Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 164 of 325
Found at i:50668606 original size:93 final size:93
Alignment explanation
Indices: 50668447--50668617 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
50668437 GGATGGTTGA
* *
50668447 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
50668512 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
50668540 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
50668605 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50668618 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50668884 original size:19 final size:20
Alignment explanation
Indices: 50668847--50668884 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
50668837 ATAAGGTGGT
50668847 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
50668867 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
50668885 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:50676290 original size:86 final size:86
Alignment explanation
Indices: 50676139--50676296 Score: 219
Period size: 86 Copynumber: 1.8 Consensus size: 86
50676129 ATATCGTACA
* * * *
50676139 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCGATGCCACTGTCCTAGACATGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCAATGTCCTAGACATGGT
50676204 CTTACACAAATCACAATTATG
66 CTTACACAAATCACAATTATG
* * * **
50676225 ATGCCAATGTCCCATACATTGTCTTAC-TCGAAATCACATATCGATGCCAATGTCCTAGATGTGG
1 ATGCCAACGTCCCAGACATGGTCTTACAT-GAAATCACATATCGATGCCAATGTCCTAGACATGG
50676289 TCTTACAC
65 TCTTACAC
50676297 GAGAACACGT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
85 1 0.02
86 61 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCAATGTCCTAGACATGGT
CTTACACAAATCACAATTATG
Found at i:50676310 original size:43 final size:43
Alignment explanation
Indices: 50676139--50676311 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
50676129 ATATCGTACA
* * * * *
50676139 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCACATATCG
* *
50676182 ATGCCACTGTCCTAGACATGGTCTTACAC-AAATCACAATTAT-G
1 ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCAC-A-TATCG
* * * * *
50676225 ATGCCAATGTCCCATACATTGTCTTACTCGAAATCACATATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCACATATCG
* *
50676268 ATGCCAATGTCCTAGATGTGGTCTTACACGAGAA-CACGTATCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGA-AATCACATATCG
50676311 A
1 A
50676312 AAATCTTATG
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
42 9 0.08
43 86 0.81
44 11 0.10
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCACATATCG
Found at i:50682972 original size:40 final size:40
Alignment explanation
Indices: 50682887--50683079 Score: 311
Period size: 39 Copynumber: 4.9 Consensus size: 40
50682877 GGATATAGCT
*
50682887 ACTCGCTCAAATGCCTTCGGGACTTAGCCC-GTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
50682926 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
50682966 ACTCGCACAATTGCCTTC-GGACTTGGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
50683005 ACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
50683045 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
50683080 CAATCCGAAT
Statistics
Matches: 143, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
39 77 0.54
40 66 0.46
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:50683000 original size:79 final size:79
Alignment explanation
Indices: 50682876--50683079 Score: 313
Period size: 79 Copynumber: 2.6 Consensus size: 79
50682866 CGGGGTTTAG
* * *
50682876 CGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCC-GTTATAGTAACTCGCACAATTG
1 CGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCACACAAATG
50682939 CCTTCGGGACTTAGCC
64 CCTTCGGGACTTAGCC
* * *
50682955 CGGTTATAGTAACTCGCACAATTGCCTTCGGACTTGGCCCGGTTATAGTAACTCACACAAATGCC
1 CGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCACACAAATGCC
50683020 TTCGGGACTTAGCC
66 TTCGGGACTTAGCC
*
50683034 CGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGTTAT
1 CGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTAT
50683080 CAATCCGAAT
Statistics
Matches: 113, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 11 0.10
79 102 0.90
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCACACAAATGCC
TTCGGGACTTAGCC
Found at i:50683676 original size:2 final size:2
Alignment explanation
Indices: 50683669--50683696 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50683659 TTAAAATACC
50683669 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50683697 TCATAAGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50694072 original size:40 final size:39
Alignment explanation
Indices: 50694024--50694166 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 39
50694014 TACTCACTCA
* *
50694024 AATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
* *
50694063 AATTGCCTTCGAGACTTAGCCCGGATTTAGTAACTTGCAC
1 AA-TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
*
50694103 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCGC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
50694143 AGATGCCTTCGGGACTTAGCCCGG
1 A-ATGCCTTCGGGACTTAGCCCGG
50694167 TTATCATCCA
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
39 3 0.03
40 86 0.92
41 4 0.04
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:50707511 original size:76 final size:76
Alignment explanation
Indices: 50707329--50707528 Score: 294
Period size: 76 Copynumber: 2.6 Consensus size: 76
50707319 GGCTCAAAGG
* *
50707329 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
50707394 GCGGGATTTAA
66 GCGGGATTTAA
* *
50707405 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
*
50707470 GCGGGATTTAT
66 GCGGGATTTAA
* * *
50707481 CCCGGATATAATTCCAGCA-TATAGCTTGCGGGTCTTTAAGCCCGGATA
1 CCCGGATATAATACCAGCACTA-AGCCTGCGGG-ATTTAA-CCCGGATA
50707529 CACATCAAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
75 1 0.01
76 98 0.88
77 5 0.04
78 8 0.07
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCT
GCGGGATTTAA
Found at i:50707512 original size:38 final size:38
Alignment explanation
Indices: 50707329--50707499 Score: 288
Period size: 38 Copynumber: 4.5 Consensus size: 38
50707319 GGCTCAAAGG
* * *
50707329 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
50707367 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
50707405 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
50707443 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
50707481 CCCGGATATAATTCCAGCA
1 CCCGGATATAATACCAGCA
50707500 TATAGCTTGC
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 126 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:50709600 original size:3 final size:3
Alignment explanation
Indices: 50709592--50709630 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
50709582 CATATATATA
50709592 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50709631 GCCGAATGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:50721225 original size:40 final size:42
Alignment explanation
Indices: 50721131--50721229 Score: 105
Period size: 41 Copynumber: 2.4 Consensus size: 42
50721121 TAAAATGATC
*
50721131 TCGCACACTTAGTGCCATCTCAAATAGCCAAAGTTACCTCAGTA
1 TCGCACACTTAGTG-CA-CTCAAATAGCCAAAGCTACCTCAGTA
* * * *
50721175 TCGCATACTTAGTGC-CTCATATAGCCAAAGCTA-TTCCA-TT
1 TCGCACACTTAGTGCACTCAAATAGCCAAAGCTACCT-CAGTA
50721215 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
50721230 TATTTATAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
40 16 0.33
41 18 0.38
43 1 0.02
44 13 0.27
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (42 bp):
TCGCACACTTAGTGCACTCAAATAGCCAAAGCTACCTCAGTA
Found at i:50722706 original size:27 final size:27
Alignment explanation
Indices: 50722676--50722740 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
50722666 ATTGACAAAA
50722676 TGGTAATTTTGCAAACCAGGGGTATTT
1 TGGTAATTTTGCAAACCAGGGGTATTT
* * *
50722703 TGGTAGTTTTACAACCCAGGGGTATTT
1 TGGTAATTTTGCAAACCAGGGGTATTT
50722730 TGGTAATTTTG
1 TGGTAATTTTG
50722741 TAAATCGAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTGCAAACCAGGGGTATTT
Found at i:50722824 original size:81 final size:81
Alignment explanation
Indices: 50722730--50722963 Score: 344
Period size: 81 Copynumber: 2.9 Consensus size: 81
50722720 AGGGGTATTT
*
50722730 TGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGTAATTCTG
1 TGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTG
50722795 TAAA-CTGAGGGTAAAA
66 TAAATC-GAGGGTAAAA
* * * *
50722811 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAACTGAGGGTAAAACAGTAATTCTG
1 TGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTG
50722876 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* ** ** * *
50722892 CGGTAATTTTAAAAATCGAGGGTAAAACGAAAATTCTGTAAATCGAGGGTAAAATGGTAATTCTG
1 TGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTG
50722957 TAAATCG
66 TAAATCG
50722964 GGAGTACTTT
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
81 135 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
TGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTAAAATAGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:50722978 original size:81 final size:81
Alignment explanation
Indices: 50722730--50722994 Score: 329
