Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 181 of 345
Found at i:51240383 original size:71 final size:71
Alignment explanation
Indices: 51240267--51240432 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
51240257 GAGGAAGTGA
* *
51240267 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
51240332 GTTATC
66 GTTATC
*
51240338 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
51240403 GTTATT
66 GTTATC
*
51240409 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
51240433 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:51240661 original size:31 final size:31
Alignment explanation
Indices: 51240626--51240689 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
51240616 CGTTTACCGT
*
51240626 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
51240657 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
51240688 AA
1 AA
51240690 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:51250074 original size:13 final size:13
Alignment explanation
Indices: 51250056--51250085 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51250046 CTGGCAATCA
51250056 TGTCACACGGCCG
1 TGTCACACGGCCG
*
51250069 TGTCACACGGGCG
1 TGTCACACGGCCG
51250082 TGTC
1 TGTC
51250086 CCTGCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
TGTCACACGGCCG
Found at i:51252642 original size:40 final size:39
Alignment explanation
Indices: 51252556--51252739 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
51252546 AAATTGAATG
* * * * *
51252556 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
51252596 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
*
51252636 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
51252676 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
51252715 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
51252740 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 110 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:51260324 original size:38 final size:40
Alignment explanation
Indices: 51260267--51260366 Score: 123
Period size: 38 Copynumber: 2.5 Consensus size: 40
51260257 AAATTGAATG
*
51260267 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAAT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAAAT
* * * * **
51260306 -TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAAAT
51260345 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
51260367 GCATTCGTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 28 0.55
39 3 0.06
40 20 0.39
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAAAT
Found at i:51260359 original size:40 final size:40
Alignment explanation
Indices: 51260267--51260416 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
51260257 AAATTGAATG
* * * * *
51260267 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* *
51260306 -TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * *
51260345 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGAT
* *
51260385 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
51260417 AAATCGTGAT
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
38 28 0.30
39 6 0.06
40 58 0.62
41 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
Found at i:51260431 original size:40 final size:39
Alignment explanation
Indices: 51260306--51260448 Score: 160
Period size: 40 Copynumber: 3.6 Consensus size: 39
51260296 TGCTGAAAAT
* * *
51260306 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAG-TA
* *
51260346 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAG-TA
* * *
51260386 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGT-A
* * *
51260426 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
51260449 CTTGGTGCGG
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 87 0.99
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTA
Found at i:51268068 original size:40 final size:39
Alignment explanation
Indices: 51267982--51268165 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
51267972 AAATTGAATG
* * * * *
51267982 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
51268022 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
*
51268062 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
51268102 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
51268141 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
51268166 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 110 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:51274840 original size:40 final size:40
Alignment explanation
Indices: 51274785--51274988 Score: 266
Period size: 40 Copynumber: 5.1 Consensus size: 40
51274775 TGAATGATAC
* * * *
51274785 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
51274825 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
51274865 CTGGGTTAAGACCTGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
51274905 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
51274945 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
51274985 CCGG
1 CCGG
51274989 CTAAATTCCG
Statistics
Matches: 143, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 141 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:51274932 original size:80 final size:80
Alignment explanation
Indices: 51274781--51274992 Score: 302
Period size: 80 Copynumber: 2.7 Consensus size: 80
51274771 CAATTGAATG
* * * *
51274781 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
51274845 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* * * *
51274861 ATATCTGGGTTAAGACCTGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
51274926 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
51274941 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
51274993 ATTCCGAAGA
Statistics
Matches: 116, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 6 0.05
80 108 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:51276916 original size:74 final size:74
Alignment explanation
Indices: 51276793--51276940 Score: 242
Period size: 74 Copynumber: 2.0 Consensus size: 74
51276783 CAAGTTGAGT
* * *
51276793 TTATTACTATACAAACTTACTAAGCTTTATGGCATACTTTGTTTTCTTTTTCGTGTTTTGTAGTG
1 TTATTACTATACAAACTTACTAAGCTTTATAGCATACTTTGTTTACTTTTTCGTGTTTTATAGTG
*
51276858 AATATCGAA
66 AACATCGAA
* *
51276867 TTATTACTATACAAATTTACTAAGCTTTATAGCTTACTTTGTTTACTTTTTCGTGTTTTATAGTG
1 TTATTACTATACAAACTTACTAAGCTTTATAGCATACTTTGTTTACTTTTTCGTGTTTTATAGTG
51276932 AACATCGAA
66 AACATCGAA
51276941 GCTAGCTCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (74 bp):
TTATTACTATACAAACTTACTAAGCTTTATAGCATACTTTGTTTACTTTTTCGTGTTTTATAGTG
AACATCGAA
Found at i:51280314 original size:30 final size:30
Alignment explanation
Indices: 51280259--51280418 Score: 204
Period size: 29 Copynumber: 5.5 Consensus size: 30
51280249 ATAGTGAATC
51280259 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
51280288 CGCACACTTAGTTCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
51280318 CGCACACTGAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
51280347 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
51280375 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
51280405 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51280419 CAATCTTGTC
Statistics
Matches: 116, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 46 0.40
30 45 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:51282931 original size:33 final size:32
Alignment explanation
Indices: 51282886--51282975 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 32
51282876 CCACACTGTC
* *
51282886 ACTGTATCGGGCTAAGGCGGAGACTGTACTATT
1 ACTGTATAGGGCTAAGGC-CAGACTGTACTATT
*
51282919 ACTGTATAGGGCTAAGGTCCAGACTGTACTGTT
1 ACTGTATAGGGCTAAGG-CCAGACTGTACTATT
* *
51282952 ACTGAATAGGGCTCAGGCCCAGAC
1 ACTGTATAGGGCTAAGG-CCAGAC
51282976 CGTTATTGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
33 49 0.98
34 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (32 bp):
ACTGTATAGGGCTAAGGCCAGACTGTACTATT
Found at i:51285822 original size:13 final size:13
Alignment explanation
Indices: 51285804--51285829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51285794 GGTAGAGTTA
51285804 AAGGCTCAAATTC
1 AAGGCTCAAATTC
51285817 AAGGCTCAAATTC
1 AAGGCTCAAATTC
51285830 GACCGAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
AAGGCTCAAATTC
Found at i:51290420 original size:27 final size:27
Alignment explanation
Indices: 51290390--51290583 Score: 302
Period size: 27 Copynumber: 7.2 Consensus size: 27
51290380 CGATTTGTAA
51290390 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
51290417 AATTACT-AAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
51290443 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
51290470 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
51290497 AATTACCGACATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
51290524 AATTTA-TGAGATACCCCTGTAAGGTAG
1 AA-TTACTGAAATACCCCTGTAGGGTAG
51290551 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
51290578 AATTAC
1 AATTAC
51290584 CAATTTACCC
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
26 27 0.18
27 121 0.80
28 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:51293681 original size:27 final size:27
Alignment explanation
Indices: 51293651--51293868 Score: 294
Period size: 27 Copynumber: 8.1 Consensus size: 27
51293641 TTTGCAAAAG
* *
51293651 TACTGAAATACCCCTGGAGGGTAGAAT
1 TACTGAAATACCCCTGTAAGGTAGAAT
*
51293678 TACT-AAATACCCCTATAAGGTAGAAT
1 TACTGAAATACCCCTGTAAGGTAGAAT
* *
51293704 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAAGGTAGAAT
*
51293731 TATTGAAATACCCCTGTAAGGTAGAAT
1 TACTGAAATACCCCTGTAAGGTAGAAT
*
51293758 TACCGAAATACCCCTGTAAGGTAGAAT
1 TACTGAAATACCCCTGTAAGGTAGAAT
* ** *
51293785 TACTAAAATACCATTGTAACGTAGAAT
1 TACTGAAATACCCCTGTAAGGTAGAAT
* * *
51293812 TACCGAAATACCCCTGTAGGGTAAAAT
1 TACTGAAATACCCCTGTAAGGTAGAAT
*
51293839 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAAGGTAGAAT
51293866 TAC
1 TAC
51293869 CAATTTACCT
Statistics
Matches: 165, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.13
27 143 0.87
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAAGGTAGAAT
Found at i:51293760 original size:54 final size:54
Alignment explanation
Indices: 51293655--51293869 Score: 333
Period size: 54 Copynumber: 4.0 Consensus size: 54
51293645 CAAAAGTACT
* *
51293655 GAAATACCCCTGGAGGGTAGAATTACT-AAATACCCCTATAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACC
*
51293708 GAAATACCCCTGTAGGGTAGAATTATTGAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACC
* * ** *
51293762 GAAATACCCCTGTAAGGTAGAATTACTAAAATACCATTGTAACGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACC
* *
51293816 GAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACC
51293870 AATTTACCTC
Statistics
Matches: 145, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
53 25 0.17
54 120 0.83
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (54 bp):
GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAAGGTAGAATTACC
Found at i:51302369 original size:10 final size:10
Alignment explanation
Indices: 51302354--51302399 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
51302344 AGGTCACTTG
51302354 AGCTCGTTTC
1 AGCTCGTTTC
*
51302364 AGCTCGTTTG
1 AGCTCGTTTC
* *
51302374 AGCTTGATTTT
1 AGCTCG-TTTC
51302385 AGCTCGTTTC
1 AGCTCGTTTC
51302395 AGCTC
1 AGCTC
51302400 ATTCCTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:51302390 original size:21 final size:20
Alignment explanation
Indices: 51302351--51302399 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
51302341 ATCAGGTCAC
51302351 TTGAGCTCGTTTCAGCTCGT
1 TTGAGCTCGTTTCAGCTCGT
* *
51302371 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTCG-TTTCAGCTCGT
*
51302392 TTCAGCTC
1 TTGAGCTC
51302400 ATTCCTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (20 bp):
TTGAGCTCGTTTCAGCTCGT
Found at i:51310040 original size:40 final size:40
Alignment explanation
Indices: 51309995--51310161 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
51309985 CGGAATATAA
51309995 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
51310035 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
51310075 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
51310115 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51310154 CCGGATAT
1 CCGGATAT
51310162 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51310145 original size:80 final size:79
Alignment explanation
Indices: 51309995--51310161 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
51309985 CGGAATATAA
* *
51309995 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
51310060 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
51310075 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
51310137 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
51310154 CCGGATAT
1 CCGGATAT
51310162 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:51314133 original size:26 final size:26
Alignment explanation
Indices: 51314097--51314172 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
51314087 TCTTATCCCT
*
51314097 ATTTTACCCCTAGCAAAATTTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
* * *
51314123 ATTTTACCCCTATTAAAATTTTCACG
1 ATTTTACCCCTAGTAAAATTTTGACA
* *
51314149 ATTTTGCCTCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
51314173 GAAAATATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:51319877 original size:49 final size:49
Alignment explanation
Indices: 51319821--51320084 Score: 465
Period size: 49 Copynumber: 5.4 Consensus size: 49
51319811 TACATATATG
* * * *
51319821 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
51319870 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
51319919 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
51319968 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
51320017 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
51320066 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
51320085 TAATGTAAAA
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 209 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:51320236 original size:37 final size:37
Alignment explanation
Indices: 51320186--51320307 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
51320176 GGAATATGTT
*
51320186 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
51320223 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
51320260 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
51320297 CCGGGTAAGAC
1 CCGGGTAAGAC
51320308 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:51322404 original size:29 final size:29
Alignment explanation
Indices: 51322362--51322496 Score: 252
Period size: 29 Copynumber: 4.7 Consensus size: 29
51322352 GCGAATGATT
51322362 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
51322391 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
51322420 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
51322449 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
51322478 GAGGCACTGTGTGTGCGAG
1 GAGGCACTATGTGTGCGAG
51322497 TTTTTCAACA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 104 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:51323078 original size:40 final size:41
Alignment explanation
Indices: 51322980--51323078 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
51322970 TTCGAATGGT
* ** * *
51322980 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
51323021 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TAACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTAACTA-A
51323062 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
51323079 GGACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
Found at i:51325855 original size:49 final size:49
Alignment explanation
Indices: 51325799--51326062 Score: 465
Period size: 49 Copynumber: 5.4 Consensus size: 49
51325789 TACATATATG
* * * *
51325799 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
51325848 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
51325897 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
51325946 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
51325995 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
51326044 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
51326063 TAATGTAAAA
Statistics
Matches: 209, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 209 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:51326251 original size:36 final size:37
Alignment explanation
Indices: 51326164--51326284 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
51326154 GGAATATGTT
*
51326164 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
51326201 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
51326238 CC-GGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
51326274 CCGGGTAAGAC
1 CCGGGTAAGAC
51326285 TTCTTTTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
36 35 0.43
37 46 0.57
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:51333189 original size:40 final size:40
Alignment explanation
Indices: 51333128--51333291 Score: 213
Period size: 40 Copynumber: 4.1 Consensus size: 40
51333118 CGGAATTTAG
* ** *
51333128 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * *
51333168 CCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
51333208 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * * *
51333248 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGGCTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
51333288 CCGG
1 CCGG
51333292 GTATCATTCA
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 108 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:51343105 original size:705 final size:705
Alignment explanation
Indices: 51340183--51344408 Score: 8333
Period size: 705 Copynumber: 6.0 Consensus size: 705
51340173 ATAGAAACTA
51340183 GACTC-AAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
1 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
51340247 ATTTCCAAAGTCGGAACAGGGGA--TAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
66 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
*
51340310 CTCTTAACATATAACTCATATGACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
131 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
51340375 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
196 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
51340440 AACTTTACCTATTTCGTGGTTTCCAT-GGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
261 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
51340504 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTC-AA
326 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
51340568 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACG-GCC
391 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
51340632 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
456 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
51340697 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
521 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
51340762 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
586 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
51340827 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
651 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
51340882 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
1 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
51340947 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
66 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
51341012 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
131 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
51341077 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
196 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
51341142 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
261 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
51341207 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
326 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
51341272 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
391 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
51341337 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTG-AAAAAAAATAGCCAAGGGTAG
456 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
51341401 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
521 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
51341466 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
586 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
51341531 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
651 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
51341586 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
1 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
*
51341651 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTCCACGAGAACTTTAATAT
66 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
51341716 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
131 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
51341781 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
196 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
51341846 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
261 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
51341911 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
