Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 168 of 335
Found at i:49670503 original size:14 final size:15
Alignment explanation
Indices: 49670484--49670520 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
49670474 CCGTGTTTTA
49670484 AAAAATAATAA-AAG
1 AAAAATAATAATAAG
49670498 AAAAATAA-AATAAG
1 AAAAATAATAATAAG
*
49670512 ATAAATAAT
1 AAAAATAAT
49670521 CTAATTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
AAAAATAATAATAAG
Found at i:49685234 original size:29 final size:29
Alignment explanation
Indices: 49685190--49685339 Score: 221
Period size: 29 Copynumber: 5.2 Consensus size: 29
49685180 GCATGAATAC
* *
49685190 GAATGTGATTTAGGCCTAATGGGCTATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
*
49685219 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAT
*
49685248 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAT
49685277 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
* * *
49685306 GAATGAGA-TTGGGCCTAGTGGGCTATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
*
49685334 GCATGT
1 GAATGT
49685340 ATGTAGACTT
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 22 0.20
29 90 0.80
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAT
Found at i:49696982 original size:40 final size:38
Alignment explanation
Indices: 49696903--49697096 Score: 178
Period size: 40 Copynumber: 4.8 Consensus size: 38
49696893 GGATATAGCT
*
49696903 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAG-CCGGATT-TAGTA
*
49696943 ACTCGCACAAATGCCTTCGGGACTCAACTCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACT-AGC-CGGATTTAGTA
* *
49696983 ACTCGCACCAATGCCTTCGGG-CTTAGCCTGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAGCC-GGATTTAGTA
* *
49697022 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-C-TAG-CCGGATTTAGTA
* *
49697062 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 AC-TCGCACAAATGCCTTCGGGAC-TAG-CCGGAT
49697097 ATCATTCGAA
Statistics
Matches: 132, Mismatches: 12, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
38 3 0.02
39 31 0.23
40 66 0.50
41 29 0.22
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (38 bp):
ACTCGCACAAATGCCTTCGGGACTAGCCGGATTTAGTA
Found at i:49697055 original size:79 final size:80
Alignment explanation
Indices: 49696892--49697098 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 80
49696882 AGAATTTAAC
* * *
49696892 CGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
1 CGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49696956 CCTTCGGGACTCAACT
65 CCTTCGGGACTCAACT
* * *
49696972 CGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCGCACAAATG
1 CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
49697035 CCTTC-GGA-TCTTAGT
65 CCTTCGGGACTC-AACT
* * *
49697050 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 -CGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
49697099 CATTCGAATA
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
77 2 0.02
78 6 0.06
79 43 0.41
80 43 0.41
81 11 0.10
82 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
CTTCGGGACTCAACT
Found at i:49701512 original size:13 final size:13
Alignment explanation
Indices: 49701494--49701519 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49701484 GCTTAGTAGG
49701494 GACACGCCTGTGT
1 GACACGCCTGTGT
49701507 GACACGCCTGTGT
1 GACACGCCTGTGT
49701520 CTGATTACTT
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:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:49702864 original size:29 final size:29
Alignment explanation
Indices: 49702822--49702946 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
49702812 GAAAGCATGA
49702822 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
49702851 ATATGAAGGTGATTTGGGTCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
49702880 ATAAAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
49702909 ATATAAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
49702937 ATATGCATGT
1 ATATGAATGT
49702947 ATGTAGACTT
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
28 22 0.26
29 62 0.74
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:49712889 original size:27 final size:27
Alignment explanation
Indices: 49712787--49712889 Score: 91
Period size: 27 Copynumber: 3.8 Consensus size: 27
49712777 AATACTTTAG
* *
49712787 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
* ** *
49712814 CTTGTAAAATTACC-AAAGTACCCCCGA
1 TTTACAAAATTACCGAAA-TACCCTCGA
***
49712841 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTCGA
**
49712868 TTTACAAAATTATTGAAATACC
1 TTTACAAAATTACCGAAATACC
49712890 ACTATAGGAT
Statistics
Matches: 56, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
26 3 0.05
27 53 0.95
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTCGA
Found at i:49712946 original size:26 final size:27
Alignment explanation
Indices: 49712875--49713040 Score: 221
Period size: 27 Copynumber: 6.2 Consensus size: 27
49712865 CGATTTACAA
* * *
49712875 AATTATTGAAATACCAC-TATAGGATAG
1 AATTACTGAAATACC-CTTGTAGGGTAG
*
49712902 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
49712929 AATTAC-GAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
49712955 AATTAC-GAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
49712981 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * *
49713008 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
49713035 AATTAC
1 AATTAC
49713041 CATTTTGCCC
Statistics
Matches: 125, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
26 51 0.41
27 74 0.59
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:49712960 original size:53 final size:54
Alignment explanation
Indices: 49712875--49713040 Score: 228
Period size: 53 Copynumber: 3.1 Consensus size: 54
49712865 CGATTTACAA
* * * * *
49712875 AATTATTGAAATACCACTATAGGATAGAATTACTAAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
*
49712929 AATTAC-GAAATACCCTTGTAGGGTAGAATTAC-GAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
* * * *
49712981 AAATACTGAAATACCCCTGTAGGGTAGAATTACTGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
49713035 AATTAC
1 AATTAC
49713041 CATTTTGCCC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
52 24 0.24
53 47 0.48
54 27 0.28
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
Found at i:49713204 original size:16 final size:16
Alignment explanation
Indices: 49713183--49713213 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49713173 CAAATATGGG
*
49713183 CATGACATTTTGCATA
1 CATGACATGTTGCATA
49713199 CATGACATGTTGCAT
1 CATGACATGTTGCAT
49713214 GGGTTGGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:49713429 original size:20 final size:20
Alignment explanation
Indices: 49713404--49713444 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
49713394 TGTGTGACGT
49713404 TATTGTGGGCTTCGTATCGA
1 TATTGTGGGCTTCGTATCGA
*
49713424 TATTGTGGGCTTCGTGTCGA
1 TATTGTGGGCTTCGTATCGA
49713444 T
1 T
49713445 TATAGACCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.32, T:0.41
Consensus pattern (20 bp):
TATTGTGGGCTTCGTATCGA
Found at i:49713687 original size:25 final size:25
Alignment explanation
Indices: 49713659--49713723 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
49713649 CATTCACATT
*
49713659 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTATCACCTGATA
* * *
49713684 CTGATTCTAATTCTGTCACCTGATT
1 CTGATTCTGATTCTATCACCTGATA
* *
49713709 CTCATTTTGATTCTA
1 CTGATTCTGATTCTA
49713724 GTTCTGATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTATCACCTGATA
Found at i:49713740 original size:18 final size:17
Alignment explanation
Indices: 49713719--49713752 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49713709 CTCATTTTGA
49713719 TTCTAGTTCTGATAATGT
1 TTCTAGTTCTG-TAATGT
*
49713737 TTCTTGTTCTGTAATG
1 TTCTAGTTCTGTAATG
49713753 GGCTAAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (17 bp):
TTCTAGTTCTGTAATGT
Found at i:49716970 original size:29 final size:29
Alignment explanation
Indices: 49716936--49717009 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
49716926 TAATCGATCA
**
49716936 CGCACACTTAGTGCCATGTGATTT-AAGCT
1 CGCACACTTAGTGCCAT-ACATTTCAAGCT
49716965 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAGCT
*
49716994 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49717010 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAGCT
Found at i:49718348 original size:19 final size:21
Alignment explanation
Indices: 49718310--49718348 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
49718300 ACTCCTTTTT
*
49718310 TTTTCTCTTATTTTATTCCTC
1 TTTTCTCTTATTTAATTCCTC
49718331 TTTTC-CTT-TTTAATTCCT
1 TTTTCTCTTATTTAATTCCT
49718349 TTCTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTCTCTTATTTAATTCCTC
Found at i:49728343 original size:17 final size:19
Alignment explanation
Indices: 49728307--49728344 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
49728297 AAACGAATGC
49728307 ATATCATTCATGCCATTAAA
1 ATATCATTCATG-CATTAAA
49728327 ATATCATT-ATG-ATTAAA