Period size: 81 Copynumber: 3.3 Consensus size: 81
50722720 AGGGGTATTT
* * *
50722730 TGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGTAATTCTG
1 TGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTG
50722795 TAAA-CTGAGGGTAAAA
66 TAAATC-GAGGGTAAAA
* * * *
50722811 TGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAA-CTGAGGGTAAAACAGTAATTCT
1 TGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAATAGTAATTCT
50722875 GTAAATCGAGGGTAAAA
65 GTAAATCGAGGGTAAAA
* * ** *
50722892 CGGTAATTTTAAAAATCGAGGGTAAAACGAAAATTCTGTAAATCGAGGGTAAAATGGTAATTCTG
1 TGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTG
***
50722957 TAAATCG-GGAGTACTT
66 TAAATCGAGG-GTAAAA
* *
50722973 TGGTAATTTTACAAGTCGAGGG
1 TGGTAATTTTATAAATCGAGGG
50722995 CATTTCAGTA
Statistics
Matches: 160, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 2 0.01
81 156 0.98
82 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (81 bp):
TGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:50722980 original size:27 final size:27
Alignment explanation
Indices: 50722730--50722963 Score: 310
Period size: 27 Copynumber: 8.7 Consensus size: 27
50722720 AGGGGTATTT
*
50722730 TGGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * *
50722757 CGGTAATTCTATAAATTGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
*
50722784 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
50722811 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
50722838 TGGTAATTCTGTAAA-CTGAGGGTAAAA
1 TGGTAATTCTGTAAATC-GAGGGTAAAA
**
50722865 CAGTAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* * **
50722892 CGGTAATTTTAAAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
* **
50722919 CGAAAATTCTGTAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAATCGAGGGTAAAA
50722946 TGGTAATTCTGTAAATCG
1 TGGTAATTCTGTAAATCG
50722964 GGAGTACTTT
Statistics
Matches: 180, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 177 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
TGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:50727297 original size:29 final size:28
Alignment explanation
Indices: 50727257--50727359 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
50727247 GTGACGAGAT
* *
50727257 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* * *
50727286 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* *
50727315 TGGCACTATGTGTGCGGGCTTGAATCATA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
50727344 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50727360 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:50734397 original size:39 final size:39
Alignment explanation
Indices: 50734343--50734527 Score: 253
Period size: 39 Copynumber: 4.7 Consensus size: 39
50734333 TTCCAACCCA
* * * *
50734343 AATGCCTTCAGAACTTAACCCGAATATAACATCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAACACCAGCACG
* * *
50734382 AATGCCTTCGGAACTTAACCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAACACCAGCACG
* *
50734421 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAACACCAGCACG
* *
50734460 AATGCCTTCGGGACTTAGCCTGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAACCCGGATATAACACCAGCACG
* *
50734499 AATGCCTTCGGGACTTAGCCCAGATATAA
1 AATGCCTTCGGGACTTAACCCGGATATAA
50734528 ATCTCACACA
Statistics
Matches: 136, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 136 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATATAACACCAGCACG
Found at i:50743305 original size:26 final size:26
Alignment explanation
Indices: 50743248--50743305 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
50743238 TAAAATGTCT
* *
50743248 TTAAATCTTTTTAATTAATATTTGTA
1 TTAAATCTTTTAAATTAATATTTATA
*
50743274 TGTAAAT-TTTTAAATTAATTTATTATA
1 T-TAAATCTTTTAAATTAATAT-TTATA
50743301 TTAAA
1 TTAAA
50743306 ATTTAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (26 bp):
TTAAATCTTTTAAATTAATATTTATA
Found at i:50744788 original size:18 final size:18
Alignment explanation
Indices: 50744765--50744799 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50744755 TGAAAATGAC
50744765 AATGATGGCAATGGAAAG
1 AATGATGGCAATGGAAAG
*
50744783 AATGATGGTAATGGAAA
1 AATGATGGCAATGGAAA
50744800 ACCACCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.31, T:0.20
Consensus pattern (18 bp):
AATGATGGCAATGGAAAG
Found at i:50753187 original size:43 final size:43
Alignment explanation
Indices: 50753065--50753190 Score: 168
Period size: 42 Copynumber: 3.0 Consensus size: 43
50753055 AAGTCTGAAC
* * **
50753065 TCAT-TCACTGGCATT-TTGCCTGCTAGGCTTGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
* *
50753106 TCATTTCACCAGCATTATAG-CTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
*
50753148 TTATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
50753191 ATATTATTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 4 0.05
42 46 0.62
43 24 0.32
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (43 bp):
TCATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
Found at i:50760633 original size:40 final size:40
Alignment explanation
Indices: 50760588--50760754 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
50760578 CGGAATATAA
50760588 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
50760628 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50760668 CCGGATATAGCCATTAGCACAATTGCCTTCAGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50760708 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
50760747 CCGGATAT
1 CCGGATAT
50760755 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 87 0.86
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50764423 original size:30 final size:29
Alignment explanation
Indices: 50764385--50764441 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
50764375 TAAAATAATA
*
50764385 AAATAATAAAAAATATCTTATTAAATATT
1 AAATAATAAAAAATATCTAATTAAATATT
* *
50764414 AAATAAATAATAATTATCTAATTAAATA
1 AAAT-AATAAAAAATATCTAATTAAATA
50764442 ACTATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (29 bp):
AAATAATAAAAAATATCTAATTAAATATT
Found at i:50764690 original size:31 final size:30
Alignment explanation
Indices: 50764652--50764710 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
50764642 CACCCTTAAA
* * *
50764652 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACT-TTAATCCCTCAAATTTTTC
50764683 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAATCCCTCAAATTTT
50764711 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (30 bp):
ATATTTACACTTTAATCCCTCAAATTTTTC
Found at i:50764720 original size:30 final size:31
Alignment explanation
Indices: 50764652--50764720 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
50764642 CACCCTTAAA
* * *
50764652 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAATCCCTCAACATTTTC
*
50764683 ATATTTACACT-TTAATCCCTCAA-ATTTTG
1 ATATTTACACTATTAATCCCTCAACATTTTC
50764712 AGTATTTAC
1 A-TATTTAC
50764721 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAACATTTTC
Found at i:50767714 original size:19 final size:18
Alignment explanation
Indices: 50767688--50767724 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
50767678 TAGTTGTATA
50767688 AACTAAGACAAATTAAAT
1 AACTAAGACAAATTAAAT
50767706 AACTCAAGACAAATTAAAT
1 AACT-AAGACAAATTAAAT
50767725 GGCCATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (18 bp):
AACTAAGACAAATTAAAT
Found at i:50770923 original size:27 final size:27
Alignment explanation
Indices: 50770893--50770946 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50770883 TGTCATGTGA
*
50770893 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTATTATTACATG
* **
50770920 AATTGAGTGTTAAATTATTATTACATG
1 AATTGAATGACAAATTATTATTACATG
50770947 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (27 bp):
AATTGAATGACAAATTATTATTACATG
Found at i:50772571 original size:40 final size:39
Alignment explanation
Indices: 50772494--50772712 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 39
50772484 AAACCAAGTA
* *
50772494 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGG-TATAG-TAACTCGCACAAATG
50772533 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
*
50772573 CCTTCGGCACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATG
* * * *
50772613 CCTTCGGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
* * * * *
50772653 CCTTCGGGGCTTAGCCCAGAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATG
50772693 CCTTCGGGACTTAGCCCGGT
1 CCTTCGGGACTTAGCCCGGT
50772713 TATCATCCGA
Statistics
Matches: 163, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 15 0.09
40 148 0.91
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATG
Found at i:50774003 original size:13 final size:13
Alignment explanation
Indices: 50773985--50774009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50773975 AAAGTGAGAA
50773985 CTTTTTTTTTTCT
1 CTTTTTTTTTTCT
50773998 CTTTTTTTTTTC
1 CTTTTTTTTTTC
50774010 ATCACCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
CTTTTTTTTTTCT
Found at i:50774507 original size:49 final size:50
Alignment explanation
Indices: 50774431--50774651 Score: 248
Period size: 49 Copynumber: 4.4 Consensus size: 50
50774421 GTCACGTATG
* *