326 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
51341976 TCATG-AACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
391 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
51342040 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
456 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
51342105 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
521 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
51342170 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
586 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
51342235 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
651 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
51342290 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
1 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
51342355 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
66 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
51342420 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
131 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
*
51342485 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTTAGCATCTGTTTTCAAGGTA
196 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
*
51342550 AACTTTACCTATTTCATGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
261 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
51342615 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
326 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
51342680 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
391 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
51342745 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
456 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
51342810 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
521 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
51342875 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
586 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
51342940 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
651 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
51342995 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
1 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
51343060 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
66 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
51343125 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
131 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
51343190 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
196 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
51343255 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
261 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
*
51343320 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTTCGTAGTCAAA
326 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
51343385 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
391 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
51343450 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
456 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
51343515 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
521 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
51343580 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
586 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
*
51343645 GCAACGGGGTAAGCATTTTAATGCTTAATAAGTCTCAAGTAATGAAATCAGCCTT
651 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
51343700 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
1 GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
51343765 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
66 ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
51343830 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
131 CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
51343895 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
196 CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
51343960 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
261 AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
51344025 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
326 ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
51344090 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
391 TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
51344155 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
456 ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
51344220 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
521 TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
*
51344285 ACTTCGACTTCGATGATCCCGAATCCAATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
586 ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
51344350 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
651 GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
51344405 GACT
1 GACT
51344409 AAAGTATTAC
Statistics
Matches: 3507, Mismatches: 12, Indels: 10
0.99 0.00 0.00
Matches are distributed among these distances:
699 5 0.00
700 82 0.02
702 195 0.06
703 202 0.06
704 1261 0.36
705 1762 0.50
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (705 bp):
GACTCGAAGAGGAATCTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAGTGA
ATTTCCAAAGTCGGAACAGGGGATTTAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
CTCTTAACATATAACTCATATAACTGTTTCTTTTCTTCCATATTTATTCACTATTTAATTCCATT
CCTACAATTTTTAGTGATTTTTCAAATCCACACCACTGCTGCTGTCAGCATCTGTTTTCAAGGTA
AACTTTACCTATTTCGTGGTTTCCATGGGCCAACTAGAGTTTTGTCATACATAGGTCCACATATA
ATCATATTTAGCCATTCCAATGGCTGATCATTTTCCCAACACTTCCATTCCAGTCCGTAGTCAAA
TCATGAAACCATACATATATACATAAACACAAATGGTCTAATGCCATACTCCACTTTTACGAGCC
ATTTTCGCATGGCTGTACACACATACATCACAAAACGTACTTGAAAAAAAAATAGCCAAGGGTAG
TCCTATACATGCCATATCCAGAGTTCAACTAAAAGAGTACCAAAAGGGCTTTGATAGTGTGGATG
ACTTCGACTTCGATGATCCCGAATCCGATAGCTAACGAGCAAAATCTATAAAATAGAGAGCCAAA
GCAACGGGGTAAGCATTTTAATGCTTAGTAAGTCTCAAGTAATGAAATCAGCCTT
Found at i:51344747 original size:40 final size:40
Alignment explanation
Indices: 51344686--51344849 Score: 204
Period size: 40 Copynumber: 4.1 Consensus size: 40
51344676 CGGAATTTAG
* ** *
51344686 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * * *
51344726 CCGGGTATAGCAACTCGCACAAATGCCTTCTGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
51344766 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* * * *
51344806 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGGCTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
51344846 CCGG
1 CCGG
51344850 GTATCATTCA
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
40 106 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:51348783 original size:17 final size:17
Alignment explanation
Indices: 51348761--51348803 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
51348751 AATAAAATAG
51348761 AGTAAGCT-ATATAGCTT
1 AGTAAGCTCAT-TAGCTT
*
51348778 AGTAAGCTCGTTAGCTT
1 AGTAAGCTCATTAGCTT
51348795 AGTAAGCTC
1 AGTAAGCTC
51348804 GTATGAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 23 0.96
18 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (17 bp):
AGTAAGCTCATTAGCTT
Found at i:51348804 original size:17 final size:17
Alignment explanation
Indices: 51348772--51348805 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
51348762 GTAAGCTATA
51348772 TAGCTTAGTAAGCTCGT
1 TAGCTTAGTAAGCTCGT
51348789 TAGCTTAGTAAGCTCGT
1 TAGCTTAGTAAGCTCGT
51348806 ATGAAAGAAA
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:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (17 bp):
TAGCTTAGTAAGCTCGT
Found at i:51351194 original size:34 final size:34
Alignment explanation
Indices: 51351155--51351221 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
51351145 CGAGCTCAAA
* *
51351155 AACATAAAAATCATTGAAAACGGGTCATAAAATT
1 AACATAAAAATCACTAAAAACGGGTCATAAAATT
*
51351189 AACATAAAAATCACTAAAAACGGGTCATGAAAT
1 AACATAAAAATCACTAAAAACGGGTCATAAAAT
51351222 CTTACCATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.54, C:0.13, G:0.12, T:0.21
Consensus pattern (34 bp):
AACATAAAAATCACTAAAAACGGGTCATAAAATT
Found at i:51356372 original size:30 final size:31
Alignment explanation
Indices: 51356321--51356379 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
51356311 TATCTCAATT
* *
51356321 TCTTTTTCCACTTTTTTTTTCACTCTCAAAA
1 TCTTTTTCCAATTTCTTTTTCACTCTCAAAA
*
51356352 TCTTTTT-CAATTTCTTTTTCAGTCTCAA
1 TCTTTTTCCAATTTCTTTTTCACTCTCAA
51356380 TCTCATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.56
Consensus pattern (31 bp):
TCTTTTTCCAATTTCTTTTTCACTCTCAAAA
Found at i:51356412 original size:12 final size:12
Alignment explanation
Indices: 51356382--51356406 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51356372 AGTCTCAATC
51356382 TCATTTTATTTT
1 TCATTTTATTTT
51356394 TCATTTTATTTT
1 TCATTTTATTTT
51356406 T
1 T
51356407 GTTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTATTTT
Found at i:51360930 original size:20 final size:19
Alignment explanation
Indices: 51360907--51360946 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
51360897 ATTTATATAA
51360907 TTATATTACATATTATATTT
1 TTATATTACATATTAT-TTT
**
51360927 TTATATTTTATATTATTTT
1 TTATATTACATATTATTTT
51360946 T
1 T
51360947 AATAGTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATTACATATTATTTT
Found at i:51364543 original size:27 final size:27
Alignment explanation
Indices: 51364513--51364567 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
51364503 TTCTCAAACC
51364513 TACGTTATCTTGTGAACAATGTGTTTA
1 TACGTTATCTTGTGAACAATGTGTTTA
51364540 TACGTTATCTTGTGAACAATGTGTTTA
1 TACGTTATCTTGTGAACAATGTGTTTA
51364567 T
1 T
51364568 GTGTTTATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.45
Consensus pattern (27 bp):
TACGTTATCTTGTGAACAATGTGTTTA
Found at i:51367600 original size:68 final size:68
Alignment explanation
Indices: 51367510--51367667 Score: 289
Period size: 68 Copynumber: 2.3 Consensus size: 68
51367500 TTCACTTGGA
* *
51367510 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTACCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTACCTCTCTTGTCTACATGGGATACATCC
51367575 CGT
66 CGT
*
51367578 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTACCTCTCTTGTCTACATGGGATACATCC
51367643 CGT
66 CGT
51367646 ATCACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
51367668 TATATAGTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTACCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:51367700 original size:68 final size:68
Alignment explanation
Indices: 51367510--51367693 Score: 268
Period size: 68 Copynumber: 2.7 Consensus size: 68
51367500 TTCACTTGGA
* *
51367510 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTA-CCTCTCTTGTCTACATGGGATACATC
