Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 185 of 290
Found at i:59397014 original size:21 final size:21
Alignment explanation
Indices: 59396990--59397034 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
59396980 TGAGATAAGT
59396990 AAATTTTAGTGAAGAAAGGTC
1 AAATTTTAGTGAAGAAAGGTC
59397011 AAATTTTAGTGAAGAAAGGTC
1 AAATTTTAGTGAAGAAAGGTC
59397032 AAA
1 AAA
59397035 GCTGTTAAAC
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:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (21 bp):
AAATTTTAGTGAAGAAAGGTC
Found at i:59401616 original size:100 final size:101
Alignment explanation
Indices: 59401480--59401672 Score: 289
Period size: 100 Copynumber: 1.9 Consensus size: 101
59401470 TTAATAATGT
* * * *
59401480 CATAACTCAGTTATGGTCTTATCATCAGAACGCCATAGCATAGTTATGGTCTTACATGTATACAC
1 CATAACTCAGTTATGGTCTTATCATCAAAACGCCATAGCACAGCTATGGTCTTACATATATACAC
59401545 TACCATGGTCAAACCATGGTCTTACATCCATAGTTC
66 TACCATGGTCAAACCATGGTCTTACATCCATAGTTC
* * *
59401581 CATAACT-AGTTATGGTTTTATCATCAAAATGCCATAGCCCAGCTATGGTCTTACATATATACAC
1 CATAACTCAGTTATGGTCTTATCATCAAAACGCCATAGCACAGCTATGGTCTTACATATATACAC
* **
59401645 TGCCATGGTCCCACCATGGTCTTACATC
66 TACCATGGTCAAACCATGGTCTTACATC
59401673 TAAATCATTG
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 75 0.91
101 7 0.09
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (101 bp):
CATAACTCAGTTATGGTCTTATCATCAAAACGCCATAGCACAGCTATGGTCTTACATATATACAC
TACCATGGTCAAACCATGGTCTTACATCCATAGTTC
Found at i:59401650 original size:35 final size:35
Alignment explanation
Indices: 59401610--59401690 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
59401600 ATCATCAAAA
* *
59401610 TGCCATAGCCCAGCTATGGTCTTACATATATA-CAC
1 TGCCATAGCCCA-CCATGGTCTTACATATAAATCAC
* * *
59401645 TGCCATGGTCCCACCATGGTCTTACATCTAAATCAT
1 TGCCATAG-CCCACCATGGTCTTACATATAAATCAC
59401681 TGCCATAGCC
1 TGCCATAGCC
59401691 TCGCTACAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
35 25 0.66
36 13 0.34
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (35 bp):
TGCCATAGCCCACCATGGTCTTACATATAAATCAC
Found at i:59409771 original size:25 final size:24
Alignment explanation
Indices: 59409734--59409806 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
59409724 CATGTAAGAG
59409734 AATTCTCTAGAAAGCCTTTGTGGCA
1 AATTCTCT-GAAAGCCTTTGTGGCA
* *
59409759 AATTCTCTCGAAAGCCTTTATGGCT
1 AATTCTCT-GAAAGCCTTTGTGGCA
* *
59409784 AATACTCTGTAAGGCCTTTGTGG
1 AATTCTCTG-AAAGCCTTTGTGG
59409807 TGAACTCTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (24 bp):
AATTCTCTGAAAGCCTTTGTGGCA
Found at i:59411916 original size:39 final size:40
Alignment explanation
Indices: 59411873--59412027 Score: 195
Period size: 40 Copynumber: 3.9 Consensus size: 40
59411863 CGGTATAATA
* * * *
59411873 CCAGCTCGTAGCCTACGGGTCTCT-AGCCTGGATAACATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCTGGATAACATT
*
59411912 CCAGCACGAAGCCTGCGGGTTTTTAAGCCTGGATAACATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCTGGATAACATT
* * * *
59411952 CTAGGACGAAGCCTGTGGGTCTTTAAGCCCGGATAACATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCTGGATAACATT
* * *
59411992 CCAGCACAAAGCCTGTGGGTCTTTAAGCCCGGATAA
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCTGGATAA
59412028 TACCTCAAGT
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 19 0.19
40 83 0.81
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (40 bp):
CCAGCACGAAGCCTGCGGGTCTTTAAGCCTGGATAACATT
Found at i:59411951 original size:40 final size:40
Alignment explanation
Indices: 59411889--59412027 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
59411879 CGTAGCCTAC
* * *
59411889 GGGTCTCT-AGCCTGGATAACATTCCAGCACGAAGCCTGC
1 GGGTCTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGT
* * * *
59411928 GGGTTTTTAAGCCTGGATAACATTCTAGGACGAAGCCTGT
1 GGGTCTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGT
*
59411968 GGGTCTTTAAGCCCGGATAACATTCCAGCACAAAGCCTGT
1 GGGTCTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGT
59412008 GGGTCTTTAAGCCCGGATAA
1 GGGTCTTTAAGCCCGGATAA
59412028 TACCTCAAGT
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 6 0.07
40 83 0.93
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
GGGTCTTTAAGCCCGGATAACATTCCAGCACGAAGCCTGT
Found at i:59430058 original size:40 final size:40
Alignment explanation
Indices: 59429992--59430097 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 40
59429982 ACCAGCTCGT
* * * *
59429992 AGCCTGCGGGTCTCT-AGCCCGGATAACATTCTAGCACGA
1 AGCCTGCGGGTCTTTAAGCCTGGATAACATTCCAACACGA
* *
59430031 AGCCTGCTGGTTTTTAAGCCTGGATAACATTCCAACACGA
1 AGCCTGCGGGTCTTTAAGCCTGGATAACATTCCAACACGA
59430071 AGCCTGCGGGTCTTTAAGCCTGGATAA
1 AGCCTGCGGGTCTTTAAGCCTGGATAA
59430098 TACCTCAAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 12 0.21
40 46 0.79
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCTGGATAACATTCCAACACGA
Found at i:59436033 original size:22 final size:23
Alignment explanation
Indices: 59435994--59436036 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
59435984 GAGATCCTAC
*
59435994 CCATCCATCCTCTACACTCCACT
1 CCATCCAACCTCTACACTCCACT
59436017 CCATCCAACC-CTACACTCCA
1 CCATCCAACCTCTACACTCCA
59436037 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.26, C:0.53, G:0.00, T:0.21
Consensus pattern (23 bp):
CCATCCAACCTCTACACTCCACT
Found at i:59438423 original size:49 final size:47
Alignment explanation
Indices: 59438214--59438525 Score: 182
Period size: 49 Copynumber: 6.6 Consensus size: 47
59438204 TATGTGTGCT
* * * * *
59438214 AGTGTAAGACATGTCTGGGACAT-GCATCGACATTGA-GATGAGACCC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGAC-CTGATAATGAGAGCC
* * *
59438260 AGTGTAAGACATGTCTCAGACAT-GCATC-AGCCTCAAGAT-ATGCA-AGCT
1 AGTGTAAGACCTGTCTGAGACATGGCATCGA-CCT---GATAATG-AGAGCC
* * * *
59438308 AGTGTAAGACCTGT-TTAGGACATGGCATCGACTTGAT-AT--GTGTC
1 AGTGTAAGACCTGTCTGA-GACATGGCATCGACCTGATAATGAGAGCC
59438352 AGTGTAAGACCTGTCT-AGGACATGGCATCGACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGA-GACATGGCATCGAC-CTGATA-ATGAGAGCC
** * * * **
59438401 AGTGTAAGACCCATCTGAGACATGGCATTGGCCTTGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGAGACATGGCATCGACC-TGATA-ATGAGAGCC
* * * *
59438450 AGTATAAGACCTGTCTGGGACATGGCATCGACTTAGAT-ATGTGAGCC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGACCT-GATAATGAGAGCC
*
59438497 AGTGTAAGACCATGTTTG-GAACATGGCAT
1 AGTGTAAGACC-TGTCTGAG-ACATGGCAT
59438526 TGGCATCGTA
Statistics
Matches: 210, Mismatches: 35, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
44 31 0.15
45 7 0.03
46 32 0.15
47 20 0.10
48 41 0.20
49 77 0.37
50 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCTGTCTGAGACATGGCATCGACCTGATAATGAGAGCC
Found at i:59440954 original size:38 final size:38
Alignment explanation
Indices: 59440912--59441048 Score: 204
Period size: 38 Copynumber: 3.6 Consensus size: 38
59440902 TAAAGGTCTA
*
59440912 CAGGCTTCATGCTAGTATTATATCCGGGTTAAATCCCG
1 CAGGCTTCATGCTAGTATTATATCCGGGTTAAATCCTG
* *
59440950 CAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCTG
1 CAGGCTTCATGCTAGTATTATATCCGGGTTAAATCCTG
**
59440988 CAGGCTTTGTGCTAGTATTATATCCGGGTTAAATCCTG
1 CAGGCTTCATGCTAGTATTATATCCGGGTTAAATCCTG
*
59441026 CAGGCTT-AGTGCTGGTATTATAT
1 CAGGCTTCA-TGCTAGTATTATAT
59441049 TTGAGCTTAA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 91 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (38 bp):
CAGGCTTCATGCTAGTATTATATCCGGGTTAAATCCTG
Found at i:59447452 original size:38 final size:38
Alignment explanation
Indices: 59447407--59447545 Score: 199
Period size: 38 Copynumber: 3.7 Consensus size: 38
59447397 CTTAAAGGTT
*
59447407 CGCAGGCTTCATGTTGGTATTATATCCGGGTTAAATCC
1 CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCC
* *
59447445 CGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAATCC
1 CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCC
* * *
59447483 TGCAGGCTTCGTGCTAGTATTATATCCGGGTTAAATCC
1 CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCC
*
59447521 TGCAGGCTT-AGTGCTGGTATTATAT
1 CGCAGGCTTCA-TGCTGGTATTATAT
59447546 TCGAGCTTAA
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 92 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (38 bp):
CGCAGGCTTCATGCTGGTATTATATCCGGGTTAAATCC
Found at i:59452679 original size:21 final size:21
Alignment explanation
Indices: 59452655--59452710 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
59452645 AAAATAGGGC
59452655 ACACGCCCGTGTGGAAGGGTA
1 ACACGCCCGTGTGGAAGGGTA
*
59452676 ACACGCCCGTGTAGAAGGGTA
1 ACACGCCCGTGTGGAAGGGTA
*
59452697 ACACGCCCGCGTGG
1 ACACGCCCGTGTGG
59452711 TCTTTATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.23, C:0.29, G:0.36, T:0.12
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGTA
Found at i:59453988 original size:49 final size:50
Alignment explanation
Indices: 59453888--59453997 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 50
59453878 AGATGCTGAC
* * * *
59453888 GCCATGTCCCAGACATGGTCTTACACTGGGTTTCATATAGCGAGGTTGAT
1 GCCATGTCCCAGACATGGTCTTACAATGGCTCTCATATAGCGAGGTCGAT
* *
59453938 GCCATGTCCCAGACA-GGTCTTACAATGGCTCTCATCTATC-AGTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACAATGGCTCTCATATAGCGAG-GTCGAT
59453987 GCCATGTCCCA
1 GCCATGTCCCA
59453998 AAAAAGTGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
48 2 0.04
49 36 0.68
50 15 0.28
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACAATGGCTCTCATATAGCGAGGTCGAT
Found at i:59454141 original size:46 final size:46
Alignment explanation
Indices: 59454076--59454199 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
59454066 ATCGCGAGGT
*
59454076 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTAAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTAAA-GC
* * * ** *
59454122 CGATGCATGTCCCAAACATGTCTCACACTGGCTCTCATGCTCTAGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTAAAGC
*
59454168 TGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
59454200 GCACATATCA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 63 0.95
47 3 0.05
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGCTAAAGC
Found at i:59461511 original size:46 final size:47
Alignment explanation
Indices: 59461405--59461531 Score: 220
Period size: 46 Copynumber: 2.7 Consensus size: 47
59461395 GTGCTAATAA
59461405 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTGAGAGGAGT
* *
59461452 TACCTTAATTTGGCTACAGGCCATGATATAGGTATTTT-AGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTGAGAGGAGT
*
59461498 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA
1 TACCTTGATTTGGCTACGGGCCATGATATAGGTA
59461532 ATCTGGGATA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 39 0.52
47 36 0.48
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTGAGAGGAGT
Found at i:59467204 original size:46 final size:46
Alignment explanation
Indices: 59467154--59467329 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
59467144 TGATTGAGCA
59467154 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59467200 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59467245 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
59467293 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59467330 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59467310 original size:93 final size:93
Alignment explanation
Indices: 59467151--59467322 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
59467141 GGATGATTGA
*
59467151 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
59467216 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59467244 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
59467308 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
59467323 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59474884 original size:45 final size:46
Alignment explanation
Indices: 59474721--59474895 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
59474711 ATGTTGAGCA
*
59474721 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
59474767 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
59474812 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
59474860 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59474896 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:59480382 original size:40 final size:40
Alignment explanation
Indices: 59480308--59480529 Score: 376
Period size: 40 Copynumber: 5.6 Consensus size: 40
59480298 AACCCAAGTA
* *
59480308 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
59480347 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
59480387 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
59480427 CCTTCGGGGCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
59480467 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
59480507 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59480530 CATTCGAATA
Statistics
Matches: 173, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 12 0.07
40 158 0.91
41 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:59490464 original size:27 final size:27
Alignment explanation
Indices: 59490429--59490485 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
59490419 GGGCATAATC
* *
59490429 GTCATTTTAACATACAGGGGTATTACG
1 GTCACTTTAACATACAGGGGCATTACG
* *
59490456 GTCACTTTACCCTACAGGGGCATTACG
1 GTCACTTTAACATACAGGGGCATTACG
59490483 GTC
1 GTC
59490486 TTTTTACCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (27 bp):
GTCACTTTAACATACAGGGGCATTACG
Found at i:59490660 original size:27 final size:27
Alignment explanation
Indices: 59490630--59490733 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 27
59490620 AATTATGTAT
59490630 ATTAGGGGTAATTCTA-TAATTTTCCAA
1 ATTAGGGGTAATTC-AGTAATTTTCCAA
* *
59490657 ATTAAGGGTATTTCAGTAATTTTCCAA
1 ATTAGGGGTAATTCAGTAATTTTCCAA
* * ** *
59490684 ATCAGGGGTATTTTGGTAATTTTACAA
1 ATTAGGGGTAATTCAGTAATTTTCCAA
*
59490711 ATT-GAGGGTATTTCAGTAATTTT
1 ATTAG-GGGTAATTCAGTAATTTT
59490734 ACAAGTCAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.03
27 63 0.97
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTAGGGGTAATTCAGTAATTTTCCAA
Found at i:59490734 original size:27 final size:26
Alignment explanation
Indices: 59490646--59490864 Score: 154
Period size: 27 Copynumber: 8.2 Consensus size: 26
59490636 GGTAATTCTA
*
59490646 TAATTTTCCAAATTAAGGGTATTTCAG
1 TAATTTTACAAATT-AGGGTATTTCAG
* * **
59490673 TAATTTTCCAAATCAGGGGTATTTTGG
1 TAATTTTACAAATTA-GGGTATTTCAG
59490700 TAATTTTACAAATTGAGGGTATTTCAG
1 TAATTTTACAAATT-AGGGTATTTCAG
* * *
59490727 TAATTTTACAAGTCAAGGTATTTC-G
1 TAATTTTACAAATTAGGGTATTTCAG
* ** *
59490752 ATAATTTTATAGGTTGAGGGTATTTCAA
1 -TAATTTTACAAATT-AGGGTATTTCAG
** * **
59490780 TAATTTCGCAAACTAGGGGTATTTTGG
1 TAATTTTACAAATTA-GGGTATTTCAG
**
59490807 TAATTTTACAAATTAGGGGTATTTTGG
1 TAATTTTACAAATTA-GGGTATTTCAG
* **
59490834 TAATTTTATAAACCAAGGGTA-TTCAG
1 TAATTTTACAAA-TTAGGGTATTTCAG
59490860 TAATT
1 TAATT
59490865 CTACCCTACA
Statistics
Matches: 153, Mismatches: 32, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
25 1 0.01
26 30 0.20
27 120 0.78
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
TAATTTTACAAATTAGGGTATTTCAG
Found at i:59490756 original size:26 final size:25
Alignment explanation
Indices: 59490543--59490760 Score: 103
Period size: 27 Copynumber: 8.1 Consensus size: 25
59490533 TTGGTAAATC
*
59490543 TACAAACCAACGGTATTTCAGTAATTT
1 TACAAATCAA-GGTATTTCA-TAATTT
* *
59490570 TGCAAACCAATGGTATTTCTATAATTT
1 TACAAATCAA-GGTATTTC-ATAATTT
* * *
59490597 TAGAAAGTCAAGGATATTTCTGTAATTA
1 TACAAA-TCAAGG-TATTTC-ATAATTT
** * * * *
59490625 TGTATATTAGGGGTAATTCTATAATTT
1 TACAAATCA-AGGTATTTC-ATAATTT
* *
59490652 TCCAAATTAAGGGTATTTCAGTAATTT
1 TACAAATCAA-GGTATTTCA-TAATTT
* * **
59490679 TCCAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCA-AGGTA-TTTCATAATTT
* *
59490706 TACAAATTGAGGGTATTTCAGTAATTT
1 TACAAA-TCAAGGTATTTCA-TAATTT
*
59490733 TACAAGTCAAGGTATTTCGATAATTT
1 TACAAATCAAGGTATTTC-ATAATTT
59490759 TA
1 TA
59490761 TAGGTTGAGG
Statistics
Matches: 149, Mismatches: 31, Indels: 23
0.73 0.15 0.11
Matches are distributed among these distances:
26 22 0.15
27 101 0.68
28 26 0.17
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (25 bp):
TACAAATCAAGGTATTTCATAATTT
Found at i:59490769 original size:53 final size:54
Alignment explanation
Indices: 59490554--59490841 Score: 206
Period size: 54 Copynumber: 5.3 Consensus size: 54
59490544 ACAAACCAAC
* * * * **
59490554 GGTATTTCAGTAATTTTGCAAACCA-ATGGTATTTCTATAATTTTAGAAAGTCAAG
1 GGTATTTCAGTAATTTTACAAATCAGA-GGTATTTCGATAATTTTACAAA-TTGAG
* * * ** * * * * * * *
59490609 GATATTTCTGTAATTATGTATATTAGGGGTAATTCTATAATTTTCCAAATTAAG
1 GGTATTTCAGTAATTTTACAAATCAGAGGTATTTCGATAATTTTACAAATTGAG
* * * *
59490663 GGTATTTCAGTAATTTTCCAAATCAGGGGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCAGAGGTATTTCGATAATTTTACAAATTGAG
* * **
59490717 GGTATTTCAGTAATTTTACAAGTCA-AGGTATTTCGATAATTTTATAGGTTGAG
1 GGTATTTCAGTAATTTTACAAATCAGAGGTATTTCGATAATTTTACAAATTGAG
* ** * * *
59490770 GGTATTTCAATAATTTCGCAAA-CTAGGGGTATTTTGGTAATTTTACAAATT-AGG
1 GGTATTTCAGTAATTTTACAAATC-AGAGGTATTTCGATAATTTTACAAATTGA-G
**
59490824 GGTATTTTGGTAATTTTA
1 GGTATTTCAGTAATTTTA
59490842 TAAACCAAGG
Statistics
Matches: 181, Mismatches: 48, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
52 1 0.01
53 42 0.23
54 101 0.56
55 37 0.20
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (54 bp):
GGTATTTCAGTAATTTTACAAATCAGAGGTATTTCGATAATTTTACAAATTGAG
Found at i:59490851 original size:107 final size:108
Alignment explanation
Indices: 59490661--59490856 Score: 283
Period size: 107 Copynumber: 1.8 Consensus size: 108
59490651 TTCCAAATTA
*
59490661 AGGGTATTTCAGTAATTTTCCAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCA
1 AGGGTATTTCAATAATTTTCCAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCA
**
59490726 GTAATTTTACAAGTCAA-GGTATTTCGATAATTTTATAGGTTG
66 GTAATTTTACAAACCAAGGGTATTTCGATAATTTTATAGGTTG
59490768 AGGGTATTTCAATAA-TTTCGCAAA-CTAGGGGTATTTTGGTAATTTTACAAATT-AGGGGTATT
1 AGGGTATTTCAATAATTTTC-CAAATC-AGGGGTATTTTGGTAATTTTACAAATTGA-GGGTATT
** *
59490830 TTGGTAATTTTATAAACCAAGGGTATT
63 TCAGTAATTTTACAAACCAAGGGTATT
59490857 CAGTAATTCT
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
106 6 0.08
107 67 0.85
108 6 0.08
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (108 bp):
AGGGTATTTCAATAATTTTCCAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCA
GTAATTTTACAAACCAAGGGTATTTCGATAATTTTATAGGTTG
Found at i:59490854 original size:54 final size:54
Alignment explanation
Indices: 59490646--59490856 Score: 219
Period size: 54 Copynumber: 3.9 Consensus size: 54
59490636 GGTAATTCTA
* * * * *
59490646 TAATTTTCCAAATTAAGGGTATTTCAGTAATTTTCCAAATCAGGGGTATTTTGG
1 TAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTTGG
** * *
59490700 TAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAGTCAA-GGTATTTCGA
1 TAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTTGG
* ** * ** * *
59490753 TAATTTTATAGGTTGAGGGTATTTCAATAATTTCGCAAACTAGGGGTATTTTGG
1 TAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTTGG
** *
59490807 TAATTTTACAAATT-AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATT
1 TAATTTTACAAATTGA-GGGTATTTCAGTAATTTTACAAACCAAGGGTATT
59490857 CAGTAATTCT
Statistics
Matches: 125, Mismatches: 30, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
53 42 0.34
54 83 0.66
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
TAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAAACCAAGGGTATTTTGG
Found at i:59490929 original size:27 final size:26
Alignment explanation
Indices: 59490854--59490930 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
59490844 AACCAAGGGT
*
59490854 ATTCAGTAATTCTACCCTACAAAGGA
1 ATTCAGTAATTCTACCCTACAGAGGA
*
59490880 ATTTCAGTAATTCTACCCTACAGGGGCA
1 A-TTCAGTAATTCTACCCTACAGAGG-A
* *
59490908 ATTCAGTAATACTAGCCTACAGA
1 ATTCAGTAATTCTACCCTACAGA
59490931 TATGAGATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 41 0.93
28 2 0.05
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (26 bp):
ATTCAGTAATTCTACCCTACAGAGGA
Found at i:59502398 original size:17 final size:17
Alignment explanation
Indices: 59502376--59502409 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59502366 GGTAAGTATA
*
59502376 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
59502393 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
59502410 CATGTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:59505921 original size:17 final size:17
Alignment explanation
Indices: 59505899--59505932 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59505889 GGTAAGTATA
*
59505899 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
59505916 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
59505933 CATGTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:59509445 original size:17 final size:17
Alignment explanation