50774431 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCTTGTA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACATGTA
* * * *
50774480 TAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTTCGATCACATGTA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAGGTCACATGTA
* * ** ** * *
50774531 TAGTATTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACATGTA
* * * *
50774581 TAGTACTAAGTGCAAGCTACTACGTGTACTGGATAATT-GGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACATGTA
*
50774630 TAGTTCTAAGTGCAGGCTACTA
1 TAGTACTAAGTGCAGGCTACTA
50774652 TGCGTACTAG
Statistics
Matches: 142, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
49 63 0.44
50 42 0.30
51 37 0.26
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGGTCACATGTA
Found at i:50774609 original size:101 final size:98
Alignment explanation
Indices: 50774431--50774651 Score: 255
Period size: 101 Copynumber: 2.2 Consensus size: 98
50774421 GTCACGTATG
* ** * * *
50774431 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCTTGTATAGTACTAAGTGCAGG
1 TAGTATTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACGTGTATAGTACTAAGTGCAAG
*
50774496 CTACTATGTGTACCCGATAACTTCGATCACATGTA
66 CTACTACGTGTACCCGATAA-TT-GATCACATGTA
* ** *
50774531 TAGTATTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAGTGCAA
1 TAGTATTAAGTGCAGGCTACTACGTGTACCAAATAATT-GGTCACGTGTATAGTACTAAGTGCAA
** * * *
50774596 GCTACTACGTGTACTGGATAATTGGTCGCATGTG
65 GCTACTACGTGTACCCGATAATTGATCACATGTA
50774630 TAGT-TCTAAGTGCAGGCTACTA
1 TAGTAT-TAAGTGCAGGCTACTA
50774652 TGCGTACTAG
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
98 1 0.01
99 28 0.27
100 34 0.33
101 40 0.39
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (98 bp):
TAGTATTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACGTGTATAGTACTAAGTGCAAG
CTACTACGTGTACCCGATAATTGATCACATGTA
Found at i:50774659 original size:49 final size:50
Alignment explanation
Indices: 50774419--50774664 Score: 237
Period size: 49 Copynumber: 4.9 Consensus size: 50
50774409 ATCTATTGTG
* * **
50774419 AGGTCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
* * * * **
50774469 -GGTCGCTTGTATAGTACTAAGTGCAGGCTACTATGTGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAA-TT
* * * * * **
50774519 CGATCACATGTATAGTATTAAGTGCAGGCTACTACGTGTA-TCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAATT
* * *
50774569 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
* * * *
50774619 -GGTCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCGTACTAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATA
50774665 GCCTTGTCTA
Statistics
Matches: 159, Mismatches: 33, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
49 80 0.50
50 42 0.26
51 37 0.23
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
Found at i:50777007 original size:42 final size:42
Alignment explanation
Indices: 50776940--50777022 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
50776930 TATCGACACC
* * *
50776940 ACATGGCCAAGGATATGGGCATGTGCCTAGACCGTGTGAGCT
1 ACATGGCCAAGGACATGAGCATGTGCCTAGACCATGTGAGCT
* * *
50776982 ACATGGGCAAGGACATGAGCGTGTGCCTAGCCCATGTGAGC
1 ACATGGCCAAGGACATGAGCATGTGCCTAGACCATGTGAGC
50777023 CATACGGGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.23, G:0.34, T:0.19
Consensus pattern (42 bp):
ACATGGCCAAGGACATGAGCATGTGCCTAGACCATGTGAGCT
Found at i:50777039 original size:42 final size:42
Alignment explanation
Indices: 50776961--50777040 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
50776951 GATATGGGCA
* * * *
50776961 TGTGCCTAGACCGTGTGAGCTACATGGGCAAGGACATGAGCG
1 TGTGCCTAGACCATGTGAGCCACACGGGCAAAGACATGAGCG
* * *
50777003 TGTGCCTAGCCCATGTGAGCCATACGGGTAAAGACATG
1 TGTGCCTAGACCATGTGAGCCACACGGGCAAAGACATG
50777041 GGCTTGTGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.20
Consensus pattern (42 bp):
TGTGCCTAGACCATGTGAGCCACACGGGCAAAGACATGAGCG
Found at i:50778110 original size:15 final size:15
Alignment explanation
Indices: 50778090--50778134 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
50778080 TAAACATGCA
50778090 TGCTCTATTCTGTTT
1 TGCTCTATTCTGTTT
** *
50778105 TGCTCTGCTCTGTTC
1 TGCTCTATTCTGTTT
*
50778120 TGTTCTATTCTGTTT
1 TGCTCTATTCTGTTT
50778135 AGTATTGCTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.04, C:0.22, G:0.16, T:0.58
Consensus pattern (15 bp):
TGCTCTATTCTGTTT
Found at i:50792135 original size:51 final size:52
Alignment explanation
Indices: 50792059--50792159 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 52
50792049 ATCTTGCTCC
50792059 CTCAAAATAAAGAAAAACATGGTGCTTGTAAG-TTTTTTATTTTTTATATCT
1 CTCAAAATAAAGAAAAACATGGTGCTTGTAAGTTTTTTTATTTTTTATATCT
50792110 CTCAAAATAAAGAAAAACATGGTGCTTGTAAGTTTTTTTATTTTTTATAT
1 CTCAAAATAAAGAAAAACATGGTGCTTGTAAGTTTTTTTATTTTTTATAT
50792160 ATTAATATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 32 0.65
52 17 0.35
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.44
Consensus pattern (52 bp):
CTCAAAATAAAGAAAAACATGGTGCTTGTAAGTTTTTTTATTTTTTATATCT
Found at i:50792878 original size:5 final size:5
Alignment explanation
Indices: 50792868--50792910 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
50792858 AAAAGATAAT
50792868 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAA
50792911 AGAGGAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:50795149 original size:33 final size:33
Alignment explanation
Indices: 50795111--50795242 Score: 210
Period size: 33 Copynumber: 4.0 Consensus size: 33
50795101 GACTGAGTGG
*
50795111 GAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
50795144 GAGTGTTTTGTTGTTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
* * *
50795177 GGGTGTTTTGTTGTTGGACAGGAGCTAGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
50795210 GGGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
50795243 CAAAAGAAAG
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 93 1.00
ACGTcount: A:0.17, C:0.08, G:0.41, T:0.34
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:50798414 original size:50 final size:50
Alignment explanation
Indices: 50798307--50798415 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 50
50798297 AATGTTTCAA
* * * *
50798307 GCTAAATTTGTTAAATCAGGATCAAATTGATAAAATGTGTAAATGTTATTG
1 GCTAAA-TTGTTAAATCAAGATCAAATTGACAAAATATGTAAATGTTATGG
* *
50798358 GTTAAATTGTTAAATCAAGATCAAATTGACAGAATATGTAAACT-TTGA-GG
1 GCTAAATTGTTAAATCAAGATCAAATTGACAAAATATGTAAA-TGTT-ATGG
50798408 GCTAAATT
1 GCTAAATT
50798416 TATTATTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
50 42 0.86
51 7 0.14
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (50 bp):
GCTAAATTGTTAAATCAAGATCAAATTGACAAAATATGTAAATGTTATGG
Found at i:50800690 original size:31 final size:31
Alignment explanation
Indices: 50800654--50800717 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
50800644 GTTAAAGGAA
50800654 TTATTTGCTTTAGCTCCCACTGTTTTTAACT
1 TTATTTGCTTTAGCTCCCACTGTTTTTAACT
*
50800685 TTATTTGCTTTAGCTCCCATTGTTTTTAACT
1 TTATTTGCTTTAGCTCCCACTGTTTTTAACT
50800716 TT
1 TT
50800718 GAGATTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.20, G:0.09, T:0.55
Consensus pattern (31 bp):
TTATTTGCTTTAGCTCCCACTGTTTTTAACT
Found at i:50801082 original size:17 final size:17
Alignment explanation
Indices: 50801060--50801093 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
50801050 TTGTCCATTA
50801060 TCAGCTATAATCTGATC
1 TCAGCTATAATCTGATC
50801077 TCAGCTATAATCTGATC
1 TCAGCTATAATCTGATC
50801094 AAACTAGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (17 bp):
TCAGCTATAATCTGATC
Found at i:50807104 original size:40 final size:40
Alignment explanation
Indices: 50807003--50807286 Score: 417
Period size: 40 Copynumber: 7.1 Consensus size: 40
50806993 TCACAAGCAC
* * *
50807003 ATTAATAGAAAACTGTATAATTTATCCGGATGAAGTATAT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
*
50807043 ATTAATA-AAAACTGTATAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* *
50807082 ATTAATAGAAAACTGTAAAATTTACCCGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* *
50807122 ATTAACAGAAAACTGTATAATTTATCCGGATAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* *
50807162 ATTAATAGAAAACTGTATAATTTACCTGGGTAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* * *
50807202 ATTAACAGAAAATTGTATAATTTACTCGGATAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
* * *
50807242 ATTAACAGAAAATTGTATAATTTACTCGGATAAAGTATGT
1 ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
50807282 ATTAA
1 ATTAA
50807287 CAGATATACT
Statistics
Matches: 225, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 35 0.16
40 190 0.84
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.34
Consensus pattern (40 bp):
ATTAATAGAAAACTGTATAATTTACCCGGATAAAGTATGT
Found at i:50807317 original size:18 final size:18
Alignment explanation
Indices: 50807294--50807328 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50807284 TAACAGATAT
*
50807294 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
50807312 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
50807329 ACTACCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:50807856 original size:16 final size:16
Alignment explanation