1 ATCACACATGTGACCTAGCTACATTTATCTCT-ACGTAGCCTCTCTTGTCTACATGGGATACATC
51367574 CCGT
65 CCGT
51367578 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAG-CTCTCTTGTCTACATGGGATACATC
1 ATCACACATGTGACCTAGCTACATTTATCTCT-ACGTAGCCTCTCTTGTCTACATGGGATACATC
51367642 CCGT
65 CCGT
* *
51367646 ATCACACATGTGACCTAGCTACTATATAGTATCT-CGTAGCCT-TCTTGT
1 ATCACACATGTGACCTAGCTAC-ATTTA-TCTCTACGTAGCCTCTCTTGT
51367694 ACACATGATG
Statistics
Matches: 108, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
68 98 0.91
69 6 0.06
70 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTACGTAGCCTCTCTTGTCTACATGGGATACATCC
CGT
Found at i:51369495 original size:115 final size:115
Alignment explanation
Indices: 51369293--51369525 Score: 457
Period size: 115 Copynumber: 2.0 Consensus size: 115
51369283 TAGTGAGCAT
51369293 ATTTTTGAATTAGATAAAGTTTGTGATGCATGTCTTAAGGGTAAACATAAAAAAGTTTCTTTTTA
1 ATTTTTGAATTAGATAAAGTTTGTGATGCATGTCTTAAGGGTAAACATAAAAAAGTTTCTTTTTA
51369358 ACCTATTAATGATGTATCAACTAGTAGAGTTCTCCAACTAATTCACATAG
66 ACCTATTAATGATGTATCAACTAGTAGAGTTCTCCAACTAATTCACATAG
*
51369408 ATTTTTGAATTAGATAAAGTTTGTGATGCATGTCTTAAGGGTAAACATCAAAAAGTTTCTTTTTA
1 ATTTTTGAATTAGATAAAGTTTGTGATGCATGTCTTAAGGGTAAACATAAAAAAGTTTCTTTTTA
51369473 ACCTATTAATGATGTATCAACTAGTAGAGTTCTCCAACTAATTCACATAG
66 ACCTATTAATGATGTATCAACTAGTAGAGTTCTCCAACTAATTCACATAG
51369523 ATT
1 ATT
51369526 AATTTGGTCC
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 117 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (115 bp):
ATTTTTGAATTAGATAAAGTTTGTGATGCATGTCTTAAGGGTAAACATAAAAAAGTTTCTTTTTA
ACCTATTAATGATGTATCAACTAGTAGAGTTCTCCAACTAATTCACATAG
Found at i:51371785 original size:15 final size:15
Alignment explanation
Indices: 51371767--51371796 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51371757 ACATATTGAG
51371767 ATTAGACATCATTTC
1 ATTAGACATCATTTC
*
51371782 ATTAGAGATCATTTC
1 ATTAGACATCATTTC
51371797 CATAAAGGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (15 bp):
ATTAGACATCATTTC
Found at i:51372387 original size:19 final size:20
Alignment explanation
Indices: 51372359--51372397 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
51372349 CGATACAATT
51372359 TTATTCATACCT-TTTAAAA
1 TTATTCATACCTGTTTAAAA
* *
51372378 TTATTGATACTTGTTTAAAA
1 TTATTCATACCTGTTTAAAA
51372398 AGCATTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (20 bp):
TTATTCATACCTGTTTAAAA
Found at i:51373529 original size:58 final size:58
Alignment explanation
Indices: 51373436--51373555 Score: 195
Period size: 58 Copynumber: 2.1 Consensus size: 58
51373426 TTGGATTTGG
*
51373436 CTTTAATCTTATTCAATGACATTATCAAACGTATTGGTCAAAAGCTTAAGGGTAAGCT
1 CTTTAATCTTATTCAATGACATTATCAAACATATTGGTCAAAAGCTTAAGGGTAAGCT
* * * *
51373494 CTTTAATCTTATTTAATGATATTATTAAACATATTGGTCAAAAGCTTGAGGGTAAGCT
1 CTTTAATCTTATTCAATGACATTATCAAACATATTGGTCAAAAGCTTAAGGGTAAGCT
51373552 CTTT
1 CTTT
51373556 TTGCCCTTCG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (58 bp):
CTTTAATCTTATTCAATGACATTATCAAACATATTGGTCAAAAGCTTAAGGGTAAGCT
Found at i:51377731 original size:27 final size:28
Alignment explanation
Indices: 51377675--51377744 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
51377665 AAACTTGTAC
51377675 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
51377703 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
51377730 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
51377745 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:51377755 original size:27 final size:27
Alignment explanation
Indices: 51377675--51377756 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
51377665 AAACTTGTAC
* *
51377675 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
51377703 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
51377730 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
51377757 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:51385694 original size:27 final size:28
Alignment explanation
Indices: 51385638--51385707 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
51385628 AAACTTGTAC
51385638 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
51385666 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
51385693 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
51385708 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:51385718 original size:27 final size:27
Alignment explanation
Indices: 51385638--51385719 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
51385628 AAACTTGTAC
* *
51385638 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
51385666 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
51385693 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
51385720 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:51387864 original size:21 final size:19
Alignment explanation
Indices: 51387833--51387882 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
51387823 TCTCTCTTAA
51387833 CAAAAA-TTATAAAATAATT
1 CAAAAATTTATAAAA-AATT
51387852 CAAAATATTTAT-AAAAATT
1 CAAAA-ATTTATAAAAAATT
*
51387871 CTAAAATTTATA
1 CAAAAATTTATA
51387883 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.22
19 13 0.48
20 4 0.15
21 4 0.15
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
CAAAAATTTATAAAAAATT
Found at i:51387914 original size:20 final size:20
Alignment explanation
Indices: 51387889--51387928 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51387879 TATATTTTTT
51387889 AAAAAATGATAAA-AATATTA
1 AAAAAAT-ATAAAGAATATTA
*
51387909 AAAAAATCTAAAGAATATTA
1 AAAAAATATAAAGAATATTA
51387929 CAATACCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAAAATATAAAGAATATTA
Found at i:51393477 original size:28 final size:29
Alignment explanation
Indices: 51393445--51393543 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
51393435 GACAAGATTG
* *
51393445 GCACTAAGTGTGCG-GTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTAAAATTATATA
** *
51393473 GCACTAAGTGTGCGAGTT-TGATTCTATA
1 GCACTAAGTGTGCGAGTTAAAATTATATA
*
51393501 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAG-TTAAAATTATATA
51393530 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
51393544 GATTTCACTA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 36 0.60
29 23 0.38
30 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTAAAATTATATA
Found at i:51395560 original size:14 final size:14
Alignment explanation
Indices: 51395543--51395575 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51395533 TTGGGGTAGG
51395543 TTTTTCTTT-TCTTT
1 TTTTTCTTTGT-TTT
51395557 TTTTTCTTTGTTTT
1 TTTTTCTTTGTTTT
51395571 TTTTT
1 TTTTT
51395576 TGGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (14 bp):
TTTTTCTTTGTTTT
Found at i:51396444 original size:29 final size:30
Alignment explanation
Indices: 51396388--51396448 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
51396378 TTTTGAAAAA
*
51396388 CAGAAATTAAAAGACTCAATTCAACTCTCG
1 CAGAAATTAAAAGACTCAACTCAACTCTCG
*
51396418 CAGAAATTAAAAG-CTCAACTCACCTCTCG
1 CAGAAATTAAAAGACTCAACTCAACTCTCG
51396447 CA
1 CA
51396449 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 16 0.55
30 13 0.45
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (30 bp):
CAGAAATTAAAAGACTCAACTCAACTCTCG
Found at i:51396681 original size:164 final size:163
Alignment explanation
Indices: 51396430--51397515 Score: 899
Period size: 164 Copynumber: 6.7 Consensus size: 163
51396420 GAAATTAAAA
* * * *
51396430 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAAAAAAAACAGAAATTGAAAATAGCT
1 GCTCAACTCACATCTCGCAATACGAGTTGATTTTTTG-----AAAAACAGAAATTGAAAATACCT
* * * * *
51396495 CAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAATTT
61 CAG-GCGTGATCTAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATT
* ** * * *
51396559 GAAAAATAGATTTTGAAAATACCTCGACATGTAACCCGAG
124 GAAAAACAGAAATTGAAAATACCTCGGCATGTGACCTGAG
** * *
51396599 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAAATATAAATTGAAAATACCTCAGT
1 GCTCAACTCACATCTCGCAATACGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAG-
*
51396664 GTGTGATCTAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA
64 GCGTGATCTAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAA
* *
51396729 AAACAGAAATTGAAAATACCTCGGCGTGTGACCTAAG
127 AAACAGAAATTGAAAATACCTCGGCATGTGACCTGAG
* * * * *
51396766 GCTCAACTCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCA-G
1 GCTCAACTCACATCTCGCAATACGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAATACCTCAGG
* *
51396829 CGTG-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAGGCAGAAATTGAA
65 CGTGATCT-AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA--CAGAAATTGAA
51396893 AAACAGAAATTGAAAATACCTCGGCATGTGACCTGAG
127 AAACAGAAATTGAAAATACCTCGGCATGTGACCTGAG
* *
51396930 GCTCAACTCGCA-CTCGCAATACGAGTTGATTTTTTGAAACTTAACTTGAAAAGCAGATTTGAAA
1 GCTCAACTCACATCTCGCAATACGAGTTGATTTTTTGAAA---AAC------AG-A-AATTGAAA
* * * * ** * * * *
51396994 ATACCTC-GACATGTGACTCGAGGCTCAACTCACCTCTCGCAGA-ATTA--CAAGTATTCG-CAA
55 ATACCTCAGGC--GTGA-TCTAAGCTCAACTCACCTCTCGCA-ATATGAGTTGATTTTTTGAAAA
* * * * ** *
51397054 TATAAATTG------A-AAA---AAAATACCACAGTGTGTGATCTGA-
116 CAGAAATTGAAAAACAGAAATTGAAAATACCTCGGCATGTGACCTGAG
* * *
51397091 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-----TCAGAAATTGAAAATACCTCA-GC
1 GCTCAACTCACATCTCGCAATACGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGGC
* * *
51397150 GTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-AAAACAGAAATTGAAAAAC
66 GTGATCTAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAAAC
* *
51397214 GGAAATTGAAAATACCTCGGCGTGTGACCTGAG
131 AGAAATTGAAAATACCTCGGCATGTGACCTGAG
* *
51397247 GCTCAACTCGCCA-CTCGCAATATGAGTTGATTTTTTG--AAACAGAAATTGAAAAT---TCA-G
1 GCTCAACTC-ACATCTCGCAATACGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGG
*
51397305 CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG-T--TTTTTTGAAAACAGAAATTG-AA
65 CGTGAT-CT-AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAA
*
51397365 AAC-GAAATTGAAAATACCTCGGCGTGTGACCTGAG
128 AACAGAAATTGAAAATACCTCGGCATGTGACCTGAG
* * *
51397400 GCTCAACTCACCTCTCGCAATATGAGTTGATTAAAACATAATAATGAAAAACA-AAATTGAAAAT
1 GCTCAACTCACATCTCGCAATACGAGTTGATT------T--T-TTGAAAAACAGAAATTGAAAAT
* *
51397464 ACCTCA-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
57 ACCTCAGGCGTGATCT-AAGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
51397516 GAAAAACAAA
Statistics
Matches: 762, Mismatches: 87, Indels: 136
0.77 0.09 0.14
Matches are distributed among these distances:
142 1 0.00
143 26 0.03
144 4 0.01
145 13 0.02
146 15 0.02
147 1 0.00
148 2 0.00
152 4 0.01
153 60 0.08
154 12 0.02
155 33 0.04
156 42 0.06
157 29 0.04
159 15 0.02
161 11 0.01
162 51 0.07
163 40 0.05