Indices: 59509423--59509456 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59509413 GGTAAGTATA
*
59509423 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
59509440 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
59509457 CATGTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:59512969 original size:17 final size:17
Alignment explanation
Indices: 59512947--59512980 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59512937 GGTAAGTATA
*
59512947 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
59512964 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
59512981 CATGTTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:59518249 original size:20 final size:20
Alignment explanation
Indices: 59518211--59518249 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59518201 AAATAGGGTT
*
59518211 ACACGCACATCTGGCTTGGA
1 ACACGCACATCTGGATTGGA
* *
59518231 ACACGCCCATGTGGATTGG
1 ACACGCACATCTGGATTGG
59518250 CCGTGTGGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.21
Consensus pattern (20 bp):
ACACGCACATCTGGATTGGA
Found at i:59520180 original size:30 final size:29
Alignment explanation
Indices: 59520144--59520204 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
59520134 AAACGAAAGT
59520144 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
59520174 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
59520203 TT
1 TT
59520205 CGGTTACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:59525908 original size:9 final size:9
Alignment explanation
Indices: 59525894--59525919 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
59525884 ATTTATTTAA
59525894 TAAATTATT
1 TAAATTATT
59525903 TAAATTATT
1 TAAATTATT
59525912 TAAATTAT
1 TAAATTAT
59525920 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TAAATTATT
Found at i:59527877 original size:19 final size:19
Alignment explanation
Indices: 59527855--59527892 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
59527845 TCATTGCCAC
*
59527855 CCACTATAATCAAATTTGT
1 CCACCATAATCAAATTTGT
*
59527874 CCACCGTAATCAAATTTGT
1 CCACCATAATCAAATTTGT
59527893 TACTAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (19 bp):
CCACCATAATCAAATTTGT
Found at i:59528941 original size:40 final size:39
Alignment explanation
Indices: 59528868--59529230 Score: 188
Period size: 40 Copynumber: 9.3 Consensus size: 39
59528858 CGTTTAGATA
* *
59528868 AAAAATGCTGCTATAGATCGAGCATTAGCGTGCTTCTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGCGTGCTTTTTG
* * *
59528907 AAAAACGCCGCTATAGATCAAGTATTAGCGGTGCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGC-GTGCTTTTTG
* * *
59528947 AAAAATGCCGTTATAGATTGAGCATTAGCAGTGCTTTTTA
1 AAAAATGCCGCTATAGATCGAGCATTAGC-GTGCTTTTTG
* * * * * *
59528987 AAAAATGCCTCTATAGGTTGACCATTAGTGTCGCTTTTCG
1 AAAAATGCCGCTATAGATCGAGCATTAGCGT-GCTTTTTG
* * * * ** * * ** *
59529027 AAAAACGCCGCAAAAAAAATTAAGCA-CAACGCCCATTTT-
1 AAAAATGCCGC--TATAGATCGAGCATTAGCGTGCTTTTTG
*** * *
59529066 -ATGTTG--GTCTTTAG-T-G-GCATTAGC-TGCGCTTTTG
1 AAAAATGCCG-CTATAGATCGAGCATTAGCGTGC-TTTTTG
* * *
59529100 AAAAACGCCGTTATAGATCGAGCATTAGCGGTGCTTTCTG
1 AAAAATGCCGCTATAGATCGAGCATTAGC-GTGCTTTTTG
** *
59529140 AAAAACACCGCTATAGATCGAGCATTAGCG-GCACTTTTTT
1 AAAAATGCCGCTATAGATCGAGCATTAGCGTG--CTTTTTG
* * * *
59529180 AAAAATGCCGCTATAGGTCAACCATTAGCAGCGCTTTTTG
1 AAAAATGCCGCTATAGATCGAGCATTAGC-GTGCTTTTTG
*
59529220 AAAAACGCCGC
1 AAAAATGCCGC
59529231 AAAAAAATTA
Statistics
Matches: 237, Mismatches: 67, Indels: 39
0.69 0.20 0.11
Matches are distributed among these distances:
32 4 0.02
33 6 0.03
34 1 0.00
35 3 0.01
36 5 0.02
37 3 0.01
38 4 0.02
39 36 0.15
40 161 0.68
41 6 0.03
42 8 0.03
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (39 bp):
AAAAATGCCGCTATAGATCGAGCATTAGCGTGCTTTTTG
Found at i:59529225 original size:193 final size:192
Alignment explanation
Indices: 59528889--59529251 Score: 514
Period size: 193 Copynumber: 1.9 Consensus size: 192
59528879 TATAGATCGA
* * * **
59528889 GCATTAGCGTGCTTCTTGAAAAACGCCGCTATAGATCAAGTATTAGCGGTGCTTTTTGAAAAATG
1 GCATTAGCGCGCTTCTTGAAAAACGCCGCTATAGATCAAGCATTAGCGGTGCTTTCTGAAAAACA
* * ** * ** *
59528954 CCGTTATAGATTGAGCATTAGCAGTGCTTTTTAAAAAATGCCTCTATAGGTTGACCATTAGTGTC
66 CCGCTATAGATCGAGCATTAGCAGCACTTTTTAAAAAATGCCGCTATAGGTCAACCATTAGAGTC
*
59529019 GCTTTTCGAAAAACGCCGCAAAAAAAATTAAGCACAACGCCCATTTTATGTTGGTCTTTAGTG
131 GCTTTTCGAAAAACGCCGC-AAAAAAATTAAACACAACGCCCATTTTATGTTGGTCTTTAGTG
* *
59529082 GCATTAGCTGCGCTT-TTGAAAAACGCCGTTATAGATCGAGCATTAGCGGTGCTTTCTGAAAAAC
1 GCATTAGC-GCGCTTCTTGAAAAACGCCGCTATAGATCAAGCATTAGCGGTGCTTTCTGAAAAAC
* *
59529146 ACCGCTATAGATCGAGCATTAGCGGCACTTTTTTAAAAATGCCGCTATAGGTCAACCATTAGCAG
65 ACCGCTATAGATCGAGCATTAGCAGCACTTTTTAAAAAATGCCGCTATAGGTCAACCATTAG-AG
*
59529211 -CGCTTTTTGAAAAACGCCGCAAAAAAATTAAACACAACGCC
129 TCGCTTTTCGAAAAACGCCGCAAAAAAATTAAACACAACGCC
59529252 GCTATTTGCT
Statistics
Matches: 149, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
192 20 0.13
193 123 0.83
194 6 0.04
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (192 bp):
GCATTAGCGCGCTTCTTGAAAAACGCCGCTATAGATCAAGCATTAGCGGTGCTTTCTGAAAAACA
CCGCTATAGATCGAGCATTAGCAGCACTTTTTAAAAAATGCCGCTATAGGTCAACCATTAGAGTC
GCTTTTCGAAAAACGCCGCAAAAAAATTAAACACAACGCCCATTTTATGTTGGTCTTTAGTG
Found at i:59529807 original size:14 final size:14
Alignment explanation
Indices: 59529790--59529850 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
59529780 ATGTTTATTA
59529790 TTTTGGGTTTATGG
1 TTTTGGGTTTATGG
* **
59529804 TTTTGTGTTTTAAAG
1 TTTTG-GGTTTATGG
* *
59529819 TTTAGGGTTTATGA
1 TTTTGGGTTTATGG
* *
59529833 TTTGGGGTTTAGGG
1 TTTTGGGTTTATGG
59529847 TTTT
1 TTTT
59529851 ATAGTTAGGG
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
14 24 0.71
15 10 0.29
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (14 bp):
TTTTGGGTTTATGG
Found at i:59529861 original size:21 final size:21
Alignment explanation
Indices: 59529837--59529892 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 21
59529827 TTATGATTTG
59529837 GGGTTT-AGGGTTTTATAGTTA
1 GGGTTTAAGGGTTTTATA-TTA
*
59529858 GGGTTTTAAGGGTTTGAGTATTA
1 GGG-TTTAAGGGTTTTA-TATTA
59529881 GGGTTTAAGGGT
1 GGGTTTAAGGGT
59529893 AATTGATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 3 0.10
22 12 0.39
23 14 0.45
24 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.43
Consensus pattern (21 bp):
GGGTTTAAGGGTTTTATATTA
Found at i:59529865 original size:22 final size:22
Alignment explanation
Indices: 59529819--59529892 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
59529809 TGTTTTAAAG
* *
59529819 TTTAGGG-TTTAT-GATTTGGGG
1 TTTAGGGTTTTATAG-TTAGGGT
59529840 TTTAGGGTTTTATAGTTAGGGT
1 TTTAGGGTTTTATAGTTAGGGT
*
59529862 TTTAAGGGTTTGAGTA-TTAGGGT
1 TTT-AGGGTTTTA-TAGTTAGGGT
*
59529885 TTAAGGGT
1 TTTAGGGT
59529893 AATTGATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
21 7 0.16
22 18 0.40
23 18 0.40
24 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (22 bp):
TTTAGGGTTTTATAGTTAGGGT
Found at i:59530304 original size:17 final size:17
Alignment explanation
Indices: 59530282--59530315 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
59530272 ATCACATGTT
59530282 GTAAACATCAAAAATAA
1 GTAAACATCAAAAATAA
59530299 GTAAACATCAAAAATAA
1 GTAAACATCAAAAATAA
59530316 AATTAAAATA
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:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (17 bp):
GTAAACATCAAAAATAA
Found at i:59535040 original size:49 final size:49
Alignment explanation
Indices: 59534983--59535076 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
59534973 TGTGTTAAAT
*
59534983 AAATGACACAAGGAAGCTTGTAGTCTAGTGGTTGTGGCGTCATTACAAA
1 AAATGACACAAGGAAGCTTGTAGTCTAGTGGTAGTGGCGTCATTACAAA
59535032 AAATGACACAAGGAAGCTTGTAGTCTAGTGGTAGTGGCGTCATTA
1 AAATGACACAAGGAAGCTTGTAGTCTAGTGGTAGTGGCGTCATTA
59535077 AGGTTGTATG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.27
Consensus pattern (49 bp):
AAATGACACAAGGAAGCTTGTAGTCTAGTGGTAGTGGCGTCATTACAAA
Found at i:59535855 original size:27 final size:27
Alignment explanation
Indices: 59535798--59535927 Score: 125
Period size: 27 Copynumber: 4.8 Consensus size: 27
59535788 ATTATTGAAA
* * * ***
59535798 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCATTT
59535825 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
**
59535852 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * ** *
59535879 TACCCTTGATTTACAGAATTACTGTTC
1 TACCCTCGATTTATAGAATTACCATTT
* *
59535906 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
59535928 TAAAATACCC
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:59535872 original size:54 final size:54
Alignment explanation
Indices: 59535798--59535992 Score: 167
Period size: 54 Copynumber: 3.6 Consensus size: 54
59535788 ATTATTGAAA
* * * * * * *
59535798 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGATTTACAGAATTACCATTC
* **** **
59535852 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTC
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGATTTACAGAATTACCATTC
* * * ***
59535906 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGATTTACAGAATTACCATTC
* * *
59535960 TACCCTCGA-TCAGCAAAATTACCAAAATACCCT
1 TACCCTCGATTTA-TAAAATTACTAAAATACCCT
59535993 AGTCTGTAAA
Statistics
Matches: 112, Mismatches: 28, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
53 2 0.02
54 110 0.98
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTTGATTTACAGAATTACCATTC
Found at i:59535928 original size:27 final size:27
Alignment explanation
Indices: 59535825--59535928 Score: 145
Period size: 27 Copynumber: 3.9 Consensus size: 27
59535815 ATTACCAAAG
* **
59535825 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
59535852 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
59535879 TACCCTTGATTTACAGAATTACTGTTC
1 TACCCTCGATTTACAGAATTACTGTTT
*
59535906 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
59535929 AAAATACCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:59535936 original size:27 final size:27
Alignment explanation
Indices: 59535906--59536153 Score: 159
Period size: 27 Copynumber: 9.2 Consensus size: 27
59535896 ATTACTGTTC
* *
59535906 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
59535933 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
59535960 TACCCTCGA-TCAGCAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * *
59535987 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