Indices: 50807835--50807866 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50807825 ATAATGAATG
50807835 TTATTAAATTATATTT
1 TTATTAAATTATATTT
50807851 TTATTAAATTATATTT
1 TTATTAAATTATATTT
50807867 AATAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTAAATTATATTT
Found at i:50808130 original size:46 final size:44
Alignment explanation
Indices: 50808038--50808131 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
50808028 ATTACAACAT
50808038 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
***
50808082 CATTCCATTCAACCAAACAGTTGAATTACTTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGTTCTATTC
50808128 CATT
1 CATT
50808132 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 22 0.49
45 3 0.07
46 20 0.44
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
Found at i:50808134 original size:16 final size:16
Alignment explanation
Indices: 50808113--50808183 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
50808103 TGAATTACTT
*
50808113 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
50808129 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
50808145 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
50808161 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
50808177 ATTACAG
1 ATTACAG
50808184 TGAACCAAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:50810052 original size:21 final size:21
Alignment explanation
Indices: 50810026--50810076 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
50810016 TACTTACGAG
50810026 GTTTTAATTTGAAAATAGTGT
1 GTTTTAATTTGAAAATAGTGT
50810047 GTTTTAATTTGAAAATAGTGT
1 GTTTTAATTTGAAAATAGTGT
50810068 GTTTTAATT
1 GTTTTAATT
50810077 GAGTTAGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (21 bp):
GTTTTAATTTGAAAATAGTGT
Found at i:50811276 original size:19 final size:19
Alignment explanation
Indices: 50811230--50811277 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
50811220 GTATATATTT
50811230 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
50811248 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
50811267 TAAGTTTTATT
1 TAAATTTTATT
50811278 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:50815184 original size:19 final size:19
Alignment explanation
Indices: 50815138--50815185 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
50815128 GTATATATTT
50815138 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
50815156 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
50815175 TAAGTTTTATT
1 TAAATTTTATT
50815186 CGTATTCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:50820565 original size:17 final size:16
Alignment explanation
Indices: 50820538--50820569 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
50820528 TGATAGATCT
50820538 CTGATGAGCTTCCAAA
1 CTGATGAGCTTCCAAA
50820554 CTGATCGAGCTTCCAA
1 CTGAT-GAGCTTCCAA
50820570 TAATCTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (16 bp):
CTGATGAGCTTCCAAA
Found at i:50821931 original size:46 final size:46
Alignment explanation
Indices: 50821779--50821992 Score: 234
Period size: 45 Copynumber: 4.7 Consensus size: 46
50821769 GATCGAAGTG
* * * * *
50821779 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCTT-GTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGA
** * * * * *
50821824 TGGTATAGTGTCTATCAACCATGGTCTTATTTA-TTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGA
*
50821869 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGA
* *
50821915 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTTTCCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTT-CATCGTGA
* * **
50821962 TGCCGTAGCGTCTTTCAAATATGGTCTTATT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATT
50821993 TCTTTGATTC
Statistics
Matches: 148, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
44 2 0.01
45 65 0.44
46 45 0.30
47 36 0.24
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCATCGTGA
Found at i:50827046 original size:40 final size:40
Alignment explanation
Indices: 50826987--50827155 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
50826977 CGGGACTTTA
* * *
50826987 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
50827027 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
50827067 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
50827107 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
50827147 CCCGGATAT
1 CCCGGATAT
50827156 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:50834979 original size:40 final size:40
Alignment explanation
Indices: 50834921--50835088 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
50834911 CGGGACTTTA
* * *
50834921 CCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
* *
50834961 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
50835001 CCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
50835041 CCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAGC
50835081 CCGGATAT
1 CCGGATAT
50835089 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 98 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:50838584 original size:40 final size:39
Alignment explanation
Indices: 50838529--50838735 Score: 283
Period size: 40 Copynumber: 5.2 Consensus size: 39
50838519 TGAATGATAC
* * *
50838529 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
50838569 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
50838609 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
50838649 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-TGTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT-TATAT
* * **
50838688 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
50838728 CC-GGCTAA
1 CCGGGCTAA
50838736 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 38 0.25
40 111 0.73
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:50838662 original size:80 final size:79
Alignment explanation
Indices: 50838525--50838735 Score: 318
Period size: 80 Copynumber: 2.7 Consensus size: 79
50838515 CATTTGAATG
* *
50838525 ATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
50838589 ATTTGTGCGAGTTGTT
65 ATTTGTGCGAGTTG-T
* *
50838605 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
50838670 TTTGTGCGAGTTGT
66 TTTGTGCGAGTTGT
* * * *
50838684 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
50838736 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
78 6 0.05
79 41 0.34
80 71 0.59
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGT
Found at i:50846741 original size:40 final size:40
Alignment explanation
Indices: 50846686--50846933 Score: 383
Period size: 40 Copynumber: 6.2 Consensus size: 40
50846676 TGAATGATAC
* * *
50846686 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
50846726 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
50846766 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
50846806 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
50846846 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
50846886 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
50846926 CC-GGCTAA
1 CCGGGCTAA
50846934 ATTCCGAAGA
Statistics
Matches: 194, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 5 0.03
40 187 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:50850334 original size:40 final size:39
Alignment explanation
Indices: 50850290--50850492 Score: 262
Period size: 39 Copynumber: 5.2 Consensus size: 39
50850280 GTTCAAAACA
* * ** * *
50850290 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
50850330 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
50850370 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* * *
50850409 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTT
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
50850448 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
50850487 CCTTCG
1 CCTTCG
50850493 CATCTTTGTT
Statistics
Matches: 147, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 107 0.73
40 40 0.27
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:50850401 original size:39 final size:39
Alignment explanation
Indices: 50850320--50850492 Score: 274
Period size: 39 Copynumber: 4.4 Consensus size: 39
50850310 TATGGTAACC
* *
50850320 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
50850360 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
50850399 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
50850438 CGCACAATTTCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
50850477 CGCACAATTGCCTTCG
1 CGCACAATTGCCTTCG
50850493 CATCTTTGTT
Statistics
Matches: 124, Mismatches: 9, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 107 0.86
40 17 0.14
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:50852449 original size:40 final size:41
Alignment explanation
Indices: 50852391--50852558 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 41
50852381 TGAATGATAC
* * *
50852391 CCGGGCTAAGTCCTGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* * *
50852431 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* ** *
50852471 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
* * * *
50852511 CCGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
50852551 CC-GGCTAA
1 CCGGGCTAA
