACAACCCTATCTGTA
* *
54349474 TTATCTTTCAAAATTTT-TTAAGTATAAAACAACTCGCGGAGTAA-AT-CAGCTATGTTATCTT-
1 TTATCTTTCAAAATTTTCTTAAGTATAAAACAACTCACAGAGTAACATCCAGCTATGTTAT-TTG
* * * * * * *
54349535 TCAAAATTTTCTTCAGTATGAAATAGCTTGTGGATTCACAACCTTAGT-T-TA
65 TCAAAATTTTCTTAAGTAT-AAACAACTTATGGAGTAACAACCCTA-TCTGTA
*
54349586 TTATCTTTCAAGATTTTTCTTAAGTAT
1 TTATCTTTCAA-AATTTTCTTAAGTAT
54349613 TAAATAGCTC
Statistics
Matches: 119, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
112 41 0.34
113 26 0.22
114 9 0.08
115 2 0.02
116 25 0.21
117 16 0.13
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (115 bp):
TTATCTTTCAAAATTTTCTTAAGTATAAAACAACTCACAGAGTAACATCCAGCTATGTTATTTGT
CAAAATTTTCTTAAGTATAAACAACTTATGGAGTAACAACCCTATCTGTA
Found at i:54351771 original size:50 final size:51
Alignment explanation
Indices: 54351696--54351920 Score: 214
Period size: 50 Copynumber: 4.5 Consensus size: 51
54351686 TGAATACACG
54351696 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-ATACTGTTAAGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATACTGTTAAGTCACA
* * * * ** *
54351746 TGTGTAGTATTAAGTGCAAGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAAT-ACTGTTAAGTCACA
* * * * * *
54351797 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT--GGTGAGGTCGCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-ATACTGTTAAGTCACA
* * *
54351847 TGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGAAT--TGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AATACTGTTAAGTCACA
54351896 TGTGTAGTACTAAGTGCAGGCTACT
1 TGTGTAGTACTAAGTGCAGGCTACT
54351921 GTGCGTATCA
Statistics
Matches: 145, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
49 31 0.21
50 71 0.49
51 36 0.25
52 4 0.03
53 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATACTGTTAAGTCACA
Found at i:54351825 original size:28 final size:27
Alignment explanation
Indices: 54351794--54351877 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
54351784 GACTTCGATC
54351794 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
* *
54351822 ACGTGTATCAG-A-T-GGTG-AGGT-C-
1 ACGTGTGT-AGTACTAAGTGCAGGTACT
*
54351844 GCGTGTGTAGTACTAAGTGCAGGTTACT
1 ACGTGTGTAGTACTAAGTGCAGG-TACT
54351872 ACGTGT
1 ACGTGT
54351878 ACCGAATTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 7 0.17
23 2 0.05
24 4 0.10
25 6 0.14
26 4 0.10
27 2 0.05
28 13 0.31
29 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTGCAGGTACT
Found at i:54351872 original size:101 final size:99
Alignment explanation
Indices: 54351692--54351920 Score: 266
Period size: 101 Copynumber: 2.3 Consensus size: 99
54351682 ATTGTGAATA
* * *
54351692 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCACATGTGTAGTATT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACT
*
54351757 AAGTGCAAGCTACTATGCGTACTC-AA-TGACTTCGAT
66 AAGTGCAAGCTACTACGCGTAC-CGAATTG--TT-GAT
* * * *
54351793 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCGCGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTGAAGTCACATGTGTAGTAC
* * * *
54351857 TAAGTGCAGGTTACTACGTGTACCGAATTGTTGGT
65 TAAGTGCAAGCTACTACGCGTACCGAATTGTTGAT
* *
54351892 CGCATGTGTAGTACTAAGTGCAGGCTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACT
54351921 GTGCGTATCA
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
99 29 0.26
100 4 0.04
101 76 0.68
102 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (99 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACT
AAGTGCAAGCTACTACGCGTACCGAATTGTTGAT
Found at i:54355069 original size:22 final size:22
Alignment explanation
Indices: 54355044--54355086 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
54355034 AGAGAATATT
*
54355044 GGTACTAGAGACAGCAAATGTC
1 GGTACTAGAGACAACAAATGTC
*
54355066 GGTACTAGGGACAACAAATGT
1 GGTACTAGAGACAACAAATGT
54355087 TAGTACCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (22 bp):
GGTACTAGAGACAACAAATGTC
Found at i:54355092 original size:22 final size:22
Alignment explanation
Indices: 54355045--54355092 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
54355035 GAGAATATTG
* *
54355045 GTACTAGAGACAGCAAATGTCG
1 GTACTAGAGACAACAAATGTCA
* *
54355067 GTACTAGGGACAACAAATGTTA
1 GTACTAGAGACAACAAATGTCA
54355089 GTAC
1 GTAC
54355093 CGAAGGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (22 bp):
GTACTAGAGACAACAAATGTCA
Found at i:54356094 original size:21 final size:20
Alignment explanation
Indices: 54356060--54356099 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
54356050 CGGGCCCAGA
*
54356060 AATAAGTCCAAAAACAAAAAT
1 AATAAATCCAAAAA-AAAAAT
54356081 AATAAATCCCAAAAAAAAA
1 AATAAAT-CCAAAAAAAAA
54356100 CTGAAGTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.70, C:0.15, G:0.03, T:0.12
Consensus pattern (20 bp):
AATAAATCCAAAAAAAAAAT
Found at i:54356257 original size:14 final size:15
Alignment explanation
Indices: 54356240--54356295 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
54356230 TATTAGATAT
54356240 GATATG-CAATCTTA
1 GATATGACAATCTTA
54356254 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
54356271 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
54356289 GATATGA
1 GATATGA
54356296 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:54356289 original size:35 final size:37
Alignment explanation
Indices: 54356219--54356316 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
54356209 ATAATCTTCA
*
54356219 ATGATATGCAATATTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
54356257 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
54356292 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
54356317 ATTTTGTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 10 0.18
38 6 0.11
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:54356316 original size:17 final size:19
Alignment explanation
Indices: 54356219--54356309 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
54356209 ATAATCTTCA
*
54356219 ATGATATGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
54356238 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
54356257 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
54356274 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
54356292 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
54356310 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:54356335 original size:22 final size:22
Alignment explanation
Indices: 54356219--54356332 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