59536013 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
59536040 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * * *
59536067 TACCACTAG-TTTGTGAAATTATCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* ** *
59536094 TAACCTTAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
59536121 TACCC-CTGATTTACAAAATTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
59536148 TACCCT
1 TACCCT
59536154 TGACTTTTTA
Statistics
Matches: 175, Mismatches: 35, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
26 23 0.13
27 151 0.86
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:59536031 original size:80 final size:80
Alignment explanation
Indices: 59535920--59536151 Score: 238
Period size: 80 Copynumber: 2.9 Consensus size: 80
59535910 CTCGATTTAC
**
59535920 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGCAAAATTACCA
1 AAAATT-CTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC-CGAGTCAGCAAAATTACCA
59535984 AAATACC-CTAGTCTGT
64 AAATACCACTAGTCTGT
* * ** *
59536000 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATT-CTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGCAAAATTACCAA
*
59536065 AATACCACTAGTTTGT
65 AATACCACTAGTCTGT
* * * * ** * *
59536081 GAAATTATCGAAATAACCTTAATTTGTAAAATTACCAAAATACCCCTGATTTA-CAAAATTA-CA
1 AAAATTCT-AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCC-GAGTCAGCAAAATTACCA
59536144 GAAATACC
64 -AAATACC
59536152 CTTGACTTTT
Statistics
Matches: 127, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
79 2 0.02
80 63 0.50
81 59 0.46
82 3 0.02
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (80 bp):
AAAATTCTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGCAAAATTACCAAA
ATACCACTAGTCTGT
Found at i:59536070 original size:54 final size:54
Alignment explanation
Indices: 59535908--59536152 Score: 228
Period size: 54 Copynumber: 4.5 Consensus size: 54
59535898 TACTGTTCTA
* * * * **
59535908 CCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-
1 CCCT-GATTTGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAC
** * * *
59535962 CCCTCGATCAGCAAAATTACCAAAATA-CCCTAGTCTGTAAAATTGCTAAAATAC
1 CCCT-GATTTGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAC
* *
59536016 CCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTGATTTGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAC
* ** * * * * *
59536070 CACT-AGTTTGTGAAATTATCGAAATAACCTTAATTTGTAAAATTACCAAAATAC
1 CCCTGA-TTTGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAC
*
59536124 CCCTGATTTACAAAATTA-CAGAAATACCC
1 CCCTGATTTGCAAAATTACCA-AAATACCC
59536153 TTGACTTTTT
Statistics
Matches: 154, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
53 38 0.25
54 115 0.75
55 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
CCCTGATTTGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATAC
Found at i:59536122 original size:81 final size:81
Alignment explanation
Indices: 59535947--59536153 Score: 219
Period size: 81 Copynumber: 2.6 Consensus size: 81
59535937 CTTGGTTTAC
*
59535947 AAAATTACCAAAATA-CCCTCGATCAGCAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAA
1 AAAATTACCAAAATACCCCTAGATCAGCAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAA
* **
59536011 AATACCCCTGGTTTGT
66 AATAACCCTAATTTGT
** * * * *
59536027 AAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATT-ATC
1 AAAATTACCAAAATACCCCTAGATCAGCAAAATTACCAAAATACC-CTAGTCTGTAAAATTGCT-
* *
59536090 GAAATAACCTTAATTTGT
64 AAAATAACCCTAATTTGT
*
59536108 AAAATTACCAAAATACCCCT-GATTTA-CAAAATTA-CAGAAATACCCT
1 AAAATTACCAAAATACCCCTAGA-TCAGCAAAATTACCA-AAATACCCT
59536154 TGACTTTTTA
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
80 40 0.37
81 65 0.61
82 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGATCAGCAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAA
AATAACCCTAATTTGT
Found at i:59537180 original size:25 final size:25
Alignment explanation
Indices: 59537152--59537232 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
59537142 AGGGCTATGA
59537152 CCCAGTTTACTGAAAAGGGTTTTGC
1 CCCAGTTTACTGAAAAGGGTTTTGC
*
59537177 CCCAGTTTACCGAAAAGGGCTTTT-C
1 CCCAGTTTACTGAAAAGGG-TTTTGC
* *
59537202 CCCAGCTTA-TCAAAAGGGTTTTGC
1 CCCAGTTTACTGAAAAGGGTTTTGC
59537226 CCCAGTT
1 CCCAGTT
59537233 ATTATAAGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 14 0.29
25 27 0.55
26 4 0.08
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (25 bp):
CCCAGTTTACTGAAAAGGGTTTTGC
Found at i:59537485 original size:31 final size:31
Alignment explanation
Indices: 59537450--59537590 Score: 228
Period size: 31 Copynumber: 4.5 Consensus size: 31
59537440 CGTTTACAGT
* *
59537450 AAAGGCTTTGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59537481 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
59537512 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
59537543 TAAGGCTTCGACCCACTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59537574 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
59537591 AACCGTTAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 100 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:59537643 original size:93 final size:93
Alignment explanation
Indices: 59537451--59537624 Score: 212
Period size: 93 Copynumber: 1.9 Consensus size: 93
59537441 GTTTACAGTA
* * * * **
59537451 AAGGCTTTGGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAAG
1 AAGGCTTCGACCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATACGATTAAACAAAAG
* ** *
59537516 GCTTTGGCCCAGTGATATGATTTATGAT
66 GCTTCGGCCCAGTGATATGAACTATAAT
*
59537544 AAGGCTTCGACCCACTGATATGATTTATGAAAAGGCTTCGGCCCAGT-A-ACCG-TTAAACAAAA
1 AAGGCTTCGACCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATA-CGATTAAACAAAA
59537606 GGCTTCGGCCCAGT-ATATG
65 GGCTTCGGCCCAGTGATATG
59537625 CCAAGACTAA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
90 5 0.07
91 21 0.29
92 2 0.03
93 44 0.61
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (93 bp):
AAGGCTTCGACCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATACGATTAAACAAAAG
GCTTCGGCCCAGTGATATGAACTATAAT
Found at i:59540032 original size:27 final size:27
Alignment explanation
Indices: 59539902--59540033 Score: 174
Period size: 27 Copynumber: 4.9 Consensus size: 27
59539892 ATTACCAAAG
* *
59539902 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
59539929 TATCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTT
*
59539956 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
59539983 TACCATTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* * *
59540010 TACCCTCAATTTACAAAACTACTA
1 TACCCTCGATTTACAGAATTACTA
59540034 AAATACCTTT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:59540050 original size:54 final size:54
Alignment explanation
Indices: 59539936--59540060 Score: 151
Period size: 54 Copynumber: 2.3 Consensus size: 54
59539926 TTTTATCCTC
* * * * ***
59539936 GATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCATT
1 GATTTACAGAATTACCATTTTACCCTCAATTTACAAAACTACTAAAATACCATT
* *
59539990 GATTTACAGAATTACTATTTTACCCTCAATTTACAAAACTACTAAAATACCTTT
1 GATTTACAGAATTACCATTTTACCCTCAATTTACAAAACTACTAAAATACCATT
* *
59540044 GGTTTACAAAATTACCA
1 GATTTACAGAATTACCA
59540061 AAATACCCTG
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.38
Consensus pattern (54 bp):
GATTTACAGAATTACCATTTTACCCTCAATTTACAAAACTACTAAAATACCATT
Found at i:59540126 original size:27 final size:27
Alignment explanation
Indices: 59540051--59540253 Score: 220
Period size: 27 Copynumber: 7.7 Consensus size: 27
59540041 TTTGGTTTAC
**
59540051 AAAATTACCAAAATA-CCCT-GATCAG-
1 AAAATTACCAAAATACCCCTAG-TTTGT
59540076 AAAATTA-CAAAATA-CCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * *
59540101 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
59540128 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
59540155 AAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * * * *
59540182 GAAATTATCGAAATACCCTTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
59540209 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
59540236 AAAATTA-CAGAAATACCC
1 AAAATTACCA-AAATACCC
59540254 TTGACTTTCT
Statistics
Matches: 152, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.09
25 14 0.09
26 8 0.05
27 117 0.77
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:59540254 original size:54 final size:53
Alignment explanation
Indices: 59540019--59540336 Score: 257
Period size: 54 Copynumber: 5.9 Consensus size: 53
59540009 TTACCCTCAA
* * * **
59540019 TTTACAAAACTACTAAAATACCTTTGGTTTACAAAATTACCAAAATA-CCCT-G
1 TTTACAAAATTAC-AAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGG
* * * * *
59540071 ATCAGAAAATTACAAAATACCC-TAGTTTGTAAAATTGCTAAAATACCCCTGG
1 TTTACAAAATTACAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGG
** * * *
59540123 TTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAG
1 TTTACAAAATTA-CAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGG
*** * * **
59540177 TTTGTGAAATTATCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAA
1 TTTACAAAATTA-CAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGG
* * * **
59540231 TTTACAAAATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGG
1 TTTACAAAATTACA-AAATACCCTT-AGTTTGT-AAAATTACCA-AAATACCCCTGG
* * * *
59540287 TTTACAAAATTACTAAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 TTTACAAAATTAC-AAAATACCCTTAGTTTGTAAAATTACCAAAATACCC
59540337 TTGTAGGGTG
Statistics
Matches: 212, Mismatches: 44, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
50 18 0.08
51 12 0.06
52 18 0.08
53 11 0.05
54 103 0.49
55 11 0.05
56 38 0.18
57 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (53 bp):
TTTACAAAATTACAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTGG
Found at i:59540313 original size:27 final size:27
Alignment explanation
Indices: 59539992--59540316 Score: 173
Period size: 27 Copynumber: 12.1 Consensus size: 27
59539982 TTACCATTGA
* *** * *
59539992 TTTACAGAATTACTATTTTACCCTCAA
1 TTTACAAAATTACTAAAATACCCTTAG
* * *
59540019 TTTACAAAACTACTAAAATACCTTTGG
1 TTTACAAAATTACTAAAATACCCTTAG
*
59540046 TTTACAAAATTACCAAAATACCC-T-G
1 TTTACAAAATTACTAAAATACCCTTAG
* * *
59540071 ATCAGAAAATTAC-AAAATACCC-TAG
1 TTTACAAAATTACTAAAATACCCTTAG
** * * *
59540096 TTTGTAAAATTGCTAAAATACCCCTGG
1 TTTACAAAATTACTAAAATACCCTTAG
** * *
59540123 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACTAAAATACCCTTAG
** *
59540150 TTTGTAAAATTACCAAAATACCAC-TAG
1 TTTACAAAATTACTAAAATACC-CTTAG
*** * *
59540177 TTTGTGAAATTA-TCGAAATACCCTTAA
1 TTTACAAAATTACT-AAAATACCCTTAG
** * * *
59540204 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTACAAAATTACTAAAATACCCTTAG
*
59540231 TTTACAAAATTAC-AGAAATACCCTTGAC
1 TTTACAAAATTACTA-AAATACCCTT-AG
* *
59540259 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACTA-AAATACCCTTAG
*
59540287 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTAAAATACCCTTAG
59540314 TTT
1 TTT
59540317 GTAGATTTAC
Statistics
Matches: 244, Mismatches: 40, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
24 10 0.04
25 20 0.08
26 12 0.05
27 173 0.71
28 10 0.04
29 19 0.08
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTTAG
Found at i:59541280 original size:25 final size:25
Alignment explanation
Indices: 59541242--59541331 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 25
59541232 AGGAAGTGCT
*
59541242 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
**
59541267 AAAAGGGCTTTGCCTTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* **
59541292 AAAAGGGCTTTGCCCCAGCTTA-TA
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
59541316 AAAAGTGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
59541332 TGTAATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
24 15 0.27
25 41 0.73
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:59541341 original size:24 final size:24
Alignment explanation
Indices: 59541292--59541348 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
59541282 TAGTTTACCG
*
59541292 AAAAGGGCTTTGCCCCAGCTTATA
1 AAAAGGGCTTTGCCCCAGCTAATA
* * *
59541316 AAAAGTGCTTTGCCCCTG-TAATT
1 AAAAGGGCTTTGCCCCAGCTAATA
59541339 AAAAGAGGCT
1 AAAAG-GGCT
59541349 AGGCCTCCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGCTAATA
Found at i:59541589 original size:31 final size:31
Alignment explanation
Indices: 59541554--59541694 Score: 219
Period size: 31 Copynumber: 4.5 Consensus size: 31
59541544 CGTTAACAGT
* *
59541554 AAAGGCTTTGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59541585 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
59541616 TAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
59541647 TAAGGCTTCGACCCACTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59541678 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
59541695 AACCGTTAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 100 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:59544046 original size:54 final size:54
Alignment explanation
Indices: 59543972--59544101 Score: 161
Period size: 54 Copynumber: 2.4 Consensus size: 54
59543962 ATTATTGAAA
* * * *
59543972 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCAAAGTACCCTCAATTTATAGAATTACCGTTT
**** *
59544026 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCAAAGTACCCTCAATTTATAGAATTACCGTTT
* *
59544080 TACCCTTGATTTACAGAATTAC
1 TACCCTCGATTTATAGAATTAC
59544102 TGTTTTACCC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCAAAGTACCCTCAATTTATAGAATTACCGTTT
Found at i:59544129 original size:27 final size:27
Alignment explanation
Indices: 59543999--59544129 Score: 199
Period size: 27 Copynumber: 4.9 Consensus size: 27
59543989 ATTACCAAAG
*
59543999 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
59544026 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
59544053 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
59544080 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
59544107 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
59544130 AAAATACTCT
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:59544154 original size:54 final size:54
Alignment explanation
Indices: 59544026--59544156 Score: 127
Period size: 54 Copynumber: 2.4 Consensus size: 54
59544016 ATTACCGTTT
* * * * * ****
59544026 TACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTATAGAATTACTGTTT
1 TACCCTTGATTTAAAAAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
* * * *
59544080 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTAAAAAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
* *
59544134 TACTCTTGGTTTAAAAAATTACC
1 TACCCTTGATTTAAAAAATTACC
59544157 AAAATACCCT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTTGATTTAAAAAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
Found at i:59544213 original size:26 final size:26
Alignment explanation
Indices: 59544121--59544353 Score: 216
Period size: 27 Copynumber: 8.7 Consensus size: 26
59544111 CTCGATTTAC
* * * **
59544121 AAAATTACTAAAATACTCTTGGTTTAA
1 AAAATTACCAAAATAC-CCTAGTTTGT
* **
59544148 AAAATTACCAAAATACCCTTAATCAGT
1 AAAATTACCAAAATACCC-TAGTTTGT
*
59544175 AAAATTACCAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* * *
59544201 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
59544228 AAAATTA-CAAAATATCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
59544254 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * *
59544281 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
* **
59544308 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACCAAAATA-CCCTAGTTTGT
*
59544335 AAAATTACAAAAATACCCT
1 AAAATTACCAAAATACCCT
59544354 TGACTTTCTA
Statistics
Matches: 172, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
26 51 0.30
27 117 0.68
28 4 0.02
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:59544230 original size:53 final size:53
Alignment explanation
Indices: 59544121--59544353 Score: 234
Period size: 53 Copynumber: 4.4 Consensus size: 53
59544111 CTCGATTTAC
* * * ** * ** **
59544121 AAAATTACTAAAATACTCTTGGTTTAAAAAATTACCAAAATACCCTTAATCAGT
1 AAAATTACCAAAATAC-CCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGT
* * *
59544175 AAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGT
*
59544228 AAAATTA-CAAAATATCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGT
* * * ** **
59544281 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCCTGGTTTGT
*
59544335 AAAATTACAAAAATACCCT
1 AAAATTACCAAAATACCCT
59544354 TGACTTTCTA
Statistics
Matches: 148, Mismatches: 28, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
52 7 0.05
53 76 0.51
54 65 0.44
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGT
Found at i:59544403 original size:27 final size:27
Alignment explanation
Indices: 59544364--59544415 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
59544354 TGACTTTCTA
59544364 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
59544391 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
59544416 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:59545379 original size:25 final size:25
Alignment explanation
Indices: 59545341--59545430 Score: 110
Period size: 25 Copynumber: 3.6 Consensus size: 25
59545331 AGGAAGTGCT
*
59545341 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
**
59545366 AAAAGGGCTTTGCCTTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* **
59545391 AAAAGGGCTTTGCCCCAGCTTA-TA
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
59545415 AAAAGTGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
59545431 TGTAATTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
24 15 0.27
25 41 0.73
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:59545440 original size:24 final size:24
Alignment explanation
Indices: 59545391--59545447 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
59545381 TAGTTTACCG
*
59545391 AAAAGGGCTTTGCCCCAGCTTATA
1 AAAAGGGCTTTGCCCCAGCTAATA
* * *
59545415 AAAAGTGCTTTGCCCCTG-TAATT
1 AAAAGGGCTTTGCCCCAGCTAATA
59545438 AAAAGAGGCT
1 AAAAG-GGCT
59545448 AGGCCTCCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGCTAATA
Found at i:59545688 original size:31 final size:31
Alignment explanation
Indices: 59545653--59545793 Score: 255
Period size: 31 Copynumber: 4.5 Consensus size: 31
59545643 CGTTTACAGT
*
59545653 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59545684 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
59545715 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
59545746 TAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
59545777 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
59545794 AACCGTTAAA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:59545846 original size:93 final size:93
Alignment explanation
Indices: 59545654--59545827 Score: 230
Period size: 93 Copynumber: 1.9 Consensus size: 93
59545644 GTTTACAGTA
* * ** *
59545654 AAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGATAAG
1 AAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATACGATTAAACAAAAG
** *
59545719 GCTTCGGCCCAGTGATATGATTTATGAT
66 GCTTCGGCCCAGTGATATGAACTATAAT
*
59545747 AAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGT-A-ACCG-TTAAACAAAA
1 AAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATA-CGATTAAACAAAA
59545809 GGCTTCGGCCCAGT-ATATG
65 GGCTTCGGCCCAGTGATATG
59545828 CCAAGACTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
90 5 0.07
91 21 0.28
92 2 0.03
93 46 0.62
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (93 bp):
AAGGCTTCGGCCCAATGATATGATTTATGAAAAGGCTTCGGCCCAGTGATACGATTAAACAAAAG
GCTTCGGCCCAGTGATATGAACTATAAT
Found at i:59548536 original size:43 final size:42
Alignment explanation
Indices: 59548435--59548550 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
59548425 GGTTTTTGAG
* *
59548435 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATCGT
* ** * *
59548477 ATTGAGATTATGTGTAAGACCATTTTTGGGACATTGACATCGAT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGACATCG-T
* *
59548521 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
59548551 AACGGCATTG
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 1 0.02
43 56 0.95
44 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATCGT
Found at i:59556273 original size:79 final size:82
Alignment explanation
Indices: 59556162--59556346 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
59556152 GCTACTCGTT
* * *
59556162 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59556225 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
59556242 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
59556305 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
59556322 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59556347 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:59556346 original size:40 final size:40