50852559 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGCTGATTATAT
Found at i:50855356 original size:37 final size:38
Alignment explanation
Indices: 50855315--50855407 Score: 161
Period size: 38 Copynumber: 2.5 Consensus size: 38
50855305 AACCAGATTT
* *
50855315 TGATTCTGTCAAATTGTAA-CATTTAGAAGTTAAATTC
1 TGATTTTGTCAAATCGTAATCATTTAGAAGTTAAATTC
50855352 TGATTTTGTCAAATCGTAATCATTTAGAAGTTAAATTC
1 TGATTTTGTCAAATCGTAATCATTTAGAAGTTAAATTC
50855390 TGATTTTGTCAAATCGTA
1 TGATTTTGTCAAATCGTA
50855408 GCCGTTTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
37 17 0.32
38 36 0.68
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (38 bp):
TGATTTTGTCAAATCGTAATCATTTAGAAGTTAAATTC
Found at i:50864301 original size:2 final size:2
Alignment explanation
Indices: 50864294--50864333 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
50864284 ATACCTAAAC
*
50864294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50864334 GCCATTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50870664 original size:2 final size:2
Alignment explanation
Indices: 50870657--50870685 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50870647 TTAATTCTAA
50870657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50870686 AAATTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50873619 original size:21 final size:21
Alignment explanation
Indices: 50873589--50873628 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
50873579 CAAAGCAGAC
50873589 AGGGCCACACGCCCGTGTGAA
1 AGGGCCACACGCCCGTGTGAA
*
50873610 AGGGCGACACGCCCGTGTG
1 AGGGCCACACGCCCGTGTG
50873629 TCTTCTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.33, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCCACACGCCCGTGTGAA
Found at i:50876263 original size:28 final size:29
Alignment explanation
Indices: 50876231--50876329 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
50876221 ATAATAAGCC
*
50876231 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
50876259 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
50876287 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
50876316 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50876330 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:50884269 original size:28 final size:29
Alignment explanation
Indices: 50884237--50884335 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
50884227 ATAATAAGCC
*
50884237 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
50884265 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
50884293 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
50884322 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50884336 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:50886089 original size:48 final size:49
Alignment explanation
Indices: 50885974--50886197 Score: 240
Period size: 48 Copynumber: 4.6 Consensus size: 49
50885964 GGTTGTCACA
* * * ** *
50885974 CCATGTCCCAAACATGGTCTTATACTGGCTCTCATATATCGGTGCCTATG
1 CCATGTTCCAAACATGGTCTTACACTAGCTCTCAT-TATCAATGCCGATG
*
50886024 CCATGTTCCAAACATGGTCTTACACTAGCTCTC-TTATCAATGTCGATG
1 CCATGTTCCAAACATGGTCTTACACTAGCTCTCATTATCAATGCCGATG
* * * * * **
50886072 CCATGTTCCAAACATGGTCTTACATTGGCTCACATT-TCGAGGCTAATG
1 CCATGTTCCAAACATGGTCTTACACTAGCTCTCATTATCAATGCCGATG
* * *
50886120 CCATGTCCCAGACATGTTCTTACACTAGCTCTCA-TAT-AATGCCGATG
1 CCATGTTCCAAACATGGTCTTACACTAGCTCTCATTATCAATGCCGATG
* *
50886167 TCATGTTCCAAACATGGTTTTACACTAGCTC
1 CCATGTTCCAAACATGGTCTTACACTAGCTC
50886198 ACATACCCGT
Statistics
Matches: 142, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
47 33 0.23
48 76 0.54
49 3 0.02
50 30 0.21
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (49 bp):
CCATGTTCCAAACATGGTCTTACACTAGCTCTCATTATCAATGCCGATG
Found at i:50886149 original size:96 final size:97
Alignment explanation
Indices: 50885974--50886202 Score: 295
Period size: 95 Copynumber: 2.4 Consensus size: 97
50885964 GGTTGTCACA
* * * *
50885974 CCATGTCCCAAACATGGTCTTATACTGGCTCTCATATATCGGTGCCTATGCCATGTTCCAAACAT
1 CCATGTTCCAAACATGGTCTTACACTGGCTCACATATATCGGTGCCTATGCCATGTCCCAAACAT
* *
50886039 GGTCTTACACTAGCTCTCTTATCAATGTCGATG
66 GGTCTTACACTAGCTCTCATAT-AATGCCGATG
* *
50886072 CCATGTTCCAAACATGGTCTTACATTGGCTCACAT-T-TCGAG-G-CTAATGCCATGTCCCAGAC
1 CCATGTTCCAAACATGGTCTTACACTGGCTCACATATATCG-GTGCCT-ATGCCATGTCCCAAAC
*
50886133 ATGTTCTTACACTAGCTCTCATATAATGCCGATG
64 ATGGTCTTACACTAGCTCTCATATAATGCCGATG
* * *
50886167 TCATGTTCCAAACATGGTTTTACACTAGCTCACATA
1 CCATGTTCCAAACATGGTCTTACACTGGCTCACATA
50886203 CCCGTTGTAT
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
95 42 0.37
96 40 0.35
97 2 0.02
98 31 0.27
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (97 bp):
CCATGTTCCAAACATGGTCTTACACTGGCTCACATATATCGGTGCCTATGCCATGTCCCAAACAT
GGTCTTACACTAGCTCTCATATAATGCCGATG
Found at i:50887995 original size:140 final size:140
Alignment explanation
Indices: 50887739--50887997 Score: 335
Period size: 140 Copynumber: 1.8 Consensus size: 140
50887729 ATGCTGATGC
* **
50887739 CATGTCCCAAACATGGTCTTACACAAGCTCTAGCATATCTGTGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACAAGCACTA-CATATCAATGCCGATGCCATGTCCCAGACATG
* * *
50887804 GTCTTACACTGACACATCTCATAGCCGATGCATGTCCCAGACATGTTTTACACTGACTTACGTCT
65 GTCTTACACTGACACATATCATAGCCGATGCATGTCCCAAACATGTCTTACACTGACTTACGTCT
50887869 CGAGGCAAATG
130 CGAGGCAAATG
* * * **
50887880 CATGTCCCAAACAT-GTCTTACACTAGCACT-CATCTCAATGTCGATGCTGTGTCCCAGACATGG
1 CATGTCCCAAACATGGTCTTACACAAGCACTACATATCAATGCCGATGCCATGTCCCAGACATGG
* * *
50887943 TCTTACACTGGATCTCATAAT-GTGGCCGATGCATGTCCCAAACATGTCTTACACT
66 TCTTACACT-GA-CACAT-ATCATAGCCGATGCATGTCCCAAACATGTCTTACACT
50887998 AGCTCACAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
138 36 0.36
139 2 0.02
140 48 0.48
141 15 0.15
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACAAGCACTACATATCAATGCCGATGCCATGTCCCAGACATGG
TCTTACACTGACACATATCATAGCCGATGCATGTCCCAAACATGTCTTACACTGACTTACGTCTC
GAGGCAAATG
Found at i:50888010 original size:47 final size:44
Alignment explanation
Indices: 50887877--50888010 Score: 135
Period size: 47 Copynumber: 2.9 Consensus size: 44
50887867 CTCGAGGCAA
* *
50887877 ATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCAATGTCG
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCA-AT-AATGTCG
* * * *
50887923 ATGCTGTGTCCCAGACATGGTCTTACACTGGATCTC-ATAATGTGGCCG
1 ATGC-ATGTCCCAAACAT-GTCTTACACTAGCTCTCAATAATGT---CG
*
50887971 ATGCATGTCCCAAACATGTCTTACACTAGCTCACAATAAT
1 ATGCATGTCCCAAACATGTCTTACACTAGCTCTCAATAAT
50888011 TGTAACACCC
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
45 5 0.07
46 19 0.27
47 27 0.38
48 20 0.28
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (44 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCTCTCAATAATGTCG
Found at i:50888614 original size:34 final size:34
Alignment explanation
Indices: 50888569--50888663 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
50888559 AATACATTCT
*
50888569 GGGCCTAAGCCC-TTATCAGTAACAGTAGCAGTAA
1 GGGCCTTAGCCCATT-TCAGTAACAGTAGCAGTAA
* * **
50888603 GGGCCTTAGCCCATTTCAATAACAATAGCAGTCT
1 GGGCCTTAGCCCATTTCAGTAACAGTAGCAGTAA
* *
50888637 GGGCTTTAGCCCATTTCAGTAATAGTA
1 GGGCCTTAGCCCATTTCAGTAACAGTA
50888664 ATCAGTGCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 49 0.96
35 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (34 bp):
GGGCCTTAGCCCATTTCAGTAACAGTAGCAGTAA
Found at i:50888708 original size:18 final size:18
Alignment explanation
Indices: 50888662--50888710 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
50888652 TCAGTAATAG
*
50888662 TAATCAGTGCAATAACCA
1 TAATCAGTGCAGTAACCA
* * * *
50888680 TGATTAATGCAGTAACGA
1 TAATCAGTGCAGTAACCA
50888698 TAATCAGTGCAGT
1 TAATCAGTGCAGT
50888711 GTGCAAGCAC
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (18 bp):
TAATCAGTGCAGTAACCA
Found at i:50889181 original size:27 final size:27
Alignment explanation
Indices: 50889081--50889170 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
50889071 GGGTATTATA
50889081 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* * * *
50889108 GTCATTCTGCCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATAAGGGTATTTCG
* *
50889135 ATCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATAAGGGTATTTCG
50889162 GTCATTTTA
1 GTCATTTTA
50889171 TCACATAAGG
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAAGGGTATTTCG
Found at i:50889194 original size:54 final size:53
Alignment explanation
Indices: 50889081--50889197 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 53
50889071 GGGTATTATA
* ** **
50889081 GTCATTTTACCCTATAAGGGTATTTCGGTCATTCTGCCTTATAGGGGTATTTC
1 GTCATTTTACCCTATAAGGGTATTTCGGTCATTCTGCCATATAGGGAAAAATC
* * *
50889134 GATCATTTTACCCTATAAGGGTATTTTGGTCATTTTATCACATA-AGGGAAAAATC
1 G-TCATTTTACCCTATAAGGGTATTTCGGTCATTCT-GC-CATATAGGGAAAAATC
50889189 GTCATTTTA
1 GTCATTTTA
50889198 TCACATGAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
53 1 0.02
54 40 0.75
55 9 0.17
56 3 0.06
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (53 bp):
GTCATTTTACCCTATAAGGGTATTTCGGTCATTCTGCCATATAGGGAAAAATC
Found at i:50891870 original size:25 final size:25
Alignment explanation
Indices: 50891841--50891888 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50891831 TTATAATATG