1 ATATCATTCATGCATTAAA
49728344 A
1 A
49728345 CATGATCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (19 bp):
ATATCATTCATGCATTAAA
Found at i:49736506 original size:40 final size:40
Alignment explanation
Indices: 49736440--49736606 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49736430 AAATTGAATG
* * *
49736440 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49736479 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49736519 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49736559 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49736599 ATATCCGG
1 ATATCCGG
49736607 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49744503 original size:40 final size:40
Alignment explanation
Indices: 49744437--49744603 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
49744427 AAATTGAATG
* * *
49744437 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
49744476 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
49744516 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
49744556 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
49744596 ATATCCGG
1 ATATCCGG
49744604 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:49747398 original size:21 final size:21
Alignment explanation
Indices: 49747372--49747416 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
49747362 GACACATATG
49747372 ACAAAATACTCAAAGCCCTAT
1 ACAAAATACTCAAAGCCCTAT
49747393 ACAAAATACTCAAAGCCCTAT
1 ACAAAATACTCAAAGCCCTAT
49747414 ACA
1 ACA
49747417 TGCCATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.49, C:0.29, G:0.04, T:0.18
Consensus pattern (21 bp):
ACAAAATACTCAAAGCCCTAT
Found at i:49770187 original size:30 final size:29
Alignment explanation
Indices: 49770093--49770194 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
49770083 TATAGTGAAT
* * *
49770093 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
49770122 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
49770150 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
49770180 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
49770195 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:49771938 original size:17 final size:17
Alignment explanation
Indices: 49771918--49771956 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
49771908 AATTACCTAA
49771918 CTAACCTTAACTAACTC
1 CTAACCTTAACTAACTC
49771935 CTAACCTTAACTAACTC
1 CTAACCTTAACTAACTC
*
49771952 TTAAC
1 CTAAC
49771957 TACAACCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (17 bp):
CTAACCTTAACTAACTC
Found at i:49771939 original size:21 final size:21
Alignment explanation
Indices: 49771913--49771958 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 21
49771903 AACTGAATTA
49771913 CCTAACTAACCTTAACTAACT
1 CCTAACTAACCTTAACTAACT
49771934 -C---CTAACCTTAACTAACT
1 CCTAACTAACCTTAACTAACT
*
49771951 CTTAACTA
1 CCTAACTA
49771959 CAACCTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 8
0.69 0.03 0.28
Matches are distributed among these distances:
17 16 0.80
20 1 0.05
21 3 0.15
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (21 bp):
CCTAACTAACCTTAACTAACT
Found at i:49786870 original size:27 final size:27
Alignment explanation
Indices: 49786816--49786871 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
49786806 ATAGCTCTAA
*
49786816 AGAGCCATTAATCGGGAAACTCATGAG
1 AGAGCCATTAATCGGGAAACTCAGGAG
* * * *
49786843 AGAGCCTTTTATCGGGAAGCTCCGGAG
1 AGAGCCATTAATCGGGAAACTCAGGAG
49786870 AG
1 AG
49786872 CCAATTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (27 bp):
AGAGCCATTAATCGGGAAACTCAGGAG
Found at i:49786879 original size:25 final size:26
Alignment explanation
Indices: 49786816--49786890 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 26
49786806 ATAGCTCTAA
* *
49786816 AGAGCCATTAATCGGGAAACTCATGAG
1 AGAGCCATT-ATCGGGAAGCTCACGAG
*
49786843 AGAGCCTTTTATCGGGAAGCTC-CG-G
1 AGAGCC-ATTATCGGGAAGCTCACGAG
* *
49786868 AGAGCCAATTATTGAGAAGCTCA
1 AGAGCC-ATTATCGGGAAGCTCA
49786891 TACAAGCCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 19 0.49
26 1 0.03
27 17 0.44
28 2 0.05
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (26 bp):
AGAGCCATTATCGGGAAGCTCACGAG
Found at i:49788321 original size:40 final size:40
Alignment explanation
Indices: 49788262--49788428 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
49788252 ACCCAAGTAT
* * *
49788262 CTTCGGGATTTA-ACCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* ** *
49788301 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATAC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
**
49788341 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
49788381 CTTCGAGACTTAGCCCAGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
49788421 CTTCGGGA
1 CTTCGGGA
49788429 TACAAAGAGC
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
39 10 0.09
40 99 0.90
41 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:49789053 original size:57 final size:57
Alignment explanation
Indices: 49788965--49789083 Score: 229
Period size: 57 Copynumber: 2.1 Consensus size: 57
49788955 CATTCCAAGC
*
49788965 ATTCGCTCTATTCTATCACTTAACATACAAACATTACTCAATAACTTTCTAGTTCAA
1 ATTCGCTCTATTCTATCACTTAACAAACAAACATTACTCAATAACTTTCTAGTTCAA
49789022 ATTCGCTCTATTCTATCACTTAACAAACAAACATTACTCAATAACTTTCTAGTTCAA
1 ATTCGCTCTATTCTATCACTTAACAAACAAACATTACTCAATAACTTTCTAGTTCAA
49789079 ATTCG
1 ATTCG
49789084 GCAATTACAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.36
Consensus pattern (57 bp):
ATTCGCTCTATTCTATCACTTAACAAACAAACATTACTCAATAACTTTCTAGTTCAA
Found at i:49800067 original size:48 final size:48
Alignment explanation
Indices: 49799996--49800668 Score: 1123
Period size: 48 Copynumber: 14.0 Consensus size: 48
49799986 CAAGATAAAT
* * *
49799996 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49800044 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49800092 ATATGTATATGTGGTAAAGCCAAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49800140 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49800188 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49800236 ATATGTATATGTGGTAAAGTCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49800284 ATATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
49800332 ATATATATATGTGGTAAAACCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49800380 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATAAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49800428 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49800476 A-ATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49800523 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49800571 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49800619 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
49800667 AT
1 AT
49800669 GTGTGTATAT
Statistics
Matches: 587, Mismatches: 37, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 0.08
48 542 0.92
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:49800865 original size:37 final size:37
Alignment explanation
Indices: 49800809--49800948 Score: 219
Period size: 37 Copynumber: 3.8 Consensus size: 37
49800799 GGAAATATAT
49800809 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
49800846 TCCGGGTCAGA-CCGAATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCG-ATGACTACGTGTGGAGATTATG
* *
49800883 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49800920 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
49800949 GGACTATTCG
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
36 3 0.03
37 87 0.94
38 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49802279 original size:40 final size:40
Alignment explanation
Indices: 49802224--49802625 Score: 590
Period size: 40 Copynumber: 10.1 Consensus size: 40
49802214 TGAGAATTGA
49802224 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
49802264 GATATACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
49802304 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
49802344 GATATACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
49802384 GATATA-CCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGA
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* **
49802423 GTTATATTTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
49802463 GATATATCCAGACTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
49802503 GATATACCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGA
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * *
49802543 GTTATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * * *
49802583 GTTATATCCGGGCTAGGTCCCGAATAGCAATCATGCTGGT
1 GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
49802623 GAT
1 GAT
49802626 GTGTATTCGG
Statistics
Matches: 325, Mismatches: 36, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
39 35 0.11
40 290 0.89
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:49802520 original size:159 final size:160
Alignment explanation
Indices: 49802222--49802625 Score: 621