Alignment explanation
Indices: 59556143--59556346 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
59556133 CGGAATTTAA
** *
59556143 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59556183 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59556223 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59556262 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59556302 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59556342 CCGGA
1 CCGGA
59556347 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59560792 original size:25 final size:25
Alignment explanation
Indices: 59560758--59560807 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
59560748 AACCAAAGTT
59560758 TGGTTTCTAGTATCATATATACTTA
1 TGGTTTCTAGTATCATATATACTTA
59560783 TGGTTTCTAGTATCATATATACTTA
1 TGGTTTCTAGTATCATATATACTTA
59560808 AACATAGATA
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:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (25 bp):
TGGTTTCTAGTATCATATATACTTA
Found at i:59562560 original size:42 final size:42
Alignment explanation
Indices: 59562501--59562622 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 42
59562491 TAAGGCTATT
** * *
59562501 TGAGATTATGTGTAAGACTATATTTGGAATATGGCATCGATA
1 TGAGATTCCGTGTAAGACCATATTTGGGATATGGCATCGATA
* * * *
59562543 TGAGACTT-CGTGTAAGACCATAGTTGGGCTATTAGTATCGATA
1 TGAGA-TTCCGTGTAAGACCATATTTGGGATA-TGGCATCGATA
* *
59562586 TGAGATTCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTCCGTGTAAGACCATATTTGGGATATGGCAT
59562623 TGGTATGGTG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (42 bp):
TGAGATTCCGTGTAAGACCATATTTGGGATATGGCATCGATA
Found at i:59565251 original size:20 final size:20
Alignment explanation
Indices: 59565226--59565264 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
59565216 ACCTGAATGC
59565226 TAGCATTATGGGAGGAGACG
1 TAGCATTATGGGAGGAGACG
*
59565246 TAGCATTGTGGGAGGAGAC
1 TAGCATTATGGGAGGAGAC
59565265 ATCTTGACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.41, T:0.21
Consensus pattern (20 bp):
TAGCATTATGGGAGGAGACG
Found at i:59583054 original size:116 final size:116
Alignment explanation
Indices: 59582850--59583081 Score: 401
Period size: 116 Copynumber: 2.0 Consensus size: 116
59582840 AATAGTAGAG
59582850 GACCTATTCATGAAGAACGAAGGCTACAAATCGAAGAGCTAGATGAATGGCGGACGCATAAACCG
1 GACCTATTCATGAAGAACGAAGGCTACAAATCGAAGAGCTAGATGAATGGCGGACGCATAAACCG
* *
59582915 AGAATGCCCGATAAATAGAAACTACGATAGAACGAGCTCAATACCTTTCCA
66 AGAACGCCCGATAAACAGAAACTACGATAGAACGAGCTCAATACCTTTCCA
* * *
59582966 GACCTATTCATGAAGAACGAAGGCTACAAATCGAGGAGCTAGATGAATGTCGGACGCATAAACTG
1 GACCTATTCATGAAGAACGAAGGCTACAAATCGAAGAGCTAGATGAATGGCGGACGCATAAACCG
* *
59583031 AGAACGGCCGATAAACAGAAACTATGATAGAACGAGCTCAATACCTTTCCA
66 AGAACGCCCGATAAACAGAAACTACGATAGAACGAGCTCAATACCTTTCCA
59583082 ATCAATATAA
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (116 bp):
GACCTATTCATGAAGAACGAAGGCTACAAATCGAAGAGCTAGATGAATGGCGGACGCATAAACCG
AGAACGCCCGATAAACAGAAACTACGATAGAACGAGCTCAATACCTTTCCA
Found at i:59587715 original size:13 final size:13
Alignment explanation
Indices: 59587697--59587723 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
59587687 GAAGTAATCG
59587697 CACACGGGCGTGT
1 CACACGGGCGTGT
59587710 CACACGGGCGTGT
1 CACACGGGCGTGT
59587723 C
1 C
59587724 CCTGCCGAGC
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:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:59589973 original size:42 final size:42
Alignment explanation
Indices: 59589914--59590032 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
59589904 TAGGGTTATT
*
59589914 TGAGATTACGTGTAAGACTATATCTGGGATATGGAATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
*
59589956 TGAGACTT-CGTGTAAGACCATAGT-TGGGCTATTGGAATCGATA
1 TGAGA-TTACGTGTAAGACCATA-TCTGGGATA-TGGAATCGATA
* * * *
59589999 TGATATTCCATGTAAGACCATATCTAGGATATGG
1 TGAGATTACGTGTAAGACCATATCTGGGATATGG
59590033 CATTGGTATG
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
42 30 0.45
43 36 0.55
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGAATCGATA
Found at i:59592136 original size:40 final size:40
Alignment explanation
Indices: 59591988--59592129 Score: 266
Period size: 40 Copynumber: 3.5 Consensus size: 40
59591978 TTTGACATAG
* *
59591988 TCACTAGCACAAATGCCTTCGGGACTTAGCTCGGATATAG
1 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
59592028 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
59592068 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
1 TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
59592108 TCACTAGCACAAATGCCTTCGG
1 TCACTAGCACAAATGCCTTCGG
59592130 ATCTTAGTCC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
TCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
Found at i:59600072 original size:40 final size:40
Alignment explanation
Indices: 59599860--59600065 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
59599850 AACCCAAGTA
* * * * *
59599860 CCTTCGGAATTTAG-CCGGATAT-AGCAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
* *
59599899 CCTTCGGGACTTAGCCCGGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCC-GGATATAATCACTAGCACAAATG
*
59599940 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
59599979 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
59600019 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
59600059 CCTTCGG
1 CCTTCGG
59600066 ATCTTAGTCC
Statistics
Matches: 154, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 39 0.25
40 93 0.60
41 21 0.14
42 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:59603782 original size:20 final size:20
Alignment explanation
Indices: 59603759--59603796 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59603749 ATATAGATAA
59603759 ATATAAAGAAAT-AAATATTT
1 ATATAAA-AAATGAAATATTT
*
59603779 ATATATAAAATGAAATAT
1 ATATAAAAAATGAAATAT
59603797 AAATAGAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATATAAAAAATGAAATATTT
Found at i:59607276 original size:16 final size:16
Alignment explanation
Indices: 59607257--59607287 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
59607247 GCATTTCTCA
59607257 TTGCCGAATCATATGT
1 TTGCCGAATCATATGT
59607273 TTGCCGAATCATATG
1 TTGCCGAATCATATG
59607288 ATCAAACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (16 bp):
TTGCCGAATCATATGT
Found at i:59610157 original size:39 final size:40
Alignment explanation
Indices: 59610020--59610157 Score: 217
Period size: 40 Copynumber: 3.5 Consensus size: 40
59610010 CGGATGATAA
59610020 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
59610060 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
59610100 CCGGGCTAAGTCCCGAAGGCAGTTAAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
59610140 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59610158 TACTTGGTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.18
40 76 0.82
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:59617990 original size:40 final size:40
Alignment explanation
Indices: 59617935--59618110 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
59617925 TGGATGATAA
59617935 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
59617975 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
59618015 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTAC-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
59618053 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
59618093 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59618111 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
38 32 0.25
39 24 0.18
40 74 0.57
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:59618083 original size:78 final size:80
Alignment explanation
Indices: 59617935--59618110 Score: 288
Period size: 78 Copynumber: 2.2 Consensus size: 80
59617925 TGGATGATAA
*
59617935 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAGTTG
*
59618000 TGCGAGTTA-CTATAT
66 AGCGAG-TAGCTATAT
59618015 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTTAC-ATATCCGGGCTAAGTCCCGAAGGCAGTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAGTTG
59618078 AGCGAGTAGCTATAT
66 AGCGAGTAGCTATAT
*
59618093 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59618111 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
77 17 0.18
78 41 0.45
79 6 0.07
80 28 0.30
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAGTTG
AGCGAGTAGCTATAT
Found at i:59620992 original size:47 final size:47
Alignment explanation
Indices: 59620934--59621491 Score: 954
Period size: 47 Copynumber: 11.7 Consensus size: 47
59620924 TTAGGATTCT
* *
59620934 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAGGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
59620981 ATGTGACGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
59621030 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59621077 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
59621126 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59621173 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59621220 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59621267 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
59621316 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
59621363 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
59621410 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
59621457 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59621492 TCCCGAAGGG
Statistics
Matches: 489, Mismatches: 16, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
47 351 0.72
49 138 0.28
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:59620994 original size:96 final size:92
Alignment explanation
Indices: 59620934--59621491 Score: 795
Period size: 96 Copynumber: 5.9 Consensus size: 92
59620924 TTAGGATTCT
* * *
59620934 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAGGGCCAATGTGACGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59620999 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATATGTGATAAGG-C--AT-GCCG
59621030 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59621095 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATATGTGATAAGG-C--AT-GCCG
*
59621126 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59621191 TG--TATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATATGTGATAAGG-C--AT-GCCG
59621220 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59621285 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATATGTGATAAGG-C--AT-GCCG