54356209 ATAATCTTCA
*
54356219 ATGATATGCAATATT---AGAT
1 ATGATATGCAATCTTAGAAGAT
54356238 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
54356257 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
54356274 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
54356292 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
54356314 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
54356333 GATTTAATTT
Statistics
Matches: 85, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 33 0.39
22 8 0.09
23 12 0.14
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:54356624 original size:18 final size:17
Alignment explanation
Indices: 54356601--54356634 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
54356591 TTTCCTTGAT
*
54356601 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
54356619 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
54356635 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:54360196 original size:54 final size:54
Alignment explanation
Indices: 54360136--54360244 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
54360126 TTCCGTTAAA
54360136 CTTTTGCAATTCTTATTCTTTCATTCGTAGCACATTAATAATCATTCTTAAATT
1 CTTTTGCAATTCTTATTCTTTCATTCGTAGCACATTAATAATCATTCTTAAATT
54360190 CTTTTGCAATTCTTATTCTTTCATTCGTAGCACATTAATAATCATTCTTAAATT
1 CTTTTGCAATTCTTATTCTTTCATTCGTAGCACATTAATAATCATTCTTAAATT
54360244 C
1 C
54360245 ATTCATTCTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.48
Consensus pattern (54 bp):
CTTTTGCAATTCTTATTCTTTCATTCGTAGCACATTAATAATCATTCTTAAATT
Found at i:54360215 original size:25 final size:25
Alignment explanation
Indices: 54360136--54360215 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 25
54360126 TTCCGTTAAA
54360136 CTTTTGCAATTCTTATTCTTTCATT
1 CTTTTGCAATTCTTATTCTTTCATT
* * * **
54360161 C-GTAGCACATTAATAATCATTCTTAAATT
1 CTTTTGCA-ATT-CT--T-ATTCTTTCATT
54360190 CTTTTGCAATTCTTATTCTTTCATT
1 CTTTTGCAATTCTTATTCTTTCATT
54360215 C
1 C
54360216 GTAGCACATT
Statistics
Matches: 39, Mismatches: 10, Indels: 12
0.64 0.16 0.20
Matches are distributed among these distances:
24 4 0.10
25 14 0.36
26 2 0.05
28 2 0.05
29 13 0.33
30 4 0.10
ACGTcount: A:0.24, C:0.20, G:0.05, T:0.51
Consensus pattern (25 bp):
CTTTTGCAATTCTTATTCTTTCATT
Found at i:54363453 original size:858 final size:861
Alignment explanation
Indices: 54361795--54363516 Score: 3200
Period size: 858 Copynumber: 2.0 Consensus size: 861
54361785 GAGTCAACAG
*
54361795 CTTTGAATGGAAGAATAGCGAGGTGGCAAATTCTGCTTTCAGAGTTTGACATAGTTTATGTGAGC
1 CTTTGAATGGAAGAATAGAGAGGTGGCAAATTCTGCTTTCAGAGTTTGACATAGTTTATGTGAGC
*
54361860 CAGAAGGCTATAAAAGGAAGTGCGATAGTGGAATTTCTGGCTAGGAGAGCTCTAGAAGACTATGA
66 CAGAAGGCTATAAAAAGAAGTGCGATAGTGGAATTTCTGGCTAGGAGAGCTCTAGAAGACTATGA
*
54361925 GCCGTTGAATTTTGATTTCCCAAATGAGGAGTTGATGTGTGTAGCAGCTATAGAGGATTATCCTT
131 GCCGTTGAATTTTGATTTCCCAAATGAGGAGTTGATGTGTGTAGCAGCTACAGAGGATTATCCTT
*
54361990 GGAAGTTGAGCTTTGATGGGGCATCCTCAATGCAGTGGGAAATGGAATTGAGGTAGTCTTGGTAT
196 GGAAGATGAGCTTTGATGGGGCATCCTCAATGCAGTGGGAAATGGAATTGAGGTAGTCTTGGTAT
54362055 CCCCAAATGGTGATTATTATCCATTCACGTGCAAGTTGGATTTTTATTGCACAAACAATATGGCC