Period size: 159 Copynumber: 2.5 Consensus size: 160
49802212 CATGAGAATT
* *
49802222 GAGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACCCGGGCTAAGTCCCGA
1 GAGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGA
* *
49802287 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACC
66 AGAGCATTCGTGCTAGTGATATATCCAGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACC
49802352 CGGGCTAAGTCCCGAAGAGCATTCATGCTA
131 CGGGCTAAGTCCCGAAGAGCATTCATGCTA
* * * **
49802382 GTGATATA-CCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGTTATATTTGGGCTAAGTCCCGA
1 GAGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGA
49802446 AGAGCATTCGTGCTAGTGATATATCCAGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACC
66 AGAGCATTCGTGCTAGTGATATATCCAGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACC
* *
49802511 CGGGCTAAGTCTCGAAGAGCATTCGTGCTA
131 CGGGCTAAGTCCCGAAGAGCATTCATGCTA
* * * * *
49802541 GAGTTATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGA
1 GAGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGA
* * * *
49802606 ATAGCAATCATGCTGGTGAT
66 AGAGCATTCGTGCTAGTGAT
49802626 GTGTATTCGG
Statistics
Matches: 218, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
159 147 0.67
160 71 0.33
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (160 bp):
GAGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGTTATATCCGGGCTAAGTCCCGA
AGAGCATTCGTGCTAGTGATATATCCAGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATACC
CGGGCTAAGTCCCGAAGAGCATTCATGCTA
Found at i:49802837 original size:25 final size:25
Alignment explanation
Indices: 49802787--49802837 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
49802777 TGTGTAACAA
* *
49802787 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
49802812 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
49802837 C
1 C
49802838 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:49806683 original size:48 final size:48
Alignment explanation
Indices: 49806612--49807335 Score: 1196
Period size: 48 Copynumber: 15.0 Consensus size: 48
49806602 CAAGATAAAT
* * *
49806612 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49806660 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49806708 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
49806756 ATATATATATGTGGTAAAGCAGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49806804 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49806852 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49806900 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * *
49806948 ATATATATATGAGGCAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49806996 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49807044 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49807092 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49807140 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49807188 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 --ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49807238 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49807286 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
49807334 AT
1 AT
49807336 GTGTGTATAT
Statistics
Matches: 637, Mismatches: 37, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
48 592 0.93
50 45 0.07
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:49807581 original size:40 final size:40
Alignment explanation
Indices: 49807522--49807668 Score: 222
Period size: 40 Copynumber: 3.7 Consensus size: 40
49807512 AACTCGCACA
*
49807522 AATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATG
* *
49807562 AATACCTTCGGGACTTAGCCCGGATATAGTCACTAGTATG
1 AATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATG
* * **
49807602 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATG
*
49807642 AATGCCTTCGGGACTTAGCCCAGATAT
1 AATGCCTTCGGGACTTAGCCCGGATAT
49807669 CATCCGAATA
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATG
Found at i:49808413 original size:57 final size:57
Alignment explanation
Indices: 49808325--49808443 Score: 229
Period size: 57 Copynumber: 2.1 Consensus size: 57
49808315 CATTCCAAGC
*
49808325 ATTCGCTCTATTCTATCACTTAACATACAAACATTACTCAATAACTTTCTAGTTCAA
1 ATTCGCTCTATTCTATCACTTAACAAACAAACATTACTCAATAACTTTCTAGTTCAA
49808382 ATTCGCTCTATTCTATCACTTAACAAACAAACATTACTCAATAACTTTCTAGTTCAA
1 ATTCGCTCTATTCTATCACTTAACAAACAAACATTACTCAATAACTTTCTAGTTCAA
49808439 ATTCG
1 ATTCG
49808444 GCAATTACAC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.36
Consensus pattern (57 bp):
ATTCGCTCTATTCTATCACTTAACAAACAAACATTACTCAATAACTTTCTAGTTCAA
Found at i:49809563 original size:25 final size:25
Alignment explanation
Indices: 49809505--49809670 Score: 138
Period size: 25 Copynumber: 6.6 Consensus size: 25
49809495 GCTGTCACAT
*
49809505 GGGAAGCTCAAGAGAGCCAT-TAATC
1 GGGAAGCTCATGAGAGCCATATAA-C
* *
49809530 GAGAAGCTCGTGAGAGCCATATAAC
1 GGGAAGCTCATGAGAGCCATATAAC
* * * *
49809555 GGGATGCTCATGAAAGCTAAATAAC
1 GGGAAGCTCATGAGAGCCATATAAC
* * * *
49809580 GAGAAGCTCGTAAGAGTCATATAAC
1 GGGAAGCTCATGAGAGCCATATAAC
* * * *
49809605 GGGATGCTCATGAAAGCTAAATAAC
1 GGGAAGCTCATGAGAGCCATATAAC
*
49809630 GGGAAGCTCATGAGAGCC-TAGTATC
1 GGGAAGCTCATGAGAGCCATA-TAAC
* *
49809655 GGGACGCTCATAAGAG
1 GGGAAGCTCATGAGAG
49809671 TTGTGGTGTA
Statistics
Matches: 107, Mismatches: 32, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
24 1 0.01
25 103 0.96
26 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCATGAGAGCCATATAAC
Found at i:49809588 original size:50 final size:50
Alignment explanation
Indices: 49809529--49809665 Score: 204
Period size: 50 Copynumber: 2.7 Consensus size: 50
49809519 AGCCATTAAT
49809529 CGAGAAGCTCGTGAGAGCCATATAACGGGATGCTCATGAAAGCTAAATAA
1 CGAGAAGCTCGTGAGAGCCATATAACGGGATGCTCATGAAAGCTAAATAA
* *
49809579 CGAGAAGCTCGTAAGAGTCATATAACGGGATGCTCATGAAAGCTAAATAA
1 CGAGAAGCTCGTGAGAGCCATATAACGGGATGCTCATGAAAGCTAAATAA
* * * *
49809629 CGGGAAGCTCATGAGAGCC-TAGTATCGGGACGCTCAT
1 CGAGAAGCTCGTGAGAGCCATA-TAACGGGATGCTCAT
49809666 AAGAGTTGTG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
49 2 0.03
50 76 0.97
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (50 bp):
CGAGAAGCTCGTGAGAGCCATATAACGGGATGCTCATGAAAGCTAAATAA
Found at i:49817624 original size:32 final size:32
Alignment explanation
Indices: 49817587--49817649 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
49817577 GTTACACGCT
49817587 TGAGTACACATTTGGTTTGAGAATAAAATAAG
1 TGAGTACACATTTGGTTTGAGAATAAAATAAG
49817619 TGAGTACACATTTGGTTTGAGAATAAAATAA
1 TGAGTACACATTTGGTTTGAGAATAAAATAA
49817650 TTCTTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (32 bp):
TGAGTACACATTTGGTTTGAGAATAAAATAAG
Found at i:49819439 original size:2 final size:2
Alignment explanation
Indices: 49819432--49819473 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
49819422 AAGCCAAATT
49819432 TA TA TA TA TA TA TA TA -A TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49819472 TA
1 TA
49819474 AGAAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49822059 original size:30 final size:30
Alignment explanation
Indices: 49822023--49822123 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49822013 GACAAGATTG
* * *
49822023 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49822053 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49822081 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49822110 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49822124 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49830039 original size:30 final size:30
Alignment explanation
Indices: 49830003--49830103 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49829993 GACAAGATTG
* * *
49830003 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49830033 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49830061 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49830090 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49830104 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49838024 original size:30 final size:30
Alignment explanation
Indices: 49837988--49838088 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
49837978 GACAAGATTG
* * *
49837988 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49838018 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
49838046 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
49838075 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
49838089 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:49842433 original size:422 final size:423
Alignment explanation
Indices: 49841639--49842462 Score: 1355
Period size: 422 Copynumber: 2.0 Consensus size: 423
49841629 TTTGAGAAGA
*
49841639 GAATGTTTGTTTTCACCCCAAAAGAATAGAAAATTATTTCTAGTTTATGTGTTTGATTCAATTTG
1 GAATGTTTGTTTTCACCCCAAAAGAAAAGAAAATTATTTCTAGTTTATGTGTTTGATTCAATTTG
* *
49841704 ATTAAGCTCACATTCAAGGCTATTTGTGGAACAAGAATAGCGGAGAAGACCATTTGGTTGAAAGC
66 ATCAAGCTCACATTCAAGGCTATTTGTGGAACAAGAATAGCAGAGAAGACCATTTGGTTGAAAGC