59621316 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59621381 TG--TATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATATGTGATAAGG-C--AT-GCCG
* * * * * * *
59621410 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59621475 TGTATA-A-ATGTGATAAG
66 TGTATATATATGTGATAAG
59621492 TCCCGAAGGG
Statistics
Matches: 446, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
94 190 0.43
95 1 0.00
96 255 0.57
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (92 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCATGCCG
Found at i:59621087 original size:143 final size:141
Alignment explanation
Indices: 59620934--59621491 Score: 954
Period size: 143 Copynumber: 3.9 Consensus size: 141
59620924 TTAGGATTCT
* * *
59620934 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAGGGCCAATGTGACGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59620999 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
59621064 GGCCTAATGGCCG
129 GGCCTAATGGCCG
59621077 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
59621142 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
59621207 GGCCTAATGGCCG
129 GGCCTAATGGCCG
59621220 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59621285 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
59621350 GGCCTAATGGCCG
129 GGCCTAATGGCCG
59621363 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * * *
59621428 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
59621492 TCCCGAAGGG
Statistics
Matches: 398, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
141 101 0.25
143 253 0.64
145 44 0.11
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (141 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCG
Found at i:59621260 original size:190 final size:190
Alignment explanation
Indices: 59620934--59621491 Score: 985
Period size: 190 Copynumber: 2.9 Consensus size: 190
59620924 TTAGGATTCT
* * *
59620934 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAGGGCCAATGTGACGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59620999 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
66 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
59621064 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
129 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
59621126 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
59621191 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
59621256 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
131 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
59621316 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
59621381 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* * * * *
59621446 CCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
131 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
59621492 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
188 10 0.03
189 1 0.00
190 280 0.79
192 63 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:59621666 original size:37 final size:37
Alignment explanation
Indices: 59621610--59621688 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59621600 CCGAGCTCTA
* * *
59621610 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
59621647 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
59621684 AAGAC
1 AAGAC
59621689 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:59624192 original size:27 final size:26
Alignment explanation
Indices: 59624144--59624195 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59624134 GTGTGGCTGC
*
59624144 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
59624170 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
59624196 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:59624898 original size:27 final size:27
Alignment explanation
Indices: 59624849--59624939 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 27
59624839 GGGCAAAATG
* * * * *
59624849 GTAATTTTACCCCACAAGCGTATCTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
59624876 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
59624903 GTAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
59624930 GTAATTCTAC
1 GTAATTCTAC
59624940 AACTTATCCA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:59628756 original size:40 final size:40
Alignment explanation
Indices: 59628673--59628854 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
59628663 AACCCAAGTA
* * *
59628673 CCTTCGGGAATTAG-CCGGACATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
59628712 CCTTCGGGTCTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
59628752 CCTTCGGCACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
59628792 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59628832 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59628855 CATCTGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 116 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59629590 original size:79 final size:81
Alignment explanation
Indices: 59629454--59629638 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
59629444 TTGAATGATG
*
59629454 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
59629518 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
59629533 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
59629595 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
59629613 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59629639 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:59629652 original size:40 final size:40
Alignment explanation
Indices: 59629455--59629638 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
59629445 TGAATGATGT
* * * *
59629455 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
59629495 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
59629535 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
59629573 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
59629614 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
59629639 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:59629660 original size:79 final size:79
Alignment explanation
Indices: 59629507--59629671 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
59629497 GGACTAAGAT
* **
59629507 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
59629572 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
59629586 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
59629649 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59629665 CCGAAGG
1 CCGAAGG
59629672 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59631146 original size:79 final size:81
Alignment explanation
Indices: 59631005--59631189 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
59630995 TTGAATGATG
* *
59631005 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGATGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
59631069 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
59631084 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
59631146 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
59631164 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59631190 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:59631196 original size:40 final size:40
Alignment explanation
Indices: 59631005--59631189 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
59630995 TTGAATGATG
* * * *
59631005 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
59631045 TCCGGACTAAGAT-CCGATGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
59631085 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59631124 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59631165 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59631190 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59631211 original size:79 final size:79
Alignment explanation
Indices: 59631058--59631222 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
59631048 GGACTAAGAT
* * **
59631058 CCGATGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
59631123 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
59631137 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
59631200 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
59631216 CCGAAGG
1 CCGAAGG
59631223 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:59639806 original size:40 final size:40
Alignment explanation
Indices: 59639732--59639913 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
59639722 AACCCAAGTA
* * *
59639732 CCTTCGGGAATTAG-CTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
59639771 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59639811 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
59639851 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
59639891 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
59639914 CATCCGAATA
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 12 0.09
40 122 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59672242 original size:79 final size:82
Alignment explanation
Indices: 59672131--59672315 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
59672121 GCTACTCGTT
* * *
59672131 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59672194 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
59672211 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
59672274 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
59672291 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59672316 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:59672315 original size:40 final size:40
Alignment explanation
Indices: 59672112--59672315 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
59672102 CGGAATTTAA
** *
59672112 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59672152 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59672192 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59672231 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59672271 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59672311 CCGGA
1 CCGGA
59672316 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59680095 original size:79 final size:82
Alignment explanation
Indices: 59679984--59680168 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
59679974 GCTACTCGTT
* * *