261 CCCCAAATGGTGATTATTATCCATTCACGTGCAAGTTGGATTTTTATTGCACAAACAATATGGCC
*
54362120 GAGTATGAAGCGTGCATCATGGGACTCCGAGCAGCTATAGAGTGAAGAATAAGAACCTTAGAAGT
326 GAGTATGAAGCGTGCATCATGGGACTCCGAGCAGCTATAGAGCGAAGAATAAGAACCTTAGAAGT
*
54362185 TTATGGAGACTCCGCGTTGGTAATTTACCAGCTTAAAGGTGAATGGGAGACAAGGGATCCTAAAT
391 TTATAGAGACTCCGCGTTGGTAATTTACCAGCTTAAAGGTGAATGGGAGACAAGGGATCCTAAAT
*
54362250 TGATCAATTATCGAAAGGTAGTTTTGGGGTTACTTGAGGAGTTCGATGACATCACTTTCAATTAT
456 TGATCAATTATCGAAAGGTAGTTTTAGGGTTACTTGAGGAGTTCGATGACATCACTTTCAATTAT
**
54362315 ATCCCACGAGACAAAAGGCAGATGGCAGATGCTCTAGCAACCTTGGCTTCAATGATTAAAGTGAA
521 ATCCCACGAGACAAAAACCAGATGGCAGATGCTCTAGCAACCTTGGCTTCAATGATTAAAGTGAA
54362380 TAAAGAGGAGGAGATGAGACCCATTCAGATGAGTATCTTCGAGGCTCCAGCTCACTGTTGTAACA
586 TAAAGAGGAGGAGATGAGACCCATTCAGATGAGTATCTTCGAGGCTCCAGCTCACTGTTGTAACA
*
54362445 TTGAGGAAGAAGAAAATGATGATAACCCTTGGTATCAGGATATATTGCGATATGTGAGAGATCGT
651 TTGAGGAAGAAGAAAAGGATGATAACCCTTGGTATCAGGATATATTGCGATATGTGAGAGATCGT
* *
54362510 AAATACCCAGAACAGGCAACTGAAAATGATAAGTGAACTTTAAGGAGATTAGCCTGCGACTACGT
716 AAATACCCAGAACAGGCAACTGAAAATGATAAGCGAACTTTAAGGAGATTAGCCTGCGACTACAT
54362575 TTTGGATGGGGACATCTTGTACAAAAGAAGAAA-AGACCAAGTACTGTTGAGATGTGTTGACGCC
781 TTTGGATGGGGACATCTTGTACAAAAGAAGAAAGA-ACCAAGTACTGTTGAGATGTGTTGACGCC
54362639 GTGGAAGCTAAGTTAAT
845 GTGGAAGCTAAGTTAAT
54362656 CTTTGAATGGAAGAATAGAGAGGTGGCAAATTCTGCTTTCAGAGTTTGACATAGTTTATGTGAGC
1 CTTTGAATGGAAGAATAGAGAGGTGGCAAATTCTGCTTTCAGAGTTTGACATAGTTTATGTGAGC
*
54362721 CAGAAGGCTATAAAAAGAAGTGCGATAGTGGAATTTCTGGCTAGGAGAGCTGTAGAAGACTATGA
66 CAGAAGGCTATAAAAAGAAGTGCGATAGTGGAATTTCTGGCTAGGAGAGCTCTAGAAGACTATGA
54362786 GCCGTTGAATTTTGATTTCCCAAATGAGGAGTTGATGTGTGTAGCAGCTACAGAGGATTATCCTT
131 GCCGTTGAATTTTGATTTCCCAAATGAGGAGTTGATGTGTGTAGCAGCTACAGAGGATTATCCTT
*
54362851 GGAAGATGAGCTTTGATGGGGCAT-C-CAATGTAGTGGGAAATGGAATTGAGGTAGTCTTGGTAT
196 GGAAGATGAGCTTTGATGGGGCATCCTCAATGCAGTGGGAAATGGAATTGAGGTAGTCTTGGTAT
54362914 CCCCAAATGGTGATTATTATCCATTCACGTGCAAGTTGGATTTTTATTGCACAAACAATATGGCC
261 CCCCAAATGGTGATTATTATCCATTCACGTGCAAGTTGGATTTTTATTGCACAAACAATATGGCC
** *
54362979 GAGTATGAAGCGTGCATCATGGGACTCCGAGTGGCTATAGAGCGAAGAATAAG-ACCTTGGAAGT
326 GAGTATGAAGCGTGCATCATGGGACTCCGAGCAGCTATAGAGCGAAGAATAAGAACCTTAGAAGT
* *
54363043 TTATAGAGACTTCGTGTTGGTAATTTACCAGCTTAAAGGTGAATGGGAGACAAGGGATCCTAAAT
391 TTATAGAGACTCCGCGTTGGTAATTTACCAGCTTAAAGGTGAATGGGAGACAAGGGATCCTAAAT
* *
54363108 TGATCAATTATTGAAAGGTAGTTTTAGGGTTACTTGAGGAGTTCGATGGCATCACTTTCAATTAT
456 TGATCAATTATCGAAAGGTAGTTTTAGGGTTACTTGAGGAGTTCGATGACATCACTTTCAATTAT
54363173 ATCCCACGAGACAAAAACCAGATGGCAGATGCTCTAGCAACCTTGGCTTCAATGATTAAAGTGAA
521 ATCCCACGAGACAAAAACCAGATGGCAGATGCTCTAGCAACCTTGGCTTCAATGATTAAAGTGAA
54363238 TAAAGAGGAGGAGATGAGACCCATTCAGATGAGTATCTTCGAGGCTCCAGCTCACTGTTGTAACA
586 TAAAGAGGAGGAGATGAGACCCATTCAGATGAGTATCTTCGAGGCTCCAGCTCACTGTTGTAACA
54363303 TTGAGGAAGAAGAAAAGGATGATAACCCTTGGTATCAGGATATATTGCGATATGTGAGAGATCGT
651 TTGAGGAAGAAGAAAAGGATGATAACCCTTGGTATCAGGATATATTGCGATATGTGAGAGATCGT
*
54363368 AAATACCCAGAACAGGCAACTGAAAATGATAAGCGAACTTTAAGGAGATTAGCTTGCGACTACAT
716 AAATACCCAGAACAGGCAACTGAAAATGATAAGCGAACTTTAAGGAGATTAGCCTGCGACTACAT
*
54363433 TTTGGATGGGGACATCTTGTACAAAAGAAGAAAGAACCAAGTACTGTTGAGATGTGTTGACGCCT