* * *
50891841 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
50891866 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
50891889 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:50892057 original size:24 final size:24
Alignment explanation
Indices: 50892001--50892100 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
50891991 GAGGAAGTGA
*
50892001 AAAAGGGCTTATGCCCCAATTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
50892024 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
50892048 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
50892072 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
50892096 AAAAG
1 AAAAG
50892101 AGGCAAGGCC
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
23 21 0.30
24 48 0.70
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:50898945 original size:46 final size:46
Alignment explanation
Indices: 50898889--50899067 Score: 220
Period size: 46 Copynumber: 3.9 Consensus size: 46
50898879 GGATATTTGG
50898889 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
50898935 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
*
50898981 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
50899028 ACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCCCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50899068 GCGGGTTACA
Statistics
Matches: 114, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 70 0.61
47 32 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:50899047 original size:93 final size:93
Alignment explanation
Indices: 50898888--50899059 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
50898878 GGGATATTTG
* **
50898888 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
50898953 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
50898981 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
50899046 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
50899060 CCTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:50905003 original size:16 final size:16
Alignment explanation
Indices: 50904984--50905014 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50904974 CTTCTTCACT
50904984 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
50905000 TACTTACTTACTTAA
1 TACTCACTTACTTAA
50905015 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:50905020 original size:20 final size:20
Alignment explanation
Indices: 50904981--50905020 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50904971 AAACTTCTTC
* *
50904981 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
50905001 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
50905021 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:50905383 original size:55 final size:55
Alignment explanation
Indices: 50905204--50905454 Score: 234
Period size: 55 Copynumber: 4.7 Consensus size: 55
50905194 GATACATGGC
* * * *
50905204 ACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGA-AACTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAATAACTT
* * * * * *
50905253 ACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATAT-GT-ACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAATAACTT
* * *
50905306 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAATAACTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAATAACTT
* * * * *
50905361 ATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCGTTAGAA-ACCTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAATAACTT
* *
50905415 ATCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCT
1 ACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCT
50905455 ACACATTCCT
Statistics
Matches: 166, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 35 0.21
50 1 0.01
52 2 0.01
53 41 0.25
54 11 0.07
55 74 0.45
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (55 bp):
ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAATAACTT
Found at i:50905387 original size:108 final size:110
Alignment explanation
Indices: 50905248--50905448 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
50905238 ATCCTTTTGA
* *
50905248 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATATG-TA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATA-GAAACCTCACCAA
50905311 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAAT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAAT
* * ** * *
50905356 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCGTTAGAAACCTTATCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATAGAAACCTCACCAAT
50905421 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
50905449 TATCCTACAC
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.57
109 6 0.07
110 28 0.34
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAAT
Found at i:50908867 original size:21 final size:21
Alignment explanation
Indices: 50908843--50908906 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
50908833 TCTATAGTTG
50908843 TTAATTATGTATCCTAAGGTC
1 TTAATTATGTATCCTAAGGTC
* * *
50908864 TTAATT-TCTA---T-AGTTG
1 TTAATTATGTATCCTAAGGTC
*
50908880 TTAATTATGTATCCTATGGTC
1 TTAATTATGTATCCTAAGGTC
50908901 TTAATT
1 TTAATT
50908907 TTAATCTACA
Statistics
Matches: 31, Mismatches: 7, Indels: 10
0.65 0.15 0.21
Matches are distributed among these distances:
16 9 0.29
17 4 0.13
20 4 0.13
21 14 0.45
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.50
Consensus pattern (21 bp):
TTAATTATGTATCCTAAGGTC
Found at i:50908882 original size:37 final size:37
Alignment explanation
Indices: 50908832--50908907 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
50908822 TGGTTCCTTA
50908832 TTCTATAGTTGTTAATTATGTATCCTAAGGTCTTAAT
1 TTCTATAGTTGTTAATTATGTATCCTAAGGTCTTAAT
*
50908869 TTCTATAGTTGTTAATTATGTATCCTATGGTCTTAAT
1 TTCTATAGTTGTTAATTATGTATCCTAAGGTCTTAAT
50908906 TT
1 TT
50908908 TAATCTACAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (37 bp):
TTCTATAGTTGTTAATTATGTATCCTAAGGTCTTAAT
Found at i:50911189 original size:46 final size:46
Alignment explanation
Indices: 50911134--50911309 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
50911124 TGGTTGAGCA
*
50911134 TCCGTACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
50911180 TTCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
50911225 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50911273 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50911310 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50911290 original size:93 final size:93
Alignment explanation
Indices: 50911131--50911301 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
50911121 GGATGGTTGA
* **
50911131 GCATCCGTACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGTACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
50911196 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
50911224 GCATCCG-AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGTA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50911288 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
50911302 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGTACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:50913986 original size:92 final size:90
Alignment explanation
Indices: 50913832--50914046 Score: 234
Period size: 92 Copynumber: 2.3 Consensus size: 90
50913822 AGATTTGTGT
* * * * *
50913832 GCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCCAATGTAAGACATGT
*
50913897 CTGGGACATGCATCAGCCACAGTATGA-GA
64 CTGGGACATGCATC-GCC-CAGGA-GATGA
* * ** *
50913926 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCCAATGTCAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAATGTAAGACATGTCT
* * * *
50913991 GGGACATGCGTCGGCTAGGAGATGT
66 GGGACATGCATCGCCCAGGAGATGA
*
50914016 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
50914047 AGCACGGTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
89 2 0.02
90 34 0.33
91 2 0.02
92 41 0.39
93 13 0.12
94 12 0.12
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAATGTAAGACATGTCT
GGGACATGCATCGCCCAGGAGATGA
Found at i:50914080 original size:46 final size:45
Alignment explanation
Indices: 50913829--50914086 Score: 206
Period size: 46 Copynumber: 5.6 Consensus size: 45
50913819 ATGAGATTTG
* * *
50913829 TGTGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAG-ACGA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA-CG-GTA-GA
* * *
50913878 -GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CACGGTA-GA
* * *
50913924 -GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCG-AGA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCAC-GGTAGA
* * * *
50913967 TGTTAGCCAATGTCAGACATGTCTGGGACATGCGTCGGCTA-GG-AGA
1 TG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-ACGGTAGA
* *
50914013 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGGTTACA
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGG-TAGA
* *
50914059 TGTGTCAGTGTAAGACCTGTCTGGGACA
1 TGTGCCAGTGTAAGACATGTCTGGGACA
50914087 CGGCATCGAT
Statistics
Matches: 173, Mismatches: 25, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
43 3 0.02
44 34 0.20
45 4 0.02
46 105 0.61
47 15 0.09
48 12 0.07