164 126 0.17
165 33 0.04
166 72 0.09
167 74 0.10
169 32 0.04
170 6 0.01
172 9 0.01
173 1 0.00
174 16 0.02
175 4 0.01
176 3 0.00
177 24 0.03
178 3 0.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (163 bp):
GCTCAACTCACATCTCGCAATACGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAGGC
GTGATCTAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAAAC
AGAAATTGAAAATACCTCGGCATGTGACCTGAG
Found at i:51396729 original size:14 final size:14
Alignment explanation
Indices: 51396710--51396744 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
51396700 GTTGATTTTT
*
51396710 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
51396724 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
51396738 TTGAAAA
1 TTGAAAA
51396745 TACCTCGGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:51396800 original size:90 final size:89
Alignment explanation
Indices: 51396634--51396819 Score: 273
Period size: 90 Copynumber: 2.1 Consensus size: 89
51396624 GTTGATTTTT
* * * * * *
51396634 TTGAAAAATATAAATTGAAAATACCTCAGTGTGTGATCTAAGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTAAGCTCAACTCACCTCTCACAATACG
51396699 AGTTGATTTTTTTGAAAGACAGAAA
66 AGTTGATTTTTTTGAAA-ACAGAAA
* *
51396724 TTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCACAATAC
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTAA-GCTCAACTCACCTCTCACAATAC
*
51396789 GAGTTGATTTTTTTGACAACAGAAA
65 GAGTTGATTTTTTTGAAAACAGAAA
51396814 TTGAAA
1 TTGAAA
51396820 TTACCTCAGC
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 49 0.57
91 37 0.43
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (89 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTAAGCTCAACTCACCTCTCACAATACG
AGTTGATTTTTTTGAAAACAGAAA
Found at i:51396866 original size:73 final size:73
Alignment explanation
Indices: 51396728--51396894 Score: 219
Period size: 73 Copynumber: 2.2 Consensus size: 73
51396718 CAGAAATTGA
* *
51396728 AAAACAGAAATTGAAAATACCTCGGCGTGTGACCTAAGGCTCAACTCGCCTCTCACAATACGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGTGT-A-CTAAGGCTCAACTCACCTCTCACAATACGAGT
51396793 TGATTTTTTT
64 TGATTTTTTT
* * * * *
51396803 GACAACAGAAATTGAAATTACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 -AAAACAGAAATTGAAAATACCTCAGCGTGTACTAAGGCTCAACTCACCTCTCACAATACGAGTT
51396867 GATTTTTTT
65 GATTTTTTT
51396876 AAAAGGCAGAAATTGAAAA
1 AAAA--CAGAAATTGAAAA
51396895 ACAGAAATTG
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
72 3 0.04
73 38 0.47
74 12 0.15
76 27 0.34
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTACTAAGGCTCAACTCACCTCTCACAATACGAGTTG
ATTTTTTT
Found at i:51396901 original size:14 final size:14
Alignment explanation
Indices: 51396882--51396908 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
51396872 TTTTAAAAGG
51396882 CAGAAATTGAAAAA
1 CAGAAATTGAAAAA
51396896 CAGAAATTGAAAA
1 CAGAAATTGAAAA
51396909 TACCTCGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
CAGAAATTGAAAAA
Found at i:51396963 original size:88 final size:87
Alignment explanation
Indices: 51396806--51397034 Score: 259
Period size: 86 Copynumber: 2.6 Consensus size: 87
51396796 TTTTTTTGAC
* * * * *
51396806 AACAGAAATTGAAATTACCTCAGC--GTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AACAGAAATTGAAAATACCTCGGCATGTGACTGAGGCTCAACTCACCACTCGCAATACGAGTTGA
51396869 TTTTTTTAAAAGGCAGAAATTGAAA
66 -TTTTTTAAAA--CAGAAATTGAAA
*
51396894 AACAGAAATTGAAAATACCTCGGCATGTGACCTGAGGCTCAACTC-GCACTCGCAATACGAGTTG
1 AACAGAAATTGAAAATACCTCGGCATGTGA-CTGAGGCTCAACTCACCACTCGCAATACGAGTTG
* ** *
51396958 ATTTTTTGAAACTTAACTTGAAA
65 ATTTTTTAAAACAGAAATTGAAA
* * * *
51396981 AGCAG-ATTTGAAAATACCTCGACATGTGACTCGAGGCTCAACTCACCTCTCGCA
1 AACAGAAATTGAAAATACCTCGGCATGTGACT-GAGGCTCAACTCACCACTCGCA
51397035 GAATTACAAG
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
85 2 0.02
86 34 0.28
87 20 0.17
88 22 0.18
89 9 0.07
90 20 0.17
91 14 0.12
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (87 bp):
AACAGAAATTGAAAATACCTCGGCATGTGACTGAGGCTCAACTCACCACTCGCAATACGAGTTGA
TTTTTTAAAACAGAAATTGAAA
Found at i:51397218 original size:14 final size:14
Alignment explanation
Indices: 51397195--51397225 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
51397185 TTGATTTTTT
51397195 AAAACAGAAATTGA
1 AAAACAGAAATTGA
*
51397209 AAAACGGAAATTGA
1 AAAACAGAAATTGA
51397223 AAA
1 AAA
51397226 TACCTCGGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.13
Consensus pattern (14 bp):
AAAACAGAAATTGA
Found at i:51397276 original size:88 final size:85
Alignment explanation
Indices: 51397130--51397299 Score: 277
Period size: 88 Copynumber: 2.0 Consensus size: 85
51397120 ATTTTTTTCA
*
51397130 GAAATTGAAAATACCTCAGCGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 GAAATTGAAAATACCTCAGCGTGACCGAGGCTCAACTCACCACTCGCAATATGAGTTGATTTTTT
51397195 AAAACAGAAATTGAAAAACG
66 AAAACAGAAATTGAAAAACG
* *
51397215 GAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCACTCGCAATATGAGTTGATTT
1 GAAATTGAAAATACCTCAGC--GTGACC-GAGGCTCAACTCACCACTCGCAATATGAGTTGATTT
*
51397280 TTTGAAACAGAAATTGAAAA
63 TTTAAAACAGAAATTGAAAA
51397300 TTCAGCGTGT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
85 19 0.24
87 6 0.08
88 53 0.68
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (85 bp):
GAAATTGAAAATACCTCAGCGTGACCGAGGCTCAACTCACCACTCGCAATATGAGTTGATTTTTT
AAAACAGAAATTGAAAAACG
Found at i:51397373 original size:12 final size:13
Alignment explanation
Indices: 51397347--51397378 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
51397337 ATGAGTTTTT
51397347 TTGAAAACAGAAA
1 TTGAAAACAGAAA
51397360 TTGAAAAC-GAAA
1 TTGAAAACAGAAA
51397372 TTGAAAA
1 TTGAAAA
51397379 TACCTCGGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:51397417 original size:84 final size:82
Alignment explanation
Indices: 51397284--51397533 Score: 316
Period size: 84 Copynumber: 3.0 Consensus size: 82
51397274 TGATTTTTTG
*
51397284 AAACAGAAATTGAAAAT---TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTT
1 AAACA-AAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTT
*
51397346 TTTGAAAACAGAAATTGA
65 TTTGAAAACAAAAATTGA
* *
51397364 AAACGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG-TT
1 AAACAAAATTGAAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTT
**
51397428 GATT-AAAACATAATAA-TGAA
64 TTTTGAAAACA-AA-AATTG-A
*
51397448 AAACAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 AAACAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-TT
51397513 TTTGAAAAACAAAAATT-A
65 TTTG-AAAACAAAAATTGA
51397531 AAA
1 AAA
51397534 GGCTTAACTC
Statistics
Matches: 146, Mismatches: 11, Indels: 23
0.81 0.06 0.13
Matches are distributed among these distances:
79 11 0.08
80 4 0.03
82 46 0.32
83 12 0.08
84 64 0.44
85 3 0.02
86 6 0.04
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (82 bp):
AAACAAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTTTT
TTGAAAACAAAAATTGA
Found at i:51397612 original size:61 final size:66
Alignment explanation
Indices: 51397533--51397693 Score: 172
Period size: 71 Copynumber: 2.4 Consensus size: 66
51397523 AAAAATTAAA
* * *
51397533 AGGCTTAACTCACCTCTCGCAATATGAGT-AATTT-AA-AAC-TAAAAATACCTCAGCGTG-CCC
1 AGGCTCAACTCACTTCTCGCAATATGAGTGAATTTAAACAACATAAAAATACCTCAACGTGTCCC
51397593 G
66 G
*
51397594 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAACAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAG-TGAATTT--AAACAAC-A-TAAAAATACCTCAACGT
**
51397659 GTCTTG
61 GTCCCG
51397665 AGGCTCAACTCA-TCTCTCGCAATATGAGT
1 AGGCTCAACTCACT-TCTCGCAATATGAGT
51397694 TGATTTTCCT
Statistics
Matches: 83, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
61 26 0.31
62 1 0.01
63 4 0.05
66 2 0.02
67 3 0.04
70 19 0.23
71 28 0.34
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (66 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTGAATTTAAACAACATAAAAATACCTCAACGTGTCCC
G
Found at i:51406330 original size:31 final size:31
Alignment explanation
Indices: 51406272--51406330 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
51406262 TAAAATAATG
* *
51406272 ATATGTGCAAAAAATATATATATATATATAC
1 ATATGTACAAAAAATATACATATATATATAC
*
51406303 ATATGTACATAAAATATACACTA-ATATA
1 ATATGTACAAAAAATATACA-TATATATA
51406331 ATAATAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (31 bp):
ATATGTACAAAAAATATACATATATATATAC
Found at i:51406981 original size:18 final size:18
Alignment explanation
Indices: 51406958--51407016 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 18
51406948 TTTTTTATCT
51406958 TTTTTTGTTAGGTTTTTC
1 TTTTTTGTTAGGTTTTTC
* * *
51406976 TTTTTTCTT--CTTTTTT
1 TTTTTTGTTAGGTTTTTC
51406992 TTTTTTGGGTTAGGTTTTTC
1 TTTTTT--GTTAGGTTTTTC
51407012 TTTTT
1 TTTTT
51407017 CTTTTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
16 11 0.35
18 10 0.32
20 10 0.32
ACGTcount: A:0.03, C:0.07, G:0.14, T:0.76
Consensus pattern (18 bp):
TTTTTTGTTAGGTTTTTC
Found at i:51407004 original size:36 final size:32
Alignment explanation
Indices: 51406948--51407026 Score: 104
Period size: 36 Copynumber: 2.3 Consensus size: 32
51406938 GTGGCTAGGT
51406948 TTTTTTATCTTTTTTTGTTAGGTTTTTCTTTTTTC
1 TTTTTT-T-TTTTTTTGTTAGGTTTTTC-TTTTTC
51406983 TTCTTTTTTTTTTTTGGGTTAGGTTTTTCTTTTTC
1 TT-TTTTTTTTTTTT--GTTAGGTTTTTCTTTTTC
51407018 TTTTTTTTT
1 TTTTTTTTT
51407027 CTTTGTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
34 14 0.34
35 11 0.27
36 16 0.39
ACGTcount: A:0.04, C:0.08, G:0.10, T:0.78
Consensus pattern (32 bp):
TTTTTTTTTTTTTTGTTAGGTTTTTCTTTTTC
Found at i:51407016 original size:42 final size:43
Alignment explanation
Indices: 51406970--51407053 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
51406960 TTTTGTTAGG
51406970 TTTTTCTTTTTTCTTCTTT-TTTTTTTTTGGGTTAGGTTTTTC
1 TTTTTCTTTTTTCTTCTTTGTTTTTTTTTGGGTTAGGTTTTTC
*
51407012 TTTTTCTTTTTTTTTCTTTGTTTTTTTTTGGGTTAGGTTTTT
1 TTTTTCTTTTTTCTTCTTTGTTTTTTTTTGGGTTAGGTTTTT
51407054 TTTGGGGGGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 18 0.45
43 22 0.55
ACGTcount: A:0.02, C:0.07, G:0.13, T:0.77
Consensus pattern (43 bp):
TTTTTCTTTTTTCTTCTTTGTTTTTTTTTGGGTTAGGTTTTTC
Found at i:51407025 original size:16 final size:16
Alignment explanation
Indices: 51407006--51407040 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
51406996 TTGGGTTAGG
51407006 TTTTTCTTT-TTCTTTT
1 TTTTTCTTTGTT-TTTT
51407022 TTTTTCTTTGTTTTTT
1 TTTTTCTTTGTTTTTT
51407038 TTT
1 TTT
51407041 GGGTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (16 bp):
TTTTTCTTTGTTTTTT
Found at i:51409007 original size:40 final size:39
Alignment explanation
Indices: 51408924--51409115 Score: 138
Period size: 40 Copynumber: 4.8 Consensus size: 39
51408914 TTGAATGATG
* * * * *
51408924 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
51408964 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * * * *
51409004 TCCGGGCCAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* *
51409043 -CCAGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA
1 TCC-GGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
51409084 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
51409116 CGTTATATCC
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
38 2 0.02
39 29 0.23
40 82 0.66
41 11 0.09
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:51409060 original size:79 final size:82
Alignment explanation
Indices: 51408924--51409108 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
51408914 TTGAATGATG
* *
51408924 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATT
51408988 CGTGCGAGTTAATA-AA
66 CGTGCGAGTTAATATAA
* * **
51409004 TCCGGGCCAAG-CCCGAAGGCATTTGTGC-AAGTTACTA-AACCAGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATAACC-GGACTAAGAT-CCGAAGGCA
*
51409065 TTCGTGCGAGTTACTATAA
64 TTCGTGCGAGTTAATATAA
**
51409084 -CCGGGCTTTGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51409109 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 4 0.04
79 53 0.59
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTAATATAA
Found at i:51409573 original size:15 final size:15
Alignment explanation
Indices: 51409553--51409582 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51409543 CCCTTTTGGT
51409553 ATTCTTTTAGTTGAA
1 ATTCTTTTAGTTGAA
51409568 ATTCTTTTAGTTGAA
1 ATTCTTTTAGTTGAA
51409583 CTCTGGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (15 bp):
ATTCTTTTAGTTGAA
Found at i:51413265 original size:33 final size:33
Alignment explanation
Indices: 51413228--51413293 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
51413218 AAGGTGTAAG
51413228 AATGATAAGATAATTCGAATTAAGTCTAGTGAT
1 AATGATAAGATAATTCGAATTAAGTCTAGTGAT
* *
51413261 AATGATAAGATAATTTGAATTGAGTCTAGTGAT
1 AATGATAAGATAATTCGAATTAAGTCTAGTGAT
51413294 CTGAATGGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.35
Consensus pattern (33 bp):
AATGATAAGATAATTCGAATTAAGTCTAGTGAT
Found at i:51418977 original size:19 final size:19
Alignment explanation
Indices: 51418955--51419177 Score: 95
Period size: 20 Copynumber: 11.4 Consensus size: 19
51418945 TACCAAAAAC
*
51418955 ATGAGGGAATACAAAAATT
1 ATGAGGAAATACAAAAATT
*
51418974 ATGAGAAAATACTAAAAATT
1 ATGAGGAAATAC-AAAAATT
*
51418994 -T-A-GAAATTACCAAAAACT
1 ATGAGGAAA-TA-CAAAAATT
*
51419012 AT-AAGAGAATACAAAAATTT
1 ATGAGGA-AATACAAAAA-TT
51419032 ATGA-GAAAGTACAAAAAAGTT
1 ATGAGGAAA-TAC-AAAAA-TT
*
51419053 ATGAAGGAATATA-AAAAA-A
1 ATG-AGGAA-ATACAAAAATT
* * *
51419072 AAGA-AAAAGTACAAAAAAT
1 ATGAGGAAA-TACAAAAATT
** * *
51419091 ATGTTGTAATACCAGAAATT
1 ATGAGGAAATA-CAAAAATT
* *
51419111 ATGAGAAAATACAAAATTT
1 ATGAGGAAATACAAAAATT
*
51419130 ATGAGAAAATACTAAAAATT
1 ATGAGGAAATAC-AAAAATT
* *
51419150 ATAAGGGAATACTAAAAAATT
1 ATGAGGAAATAC--AAAAATT
51419171 -TGAGGAA
1 ATGAGGAA
51419178 GTAAAGAAAA
Statistics
Matches: 155, Mismatches: 29, Indels: 39
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.01
17 7 0.05
18 15 0.10
19 46 0.30
20 54 0.35
21 25 0.16
22 1 0.01
23 5 0.03
24 1 0.01
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (19 bp):
ATGAGGAAATACAAAAATT
Found at i:51419008 original size:18 final size:20
Alignment explanation
Indices: 51418922--51419151 Score: 126
Period size: 20 Copynumber: 11.8 Consensus size: 20
51418912 GGTGTTACAC
*
51418922 AAATACCAAAAATTAAGA-A
1 AAATACCAAAAATTATGAGA
* *
51418941 AAAGTACCAAAAA-CATGAGG
1 AAA-TACCAAAAATTATGAGA
*
51418961 GAATA-CAAAAATTATGAGA
1 AAATACCAAAAATTATGAGA
*
51418980 AAATACTAAAAATT-T-AGA
1 AAATACCAAAAATTATGAGA
* * *
51418998 AATTACCAAAAACTATAAGA
1 AAATACCAAAAATTATGAGA
*
51419018 GAATA-CAAAAATTTATGAGA
1 AAATACCAAAAA-TTATGAGA
* *
51419038 AAGTACAAAAAAGTTATGAAGGA
1 AAATACCAAAAA-TTATG-A-GA
* * *
51419061 ATATA--AAAAA-AAAGA-A
1 AAATACCAAAAATTATGAGA
* *
51419077 AAAGTA-CAAAAAATATGTTG-
1 AAA-TACCAAAAATTATG-AGA
* *
51419097 TAATACCAGAAATTATGAGA
1 AAATACCAAAAATTATGAGA
*
51419117 AAATA-CAAAATTTATGAGA
1 AAATACCAAAAATTATGAGA
*
51419136 AAATACTAAAAATTAT
1 AAATACCAAAAATTAT
51419152 AAGGGAATAC
Statistics
Matches: 157, Mismatches: 36, Indels: 35
0.69 0.16 0.15
Matches are distributed among these distances:
16 3 0.02
17 2 0.01
18 26 0.17
19 49 0.31
20 56 0.36
21 15 0.10
22 1 0.01
23 5 0.03
ACGTcount: A:0.60, C:0.07, G:0.12, T:0.21
Consensus pattern (20 bp):
AAATACCAAAAATTATGAGA
Found at i:51419034 original size:58 final size:57
Alignment explanation
Indices: 51418922--51419049 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 57
51418912 GGTGTTACAC
* * *
51418922 AAATACCAAAAATTAAGAAAAAGTACCAAAAACATGAGGGAATACAAAAATTATGAGA
1 AAATACAAAAAATTAAG-AAAAGTACCAAAAACATAAGAGAATACAAAAATTATGAGA
* * *
51418980 AAATACTAAAAATTTAG-AAATTACCAAAAACTATAAGAGAATACAAAAATTTATGAGA
1 AAATACAAAAAATTAAGAAAAGTACCAAAAAC-ATAAGAGAATACAAAAA-TTATGAGA
*
51419038 AAGTACAAAAAA
1 AAATACAAAAAA
51419050 GTTATGAAGG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
56 13 0.21
57 15 0.25
58 33 0.54
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (57 bp):
AAATACAAAAAATTAAGAAAAGTACCAAAAACATAAGAGAATACAAAAATTATGAGA
Found at i:51419521 original size:18 final size:19
Alignment explanation
Indices: 51419470--51419562 Score: 77
Period size: 18 Copynumber: 5.0 Consensus size: 19
51419460 TAAATGCAAG
* *
51419470 AAATTATGACAATATA-TA
1 AAATTATGAAAATATACCA
*
51419488 AAA-AATG-AAATAATACCA
1 AAATTATGAAAAT-ATACCA
51419506 AAATTAT-AAAATATACCA
1 AAATTATGAAAATATACCA
* * *
51419524 ATATTATGAAAAAATATCA
1 AAATTATGAAAATATACCA
*
51419543 TAAATTATGAAAGTATACCA
1 -AAATTATGAAAATATACCA
51419563 CTTATTAACT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
16 3 0.05
17 6 0.10
18 19 0.33
19 15 0.26
20 15 0.26
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (19 bp):
AAATTATGAAAATATACCA
Found at i:51424446 original size:2 final size:2
Alignment explanation
Indices: 51424439--51424463 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51424429 TCGATCGGAG
51424439 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
51424464 GAATACGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51424588 original size:29 final size:29
Alignment explanation
Indices: 51424564--51424655 Score: 175
Period size: 29 Copynumber: 3.2 Consensus size: 29
51424554 TCGCACACCC
*
51424564 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
51424593 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
51424622 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
51424651 AGTGC
1 AGTGC
51424656 TAATCTCGTC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:51424589 original size:58 final size:58
Alignment explanation
Indices: 51424527--51424655 Score: 170
Period size: 58 Copynumber: 2.2 Consensus size: 58
51424517 ATTTAAGCCC
* * * *
51424527 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
51424585 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
51424643 GCACACTTAGTGC
1 GCACACTTAGTGC
51424656 TAATCTCGTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:51426359 original size:21 final size:21
Alignment explanation
Indices: 51426321--51426394 Score: 64
Period size: 21 Copynumber: 3.4 Consensus size: 21
51426311 TGTTAATATG
*
51426321 GTGTGGATAAA-TCACTCAATA
1 GTGTGGATAAACT-GCTCAATA
51426342 GTGTGGATAAACTGCTCAA-A
1 GTGTGGATAAACTGCTCAATA
*
51426362 CG-GTGCAGATAAACTGCTCAAATG
1 -GTGTG--GATAAACTGCTC-AATA
51426386 GTGTGGATA
1 GTGTGGATA
51426395 TACCAATCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
20 4 0.09
21 17 0.39
22 17 0.39
23 3 0.07
24 3 0.07
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (21 bp):
GTGTGGATAAACTGCTCAATA
Found at i:51426394 original size:22 final size:22
Alignment explanation
Indices: 51426318--51426394 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
51426308 AGTTGTTAAT
*
51426318 ATGGTGTGGATAAA-TCACTC-A
1 ATGGTGTGGATAAACT-GCTCAA
*
51426339 ATAGTGTGGATAAACTGCTCAA
1 ATGGTGTGGATAAACTGCTCAA
* **
51426361 ACGGTGCAGATAAACTGCTCAA
1 ATGGTGTGGATAAACTGCTCAA
51426383 ATGGTGTGGATA
1 ATGGTGTGGATA
51426395 TACCAATCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 16 0.36
22 29 0.64
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (22 bp):
ATGGTGTGGATAAACTGCTCAA
Found at i:51426566 original size:34 final size:33
Alignment explanation
Indices: 51426494--51426624 Score: 122
Period size: 34 Copynumber: 3.8 Consensus size: 33
51426484 ATCAATGCGG
* * * *
51426494 TAATATGCTTATAA-CATATCGAAATAGTAGCAAT
1 TAATATGCTT-TAATCAAATC-AATTAGTACCAAA
*
51426528 TAATATGCTTATAA-AAAATCAATTAAGTACCAAA
1 TAATATGCTT-TAATCAAATCAATT-AGTACCAAA
* * *
51426562 TAATATGCTTTAATTAGATCAATTCAGTATCAAA
1 TAATATGCTTTAATCAAATCAATT-AGTACCAAA
51426596 TAATATGCTTTAATCAAATCAATTTAGTA
1 TAATATGCTTTAATCAAATCAA-TTAGTA
51426625 GCTAACGACA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
33 6 0.07
34 75 0.90
35 2 0.02
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.35
Consensus pattern (33 bp):
TAATATGCTTTAATCAAATCAATTAGTACCAAA
Found at i:51426653 original size:13 final size:13
Alignment explanation
Indices: 51426635--51426659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51426625 GCTAACGACA
51426635 TGTTTATCATGTC
1 TGTTTATCATGTC
51426648 TGTTTATCATGT
1 TGTTTATCATGT
51426660 GATCGGTTTA
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:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (13 bp):
TGTTTATCATGTC
Found at i:51429408 original size:18 final size:17
Alignment explanation
Indices: 51429385--51429418 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
51429375 GATAATCTCT
51429385 TTTTAATTATTTATCATC
1 TTTTAATTATTT-TCATC
51429403 TTTTAATTATTTTCAT
1 TTTTAATTATTTTCAT
51429419 TTCCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAATTATTTTCATC
Found at i:51432322 original size:25 final size:28
Alignment explanation
Indices: 51432288--51432347 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
51432278 CTTATGAGCA
51432288 TCCCGATTAAA-GGT-TCTTTGTGAACT
1 TCCCGATTAAATGGTATCTTTGTGAACT
* *
51432314 TCCCG-TTAAATTGTATCTTTGTGAGCT
1 TCCCGATTAAATGGTATCTTTGTGAACT
*
51432341 TCTCGAT
1 TCCCGAT
51432348 AATGCTAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 5 0.18
26 7 0.25
27 15 0.54
28 1 0.04
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (28 bp):
TCCCGATTAAATGGTATCTTTGTGAACT
Found at i:51438513 original size:5 final size:6
Alignment explanation
Indices: 51438481--51438538 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
51438471 AAAGTCTAGG
* * * * **
51438481 AAAATA CAAATA AATAGA AAAATA AAAATA AAAACTA ATAGGA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
51438530 AAAATA AAA
1 AAAATA AAA