781 TTTGGATGGGGACATCTTGTACAAAAGAAGAAAGAACCAAGTACTGTTGAGATGTGTTGACGCCG
54363498 TGGAAGCTAAGTTAAT
846 TGGAAGCTAAGTTAAT
54363514 CTT
1 CTT
54363517 GGAAGAAGTT
Statistics
Matches: 837, Mismatches: 23, Indels: 5
0.97 0.03 0.01
Matches are distributed among these distances:
858 469 0.56
859 153 0.18
860 1 0.00
861 214 0.26
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (861 bp):
CTTTGAATGGAAGAATAGAGAGGTGGCAAATTCTGCTTTCAGAGTTTGACATAGTTTATGTGAGC
CAGAAGGCTATAAAAAGAAGTGCGATAGTGGAATTTCTGGCTAGGAGAGCTCTAGAAGACTATGA
GCCGTTGAATTTTGATTTCCCAAATGAGGAGTTGATGTGTGTAGCAGCTACAGAGGATTATCCTT
GGAAGATGAGCTTTGATGGGGCATCCTCAATGCAGTGGGAAATGGAATTGAGGTAGTCTTGGTAT
CCCCAAATGGTGATTATTATCCATTCACGTGCAAGTTGGATTTTTATTGCACAAACAATATGGCC
GAGTATGAAGCGTGCATCATGGGACTCCGAGCAGCTATAGAGCGAAGAATAAGAACCTTAGAAGT
TTATAGAGACTCCGCGTTGGTAATTTACCAGCTTAAAGGTGAATGGGAGACAAGGGATCCTAAAT
TGATCAATTATCGAAAGGTAGTTTTAGGGTTACTTGAGGAGTTCGATGACATCACTTTCAATTAT
ATCCCACGAGACAAAAACCAGATGGCAGATGCTCTAGCAACCTTGGCTTCAATGATTAAAGTGAA
TAAAGAGGAGGAGATGAGACCCATTCAGATGAGTATCTTCGAGGCTCCAGCTCACTGTTGTAACA
TTGAGGAAGAAGAAAAGGATGATAACCCTTGGTATCAGGATATATTGCGATATGTGAGAGATCGT
AAATACCCAGAACAGGCAACTGAAAATGATAAGCGAACTTTAAGGAGATTAGCCTGCGACTACAT
TTTGGATGGGGACATCTTGTACAAAAGAAGAAAGAACCAAGTACTGTTGAGATGTGTTGACGCCG
TGGAAGCTAAGTTAAT
Found at i:54366006 original size:78 final size:78
Alignment explanation
Indices: 54365872--54366399 Score: 770
Period size: 78 Copynumber: 6.8 Consensus size: 78
54365862 GAAGAAACAA
** * * * * * *
54365872 ATTTGGCATCTCCATATTCGATGGAGAGCAGATTGAAGACATAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAG
54365937 CAGATCCAAGATG
66 CAGATCCAAGATG
* * * * *
54365950 ATTTAGCATCTCTGTATTAGACGGAGAGCAAATCAAAGATACAACAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAG
*
54366015 CAGATCTAAGATG
66 CAGATCCAAGATG
*
54366028 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCAATGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAG
*
54366093 CAAATCCAAGATG
66 CAGATCCAAGATG
* * * * *
54366106 ATTTGGCATCTCTGTATTAGACAGAGAGTAGATCGAAGACATAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAG
54366171 CAGATCCAAGATG
66 CAGATCCAAGATG
*
54366184 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAG
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAG
* *
54366249 TAGATCCAAGACG
66 CAGATCCAAGATG
* * *
54366262 GTTTGACATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCT-GACCTTCATTGAA
54366326 GCAGATCCAAGATG
65 GCAGATCCAAGATG
* * *
54366340 ATTTGGTATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCAT
54366400 GTGTTTACAC
Statistics
Matches: 405, Mismatches: 43, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
77 1 0.00
78 403 1.00
79 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (78 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAACAGATCTGACCTTCATTGAAG
CAGATCCAAGATG
Found at i:54366540 original size:44 final size:44
Alignment explanation
Indices: 54366339--54366576 Score: 210
Period size: 45 Copynumber: 5.3 Consensus size: 44
54366329 GATCCAAGAT
* *
54366339 GATTTGGTATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGA-A-A-CA
* * * * * * * * * *
