Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 40
Found at i:6429824 original size:22 final size:22
Alignment explanation
Indices: 6429799--6429956 Score: 244
Period size: 22 Copynumber: 7.2 Consensus size: 22
6429789 TAGTCATTCA
6429799 GGACGTATCCAGTGGTCCTTCG
1 GGACGTATCCAGTGGTCCTTCG
6429821 GGACGTATCCAGTGGTCCTTCG
1 GGACGTATCCAGTGGTCCTTCG
6429843 GGACGTATCCAGTGGTCCTTCG
1 GGACGTATCCAGTGGTCCTTCG
*
6429865 GGACGTATCCAGTGGTCCTTAG
1 GGACGTATCCAGTGGTCCTTCG
6429887 GGACGTATCCAGTGGTCCTTCG
1 GGACGTATCCAGTGGTCCTTCG
* *
6429909 GGACATATCCAGTGGTTCTTCG
1 GGACGTATCCAGTGGTCCTTCG
* * * * *
6429931 GGATGTGTCTAGTGGTCTTTCA
1 GGACGTATCCAGTGGTCCTTCG
6429953 GGAC
1 GGAC
6429957 AAATACTGAA
Statistics
Matches: 124, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 124 1.00
ACGTcount: A:0.15, C:0.24, G:0.32, T:0.29
Consensus pattern (22 bp):
GGACGTATCCAGTGGTCCTTCG
Found at i:6435941 original size:22 final size:22
Alignment explanation
Indices: 6435904--6436052 Score: 163
Period size: 22 Copynumber: 7.1 Consensus size: 22
6435894 TGAGGTGCTC
*
6435904 GACGTAT-TCAGTGGTCCTTTGG
1 GACGTATCT-AGTGGTCCTTCGG
*
6435926 GACATATCTAGTGGTCCTTCGG
1 GACGTATCTAGTGGTCCTTCGG
* *
6435948 GATGTATCCAGTGGTCCTTCGG
1 GACGTATCTAGTGGTCCTTCGG
* *
6435970 GATGTATCCAGTGGTCCTTCGG
1 GACGTATCTAGTGGTCCTTCGG
6435992 GACGTATCTAGTGGTCCTTCGG
1 GACGTATCTAGTGGTCCTTCGG
*
6436014 GAC--A--TAGTGGTCCTTTGG
1 GACGTATCTAGTGGTCCTTCGG
6436032 GAC----CTAGTGGTCCTTCGG
1 GACGTATCTAGTGGTCCTTCGG
6436050 GAC
1 GAC
6436053 AAATACTGAA
Statistics
Matches: 116, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
18 32 0.28
20 1 0.01
22 82 0.71
23 1 0.01
ACGTcount: A:0.15, C:0.22, G:0.32, T:0.32
Consensus pattern (22 bp):
GACGTATCTAGTGGTCCTTCGG
Found at i:6436023 original size:18 final size:18
Alignment explanation
Indices: 6435979--6436053 Score: 96
Period size: 18 Copynumber: 3.9 Consensus size: 18
6435969 GGATGTATCC
6435979 AGTGGTCCTTCGGGACGTATCT
1 AGTGGTCCTTCGGGAC--A--T
6436001 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
6436019 AGTGGTCCTTTGGGACCT
1 AGTGGTCCTTCGGGACAT
6436037 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
6436054 AATACTGAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 32 0.65
20 1 0.02
22 16 0.33
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:6443225 original size:43 final size:43
Alignment explanation
Indices: 6443177--6443258 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
6443167 GTAGTCGCAT
*
6443177 GTTTTACTACCGTCACATGATTAAAAGTTAAATCCTACCACAC
1 GTTTTACTACCGTCACATGATTAAAAGATAAATCCTACCACAC
** * * *
6443220 GTTTTACTACTTTCACATGCTTCAAAGATAAATCTTACC
1 GTTTTACTACCGTCACATGATTAAAAGATAAATCCTACC
6443259 CACATATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.34
Consensus pattern (43 bp):
GTTTTACTACCGTCACATGATTAAAAGATAAATCCTACCACAC
Found at i:6448817 original size:29 final size:29
Alignment explanation
Indices: 6448785--6448848 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
6448775 CCGGTCAGCG