51438539 GAAAATAAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
6 35 0.90
7 4 0.10
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:51438545 original size:25 final size:24
Alignment explanation
Indices: 51438481--51438538 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 24
51438471 AAAGTCTAGG
* *
51438481 AAAATACAAATAAATAGAAAAATA
1 AAAATAAAAACAAATAGAAAAATA
*
51438505 AAAATAAAAACTAATAGGAAAAATA
1 AAAATAAAAACAAATA-GAAAAATA
51438530 AAAATAAAA
1 AAAATAAAA
51438539 GAAAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (24 bp):
AAAATAAAAACAAATAGAAAAATA
Found at i:51446996 original size:39 final size:39
Alignment explanation
Indices: 51446953--51447030 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
51446943 CAAGGAGAAG
51446953 GATTTGTGGCAACTACAAAAGGTAGCTGATTATTCTGAT
1 GATTTGTGGCAACTACAAAAGGTAGCTGATTATTCTGAT
* *
51446992 GATTTGTGGCAACTATAGAAGGTAGCTGATTATTCTGAT
1 GATTTGTGGCAACTACAAAAGGTAGCTGATTATTCTGAT
51447031 TTTCAGTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (39 bp):
GATTTGTGGCAACTACAAAAGGTAGCTGATTATTCTGAT
Found at i:51454537 original size:37 final size:37
Alignment explanation
Indices: 51454487--51454557 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
51454477 CGAAGTCTTA
51454487 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
* *
51454524 CCCGGATATAATCTCCACATGTAGTCATCGGGTC
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
51454558 TCACCCGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.24
Consensus pattern (37 bp):
CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
Found at i:51454565 original size:37 final size:36
Alignment explanation
Indices: 51454485--51454571 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 36
51454475 TACGAAGTCT
51454485 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
* * *
51454521 GTGCCCGGATATAATCTCCACATGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
51454558 TCACCCGGAACATA
1 T-ACCCGG-ACATA
51454572 TTTCCAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 38 0.88
38 4 0.09
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:51454707 original size:49 final size:49
Alignment explanation
Indices: 51454640--51454943 Score: 493
Period size: 49 Copynumber: 6.1 Consensus size: 49
51454630 TTTACCACAT
* *
51454640 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
51454689 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
51454738 ATATATATACCTTTTCACATTCATCACATCGGCC-TAATGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTA-GGCCTTATCAC
*
51454787 ATATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 --ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
51454838 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CAC
51454889 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
51454938 ATATAT
1 ATATAT
51454944 TATTATGTAC
Statistics
Matches: 239, Mismatches: 10, Indels: 12
0.92 0.04 0.05
Matches are distributed among these distances:
48 2 0.01
49 145 0.61
51 90 0.38
52 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:51454803 original size:100 final size:99
Alignment explanation
Indices: 51454640--51454943 Score: 524
Period size: 100 Copynumber: 3.1 Consensus size: 99
51454630 TTTACCACAT
51454640 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC-ATATATATACATTTT
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACAATATATATACATTTT
51454704 CACATTCATCACATCGGCCATTAGGCCTTATCAC
66 CACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
51454738 ATATATATAC-CTTTTCACATTCATCACATCGGCC-TAATGGCCTTATCACATATATATATACAT
1 ATATATATACAC-TTTCACATTCATCACGTCGGCCATTA-GGCCTTATCACA-ATATATATACAT
*
51454801 TTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
63 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
51454838 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACACATATATATACATTT
1 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACA-ATATATATACATTT
51454903 TCACATTCATCACATCGGCCATTAGGCCTTATCAC
65 TCACATTCATCACATCGGCCATTAGGCCTTATCAC
51454938 ATATAT
1 ATATAT
51454944 TATTATGTAC
Statistics
Matches: 193, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
97 3 0.02
98 42 0.22
100 145 0.75
101 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (99 bp):
ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACAATATATATACATTTT
CACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:51467430 original size:15 final size:15
Alignment explanation
Indices: 51467401--51467456 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
51467391 TATGATATTG
*
51467401 TATCTTAGA-TTTTT
1 TATCTTGGATTTTTT
51467415 TATCTTGGATTTTTT
1 TATCTTGGATTTTTT
* * * *
51467430 TGTCCTGGACTTCTT
1 TATCTTGGATTTTTT
51467445 TATCTTGG-TTTT
1 TATCTTGGATTTT
51467457 CATGTCATCT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 10 0.31
15 22 0.69
ACGTcount: A:0.12, C:0.12, G:0.14, T:0.61
Consensus pattern (15 bp):
TATCTTGGATTTTTT
Found at i:51472634 original size:24 final size:24
Alignment explanation
Indices: 51472602--51472664 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
51472592 AATCTCAAAT
51472602 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
51472626 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
51472650 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
51472665 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:51480460 original size:24 final size:24
Alignment explanation
Indices: 51480428--51480490 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
51480418 AATCTCAAAT
51480428 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
51480452 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
51480476 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
51480491 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:51480522 original size:13 final size:13
Alignment explanation
Indices: 51480504--51480530 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51480494 TAATAAGCAC
51480504 TATGTGTGCAACA
1 TATGTGTGCAACA
51480517 TATGTGTGCAACA
1 TATGTGTGCAACA
51480530 T
1 T
51480531 TCGGTTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TATGTGTGCAACA
Found at i:51483075 original size:30 final size:29
Alignment explanation
Indices: 51483010--51483103 Score: 163
Period size: 29 Copynumber: 3.2 Consensus size: 29
51483000 GTGACGAGAT
51483010 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
51483039 -GGCACTAAGTGTGCAATGCTGGAAATATA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
51483068 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
51483097 CGGCACT
1 TGGCACT
51483104 GGGTGTGCGA
Statistics
Matches: 62, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
28 14 0.23
29 34 0.55
30 14 0.23
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:51490449 original size:29 final size:29
Alignment explanation
Indices: 51490416--51490480 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
51490406 GTCACGAGAT
51490416 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
51490445 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
51490474 CGGCACT
1 TGGCACT
51490481 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:51494092 original size:40 final size:40
Alignment explanation
Indices: 51494048--51494260 Score: 324
Period size: 40 Copynumber: 5.3 Consensus size: 40
51494038 AAACGTCTTT
* *
51494048 GGGACTTAGCTCGGTTATAGTAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC
51494088 GGGACTTAGCCCGGATATAGT-ACTTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTC
*
51494128 GGGACTTAGCCCGGATATAGTAACTCGCACCAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC
*
51494168 GGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC
* * *
51494208 GGGACTT-GCCCGGA-ACTAGTCACTAGCGCAAATGCCTTC
1 GGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTC
51494247 GGGACTTAGCCCGG
1 GGGACTTAGCCCGG
51494261 TTATCATCCA
Statistics
Matches: 160, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.01
39 35 0.22
40 122 0.76
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC
Found at i:51497897 original size:20 final size:22
Alignment explanation
Indices: 51497857--51497897 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
51497847 TTATTTAAAC
*
51497857 TTTAAGACATTAGAGAATCATT
1 TTTAAGAAATTAGAGAATCATT
51497879 TTTAAGAAATTA-A-AATCAT
1 TTTAAGAAATTAGAGAATCAT
51497898 AGGTTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (22 bp):
TTTAAGAAATTAGAGAATCATT
Found at i:51502444 original size:23 final size:23
Alignment explanation
Indices: 51502414--51502519 Score: 194
Period size: 23 Copynumber: 4.6 Consensus size: 23
51502404 GTTAATGCCT
51502414 CACACGCCCGTGTGGAGACATTG
1 CACACGCCCGTGTGGAGACATTG
51502437 CACACGCCCGTGTGGAGACATTG
1 CACACGCCCGTGTGGAGACATTG
51502460 CACACGCCCGTGTGGAGACATTG
1 CACACGCCCGTGTGGAGACATTG
*
51502483 CACACGCCCGTGTGGAGACATTA
1 CACACGCCCGTGTGGAGACATTG
*
51502506 CACACGCCCATGTG
1 CACACGCCCGTGTG
51502520 CTTTGGGACA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGACATTG
Found at i:51514679 original size:14 final size:14
Alignment explanation
Indices: 51514655--51514689 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
51514645 ATCATTTCAT
51514655 TAATACACATACACA
1 TAAT-CACATACACA
51514670 TAATCACATACACA
1 TAATCACATACACA
51514684 TAATCA
1 TAATCA
51514690 TACTTACTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (14 bp):
TAATCACATACACA
Found at i:51514989 original size:40 final size:39
Alignment explanation
Indices: 51514922--51515111 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 39
51514912 TATAACCACG
51514922 TGCACGAATGCCTT-GGGTCTTAGCCCGGATTTAACGACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAAC-ACT
51514961 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAAC-ACT
* *
51515001 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTA-ACACT
* * * *
51515041 AGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATTACT
1 TGCACGAA-TGCCTTCGGGTCTTAGCCCGGATTTAA-CACT
* ** * *
51515081 AGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGAT
51515112 ATCATTCAAT
Statistics
Matches: 134, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 16 0.12
40 115 0.86
41 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (39 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACACT
Found at i:51522194 original size:40 final size:40
Alignment explanation
Indices: 51522149--51522315 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
51522139 CGGAATATAA
51522149 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
51522189 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
51522229 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
51522269 CCGGATATAATTTCCAGCATAATTGTCTTCGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51522308 CCGGATAT