54366386 GATCTGACCT-TCATGTGTTTACAC-CGAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGACGGGGAGCAAATCGAAGA-AACA
*
54366431 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGA-AACA
* * * * *
54366476 TATTTGGCATCTCTGTATTAGACAGGGAGCAGATTGAAGAAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGAAACA
* * *
54366520 GATTTGACGTCTCTGTATTAGACGGGGAACAAATCGAAGAAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGAAACA
54366564 GATTTGGCATCTC
1 GATTTGGCATCTC
54366577 CATATTCTTC
Statistics
Matches: 149, Mismatches: 38, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
44 55 0.37
45 62 0.42
46 5 0.03
47 22 0.15
48 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGAAACA
Found at i:54372556 original size:40 final size:40
Alignment explanation
Indices: 54372486--54372744 Score: 310
Period size: 40 Copynumber: 6.5 Consensus size: 40
54372476 AAATCACATA
* * **
54372486 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGAACTTAACCCGGATTTAG-TAACTCGCACAAATG
* * *
54372525 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATT-TAGTAACTCGCACAAATG
54372565 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
54372605 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
*
54372645 CCTTCGGAACTTAACCCGGATTTAGTAACTCGTACAAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
* ** * * * *
54372685 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGAACTTAACCCGGATTTAGTAAC-TCGCACAAATG
* *
54372725 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTAACCCGGA
54372745 CATCATTCAA
Statistics
Matches: 193, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 12 0.06
40 172 0.89
41 9 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:54381444 original size:22 final size:23
Alignment explanation
Indices: 54381419--54381464 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
54381409 CAACCAAATC
54381419 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
54381441 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
54381464 A
1 A
54381465 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:54381470 original size:23 final size:23
Alignment explanation
Indices: 54381426--54381470 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
54381416 ATCAATTCAA
*
54381426 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
54381449 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
54381471 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:54409306 original size:85 final size:85
Alignment explanation
Indices: 54409177--54409355 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
54409167 TATTTTATTG
*
54409177 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
54409242 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
54409262 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
54409327 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
54409347 CCCATGCTC
1 CCCATGCTC
54409356 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:54412563 original size:18 final size:17
Alignment explanation
Indices: 54412510--54412564 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
54412500 TGAATAAATT
54412510 ACTCATCTTAGTTAAGTGA
1 ACTCATCTTAGTTAA-T-A
**
54412529 GTTCATCTTAGTTAATA
1 ACTCATCTTAGTTAATA