6448785 AACCGGCCGTGCTACCGGTTCACTGGTTC
1 AACCGGCCGTGCTACCGGTTCACTGGTTC
6448814 AACCGGCCGTGCTACCGGTTCACTGGTTC
1 AACCGGCCGTGCTACCGGTTCACTGGTTC
6448843 AACCGG
1 AACCGG
6448849 ACGACGTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.16, C:0.34, G:0.28, T:0.22
Consensus pattern (29 bp):
AACCGGCCGTGCTACCGGTTCACTGGTTC
Found at i:6448901 original size:22 final size:21
Alignment explanation
Indices: 6448867--6448919 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
6448857 ATAATTATTT
*
6448867 AAAAA-ATTAAATAAAAATACC
1 AAAAACATTTAATAAAAA-ACC
*
6448888 AAAAACATTTAATAAAAAACT
1 AAAAACATTTAATAAAAAACC
6448909 AAAAACATTTA
1 AAAAACATTTA
6448920 GGTTGAACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAACATTTAATAAAAAACC
Found at i:6448992 original size:19 final size:21
Alignment explanation
Indices: 6448953--6448994 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
6448943 TCCGGTTCGA
6448953 ACAGACCGGTTCGAACGGTTC
1 ACAGACCGGTTCGAACGGTTC
*
6448974 ACAG-CCGGTTC-AGCGGTTC
1 ACAGACCGGTTCGAACGGTTC
6448993 AC
1 AC
6448995 TAGTAGCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (21 bp):
ACAGACCGGTTCGAACGGTTC
Found at i:6459864 original size:19 final size:20
Alignment explanation
Indices: 6459842--6459880 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6459832 TTAATAGAAT
*
6459842 ATATATAAT-TTAAAATTCA
1 ATATAAAATCTTAAAATTCA
6459861 ATATAAAATCTTAAAATTCA
1 ATATAAAATCTTAAAATTCA
6459881 TTAACACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAAATCTTAAAATTCA
Found at i:6462268 original size:22 final size:22
Alignment explanation
Indices: 6462221--6462271 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
6462211 GATTCCCTCC
6462221 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTT-AA
6462244 AGGGGGAATCGGTTCCCC-TATA
1 AGGGGGAATCGGTTCCCCTTA-A
6462266 AGGGGG
1 AGGGGG
6462272 TGTCGATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 8 0.30
23 18 0.67
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.20
Consensus pattern (22 bp):
AGGGGGAATCGGTTCCCCTTAA
Found at i:6468270 original size:19 final size:20
Alignment explanation
Indices: 6468248--6468286 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6468238 TTAATCGAAT
*
6468248 ATATATAAT-TTAAAATTCA
1 ATATAAAATCTTAAAATTCA
6468267 ATATAAAATCTTAAAATTCA
1 ATATAAAATCTTAAAATTCA
6468287 TTAACACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAAAATCTTAAAATTCA
Found at i:6470538 original size:12 final size:12
Alignment explanation
Indices: 6470511--6470580 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
6470501 ACAGAGGTAT
* *
6470511 CAGAAATCAAAA
1 CAGAATTCAGAA
*
6470523 CAGAATTCAGAT
1 CAGAATTCAGAA
*
6470535 CAG-ATATCAAAA
1 CAGAAT-TCAGAA
* * *
6470547 CAGAATCCATAT
1 CAGAATTCAGAA
*
6470559 CAGAAATCAGAA
1 CAGAATTCAGAA
6470571 CAGAATTCAG
1 CAGAATTCAG
6470581 GTAATGTATC
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
11 2 0.05
12 39 0.91
13 2 0.05
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:6470543 original size:24 final size:24