1 CCGGATAT
51522316 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 93 0.88
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51526531 original size:40 final size:39
Alignment explanation
Indices: 51526472--51526662 Score: 222
Period size: 40 Copynumber: 4.8 Consensus size: 39
51526462 TATAACCACG
*
51526472 TGCACGAATGCCTTTGGGTCTTAGCCCGGATTTAACGACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAAC-ACT
51526512 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAAC-ACT
* *
51526552 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTA-ACACT
* * * *
51526592 AGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATTACT
1 TGCACGAA-TGCCTTCGGGTCTTAGCCCGGATTTAA-CACT
* ** * *
51526632 AGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGAT
51526663 ATCATTCAAT
Statistics
Matches: 134, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
39 2 0.01
40 129 0.96
41 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (39 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACACT
Found at i:51529246 original size:12 final size:11
Alignment explanation
Indices: 51529216--51529256 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
51529206 TATTAACATG
51529216 TTAAATTTTAA
1 TTAAATTTTAA
51529227 TT-AATTTTATA
1 TTAAATTTTA-A
*
51529238 TTAAATTTTGA
1 TTAAATTTTAA
51529249 TT-AATTTT
1 TTAAATTTT
51529257 GATCATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 13 0.48
11 8 0.30
12 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTAAATTTTAA
Found at i:51546045 original size:24 final size:24
Alignment explanation
Indices: 51546018--51546064 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
51546008 GAGAGATAAA
51546018 CAGTTGCTTGAAAAGTTCAACAAG
1 CAGTTGCTTGAAAAGTTCAACAAG
*
51546042 CAGTTGTTTGAAAAGTTCAACAA
1 CAGTTGCTTGAAAAGTTCAACAA
51546065 ATGTGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (24 bp):
CAGTTGCTTGAAAAGTTCAACAAG
Found at i:51550824 original size:43 final size:43
Alignment explanation
Indices: 51550775--51550925 Score: 178
Period size: 43 Copynumber: 3.5 Consensus size: 43
51550765 GATTACCGAG
*
51550775 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * *
51550817 ACTGTGATTACGTGTAAGACTATGTTTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * * * *
51550861 ATATGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
*
51550904 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
51550926 ATATGGGATA
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.01
43 86 0.97
44 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:51559489 original size:40 final size:39
Alignment explanation
Indices: 51559362--51559612 Score: 311
Period size: 40 Copynumber: 6.5 Consensus size: 39
51559352 AAGCCAAGTA
* * *
51559362 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAATG
*
51559400 CCTT-GGGACATAGCCCGGATATAGTAACTCGCACAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
51559438 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
51559478 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC-AATG
* *
51559518 CCTTCGGGACTTAGCCCGGATGTAATAACTCG--CAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
* * *
51559555 CCTT-GGGACTTAGCCC-GAAACTAGTCACTAGTGCA-AATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAATG
51559594 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
51559613 TTATCATCCA
Statistics
Matches: 190, Mismatches: 12, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
35 2 0.01
36 18 0.09
37 15 0.08
38 31 0.16
39 37 0.19
40 86 0.45
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATG
Found at i:51559592 original size:116 final size:116
Alignment explanation
Indices: 51559362--51559612 Score: 323
Period size: 116 Copynumber: 2.2 Consensus size: 116
51559352 AAGCCAAGTA
* * * *
51559362 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAATGCCTTGGGACATAGCCCGGATATAGTA
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAATGCCTTGGGACATAGCCCGGATATAATA
* *
51559426 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 ACTCG-ACAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTAGCACAAATG
* *
51559478 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTA
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCAC-AATGCCTT-GGGACATAGCCCGGATATA
* **
51559542 ATAACTCG-CAATGCCTT-GGGACTTAGCCC-GAAACTAGTCACTAGTGCAAATG
63 ATAACTCGACAATGCCTTCGGGACTTAGCCCGGAAA-TAGTAACTAGCACAAATG
51559594 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
51559613 TTATCATCCA
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
115 3 0.03
116 58 0.49
117 26 0.22
118 8 0.07
119 24 0.20
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (116 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAATGCCTTGGGACATAGCCCGGATATAATA
ACTCGACAATGCCTTCGGGACTTAGCCCGGAAATAGTAACTAGCACAAATG
Found at i:51559608 original size:76 final size:76
Alignment explanation
Indices: 51559395--51559612 Score: 289
Period size: 76 Copynumber: 2.8 Consensus size: 76
51559385 GCTACTCGCT
*
51559395 CAATGCCTTGGGACATAGCCCGGATATAGTAACT-CGCACAATGCCTTCGGGACTTAGCCCGGAT
1 CAATGCCTTGGGACTTAGCCCGGATATAGTAACTGCGCA-AATGCCTTCGGGACTTAGCCCGGAT
*
51559459 ATAGTAACTCGCA
65 ATAATAACTCG-A
*
51559472 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 C-AATGCCTT-GGGACTTAGCCCGGATATAGTAACT-GCGCAAATGCCTTCGGGACTTAGCCCGG
*
51559537 ATGTAATAACTCG-
63 ATATAATAACTCGA
* * *
51559550 CAATGCCTTGGGACTTAGCCC-GAAACTAGTCACTAGTGCAAATGCCTTCGGGACTTAGCCCGG
1 CAATGCCTTGGGACTTAGCCCGGATA-TAGTAACT-GCGCAAATGCCTTCGGGACTTAGCCCGG
51559613 TTATCATCCA
Statistics
Matches: 127, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
75 3 0.02
76 45 0.35
77 9 0.07
78 9 0.07
79 24 0.19
80 34 0.27
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (76 bp):
CAATGCCTTGGGACTTAGCCCGGATATAGTAACTGCGCAAATGCCTTCGGGACTTAGCCCGGATA
TAATAACTCGA
Found at i:51567602 original size:40 final size:40
Alignment explanation
Indices: 51567475--51567727 Score: 342
Period size: 39 Copynumber: 6.5 Consensus size: 40
51567465 AAGCCAAGTA
* * *
51567475 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
51567513 CCTTCGGGACATAGCCCGGATATAGTAACT-GCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51567551 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
51567591 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
51567630 CCTTCGGGACTTAG-CCGGATGTAATAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
51567669 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
51567709 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
51567728 TTATCATCCA
Statistics
Matches: 197, Mismatches: 12, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
38 48 0.24
39 92 0.47
40 57 0.29
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:51571521 original size:53 final size:55
Alignment explanation
Indices: 51571458--51571615 Score: 194
Period size: 53 Copynumber: 2.9 Consensus size: 55
51571448 TTCCTTTTTA
* *
51571458 AACTTGCCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
* * * *
51571511 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCGT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
** * * * *
51571566 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTT
51571616 GTAAAACAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 46 0.53
54 1 0.01
55 40 0.46
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
Found at i:51590567 original size:25 final size:26
Alignment explanation
Indices: 51590539--51590589 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
51590529 GGTTGACGTA
51590539 AGAAGAAAAAATA-AAG-GGGGGAGAG
1 AGAAGAAAAAA-AGAAGAGGGGGAGAG
51590564 AGAAGAAAAAAAGAAGAGGGGGAGAG
1 AGAAGAAAAAAAGAAGAGGGGGAGAG
51590590 CTTTTTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 1 0.04
25 14 0.58
26 9 0.38
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.02
Consensus pattern (26 bp):
AGAAGAAAAAAAGAAGAGGGGGAGAG
Found at i:51610238 original size:30 final size:30
Alignment explanation
Indices: 51610204--51610263 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
51610194 CTTTAATATG
51610204 AACTTTGGCAAAATTAC-ATTTTTGCCCCTA
1 AACTTTGGCAAAATTACAATTTTT-CCCCTA
* *
51610234 AACTTTTGCATAATTACAATTTTTCCCCTA
1 AACTTTGGCAAAATTACAATTTTTCCCCTA
51610264 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACAATTTTTCCCCTA
Found at i:51613585 original size:30 final size:30
Alignment explanation
Indices: 51613551--51613610 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
51613541 CTTTAATACG
* *
51613551 AACTTTGGAAAAATTATATTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTTCCCCTA
* * *
51613581 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTTCCCCTA
51613611 GGCTCGGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTTCCCCTA
Found at i:51618217 original size:27 final size:27
Alignment explanation
Indices: 51618170--51618311 Score: 151
Period size: 27 Copynumber: 5.3 Consensus size: 27
51618160 GGGCATAATC
* * *
51618170 GTCATTTTACCAC-ACAAGGGTATTATG
1 GTCATTTTACC-CTACAGGGGCATTACG
* *
51618197 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* ** *
51618224 GTCATTTTTCATTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
51618251 GTTATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
51618278 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
51618305 ATCATTT
1 GTCATTT
51618312 CACAAACTGG
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 97 0.99
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:51618324 original size:27 final size:27
Alignment explanation
Indices: 51618239--51618323 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 27
51618229 TTTTCATTAT
* * * ** *
51618239 AGGGGCATTACGGTTATTTTACCCTAT
1 AGGGGCATTACGATCATTTCACCAAAC
* **
51618266 AGGGGCATTACGATCATTTTACCCTAC
1 AGGGGCATTACGATCATTTCACCAAAC
51618293 AGGGGCATTACGATCATTTCA-CAAAC
1 AGGGGCATTACGATCATTTCACCAAAC
*
51618319 TGGGG
1 AGGGG
51618324 GTATTTTAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 7 0.14
27 44 0.86
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (27 bp):
AGGGGCATTACGATCATTTCACCAAAC
Found at i:51632033 original size:28 final size:27
Alignment explanation
Indices: 51631961--51632035 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
51631951 TTGGCCCCTT
*
51631961 TAGGCCCAATCTCATTCATATGGCCTA
1 TAGGCCCAATCACATTCATATGGCCTA
* *
51631988 TCGGCCCAATCACTTTCATATGGCCCGTA
1 TAGGCCCAATCACATTCATATGG-CC-TA
*
51632017 -AGGCCCAATCCCATTCATA
1 TAGGCCCAATCACATTCATA
51632036 GTCATGCAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 20 0.50
28 18 0.45
29 2 0.05
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (27 bp):
TAGGCCCAATCACATTCATATGGCCTA
Done.