54412546 ACTCATCTTAGATTAATA
1 ACTCATCTTAG-TTAATA
54412564 A
1 A
54412565 ATGAGTTGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 10 0.32
18 8 0.26
19 13 0.42
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (17 bp):
ACTCATCTTAGTTAATA
Found at i:54417037 original size:19 final size:19
Alignment explanation
Indices: 54417008--54417058 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
54416998 AATAAATTAC
54417008 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
* *
54417027 TTATTTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
54417046 TCATCTTAGTTAA
1 TCATCTTAGTTAA
54417059 CAACTAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (19 bp):
TCATCTTAGTTAATTGAGT
Found at i:54417452 original size:48 final size:49
Alignment explanation
Indices: 54417381--54417473 Score: 152
Period size: 48 Copynumber: 1.9 Consensus size: 49
54417371 GTTCACAACC
*
54417381 GTTACAAATTCAATAAAGAGGCTTTTCAAGT-GTTTTCGGTTACATGCT
1 GTTACAAATTCAATAAAGAGGCTTTTCAAGTCATTTTCGGTTACATGCT
* *
54417429 GTTACACATTCAATAAAGTGGCTTTTCAAGTCATTTTCGGTTACA
1 GTTACAAATTCAATAAAGAGGCTTTTCAAGTCATTTTCGGTTACA
54417474 AGCAAGGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 29 0.71
49 12 0.29
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (49 bp):
GTTACAAATTCAATAAAGAGGCTTTTCAAGTCATTTTCGGTTACATGCT
Found at i:54428390 original size:29 final size:29
Alignment explanation
Indices: 54428358--54428434 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
54428348 AGTCATATTC
*
54428358 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
54428387 ATATGGCCCATTGGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
**
54428416 ATATGGCCTGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
54428435 GTCACATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:54428680 original size:16 final size:16
Alignment explanation
Indices: 54428639--54428676 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
54428629 GTAGCCAAAC
54428639 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
**
54428655 TTTCAACTTTTCGGCA
1 TTTCGGCTTTTCGGCA
54428671 -TTCGGC
1 TTTCGGC
54428677 CTTTGCTGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:54428766 original size:38 final size:38
Alignment explanation
Indices: 54428715--54428794 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
54428705 GTATGTACAC
54428715 ACCTGGTAAGCAAGCGTGCTACGATTCCCTTAGTCCAA
1 ACCTGGTAAGCAAGCGTGCTACGATTCCCTTAGTCCAA
**
54428753 ACCTGGTAAGCAAGCGTGCTGTGATTCCCTTAGTCCAA
1 ACCTGGTAAGCAAGCGTGCTACGATTCCCTTAGTCCAA
54428791 ACCT
1 ACCT
54428795 ACAAACGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (38 bp):
ACCTGGTAAGCAAGCGTGCTACGATTCCCTTAGTCCAA
Found at i:54431543 original size:270 final size:270
Alignment explanation
Indices: 54431136--54431679 Score: 1079
Period size: 270 Copynumber: 2.0 Consensus size: 270
54431126 ACTTAAGGAT
54431136 GGAGATAAAGTTTTATTAGATGCCACAGATCCTCATATTGTCATTACCAAACCGAATGAAGAAAT
1 GGAGATAAAGTTTTATTAGATGCCACAGATCCTCATATTGTCATTACCAAACCGAATGAAGAAAT
54431201 CCCTCTTCTAGTGCTTAGCATTTTCCCATTCGGTACAGTCGAGGTAAATTATCCTAAGTTCGGCA
66 CCCTCTTCTAGTGCTTAGCATTTTCCCATTCGGTACAGTCGAGGTAAATTATCCTAAGTTCGGCA
*