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCAGCACGGTAGA
Found at i:50917648 original size:40 final size:40
Alignment explanation
Indices: 50917563--50917713 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
50917553 AATTGAATGA
* * *
50917563 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
50917603 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
50917644 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
50917683 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
50917714 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:50917727 original size:40 final size:40
Alignment explanation
Indices: 50917599--50917729 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
50917589 TATGCTGGAA
* * *
50917599 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
50917639 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
50917679 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
50917719 ATTATATCCGG
1 ATTATATCCGG
50917730 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:50924139 original size:25 final size:26
Alignment explanation
Indices: 50924103--50924159 Score: 98
Period size: 25 Copynumber: 2.2 Consensus size: 26
50924093 TGATACAAAT
50924103 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
50924128 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
50924154 TGATAA
1 TGATAA
50924160 GAATTTCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 20 0.67
26 10 0.33
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:50925815 original size:27 final size:27
Alignment explanation
Indices: 50925774--50925913 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
50925764 GAGGAAGCGT
*
50925774 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
50925801 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
50925828 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
50925855 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
50925883 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
50925909 TCTGG
1 TCTGG
50925914 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:50925859 original size:54 final size:55
Alignment explanation
Indices: 50925774--50925913 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
50925764 GAGGAAGCGT
* * *
50925774 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
50925828 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
50925883 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
50925914 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:50934219 original size:11 final size:10
Alignment explanation
Indices: 50934202--50934240 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
50934192 ATGAGATCTA
*
50934202 AAATTTTCTT
1 AAATTTTTTT
50934212 AAATTTTTTT
1 AAATTTTTTT
*
50934222 AAATATTTTT
1 AAATTTTTTT
50934232 ATAATTTTT
1 A-AATTTTT
50934241 AGAATTAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 19 0.76
11 6 0.24
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (10 bp):
AAATTTTTTT
Found at i:50935448 original size:2 final size:2
Alignment explanation
Indices: 50935441--50935477 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
50935431 GAAATATAGT
*
50935441 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50935478 GCAGTTGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50937781 original size:17 final size:19
Alignment explanation
Indices: 50937761--50937797 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
50937751 TTCTAGTTTT
50937761 TTTCAC-TT-TCTCCTCTC
1 TTTCACGTTGTCTCCTCTC
50937778 TTTCACGTTGGTCTCCTCTC
1 TTTCACGTT-GTCTCCTCTC
50937798 CTCCATTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
20 9 0.53
ACGTcount: A:0.05, C:0.38, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTCACGTTGTCTCCTCTC
Found at i:50939583 original size:18 final size:18
Alignment explanation
Indices: 50939545--50939582 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
50939535 AAACTAATTA
*
50939545 TTTATTTTTATTTTTATT
1 TTTATTTTTATTTATATT
50939563 TTTATTTTTA-TTATATT
1 TTTATTTTTATTTATATT
50939580 TTT
1 TTT
50939583 TTAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTATTTTTATTTATATT
Found at i:50939590 original size:6 final size:6
Alignment explanation
Indices: 50939545--50939574 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
50939535 AAACTAATTA
50939545 TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
50939575 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:50945726 original size:29 final size:29
Alignment explanation
Indices: 50945694--50945828 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
50945684 ATACCCTTCG
** * *
50945694 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * *
50945723 AGCTTGCACACATAGTGTCATAT-TTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
50945751 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
50945780 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
50945809 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
50945829 ATCTCGTCAC
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
28 23 0.25
29 70 0.75
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:50945779 original size:57 final size:58
Alignment explanation
Indices: 50945669--50945827 Score: 176
Period size: 57 Copynumber: 2.8 Consensus size: 58
50945659 AATTTAAGCC
* *** * * ** * *
50945669 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * *
50945727 TGCACACATAGTGTCATAT-TTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
50945784 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
50945828 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
57 45 0.54
58 38 0.46
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:50953767 original size:29 final size:29
Alignment explanation
Indices: 50953734--50953836 Score: 161
Period size: 29 Copynumber: 3.6 Consensus size: 29
50953724 CCTTCGAGCT
** * *
50953734 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
50953763 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50953792 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50953821 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50953837 ATCTCGTCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50953768 original size:58 final size:58
Alignment explanation
Indices: 50953705--50953836 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 58
50953695 AATTTAAGCC
* * * * * *
50953705 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
50953763 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
50953821 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50953837 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:50959257 original size:31 final size:31
Alignment explanation
Indices: 50959219--50959281 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
50959209 CTTTCCAAGA
* * *
50959219 AAGACGCTGAATCGAGGTTGATCCTATGGGT
1 AAGACGCTAAATCAAGGTTGATCCGATGGGT
50959250 AAGACGCTAAATCAAGGTTGATCCGATGGGT
1 AAGACGCTAAATCAAGGTTGATCCGATGGGT
50959281 A
1 A
50959282 CTTCTATTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (31 bp):
AAGACGCTAAATCAAGGTTGATCCGATGGGT
Found at i:50961877 original size:25 final size:25
Alignment explanation
Indices: 50961843--50961898 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
50961833 TTTCTCCTAA
* *
50961843 ATTTCAAATTTATTGGATTATTTAAT
1 ATTTTAAATTTATTGAATTA-TTAAT
50961869 -TTTTAAATTTATTGAATTATTAAT
1 ATTTTAAATTTATTGAATTATTAAT
50961893 ATTTTA
1 ATTTTA
50961899 TGCAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (25 bp):
ATTTTAAATTTATTGAATTATTAAT
Found at i:50966942 original size:28 final size:29
Alignment explanation
Indices: 50966861--50966949 Score: 103
Period size: 28 Copynumber: 3.1 Consensus size: 29
50966851 TGAGCATGAC
* * *
50966861 TATAAATGTGAATTGGGACTGAT--GACCA
1 TATAAATGTGATTTGGGCCTAATGGGA-CA
50966889 TATAAATGTGATTTGGGCCTAATGGGACA
1 TATAAATGTGATTTGGGCCTAATGGGACA
* *
50966918 TATAAATGTGA-TTGGGCCTAGTGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGACA
50966946 TATA
1 TATA
50966950 TAGGTATGTG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 39 0.72
29 13 0.24
30 2 0.04
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (29 bp):
TATAAATGTGATTTGGGCCTAATGGGACA
Found at i:50974331 original size:57 final size:58
Alignment explanation
Indices: 50974278--50974393 Score: 164
Period size: 58 Copynumber: 2.0 Consensus size: 58
50974268 GAAAATGGTG
* * *
50974278 AAATGAGAA-CATTTGGAAATGATTATGGTTTTTTCCAAAATGAAAATGAAAATGGAAA
1 AAATG-GAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATGGAAA
* *
50974336 AAATGGAATCATTTGGAAATGAATGTGATTTTCTCCAAAATGAAAATGGAAAT-GAAA
1 AAATGGAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATGGAAA
50974393 A
1 A
50974394 TGACTTGGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
57 8 0.15
58 44 0.85
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (58 bp):
AAATGGAATCATTTGGAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATGGAAA
Found at i:50974626 original size:36 final size:36
Alignment explanation
Indices: 50974581--50974658 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
50974571 AATTGTAAAT
50974581 ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