* ** * * * *
49841769 CGGGGATGACATGGATTTGTCTATCCAAAATCACTGGTATGATTTCAGCATAGGATTTATTGCTA
131 CGGAGACAACATGCATTCGTCTATCCAAAATCACAGGTACGATTTCAGCATAGGATTTATTGCTA
* * * *
49841834 TAAATATCACAAATCAGATTGGTTTTCAAAATTTTTATTTTTCGTTGTGCAAGAAAACCATTTTC
196 TAAATATCACAAATCAGATTGGTTTTCAAAATTTTTATTTTCCATTATGAAAGAAAACCATTTTC
* * *
49841899 AAACCGAATTTTTTCCAACATCCTTTTTAACGAAGGTTCAATATCTTCATAAAATTAGTGGAATA
261 AAACCGAATTTTTTCCAACACCCCTTTTAACGAAGGTTCAATATCTTCATAAAATGAGTGGAATA
*
49841964 AAATCAAGCCCTTTAAGAAGGAGAGCTCCTCATGCAGGAGAACAAATCTCATCAAAAGATATTAA
326 AAATCAAGCCCTTTAAGAAGGAGAGCTCCTCATGCAGAAGAACAAATCTCATCAAAAGATATTAA
49842029 AATGTTAGTAGACTAAATCTCATAAAAATAGTG
391 AATGTTAGTAGACTAAATCTCATAAAAATAGTG
*
49842062 GAATGTTTGTTTTCACCCCAAAAGAAAAGAAAATTATTTCTAGTTTATGTGTTTGATTCGATTTG
1 GAATGTTTGTTTTCACCCCAAAAGAAAAGAAAATTATTTCTAGTTTATGTGTTTGATTCAATTTG
* * *
49842127 ATCGAGCTCACGTTCAAGGCTATTTGTGGAACAAGAATAGCAGAGAAGACCGTTTGGTTGAAAGC
66 ATCAAGCTCACATTCAAGGCTATTTGTGGAACAAGAATAGCAGAGAAGACCATTTGGTTGAAAGC
* * * * *
49842192 TGGAGACAACATTCATTCGTTTATCCAAAATCACAGGTACGATTTCAGTATAGGGTTTATTGCTA
131 CGGAGACAACATGCATTCGTCTATCCAAAATCACAGGTACGATTTCAGCATAGGATTTATTGCTA
49842257 -AAATATCACAAATCAGATTGGTTTTCAAAATTTTTATTTTCCATTATGAAAGAAAACCATTTTC
196 TAAATATCACAAATCAGATTGGTTTTCAAAATTTTTATTTTCCATTATGAAAGAAAACCATTTTC
*
49842321 AAACCGGATTTTTTCCAACACCCCTTTTAACGAAGGTTCAATATCTTCATAAAAATGA-TGGAAT
261 AAACCGAATTTTTTCCAACACCCCTTTTAACGAAGGTTCAATATCTTCAT-AAAATGAGTGGAAT
* *
49842385 AAAATGAAGCCCTTTAAGAAGGAGAGCTCCTCATGTAGAAGAACAAATCTCATCAAAAGATATTA
325 AAAATCAAGCCCTTTAAGAAGGAGAGCTCCTCATGCAGAAGAACAAATCTCATCAAAAGATATTA
49842450 AAATGTTAGTAGA
390 AAATGTTAGTAGA
49842463 ACAAAATAAC
Statistics
Matches: 370, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
422 188 0.51
423 182 0.49
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (423 bp):
GAATGTTTGTTTTCACCCCAAAAGAAAAGAAAATTATTTCTAGTTTATGTGTTTGATTCAATTTG
ATCAAGCTCACATTCAAGGCTATTTGTGGAACAAGAATAGCAGAGAAGACCATTTGGTTGAAAGC
CGGAGACAACATGCATTCGTCTATCCAAAATCACAGGTACGATTTCAGCATAGGATTTATTGCTA
TAAATATCACAAATCAGATTGGTTTTCAAAATTTTTATTTTCCATTATGAAAGAAAACCATTTTC
AAACCGAATTTTTTCCAACACCCCTTTTAACGAAGGTTCAATATCTTCATAAAATGAGTGGAATA
AAATCAAGCCCTTTAAGAAGGAGAGCTCCTCATGCAGAAGAACAAATCTCATCAAAAGATATTAA
AATGTTAGTAGACTAAATCTCATAAAAATAGTG
Found at i:49844097 original size:27 final size:27
Alignment explanation
Indices: 49844067--49844131 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
49844057 GTAGGCTTCT
49844067 TTTTCATAGATAGCCACAAAAGATTCC
1 TTTTCATAGATAGCCACAAAAGATTCC
* * * * *
49844094 TTTTCATAGCTCGCCTCAAATGTTTCC
1 TTTTCATAGATAGCCACAAAAGATTCC
49844121 TTTTCATAGAT
1 TTTTCATAGAT
49844132 CGTTATAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (27 bp):
TTTTCATAGATAGCCACAAAAGATTCC
Found at i:49858964 original size:15 final size:14
Alignment explanation
Indices: 49858933--49858971 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
49858923 ACGAGAAAAC
49858933 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
49858949 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
49858964 AAAGAAAA
1 AAAGAAAA
49858972 CAAAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 9 0.41
16 4 0.18
17 5 0.23
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:49858982 original size:25 final size:25
Alignment explanation
Indices: 49858937--49858985 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
49858927 GAAAACAAAG
*
49858937 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAACAAAAA-CAAAAGAAGA
49858963 AAAAGAAAACAAAATA-AAAAGAA
1 AAAAGAAAACAAAA-ACAAAAGAA
49858986 AATAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (25 bp):
AAAAGAAAACAAAAACAAAAGAAGA
Found at i:49859080 original size:12 final size:12
Alignment explanation
Indices: 49859058--49859082 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49859048 TTTGAAAAAC
49859058 AAAAAGAAAATG
1 AAAAAGAAAATG
49859070 AAAAAGAAAATG
1 AAAAAGAAAATG
49859082 A
1 A
49859083 GCTTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:49859154 original size:18 final size:19
Alignment explanation
Indices: 49859118--49859156 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49859108 TTTGAGAGAG
*
49859118 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
49859137 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
49859155 AA
1 AA
49859157 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:49860714 original size:25 final size:25
Alignment explanation
Indices: 49860680--49860729 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
49860670 GCAATCTAGT
49860680 TGCTTGAGCTAAACCGAGCTTACTC
1 TGCTTGAGCTAAACCGAGCTTACTC
49860705 TGCTTGAGCTAAACCGAGCTTACTC
1 TGCTTGAGCTAAACCGAGCTTACTC
49860730 CTAGCTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (25 bp):
TGCTTGAGCTAAACCGAGCTTACTC
Found at i:49860826 original size:30 final size:30
Alignment explanation
Indices: 49860750--49860835 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
49860740 TTCAACTCAC
* *
49860750 GAGCTAAACCTTAGCTTAACTTTAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTAAG
* * *
49860780 GAGTTTAACCTCAGCTCAACTTTAGCTCAAG
1 GAGCTAAACCTTAGCTCAACTTTAGCT-AAG
* *
49860811 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
49860836 TAAACCCGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 8 0.18
30 34 0.76
31 3 0.07
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTAAG
Found at i:49867589 original size:35 final size:35
Alignment explanation
Indices: 49867543--49867609 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
49867533 TTTTGTGGTT
49867543 GAAGTGTGACATGTTAGGTACCGAATCTGAGTGCA
1 GAAGTGTGACATGTTAGGTACCGAATCTGAGTGCA
49867578 GAAGTGTGACATGTTAGGTACCGAATCTGAGT
1 GAAGTGTGACATGTTAGGTACCGAATCTGAGT
49867610 ATTGTTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.27
Consensus pattern (35 bp):
GAAGTGTGACATGTTAGGTACCGAATCTGAGTGCA
Found at i:49874360 original size:37 final size:37
Alignment explanation
Indices: 49874319--49874391 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
49874309 CTAAAAAGAC
*
49874319 AAAAGACGAAGATGAACAATAATGATTCTCTGCAAAG
1 AAAAGACGAAGATGAACAATAACGATTCTCTGCAAAG
* * *
49874356 AAAAGATGGAGATGAACAATAACGATTCTTTGCAAA
1 AAAAGACGAAGATGAACAATAACGATTCTCTGCAAA
49874392 AATTCTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (37 bp):
AAAAGACGAAGATGAACAATAACGATTCTCTGCAAAG
Found at i:49874741 original size:23 final size:23
Alignment explanation
Indices: 49874688--49874743 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
49874678 TTTGTTTTCA
49874688 AAAATTTAAA-TTCAAAACAATT
1 AAAATTTAAATTTCAAAACAATT
* *
49874710 CAAATTTAAATTTTCAAAA-ATTT
1 AAAATTTAAA-TTTCAAAACAATT
49874733 AAAATTTAAAT
1 AAAATTTAAAT
49874744 CCATTTGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 10 0.34
23 12 0.41
24 7 0.24
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTTAAATTTCAAAACAATT
Found at i:49878151 original size:15 final size:15
Alignment explanation
Indices: 49878131--49878185 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
49878121 AAAAGCGTTT
49878131 TTTAATATTTAAATA
1 TTTAATATTTAAATA
49878146 TTTAATATTATAAAT-
1 TTTAATATT-TAAATA
*
49878161 TTCT-ATTTTTAAA-A
1 TT-TAATATTTAAATA
49878175 TTTAA-ATTTAA
1 TTTAATATTTAA
49878186 TGTTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 6 0.18
14 7 0.21
15 15 0.44
16 6 0.18
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAATATTTAAATA
Found at i:49878608 original size:18 final size:18
Alignment explanation
Indices: 49878585--49878623 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
49878575 TATAATTTTA
*
49878585 AAATATA-TATAATACATC
1 AAATATACTA-AAAACATC
49878603 AAATATACTAAAAACATC
1 AAATATACTAAAAACATC
49878621 AAA
1 AAA
49878624 ATAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATACTAAAAACATC
Found at i:49878657 original size:22 final size:22
Alignment explanation
Indices: 49878632--49878700 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
49878622 AAATAAATAT
49878632 TTTTCAACAAATTGAAAATAAA
1 TTTTCAACAAATTGAAAATAAA
* *
49878654 TTTT-AAAAAATATGTAAAT--A
1 TTTTCAACAAAT-TGAAAATAAA
49878674 TTTTCCAACAAATTGAAAATAAA
1 TTTT-CAACAAATTGAAAATAAA
49878697 TTTT
1 TTTT
49878701 AAAAAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
20 5 0.13
21 12 0.32
22 16 0.42
23 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (22 bp):
TTTTCAACAAATTGAAAATAAA
Found at i:49878673 original size:43 final size:43
Alignment explanation
Indices: 49878625--49878709 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
49878615 AACATCAAAA
*
49878625 TAAATATTTTTCAACAAATTGAAAATAAATTTTAAAAAATATG
1 TAAATATTTTCCAACAAATTGAAAATAAATTTTAAAAAATATG
49878668 TAAATATTTTCCAACAAATTGAAAATAAATTTTAAAAAATAT
1 TAAATATTTTCCAACAAATTGAAAATAAATTTTAAAAAATAT
49878710 TTATACTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (43 bp):
TAAATATTTTCCAACAAATTGAAAATAAATTTTAAAAAATATG
Found at i:49879492 original size:16 final size:16
Alignment explanation