54431266 CTTTTAAGGTAAACAATACCCGCCTAAAATCTTATTTTGATGAGATTCACAGTAGGAATGAGGAG
131 CTTTTAAGGTAAACAATACCCGCCTAAAATCTTATTTTGAGGAGATTCACAGTAGGAATGAGGAG
54431331 TATAAACTCCTCAAACCACCATGACCATTTAATGGAAAGGTAAGTCGAACTTAGACTATAAATAA
196 TATAAACTCCTCAAACCACCATGACCATTTAATGGAAAGGTAAGTCGAACTTAGACTATAAATAA
54431396 ACGCTTCTCA
261 ACGCTTCTCA
54431406 GGAGATAAAGTTTTATTAGATGCCACAGATCCTCATATTGTCATTACCAAACCGAATGAAGAAAT
1 GGAGATAAAGTTTTATTAGATGCCACAGATCCTCATATTGTCATTACCAAACCGAATGAAGAAAT
54431471 CCCTCTTCTAGTGCTTAGCATTTTCCCATTCGGTACAGTCGAGGTAAATTATCCTAAGTTCGGCA
66 CCCTCTTCTAGTGCTTAGCATTTTCCCATTCGGTACAGTCGAGGTAAATTATCCTAAGTTCGGCA
54431536 CTTTTAAGGTAAACAATACCCGCCTAAAATCTTATTTTGAGGAGATTCACAGTAGGAATGAGGAG
131 CTTTTAAGGTAAACAATACCCGCCTAAAATCTTATTTTGAGGAGATTCACAGTAGGAATGAGGAG
54431601 TATAAACTCCTCAAACCACCATGACCATTTAATGGAAAGGTAAGTCGAACTTAGACTATAAATAA
196 TATAAACTCCTCAAACCACCATGACCATTTAATGGAAAGGTAAGTCGAACTTAGACTATAAATAA
54431666 ACGCTTCTCA
261 ACGCTTCTCA
54431676 GGAG
1 GGAG
54431680 GCAATCTGAG
Statistics
Matches: 273, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
270 273 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (270 bp):
GGAGATAAAGTTTTATTAGATGCCACAGATCCTCATATTGTCATTACCAAACCGAATGAAGAAAT
CCCTCTTCTAGTGCTTAGCATTTTCCCATTCGGTACAGTCGAGGTAAATTATCCTAAGTTCGGCA
CTTTTAAGGTAAACAATACCCGCCTAAAATCTTATTTTGAGGAGATTCACAGTAGGAATGAGGAG
TATAAACTCCTCAAACCACCATGACCATTTAATGGAAAGGTAAGTCGAACTTAGACTATAAATAA
ACGCTTCTCA
Found at i:54437802 original size:18 final size:18
Alignment explanation
Indices: 54437774--54437820 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
54437764 CATATATGTT
54437774 TCTGTAATCTGAATCTAGA
1 TCTG-AATCTGAATCTAGA
* *
54437793 TCTGAATCTGAATTTGGA
1 TCTGAATCTGAATCTAGA
*
54437811 TCTGTATCTG
1 TCTGAATCTG
54437821 CTTCTGACCG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (18 bp):
TCTGAATCTGAATCTAGA
Found at i:54439808 original size:18 final size:18
Alignment explanation
Indices: 54439787--54439823 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
54439777 TGATTTGGAC
54439787 TAAGTCTTTGATACTTGA
1 TAAGTCTTTGATACTTGA
54439805 TAAGTCTTTGATACTTGA
1 TAAGTCTTTGATACTTGA
54439823 T
1 T
54439824 GACATTGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (18 bp):
TAAGTCTTTGATACTTGA
Found at i:54440174 original size:21 final size:19
Alignment explanation
Indices: 54440149--54440196 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
54440139 CCTACTCTGA
54440149 TTTTATAAAATCATTATAAAT
1 TTTTATAAAAT-ATT-TAAAT
* *
54440170 TTTTAAAAAATATTTATAT
1 TTTTATAAAATATTTAAAT
*
54440189 GTTTATAA
1 TTTTATAA
54440197 TCCTTAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.43
20 3 0.13
21 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTTATAAAATATTTAAAT
Found at i:54443330 original size:30 final size:30
Alignment explanation
Indices: 54443294--54443354 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
54443284 ACACACAGAG
54443294 TAAGCTTTCAAAAGCTTAGTAAGCTCGTAC
1 TAAGCTTTCAAAAGCTTAGTAAGCTCGTAC
54443324 TAAGCTTTCAAAAGCTTAGTAAGCTCGTAC
1 TAAGCTTTCAAAAGCTTAGTAAGCTCGTAC
54443354 T
1 T
54443355 CAAAACATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (30 bp):
TAAGCTTTCAAAAGCTTAGTAAGCTCGTAC
Done.