Alignment explanation
Indices: 6470509--6470580 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
6470499 AAACAGAGGT
6470509 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
6470533 ATCAGATATCAAAACAGAATCCAT
1 ATCAGAAATCAAAACAGAATTCAG
*
6470557 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
6470581 GTAATGTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.51, C:0.18, G:0.12, T:0.18
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:6472777 original size:13 final size:13
Alignment explanation
Indices: 6472759--6472783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6472749 GTCAACGACG
6472759 GTCAACGGGTCGA
1 GTCAACGGGTCGA
6472772 GTCAACGGGTCG
1 GTCAACGGGTCG
6472784 GGTCGGGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:6472795 original size:31 final size:31
Alignment explanation
Indices: 6472758--6472822 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
6472748 GGTCAACGAC
*
6472758 GGTCAACGGGTCGAGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGAGTAAACGGGTCGGGTCG
* *
6472789 GGTCAACGTGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGAGTAAACGGGTCGGGTCG
6472820 GGT
1 GGT
6472823 TGTGACCGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.15, C:0.20, G:0.46, T:0.18
Consensus pattern (31 bp):
GGTCAACGGGTCGAGTAAACGGGTCGGGTCG
Found at i:6472801 original size:13 final size:13
Alignment explanation
Indices: 6472782--6472818 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
6472772 GTCAACGGGT
6472782 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
* *
6472795 CGTGTCGGGTAAA
1 CGGGTCGGGTCAA
6472808 CGGGTCGGGTC
1 CGGGTCGGGTC
6472819 GGGTTGTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.22, G:0.46, T:0.19
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:6472819 original size:18 final size:18
Alignment explanation
Indices: 6472764--6472822 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
6472754 CGACGGTCAA
*
6472764 CGGGTCGAGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
6472782 CGGGTCGGGTCAAC--GT
1 CGGGTCGGGTCAACGGGT
*
6472798 ---GTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
6472813 CGGGTCGGGT
1 CGGGTCGGGT
6472823 TGTGACCGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
13 10 0.29
15 2 0.06
16 2 0.06
18 20 0.59
ACGTcount: A:0.14, C:0.20, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:6479210 original size:348 final size:348
Alignment explanation
Indices: 6478566--6479264 Score: 1148
Period size: 348 Copynumber: 2.0 Consensus size: 348
6478556 CCTCATTCGA
* * *
6478566 ACCTTCTCTTATGATTGTCTCTAGAACCATGTTCTTTACACGAATATGCTTGAAAAACTCCTCGG
1 ACCTTCTCTTATGATGGTCTCTAGAACCATGTTCTTTACACGAACATGCTTGAAAAACTCCTCGA
* * *
6478631 ACACGGACAACCCTTCCTACACTTGGCTCCCACTCACCTTGGTAGAAACAAACTTTATTGAGCTA
66 ACACAGACAACCCTTCCTACACTTGGCTCCCACTCACCTTGGTAGAAACAAACCTTATTGAGCCA
* * *
6478696 AGTCTCAACGCCTCTTCGATCCTGGGTTTGTCATTTTCTTTGGACAACTCAATCCTGGGCTCATA
131 AGTCTCAACGCCTCTTCGATCCTGGGTTCGTCATTTTCTTTGGAAAACTCAATCATGGGCTCATA
* *