1 ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
50974617 ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
1 ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
50974653 ATATTG
1 ATATTG
50974659 GGTTCGATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.35
Consensus pattern (36 bp):
ATATTGAGATGTTTATTTTGGGAAATAGAAAAACAA
Found at i:50976094 original size:47 final size:47
Alignment explanation
Indices: 50976036--50976430 Score: 574
Period size: 47 Copynumber: 8.3 Consensus size: 47
50976026 GTATGAGATA
50976036 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
50976083 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
50976130 TATATATGTGATAAGGCCGAATGGCCAATATGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
50976177 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
* **
50976226 TATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
50976273 TATATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATA--TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
50976322 TATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * *
50976369 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
50976416 TATAAATGTGATAAG
1 TATATATGTGATAAG
50976431 TCCCGAAGGG
Statistics
Matches: 317, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
47 227 0.72
49 90 0.28
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:50979552 original size:90 final size:92
Alignment explanation
Indices: 50979383--50979555 Score: 208
Period size: 90 Copynumber: 1.9 Consensus size: 92
50979373 GCCCTAAAAA
*
50979383 ATTTTCAATAAAAAAGCAATTAAGCCATTGCTTTTTTTTTTTTACACTTAACTGGTACTTGAACT
1 ATTTTCAATAAAAAAGCAATTAA--CATTGCTTTTTTTTTTTTACACTCAACTGGTACTTGAACT
*** **
50979448 TTTAAAATGCATAAAAAAGACCTTCAAAC
64 GCCAAAAAACATAAAAAAGACCTTCAAAC
* * *
50979477 ATTTTCAA-AAAAAAGCAATT-A-ATTTCTTTTTTTTTTTTGCACTCAATTGGGTACTTGAACTG
1 ATTTTCAATAAAAAAGCAATTAACATTGCTTTTTTTTTTTTACACTCAACT-GGTACTTGAACTG
*
50979539 CCAAAAAATATAAAAAA
65 CCAAAAAACATAAAAAA
50979556 AACCCTTGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
89 23 0.34
90 24 0.35
92 1 0.01
93 12 0.18
94 8 0.12
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (92 bp):
ATTTTCAATAAAAAAGCAATTAACATTGCTTTTTTTTTTTTACACTCAACTGGTACTTGAACTGC
CAAAAAACATAAAAAAGACCTTCAAAC
Found at i:50979744 original size:10 final size:9
Alignment explanation
Indices: 50979697--50979867 Score: 55
Period size: 10 Copynumber: 18.4 Consensus size: 9
50979687 GACATGCGGA
*
50979697 AAAAAATAT
1 AAAAATTAT
50979706 AAAAA--AT
1 AAAAATTAT
*
50979713 AAAAATAAAT
1 AAAAAT-TAT
*
50979723 AAAATTTAT
1 AAAAATTAT
50979732 AAAAATTAT
1 AAAAATTAT
* *
50979741 -TAAATTTT
1 AAAAATTAT
*
50979749 AATACAAATAT
1 AA-A-AATTAT
*
50979760 AAAAATAAGT
1 AAAAATTA-T
**
50979770 AAATTTTATT
1 AAAAATTA-T
*
50979780 AAACATTA-
1 AAAAATTAT
50979788 AAAAATATAT
1 AAAAAT-TAT
* *
50979798 ATATATATAT
1 AAAAAT-TAT
**
50979808 AAAAATCGT
1 AAAAATTAT
*
50979817 AAAAATATAA
1 AAAAAT-TAT
50979827 AAAAATTA-
1 AAAAATTAT
**
50979835 AAATTTTAT
1 AAAAATTAT
*
50979844 AAAAATCATAA
1 AAAAAT--TAT
50979855 AAAAATTAT
1 AAAAATTAT
50979864 AAAA
1 AAAA
50979868 TGCATCAAAA
Statistics
Matches: 117, Mismatches: 32, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
7 7 0.06
8 17 0.15
9 39 0.33
10 40 0.34
11 14 0.12
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:50979824 original size:19 final size:18
Alignment explanation
Indices: 50979802--50979867 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
50979792 ATATATATAT
50979802 ATATATAAAAATCGTAAAA
1 ATATATAAAAATC-TAAAA
*
50979821 ATATAAAAAAAT-TAAAA
1 ATATATAAAAATCTAAAA
* *
50979838 TTTTATAAAAATCATAAAA
1 ATATATAAAAATC-TAAAA
*
50979857 AAATTATAAAA
1 ATA-TATAAAA
50979868 TGCATCAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 14 0.38
19 16 0.43
20 7 0.19
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (18 bp):
ATATATAAAAATCTAAAA
Found at i:50980133 original size:29 final size:29
Alignment explanation
Indices: 50980101--50980189 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 29
50980091 TTTCTTACGA
50980101 ATTTATAAAATTTTATAACTTTTTTCTAT
1 ATTTATAAAATTTTATAACTTTTTTCTAT
* * * *
50980130 ATTTCTATATATTTTGT-ACTTTTTTACAAT
1 ATTTATA-AAATTTTATAACTTTTTT-CTAT
* * *
50980160 TTTTA-AAAATCTTACAA-TTTTTT-TAT
1 ATTTATAAAATTTTATAACTTTTTTCTAT
50980186 ATTT
1 ATTT
50980190 TTTTACGATT
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
26 5 0.11
28 11 0.24
29 16 0.36
30 13 0.29
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (29 bp):
ATTTATAAAATTTTATAACTTTTTTCTAT
Found at i:50980237 original size:18 final size:18
Alignment explanation
Indices: 50980212--50980251 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
50980202 TATAATTTTA
50980212 TTATAATTTAATTG-TTT
1 TTATAATTTAATTGATTT
*
50980229 TTATAAATTTTATTGATTT
1 TTAT-AATTTAATTGATTT
50980248 TTAT
1 TTAT
50980252 TTTTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTATAATTTAATTGATTT
Found at i:50982408 original size:80 final size:80
Alignment explanation
Indices: 50982275--50982438 Score: 328
Period size: 80 Copynumber: 2.0 Consensus size: 80
50982265 GTATCTCTTG
50982275 AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTGTTCTTGAATGGGGGCTATT
1 AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTGTTCTTGAATGGGGGCTATT
50982340 CTAGACCTATTCCAA
66 CTAGACCTATTCCAA
50982355 AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTGTTCTTGAATGGGGGCTATT
1 AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTGTTCTTGAATGGGGGCTATT
50982420 CTAGACCTATTCCAA
66 CTAGACCTATTCCAA
50982435 AAAT
1 AAAT
50982439 GAGTTTTCCT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (80 bp):
AAATAAAAGTTGTTCTCAATGAAGAGTTATTCTTAAATGAGTGTTGTTCTTGAATGGGGGCTATT
CTAGACCTATTCCAA
Found at i:50983933 original size:32 final size:32
Alignment explanation
Indices: 50983897--50983959 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
50983887 ACTAAAGAAT
* * *
50983897 CTAAAATTTTAATT-AAAACTTGAGATTTAAAC
1 CTAAAA-TATAATTAAAAACTTAAAATTTAAAC
50983929 CTAAAATATAATTAAAAACTTAAAATTTAAA
1 CTAAAATATAATTAAAAACTTAAAATTTAAA
50983960 ATAAAACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (32 bp):
CTAAAATATAATTAAAAACTTAAAATTTAAAC
Found at i:50989520 original size:13 final size:13
Alignment explanation
Indices: 50989502--50989578 Score: 93
Period size: 13 Copynumber: 5.9 Consensus size: 13
50989492 TGTTTGGCAA
50989502 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
50989515 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
50989528 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* *
50989541 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
50989554 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
50989567 TGCTTTTGAAAA
1 TGCTTTTGAAAA
50989579 TTTTAGGTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
12 2 0.04
13 51 0.93
14 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:50991359 original size:25 final size:25
Alignment explanation
Indices: 50991330--50991377 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50991320 TTATAATATG
* * *
50991330 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
50991355 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
50991378 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:50991446 original size:20 final size:20
Alignment explanation
Indices: 50991421--50991479 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
50991411 TAAATATGGT
50991421 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
50991441 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
50991461 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
50991480 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:50991461 original size:11 final size:11
Alignment explanation
Indices: 50991425--50991479 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
50991415 TATGGTATGT
50991425 ATGATATGCAC
1 ATGATATGCAC
* *
50991436 ATGAAATG--T
1 ATGATATGCAC
50991445 ATGATATGCAC
1 ATGATATGCAC
*
50991456 ATGATATG--T
1 ATGATATGCAC
50991465 ATGATATGCAC
1 ATGATATGCAC
50991476 ATGA
1 ATGA
50991480 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:50991557 original size:24 final size:24
Alignment explanation
Indices: 50991530--50991648 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
50991520 GAGGAAGTGA
*
50991530 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
50991554 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
50991577 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
50991601 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50991625 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50991649 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:50991599 original size:47 final size:48
Alignment explanation
Indices: 50991530--50991648 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
50991520 GAGGAAGTGA
50991530 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
50991577 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
50991625 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
50991649 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Done.