Indices: 49879473--49879532 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
49879463 TTATTAAATG
49879473 TATATAAACATAAAAA
1 TATATAAACATAAAAA
* *
49879489 TATATAAAAATGGAAATA
1 TATATAAACAT--AAAAA
* *
49879507 TATATAATCTAGAAAAA
1 TATATAAAC-ATAAAAA
49879524 TATATAAAC
1 TATATAAAC
49879533 TATATTTTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
16 10 0.29
17 12 0.35
18 11 0.32
19 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (16 bp):
TATATAAACATAAAAA
Found at i:49879643 original size:19 final size:20
Alignment explanation
Indices: 49879602--49879646 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
49879592 AAAATTTTAG
49879602 AAAAT-TAAAAAAATCATTC
1 AAAATATAAAAAAATCATTC
* *
49879621 AAAATATAAAAATAT-ATTT
1 AAAATATAAAAAAATCATTC
49879640 AAAATAT
1 AAAATAT
49879647 GAAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATATAAAAAAATCATTC
Found at i:49879707 original size:20 final size:19
Alignment explanation
Indices: 49879674--49879717 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
49879664 TTCAAAATTA
49879674 TAAAAATGTAAAAAAATATT
1 TAAAAATGTAAAAAAATA-T
* * *
49879694 TAAAAATTTTAAAATATAT
1 TAAAAATGTAAAAAAATAT
49879713 TAAAA
1 TAAAA
49879718 TCATAAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
TAAAAATGTAAAAAAATAT
Found at i:49879820 original size:21 final size:20
Alignment explanation
Indices: 49879783--49879821 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
49879773 AATTTAAATA
* *
49879783 ATTTTTTTACGATTTATTTT
1 ATTTTTTTACAAATTATTTT
49879803 ATTTTATTTACAAATTATT
1 ATTTT-TTTACAAATTATT
49879822 AAATGTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTTTACAAATTATTTT
Found at i:49879848 original size:30 final size:30
Alignment explanation
Indices: 49879814--49879870 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
49879804 TTTTATTTAC
*
49879814 AAATTATTAAATGT-TTTTTATAATTTTAAT
1 AAATT-TTAAATATATTTTTATAATTTTAAT
49879844 AAATTTTAAATATATTTTTATAATTTT
1 AAATTTTAAATATATTTTTATAATTTT
49879871 TACATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (30 bp):
AAATTTTAAATATATTTTTATAATTTTAAT
Found at i:49880016 original size:18 final size:20
Alignment explanation
Indices: 49879976--49880024 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
49879966 ATATTATATA
*
49879976 TTTATATATATATTTGAATT
1 TTTATATATTTATTTGAATT
*
49879996 TTTATATATTTATTT-TA-T
1 TTTATATATTTATTTGAATT
49880014 TTTATATATTT
1 TTTATATATTT
49880025 GTGTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 12 0.44
19 1 0.04
20 14 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATATATTTATTTGAATT
Found at i:49880219 original size:29 final size:30
Alignment explanation
Indices: 49880128--49880219 Score: 93
Period size: 29 Copynumber: 3.1 Consensus size: 30
49880118 AAAAAACTAA
*
49880128 AAATATAACAA-AAATATACTTTAAATACC
1 AAATAAAACAATAAATATACTTTAAATACC
* * *
49880157 AAATATAACCCATAAAT-T-TTTTAAATACC
1 AAATA-AAACAATAAATATACTTTAAATACC
*
49880186 AAAATAAAACAATAAATATACTTCAAA-ACC
1 -AAATAAAACAATAAATATACTTTAAATACC
49880216 AAAT
1 AAAT
49880220 TGTAAATTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
29 28 0.56
30 13 0.26
31 9 0.18
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (30 bp):
AAATAAAACAATAAATATACTTTAAATACC
Found at i:49880531 original size:18 final size:17
Alignment explanation
Indices: 49880507--49880552 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 17
49880497 CGCAACAGTA
49880507 AAAAAAAACACTGAAAAAG
1 AAAAAAAA-ACT-AAAAAG
*
49880526 AAAAAAAAACTAAAAAT
1 AAAAAAAAACTAAAAAG
49880543 AAAAATAAAA
1 AAAAA-AAAA
49880553 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 8 0.32
ACGTcount: A:0.80, C:0.07, G:0.04, T:0.09
Consensus pattern (17 bp):
AAAAAAAAACTAAAAAG
Found at i:49880646 original size:12 final size:13
Alignment explanation
Indices: 49880631--49880665 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
49880621 TATGAATTAT
49880631 TAAAATATT-AAA
1 TAAAATATTAAAA
49880643 TAAAATATTAAAA
1 TAAAATATTAAAA
49880656 TAAAAATATT
1 T-AAAATATT
49880666 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 4 0.19
14 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAATATTAAAA
Found at i:49881096 original size:212 final size:211
Alignment explanation
Indices: 49880722--49881177 Score: 758
Period size: 212 Copynumber: 2.2 Consensus size: 211
49880712 ACCTATGCAC
*
49880722 ATTTTAATTTAATTTTAATAATGCATACTTTATCTGGATAAAATATGTATTAGCAAATTCACTAA
1 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAATATGTATTAGCAAATTCACTAA
49880787 TATGATTATATATATATATAGATATTTAAGCATGTATCACATTACAAAAAAAATTAAATACTTAT
66 TATGATTATATATATATATAGA-ATTTAAGCATGTATCACATTACAAAAAAAATTAAATACTTAT
49880852 ACCTAATAAAACATGTATCTCATTACAATAATAGTTA-TTTTCTAAATAACATATTGTTTTATAA
130 ACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTTC-AAATAACATATTGTTTTATAA
49880916 TTTTATTTCTTATTTAAT
194 TTTTATTTCTTATTTAAT
* * * *
49880934 ATTTTAGTTTAATTTTAATAATGCATACTTTATCCGGATAAAGTATGTATTAGTAGATTCACTAA
1 ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAATATGTATTAGCAAATTCACTAA
*
49880999 TATGA-T-TATATATATATAG-ATTTACGCATGTATCACATTACAAAAACAAAAATTTAAATACT
66 TATGATTATATATATATATAGAATTTAAGCATGTATCACATTAC--AAA-AAAAA-TTAAATACT
49881061 TATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTTCAAATAACATATTGTTTTAT
127 TATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTTCAAATAACATATTGTTTTAT
49881126 AATTTTATTTCTTATTTAAT
192 AATTTTATTTCTTATTTAAT
* *
49881146 ATTTTAATTTAATTTTAATAATACATATTTTA
1 ATTTTAATTTAATTTTAATAATGCATACTTTA
49881178 ATTTTATTTT
Statistics
Matches: 230, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
208 21 0.09
210 16 0.07
211 6 0.03
212 182 0.79
213 5 0.02
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (211 bp):
ATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATAAAATATGTATTAGCAAATTCACTAA
TATGATTATATATATATATAGAATTTAAGCATGTATCACATTACAAAAAAAATTAAATACTTATA
CCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTTCAAATAACATATTGTTTTATAATT
TTATTTCTTATTTAAT
Found at i:49881281 original size:17 final size:19
Alignment explanation
Indices: 49881259--49881302 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
49881249 ACATGACCCA
49881259 TTTTTTTTCGTTTTC-A-G
1 TTTTTTTTCGTTTTCAATG
*
49881276 TTTTTTTTCTTTTTCAATG
1 TTTTTTTTCGTTTTCAATG
49881295 TTTTTTTT
1 TTTTTTTT
49881303 ACTGTTGCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.58
18 1 0.04
19 9 0.38
ACGTcount: A:0.07, C:0.09, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTTTTTCGTTTTCAATG
Found at i:49881771 original size:17 final size:17
Alignment explanation
Indices: 49881731--49881779 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
49881721 TGTATAAATA
*
49881731 AATATTAATTTATTAATT
1 AATATTAAATT-TTAATT
49881749 -AT-TTAAATTTTAATT
1 AATATTAAATTTTAATT
*
49881764 AATATTAAATTGTAAT
1 AATATTAAATTTTAAT
49881780 GCAATAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.22
16 8 0.30
17 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATATTAAATTTTAATT
Found at i:49886403 original size:83 final size:84
Alignment explanation
Indices: 49886302--49886555 Score: 395
Period size: 85 Copynumber: 3.0 Consensus size: 84
49886292 AAAATGTAAG
*
49886302 TGGTATATATCTACATCTGT-AAGAAGAATAATGAAGACTTTCAAGTGAAGGTGCTAAAAAAAAA
1 TGGTATATATCTACATCTGTGGAGAAGAATAATGAAGACTTTCAAGTGAAGGTGCTAAAAAAAAA
*
49886366 ACATAAATGCAACCCTTGA
66 ACATAAGTGCAACCCTTGA
* * *
49886385 TGGTATATATCTACATCTGTGGAGAAGAATAAAAGAAGACTTTCGAGTGAAGGTGCTAAAAAAGA
1 TGGTATATATCTACATCTGTGGAGAAGAAT-AATGAAGACTTTCAAGTGAAGGTGCTAAAAAAAA
49886450 AACATAAGTGCAACCCTTGA
65 AACATAAGTGCAACCCTTGA
* * * * *
49886470 TGGTATATATCTACATATATGGAGAAGAATAAT-AAAACTTTCAAGTGAAGATGCTTAAAAAAAA
1 TGGTATATATCTACATCTGTGGAGAAGAATAATGAAGACTTTCAAGTGAAGGTGCTAAAAAAAAA
49886534 ACATAAGTGCAACCCTTGA
66 ACATAAGTGCAACCCTTGA
49886553 TGG
1 TGG
49886556 AAGGTGCAAA
Statistics
Matches: 156, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
83 68 0.44
84 10 0.06
85 78 0.50
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (84 bp):
TGGTATATATCTACATCTGTGGAGAAGAATAATGAAGACTTTCAAGTGAAGGTGCTAAAAAAAAA
ACATAAGTGCAACCCTTGA
Found at i:49888323 original size:17 final size:18
Alignment explanation
Indices: 49888296--49888331 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
49888286 CAAAATCTCA
*
49888296 AAAAGGAGGTTGAGCCCC
1 AAAAGGAGGTTAAGCCCC
49888314 AAAA-GAGGTTAAGCCCC
1 AAAAGGAGGTTAAGCCCC
49888331 A
1 A
49888332 CTTTAACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.39, C:0.22, G:0.28, T:0.11
Consensus pattern (18 bp):
AAAAGGAGGTTAAGCCCC
Found at i:49890151 original size:20 final size:20
Alignment explanation
Indices: 49890122--49890195 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
49890112 TTTAGCTCTC
*
49890122 ATGAGCTTCAGTTAACTCAT
1 ATGAGTTTCAGTTAACTCAT
* *
49890142 ATGAGTTTCAGTCAAC-CCT
1 ATGAGTTTCAGTTAACTCAT
*
49890161 AAT-AGCTTTCAGTTCAACTCTT
1 -ATGAG-TTTCAGTT-AACTCAT
*
49890183 ACGAGTTTCAGTT
1 ATGAGTTTCAGTT