59679984 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59680047 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
59680064 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
59680127 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
59680144 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59680169 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:59680168 original size:40 final size:40
Alignment explanation
Indices: 59679965--59680168 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
59679955 CGGAATTTAA
** *
59679965 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
59680005 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59680045 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59680084 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59680124 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59680164 CCGGA
1 CCGGA
59680169 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59698992 original size:6 final size:6
Alignment explanation
Indices: 59698981--59699087 Score: 107
Period size: 6 Copynumber: 17.8 Consensus size: 6
59698971 AACCAAAATG
* *
59698981 AGAATC AGAATC AGAATT AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
59699029 AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
59699077 AGAATC AGAAT
1 AGAATC AGAAT
59699088 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 6, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
5 8 0.09
6 71 0.84
7 4 0.05
8 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:59699087 original size:36 final size:30
Alignment explanation
Indices: 59698981--59699083 Score: 190
Period size: 30 Copynumber: 3.4 Consensus size: 30
59698971 AACCAAAATG
59698981 AGAATCAGAATCAGA-ATTAGTAACAGAATC
1 AGAATCAGAATCA-ATATTAGTAACAGAATC
59699011 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
59699041 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
59699071 AGAATCAGAATCA
1 AGAATCAGAATCA
59699084 GAATGTGAAT
Statistics
Matches: 72, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 1 0.01
30 71 0.99
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAATATTAGTAACAGAATC
Found at i:59699242 original size:27 final size:26
Alignment explanation
Indices: 59699205--59699270 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
59699195 AGCATGGCTG
*
59699205 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
59699231 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
59699258 CCAGAATCAGATA
1 CCAGAA-CAGATA
59699271 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:59699275 original size:27 final size:27
Alignment explanation
Indices: 59699205--59699278 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
59699195 AGCATGGCTG
* *
59699205 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
59699231 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
59699258 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
59699279 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:59699285 original size:27 final size:27
Alignment explanation
Indices: 59699229--59699286 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
59699219 GTGACAGAGT
* * *
59699229 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
59699256 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
59699283 CACC
1 CACC
59699287 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:59699491 original size:22 final size:22
Alignment explanation
Indices: 59699443--59699494 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
59699433 GTAAATACGT
*
59699443 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
59699465 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
59699487 TTGGCACA
1 TTGGCACA
59699495 GAGCTATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:59699628 original size:27 final size:26
Alignment explanation
Indices: 59699589--59699672 Score: 96
Period size: 27 Copynumber: 3.2 Consensus size: 26
59699579 TCGATCAGTC
*
59699589 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGACAGAGCCACCAA
* *
59699615 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAA
* * *
59699642 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGACAGAGCCACCAA
59699669 AACA
1 AACA
59699673 CTTCCTCCGT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.15
27 44 0.85
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAA
Found at i:59699900 original size:27 final size:27
Alignment explanation
Indices: 59699870--59700065 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
59699860 GGGGCAAAAT
* * * *
59699870 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
59699897 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
59699924 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59699951 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
59699978 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59700005 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59700032 GGAAATTCTACCCTACAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59700059 AGTAATT
1 GGTAATT
59700066 TCACAATCAA
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:59700469 original size:27 final size:27
Alignment explanation
Indices: 59700070--59700452 Score: 430
Period size: 27 Copynumber: 14.2 Consensus size: 27
59700060 GTAATTTCAC
* * *
59700070 AATCAAGGGTAAAACAGTAATTCTTTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59700097 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59700124 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * * **
59700151 AATTAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59700178 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
59700205 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59700232 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
59700259 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
59700286 AA-CTGAGGGTAAAACTATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
59700313 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
59700340 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * **
59700367 AATTGAGGGTAAAACGATAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
59700394 AATCGAAGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59700421 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
59700448 AATCG
1 AATCG
59700453 GGAGTACTTT
Statistics
Matches: 296, Mismatches: 54, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
26 2 0.01
27 293 0.99
28 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:59705730 original size:24 final size:24
Alignment explanation
Indices: 59705698--59705784 Score: 88
Period size: 24 Copynumber: 3.6 Consensus size: 24
59705688 TTTAAAGGTC
59705698 CGCACACATAGTGCCGCATTTCCT
1 CGCACACATAGTGCCGCATTTCCT
* *
59705722 CGCACACATACTGCCATGTAGTTT--T
1 CGCACACATAGTGCC--GCA-TTTCCT
* **
59705747 TGCACACATAGTGCCGCATAACCT
1 CGCACACATAGTGCCGCATTTCCT
59705771 CGCACACATAGTGC
1 CGCACACATAGTGC
59705785 TGAAATTTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
22 1 0.02
23 2 0.04
24 28 0.56
25 14 0.28
26 2 0.04
27 3 0.06
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (24 bp):
CGCACACATAGTGCCGCATTTCCT
Found at i:59708441 original size:43 final size:41
Alignment explanation
Indices: 59708393--59708535 Score: 107
Period size: 40 Copynumber: 3.4 Consensus size: 41
59708383 CAATACCAAC
59708393 GTCCCAAACGTGGTCTTATATGCTATCACATATCGATGCCACT
1 GTCCCAAACGTGGTCTTATA-GCTATCACATAT-GATGCCACT
* * * * *
59708436 GTCCCAAAC-AGGTCTTACA-CAAATCAAATATGATGCCAAT
1 GTCCCAAACGTGGTCTTATAGC-TATCACATATGATGCCACT
* *
59708476 GTCCC-AACATGGTCTTATA-CGTAATCACATATAGATACCAAC-
1 GTCCCAAACGTGGTCTTATAGC-T-ATCACATAT-GATGCC-ACT
* *
59708518 GTCCCAGATGTGGTCTTA
1 GTCCCAAACGTGGTCTTA
59708536 CACGAGAACA
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
39 3 0.04
40 23 0.29
41 16 0.20
42 18 0.23
43 19 0.24
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (41 bp):
GTCCCAAACGTGGTCTTATAGCTATCACATATGATGCCACT
Found at i:59713333 original size:18 final size:18
Alignment explanation
Indices: 59713310--59713347 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
59713300 AAACCATGCC
*
59713310 AACAATTCCACATCTATG
1 AACAATTCCACATCCATG
59713328 AACAATTCCACATCCATG
1 AACAATTCCACATCCATG
59713346 AA
1 AA
59713348 AGACTATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.24
Consensus pattern (18 bp):
AACAATTCCACATCCATG
Found at i:59714078 original size:48 final size:47
Alignment explanation
Indices: 59714018--59714186 Score: 198
Period size: 48 Copynumber: 3.6 Consensus size: 47
59714008 AAGCTGACAT
* * *
59714018 CATGTCCCAGACAGGTTTTACACTAGCTTGTATATCGCGAAGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAAGCCGATG
* ** *
59714066 CATGACCCAGACATGTCTTACACTAGCTTT-CGTCTC-AATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAA-GCCGATG
* * * *
59714112 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-TATATCTCGAAGCCGATG
59714160 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
59714187 ACACATATCA
Statistics
Matches: 101, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 2 0.02
46 36 0.36
47 1 0.01
48 61 0.60
49 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTATATCTCGAAGCCGATG
Found at i:59718108 original size:40 final size:40
Alignment explanation
Indices: 59717950--59718127 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
59717940 CGGATGGTAA
*
59717950 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATA-T
59717990 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
*
59718030 TCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
*
59718070 CCGGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTA-CTATAT
* *
59718110 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59718128 TACTTGGTCT
Statistics
Matches: 129, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
39 19 0.15
40 109 0.84
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
Found at i:59726118 original size:25 final size:25
Alignment explanation
Indices: 59726084--59726133 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
59726074 CCCTCAGTAA
59726084 CCGATGTTTCCTTTCCCAATTGCTT
1 CCGATGTTTCCTTTCCCAATTGCTT
59726109 CCGATGTTTCCTTTCCCAATTGCTT
1 CCGATGTTTCCTTTCCCAATTGCTT
59726134 TCAATCCCTC
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:0.12, C:0.32, G:0.12, T:0.44
Consensus pattern (25 bp):
CCGATGTTTCCTTTCCCAATTGCTT
Done.