49890196 TAACCCTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
19 4 0.09
20 23 0.53
21 12 0.28
22 4 0.09
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGAGTTTCAGTTAACTCAT
Found at i:49891335 original size:20 final size:20
Alignment explanation
Indices: 49891309--49891357 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
49891299 CCTGTTCTTA
49891309 AGAAAAATTTTAAGATTTTG
1 AGAAAAATTTTAAGATTTTG
* *
49891329 GGAAAAATTTTAAGATTTTT
1 AGAAAAATTTTAAGATTTTG
49891349 AGAAAAATT
1 AGAAAAATT
49891358 CCCTAAGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (20 bp):
AGAAAAATTTTAAGATTTTG
Found at i:49907140 original size:21 final size:21
Alignment explanation
Indices: 49907086--49907147 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
49907076 TTTTAGTTAG
*
49907086 CCCTAATGGGTTTCAGTTAAA
1 CCCTAATGGGTTTCAGTTTAA
* * * *
49907107 CTCTTACGAGTTTCAGTTTAA
1 CCCTAATGGGTTTCAGTTTAA
* *
49907128 CCCTCATGGGTTTCCGTTTA
1 CCCTAATGGGTTTCAGTTTA
49907148 GCTCCTACAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (21 bp):
CCCTAATGGGTTTCAGTTTAA
Found at i:49912972 original size:20 final size:20
Alignment explanation
Indices: 49912947--49912987 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
49912937 TGAGATGAAT
49912947 GTTTATAAAATTGCATTTAG
1 GTTTATAAAATTGCATTTAG
49912967 GTTTATAAAATTGCATTTAG
1 GTTTATAAAATTGCATTTAG
49912987 G
1 G
49912988 ACTCGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (20 bp):
GTTTATAAAATTGCATTTAG
Found at i:49919735 original size:15 final size:14
Alignment explanation
Indices: 49919715--49919748 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
49919705 AGCATGTTTA
49919715 ATCTGTTATTTCTAT
1 ATCTGTT-TTTCTAT
49919730 ATCTG-TTTTCTAT
1 ATCTGTTTTTCTAT
49919743 ATCTGT
1 ATCTGT
49919749 CTTGGGGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.67
14 1 0.06
15 5 0.28
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (14 bp):
ATCTGTTTTTCTAT
Found at i:49923814 original size:3 final size:3
Alignment explanation
Indices: 49923806--49923863 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
49923796 ATTAATCCTC
*
49923806 TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49923854 TTA TT- TTA TT
1 TTA TTA TTA TT
49923864 TTTTTTTAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:49924317 original size:3 final size:3
Alignment explanation
Indices: 49924303--49924349 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
49924293 GTTACTTATG
*
49924303 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
49924350 CCTTATATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:49928690 original size:23 final size:23
Alignment explanation
Indices: 49928660--49928705 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
49928650 TCTCTTCAAA
49928660 AGCTTCTAGTAGACATCGTCATT
1 AGCTTCTAGTAGACATCGTCATT
49928683 AGCTTCTAGTAGACATCGTCATT
1 AGCTTCTAGTAGACATCGTCATT
49928706 TTGTGGTCGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (23 bp):
AGCTTCTAGTAGACATCGTCATT
Found at i:49929482 original size:13 final size:13
Alignment explanation
Indices: 49929466--49929490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49929456 AAAATGCACA
49929466 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
49929479 AAAAAAGAAAAA
1 AAAAAAGAAAAA
49929491 AAGGAGAGGC
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:49930056 original size:53 final size:53
Alignment explanation
Indices: 49929976--49930079 Score: 163
Period size: 53 Copynumber: 2.0 Consensus size: 53
49929966 GCTCCCAATC
*
49929976 AATTTCCTTCTTATTATATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
1 AATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
* * * *
49930029 AATTTCCTTCTTATTGCATTTTCTATCTTTGATTAATTTTTTCATTTCGAG
1 AATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAG
49930080 CTATGCTCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (53 bp):
AATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTT
Found at i:49930578 original size:46 final size:46
Alignment explanation
Indices: 49930482--49930580 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
49930472 TCAATTGATT
*
49930482 GAAGAAGATACAAATCCTATACCTCTGAGTTGCAGTAAGATGGATT
1 GAAGAAGATACAAATCCTATACCTCTGAGTTGCAGTAAGATGGATA
* * ** *
49930528 GAAGATGATACAAATCCTATACC-CTTGAGTTGTAGTGGGTTGGATA
1 GAAGAAGATACAAATCCTATACCTC-TGAGTTGCAGTAAGATGGATA
49930574 GAAGAAG
1 GAAGAAG
49930581 GCAAAAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.02
46 44 0.98
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (46 bp):
GAAGAAGATACAAATCCTATACCTCTGAGTTGCAGTAAGATGGATA
Found at i:49931832 original size:24 final size:23
Alignment explanation
Indices: 49931797--49931841 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
49931787 AAAGGTGTTT
*
49931797 TCTTTTTTTTCTTCTTT-TTTTGA
1 TCTTTTTATTCTT-TTTATTTTGA
49931820 TCTTATTTATTCTTTTTATTTT
1 TCTT-TTTATTCTTTTTATTTT
49931842 ATTTTTCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (23 bp):
TCTTTTTATTCTTTTTATTTTGA
Found at i:49933770 original size:40 final size:40
Alignment explanation
Indices: 49933711--49933852 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
49933701 AAATTGAATG
* * *
49933711 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
49933751 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
49933791 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
49933831 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
49933853 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:49933853 original size:40 final size:39
Alignment explanation
Indices: 49933750--49933878 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
49933740 TGCTGGAAAT
* * *
49933750 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
49933790 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
49933830 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
49933870 TATATCCGG
1 TATATCCGG
49933879 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:49944232 original size:47 final size:46
Alignment explanation
Indices: 49944160--49944249 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 46
49944150 TTTATATATA
**
49944160 TTTTAATAATTTTTAAAAATTTTCAATCTTTATATAATATTTTGAT
1 TTTTAATAATTTTTAAAAAAATTCAATCTTTATATAATATTTTGAT
*
49944206 TTTTATATAATTTTTAAAAAAATTCAATTTTTATATAATATTTT
1 TTTTA-ATAATTTTTAAAAAAATTCAATCTTTATATAATATTTT
49944250 TTTAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 5 0.12
47 35 0.88
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (46 bp):
TTTTAATAATTTTTAAAAAAATTCAATCTTTATATAATATTTTGAT
Found at i:49944281 original size:32 final size:31
Alignment explanation
Indices: 49944216--49944287 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
49944206 TTTTATATAA
*
49944216 TTTTTAAAAAAATTCAATTTTTATATAATATT
1 TTTTTAAAAAAATTCAATTTATATATAATA-T
*
49944248 TTTTTAAAAAAATT-ATATTTATATTTTAA-AT
1 TTTTTAAAAAAATTCA-ATTTATA-TATAATAT
49944279 TTTTTAAAA
1 TTTTTAAAA
49944288 CTGTTTTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 11 0.31
32 21 0.58
33 4 0.11
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (31 bp):
TTTTTAAAAAAATTCAATTTATATATAATAT
Found at i:49944282 original size:30 final size:31
Alignment explanation
Indices: 49944214--49944287 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
49944204 ATTTTTATAT
*
49944214 AATTTTTAAAAAAATTCAATTTTTATATAATA
1 AATTTTTAAAAAAATT-AATATTTATATAATA
** **
49944246 TTTTTTTAAAAAAATT-ATATTTATATTTTA
1 AATTTTTAAAAAAATTAATATTTATATAATA
*
49944276 AATTTTTTAAAA
1 AATTTTTAAAAA
49944288 CTGTTTTTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 20 0.59
32 14 0.41
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (31 bp):
AATTTTTAAAAAAATTAATATTTATATAATA
Found at i:49944357 original size:25 final size:25
Alignment explanation
Indices: 49944307--49944357 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
49944297 AATTTTTTAT
* * *
49944307 ATATTATATATGATTTCTTAACAGC
1 ATATTATATATAATTTCTAAAAAGC
49944332 ATATTATATATAATATT-TAAAAAGC
1 ATATTATATATAAT-TTCTAAAAAGC
49944357 A
1 A
49944358 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (25 bp):
ATATTATATATAATTTCTAAAAAGC
Found at i:49945590 original size:2 final size:2
Alignment explanation
Indices: 49945578--49945628 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
49945568 CAAATAAGAG
* * *
49945578 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49945620 CTA TA TA TA
1 -TA TA TA TA
49945629 CAAGGAAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 41 0.98
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:49950941 original size:27 final size:28
Alignment explanation
Indices: 49950884--49950953 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
49950874 AAATTTGTAC
** *
49950884 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
49950912 AGCACTAAGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
49950939 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49950954 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:49958396 original size:27 final size:28
Alignment explanation
Indices: 49958339--49958408 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
49958329 AAATTTGTAC
**
49958339 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAAGCTGATTATGT
49958367 AGCACTAAGTGTGCG-AGCTGATTA-GAT
1 AGCACTAAGTGTGCGAAGCTGATTATG-T
49958394 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49958409 GACTCACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
26 1 0.03
27 23 0.59
28 15 0.38
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATGT
Found at i:49964179 original size:17 final size:17
Alignment explanation
Indices: 49964146--49964196 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
49964136 TTTCACTTTC
*
49964146 TTTTTCATTCTCCTTTTA
1 TTTTTCATTCT-TTTTTA
*
49964164 TTTTTCATTCTTTTTTC
1 TTTTTCATTCTTTTTTA
* *
49964181 TTCTTCACTCTTTTTT
1 TTTTTCATTCTTTTTT
49964197 TCTCTCAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 18 0.62
18 11 0.38
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTCATTCTTTTTTA
Found at i:49967050 original size:14 final size:14
Alignment explanation
Indices: 49967031--49967061 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
49967021 CATGGGCATG
49967031 CTTTTACTTTCATT
1 CTTTTACTTTCATT
*
49967045 CTTTTACTTTCTTT
1 CTTTTACTTTCATT
49967059 CTT
1 CTT
49967062 CCATCAAACC
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:0.10, C:0.23, G:0.00, T:0.68
Consensus pattern (14 bp):
CTTTTACTTTCATT
Found at i:49967206 original size:104 final size:108
Alignment explanation
Indices: 49967067--49967268 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 108
49967057 TTCTTCCATC
* *
49967067 AAACCCCCTCAAAATTTCTCTCATTTGCTTACCATCCAATCACTATCAAAA-T-TTC-TTCTTTA
1 AAACCCCCTCAAAATTTCTCTCATTTGCTTACCATCCAATCACCACCAAAATTCTTCTTTCTTTA
49967129 TTCTATCAAATTATACACTAAATCTTTCTTCTTTCTTTCGTTA
66 TTCTATCAAATTATACACTAAATCTTTCTTCTTTCTTTCGTTA
* * *
49967172 AAACCCCCT-AAATTTTCTCTCATTTTCTTGCCATCCAATCACCACCAAAATTTCTTCTTTCTTT
1 AAACCCCCTCAAAATTTCTCTCATTTGCTTACCATCCAATCACCACCAAAA-TTCTTCTTTCTTT
* *
49967236 CTTCTGTCAAATTATACACTAAATCTTTCTTCT
65 ATTCTATCAAATTATACACTAAATCTTTCTTCT
49967269 GTCAAAAACC
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
104 36 0.42
105 9 0.10
106 1 0.01
107 3 0.03
108 37 0.43
ACGTcount: A:0.27, C:0.28, G:0.02, T:0.43
Consensus pattern (108 bp):
AAACCCCCTCAAAATTTCTCTCATTTGCTTACCATCCAATCACCACCAAAATTCTTCTTTCTTTA
TTCTATCAAATTATACACTAAATCTTTCTTCTTTCTTTCGTTA
Found at i:49967324 original size:102 final size:106
Alignment explanation
Indices: 49967053--49967347 Score: 263
Period size: 102 Copynumber: 2.8 Consensus size: 106
49967043 TTCTTTTACT
* * * * * * *
49967053 TTCTTTCTTCCATC-AAACCCCCTCAAAATTTCTCTCA-TTTGCTTACCATCCAATCACTATCAA
1 TTCTTTCTT-CGTCAAAAACCCCT-AAATTTTCTCTCACTTT-CTCACCATCAAATCACCACCAA
*
49967116 AA--T-TTC-TTCTTTATTCTATCAAATTATACACTAAATCTTTC
63 AATTTCTTCTTTCTTTATTCTGTCAAATTATACACTAAATC-TTC
* * * ** *
49967157 TTCTTTCTTTCGTTAAAACCCCCTAAATTTTCTCTCATTTTCTTGCCATCCAATCACCACCAAAA
1 TTCTTTC-TTCGTCAAAAACCCCTAAATTTTCTCTCACTTTCTCACCATCAAATCACCACCAAAA
*
49967222 TTTCTTCTTTCTTTCTTCTGTCAAATTATACACTAAATC-T-
65 TTTCTTCTTTCTTTATTCTGTCAAATTATACACTAAATCTTC
* **
49967262 TTC-TTC-T-GTCAAAAACCCCTAAAATTTTC-CTTCACTTTCTCACTATCAAATCACCATGAAA
1 TTCTTTCTTCGTCAAAAACCCCT-AAATTTTCTC-TCACTTTCTCACCATCAAATCACCACCAAA
* *
49967323 ATTTCTTCTTTCTTTTTTTTGTCAA
64 ATTTCTTCTTTCTTTATTCTGTCAA
49967348 CCCCCCCCAA
Statistics
Matches: 163, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
101 12 0.07
102 55 0.34
104 45 0.28
105 17 0.10
106 2 0.01
107 3 0.02
108 29 0.18
ACGTcount: A:0.27, C:0.28, G:0.02, T:0.43
Consensus pattern (106 bp):
TTCTTTCTTCGTCAAAAACCCCTAAATTTTCTCTCACTTTCTCACCATCAAATCACCACCAAAAT
TTCTTCTTTCTTTATTCTGTCAAATTATACACTAAATCTTC
Found at i:49980579 original size:46 final size:46
Alignment explanation
Indices: 49980526--49980701 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
49980516 TATTTGGGCA
49980526 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
49980572 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
49980619 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
49980665 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49980702 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:49980681 original size:93 final size:93
Alignment explanation
Indices: 49980522--49980693 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49980512 GGGATATTTG
* *
49980522 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49980587 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
49980615 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49980680 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49980694 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:49982808 original size:17 final size:18
Alignment explanation
Indices: 49982786--49982819 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49982776 ATTAATTAAC
49982786 TTTT-AAAATATAAAAAA
1 TTTTAAAAATATAAAAAA
49982803 TTTTAAAAATATAAAAA
1 TTTTAAAAATATAAAAA
49982820 TGTATTTTTT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTTTAAAAATATAAAAAA
Found at i:49983933 original size:5 final size:5
Alignment explanation
Indices: 49983923--49983950 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
49983913 ATTTATATCT
49983923 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
49983951 ACATCTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:49996526 original size:22 final size:21
Alignment explanation
Indices: 49996483--49996553 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 21
49996473 AATCTTCAAG
*
49996483 GATTTGTAATCTT--AGATTT
1 GATTTGTAATATTAGAGATTT
* *
49996502 GATATGTAATATTAGAAGATAT
1 GATTTGTAATATTAG-AGATTT
*
49996524 GATTTTGTAATCTTAGAGATTT
1 GA-TTTGTAATATTAGAGATTT
49996546 GATTTGTA
1 GATTTGTA
49996554 GATACCTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 11 0.26
21 6 0.14
22 14 0.33
23 11 0.26
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.46
Consensus pattern (21 bp):
GATTTGTAATATTAGAGATTT
Found at i:50004875 original size:26 final size:25
Alignment explanation
Indices: 50004817--50004875 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
50004807 GTGGACACAC
* *
50004817 TTAA-GCTCTTATGAGCTTCTCGAT
1 TTAAGGCTCTTATGAGCTCCCCGAT
*
50004841 TATATGGCTCTTCATGAGCTCCCCGAT
1 T-TAAGGCTCTT-ATGAGCTCCCCGAT
50004868 TTAAGGCT
1 TTAAGGCT
50004876 TTTTGTAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.04
25 2 0.07
26 12 0.43
27 13 0.46
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (25 bp):
TTAAGGCTCTTATGAGCTCCCCGAT
Found at i:50018750 original size:2 final size:2
Alignment explanation
Indices: 50018743--50018774 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50018733 TTATAACCTC
50018743 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50018775 TCACTAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50024785 original size:1 final size:1
Alignment explanation
Indices: 50024781--50024807 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
50024771 TTAACTAAGC
50024781 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
50024808 GGAAAACGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:50029157 original size:16 final size:16
Alignment explanation
Indices: 50029136--50029168 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50029126 ATTCTGGAAC
50029136 ATGTCGTACGTCACTA
1 ATGTCGTACGTCACTA
50029152 ATGTCGTACGTCACTA
1 ATGTCGTACGTCACTA
50029168 A
1 A
50029169 GTGTTCTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (16 bp):
ATGTCGTACGTCACTA
Found at i:50048903 original size:46 final size:46
Alignment explanation
Indices: 50048850--50048938 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
50048840 TGTATACACA
* * *
50048850 TCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATCTG
1 TCTCATACACATCTCACATTAGCCATTCGGCTTCACCACATATCTG
* * * *
50048896 TCTCATACACGTTTCGCATTAGCCATTCGGCTTCGCCACATAT
1 TCTCATACACATCTCACATTAGCCATTCGGCTTCACCACATAT
50048939 ATACACTTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.24, C:0.30, G:0.11, T:0.35
Consensus pattern (46 bp):
TCTCATACACATCTCACATTAGCCATTCGGCTTCACCACATATCTG
Found at i:50048981 original size:22 final size:22
Alignment explanation
Indices: 50048955--50049076 Score: 58
Period size: 23 Copynumber: 5.3 Consensus size: 22
50048945 TTTCACATTC
50048955 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
50048977 ATCACATATATG-CATGT-T-CACATT
1 ATCACAT-T-GGCCAT-TCTGC-C-TT
*
50049001 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
*
50049024 ATCACACATAT-G-CATGCT-CACATT
1 AT--CACAT-TGGCCATTCTGC-C-TT
*
50049048 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCTGCCTT
50049071 ATCACA
1 ATCACA
50049077 CATATGCATG
Statistics
Matches: 75, Mismatches: 7, Indels: 36
0.64 0.06 0.31
Matches are distributed among these distances:
22 18 0.24
23 23 0.31
24 22 0.29
25 12 0.16
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:50048983 original size:47 final size:47
Alignment explanation
Indices: 50048946--50049289 Score: 544
Period size: 47 Copynumber: 7.3 Consensus size: 47
50048936 TATATACACT
* *
50048946 TTCACATTCATCACATTGGCCATTCTGCCTTATCACATATATGCATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
50048993 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
*
50049040 CTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
50049087 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
* * * *
50049134 CTCACATTCATCATATTAGCCATTCGGCCTTATCACATATATGCATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
* *
50049181 TTCATATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
* * * * * **
50049228 CTCACATTCATCACATTGGCCATTCTGCCTTATCTCATATATACACA
1 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
50049275 TTCACATTCATCACA
1 TTCACATTCATCACA
50049290 AAAAATCCTA
Statistics
Matches: 273, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 273 1.00
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
Found at i:50049122 original size:22 final size:22
Alignment explanation
Indices: 50049002--50049123 Score: 58
Period size: 23 Copynumber: 5.3 Consensus size: 22
50048992 GTTCACATTC
50049002 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
50049024 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
50049048 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
50049071 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
50049095 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
50049118 ATCACA
1 ATCACA
50049124 CATATGCATG
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 17 0.23
23 23 0.31
24 23 0.31
25 11 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:50050955 original size:2 final size:2
Alignment explanation
Indices: 50050948--50050975 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
50050938 TTCATTATTA
50050948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50050976 CTAAACACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50056772 original size:27 final size:27
Alignment explanation
Indices: 50056734--50056788 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
50056724 TAAGGAGAAG
50056734 ATTGTTTATGTTAAAAATTTGAATTTC
1 ATTGTTTATGTTAAAAATTTGAATTTC
50056761 ATTGTTTATGTTAAAAATTTGAATTTC
1 ATTGTTTATGTTAAAAATTTGAATTTC
50056788 A
1 A
50056789 AAAATTGACC
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:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (27 bp):
ATTGTTTATGTTAAAAATTTGAATTTC
Found at i:50057253 original size:123 final size:123
Alignment explanation
Indices: 50057022--50057256 Score: 398
Period size: 123 Copynumber: 1.9 Consensus size: 123
50057012 CAACTGGAGT
*
50057022 ATAAAATTGCACGAGCTTCAATAAAAAATTAGAAGGAAAATGGTGAGTTCAAGCTGGAGAAGAAT
1 ATAAAATTGCACGAGCTTCAATAAAAAATTAGAAGGAAAATGGTGAGTTCAAGCTGGAGAAGAAG
* * *
50057087 TTTGAGTTTGAAATATAGATATCTAACGTCATTGAACCTTGTTAGATTTAATCGGAAC
66 TTTGAGTTTGAAATATAGATATCTAACGTCACTAAACCCTGTTAGATTTAATCGGAAC
* * * *
50057145 ATAAAATTGCATGAGCTTCAGTAAACAATTAGAAGGAAAGTGGTGAGTTCAAGCTGGAGAAGAAG
1 ATAAAATTGCACGAGCTTCAATAAAAAATTAGAAGGAAAATGGTGAGTTCAAGCTGGAGAAGAAG
50057210 TTTGAGTTTGAAATATAGATATCTAACGTCACTAAACCCTGTTAGAT
66 TTTGAGTTTGAAATATAGATATCTAACGTCACTAAACCCTGTTAGAT
50057257 ATGATATATT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
123 104 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (123 bp):
ATAAAATTGCACGAGCTTCAATAAAAAATTAGAAGGAAAATGGTGAGTTCAAGCTGGAGAAGAAG
TTTGAGTTTGAAATATAGATATCTAACGTCACTAAACCCTGTTAGATTTAATCGGAAC
Found at i:50063947 original size:56 final size:56
Alignment explanation
Indices: 50063881--50063998 Score: 227
Period size: 56 Copynumber: 2.1 Consensus size: 56
50063871 GAAAGAAGTA
50063881 AGCTTATAGAGCTTAGTAAGTTCACATGTAAAATAATAAGCATTAGCAATCAATTT
1 AGCTTATAGAGCTTAGTAAGTTCACATGTAAAATAATAAGCATTAGCAATCAATTT
*
50063937 AGCTTATAGAGCTTAGTAAGTTCACATGTAAAATAATAAGCGTTAGCAATCAATTT
1 AGCTTATAGAGCTTAGTAAGTTCACATGTAAAATAATAAGCATTAGCAATCAATTT
50063993 AGCTTA
1 AGCTTA
50063999 CTACTATTCT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (56 bp):
AGCTTATAGAGCTTAGTAAGTTCACATGTAAAATAATAAGCATTAGCAATCAATTT
Found at i:50064244 original size:16 final size:15
Alignment explanation
Indices: 50064223--50064261 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
50064213 TCATCACTTA
*
50064223 CTCAATACTTGATAAT
1 CTCAATACTT-ACAAT
50064239 CTCAATTACTTACAAT
1 CTCAA-TACTTACAAT
50064255 CTCAATA
1 CTCAATA
50064262 TTAAATAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 14 0.67
17 5 0.24
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (15 bp):
CTCAATACTTACAAT
Found at i:50064496 original size:55 final size:53
Alignment explanation
Indices: 50064374--50064561 Score: 218
Period size: 55 Copynumber: 3.5 Consensus size: 53
50064364 AACTTACCAT
* * * *
50064374 TGCCATGTCTTGACATGATCTTACGT-GGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATAGG-A-CCTTGCCTTATAGAACTCATCAA
*
50064427 TGCCATGCCTTGACATGGTCTTACATAGGACCTTTGCCTTATAGTAACTCGTCAA
1 TGCCATGCCTTGACATGGTCTTACATAGGACC-TTGCCTTATAG-AACTCATCAA
* *** *
50064482 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACAT-AGGACCTTGCCTTATAGAACTCATCAA
*
50064536 TGCCATGCCTTGGCATGGTCTTACAT
1 TGCCATGCCTTGACATGGTCTTACAT
50064562 GATATCCTTA
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
52 2 0.02
53 33 0.28
54 35 0.30
55 44 0.38
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATAGGACCTTGCCTTATAGAACTCATCAA
Found at i:50064604 original size:47 final size:47
Alignment explanation
Indices: 50064549--50064670 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
50064539 CATGCCTTGG
* *
50064549 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
50064596 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
50064643 CATGGTCTTACGTGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
50064671 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:50064831 original size:44 final size:44
Alignment explanation
Indices: 50064765--50064848 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 44
50064755 TCCTTAATCA
* *
50064765 TCAATTCCTCATTAAATGCCATGTTATGAA-CATGGACTTTTCCG
1 TCAATTCCTCATTAAATGCCATGGTA-CAACCATGGACTTTTCCG
* * * *
50064809 TCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 TCAATTCCTCATTAAATGCCATGGTACAACCATGGACTTT
50064849 GAGATATCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.06
44 31 0.94
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (44 bp):
TCAATTCCTCATTAAATGCCATGGTACAACCATGGACTTTTCCG
Found at i:50065435 original size:30 final size:30
Alignment explanation
Indices: 50065388--50065475 Score: 131
Period size: 30 Copynumber: 2.9 Consensus size: 30
50065378 CTAACTCAAA
*
50065388 CTTTGGAAAATTTACAATTTTGCCCCTAAAC
1 CTTTGCAAAA-TTACAATTTTGCCCCTAAAC
*
50065419 CTTTGCAAAATTACAATTTTGCCCCTACAC
1 CTTTGCAAAATTACAATTTTGCCCCTAAAC
* *
50065449 CTTTGTAAAATTACAATTTTGTCCCTA
1 CTTTGCAAAATTACAATTTTGCCCCTA
50065476 GGCTAGGAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 44 0.83
31 9 0.17
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.38
Consensus pattern (30 bp):
CTTTGCAAAATTACAATTTTGCCCCTAAAC
Found at i:50067603 original size:48 final size:48
Alignment explanation
Indices: 50067547--50067648 Score: 131
Period size: 48 Copynumber: 2.1 Consensus size: 48
50067537 GTTCACACAC
50067547 CCGT-TCTATTTA-ACACAT-TACAACACGGCCTAAGCCACAC-CACACGG
1 CCGTGTCTATTTAGACAC-TCTA-AACACGGCCTAAGCCAC-CTCACACGG
*
50067594 CCGTGTCTATTTAGAGACTCTAAACACGGCCTAAGCCACCTCACACGG
1 CCGTGTCTATTTAGACACTCTAAACACGGCCTAAGCCACCTCACACGG
*
50067642 GCGTGTC
1 CCGTGTC
50067649 ACATGGGCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
47 5 0.10
48 39 0.80
49 5 0.10
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (48 bp):
CCGTGTCTATTTAGACACTCTAAACACGGCCTAAGCCACCTCACACGG
Found at i:50071879 original size:23 final size:21
Alignment explanation
Indices: 50071853--50071912 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 21
50071843 AAAATATAAG
50071853 AAATACATATTATAAAATTCAAA
1 AAATA-ATA-TATAAAATTCAAA
*
50071876 AAATTGAATATATATAATTCAAA
1 AAA-T-AATATATAAAATTCAAA
*
50071899 AAATAAAAT-TAAAA
1 AAATAATATATAAAA
50071913 AAGTACAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 4 0.12
21 4 0.12
22 1 0.03
23 18 0.56
24 4 0.12
25 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATAATATATAAAATTCAAA
Found at i:50071960 original size:24 final size:24
Alignment explanation
Indices: 50071940--50072013 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 24
50071930 TCAAAAATAT
50071940 GTTGAAAATTTAAAAATAAAAAAAA
1 GTTGAAAATTTAAAAAT-AAAAAAA
50071965 GTT-AAAATTTTAAAAAATAAAAAAA
1 GTTGAAAA-TTT-AAAAATAAAAAAA
* *
50071990 -TTGAAAATATAAAAAATCAAAAAA
1 GTTGAAAAT-TTAAAAATAAAAAAA
50072014 TAATTTGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
24 19 0.44
25 18 0.42
26 6 0.14
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.24
Consensus pattern (24 bp):
GTTGAAAATTTAAAAATAAAAAAA
Done.