6478761 CTTTACCTTGGATAACTTGGCTCCCCACGGGTAGTCTTACAACACCTCGGGTATCTTAATTTGGC
196 CTTTACCTTGGATAACTAGGCTCCCCACGGGTAGTCCTACAACACCTCGGGTATCTTAATTTGGC
* * *
6478826 GACCATTCGCTTGCTAAACTCTTACCATCTGCTTAGCATCTTTGACTCTTGTACTTATGCCAAGT
261 GACCATTCGCTTGCTAAACTCTTACCATCGGCTTAGCATCTTTGACACTTGTACTTATACCAAGT
6478891 CTGAACACATCTTTCCCAGACTC
326 CTGAACACATCTTTCCCAGACTC
* *
6478914 ACCTTCTCTTATGATGGTCTCTAGAGCCATGTTCTTTACACGAACATGCTTGAAAAACTCCTCTA
1 ACCTTCTCTTATGATGGTCTCTAGAACCATGTTCTTTACACGAACATGCTTGAAAAACTCCTCGA
*
6478979 ACACAGACAACCCTTCTTACACTTGGCTCCCACTCACCTTGGTAGAAACAAACCTTATTGAGCCA
66 ACACAGACAACCCTTCCTACACTTGGCTCCCACTCACCTTGGTAGAAACAAACCTTATTGAGCCA
* *
6479044 AGTCTCAACGCCTCTTCGATCCTGGGTTCGTCCTTTTCTTTGGAAAACTCGATCATGGGCTCAT-
131 AGTCTCAACGCCTCTTCGATCCTGGGTTCGTCATTTTCTTTGGAAAACTCAATCATGGGCTCATA
* *
6479108 CTTTTACCTTGGATAACTAGGCTCCCCTCGGGTAGTCCTGCAACACCTCGGGTATCTTAATTTGG
196 C-TTTACCTTGGATAACTAGGCTCCCCACGGGTAGTCCTACAACACCTCGGGTATCTTAATTTGG
* * * * *
6479173 TGACCATTTGTTTGCTCAACTCTTACCCTCGGCTTAGCATCTTTGACACTTGTACTTATACCAAG
260 CGACCATTCGCTTGCTAAACTCTTACCATCGGCTTAGCATCTTTGACACTTGTACTTATACCAAG
6479238 TCTGAACACATCTTTCCCAGACTC
325 TCTGAACACATCTTTCCCAGACTC
6479262 ACC
1 ACC
6479265 ATCTGGTTCA
Statistics
Matches: 324, Mismatches: 26, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
347 1 0.00
348 323 1.00
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (348 bp):
ACCTTCTCTTATGATGGTCTCTAGAACCATGTTCTTTACACGAACATGCTTGAAAAACTCCTCGA
ACACAGACAACCCTTCCTACACTTGGCTCCCACTCACCTTGGTAGAAACAAACCTTATTGAGCCA
AGTCTCAACGCCTCTTCGATCCTGGGTTCGTCATTTTCTTTGGAAAACTCAATCATGGGCTCATA
CTTTACCTTGGATAACTAGGCTCCCCACGGGTAGTCCTACAACACCTCGGGTATCTTAATTTGGC
GACCATTCGCTTGCTAAACTCTTACCATCGGCTTAGCATCTTTGACACTTGTACTTATACCAAGT
CTGAACACATCTTTCCCAGACTC
Found at i:6481708 original size:20 final size:20
Alignment explanation
Indices: 6481683--6481731 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
6481673 ATCAACGGCT
6481683 AAGATCCCCCTATTTAATAC
1 AAGATCCCCCTATTTAATAC
*
6481703 AAGATCCACCTATTTAATAC
1 AAGATCCCCCTATTTAATAC
6481723 AAGATCCCC
1 AAGATCCCC
6481732 TAAATCAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.31, G:0.06, T:0.27
Consensus pattern (20 bp):
AAGATCCCCCTATTTAATAC
Found at i:6482300 original size:17 final size:17
Alignment explanation
Indices: 6482278--6482329 Score: 104
Period size: 17 Copynumber: 3.1 Consensus size: 17
6482268 TCGAGTGTTT
6482278 ATGTCTAAAAATGTATA
1 ATGTCTAAAAATGTATA
6482295 ATGTCTAAAAATGTATA
1 ATGTCTAAAAATGTATA
6482312 ATGTCTAAAAATGTATA
1 ATGTCTAAAAATGTATA
6482329 A
1 A
6482330 AGAAAAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (17 bp):
ATGTCTAAAAATGTATA
Found at i:6487241 original size:15 final size:15
Alignment explanation
Indices: 6487223--6487254 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6487213 TTCAACCATT
*
6487223 GTTCTAGTGATAAGG
1 GTTCTAGAGATAAGG
6487238 GTTCTAGAGATAAGG
1 GTTCTAGAGATAAGG
6487253 GT
1 GT
6487255 CTTAGTCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.06, G:0.34, T:0.31
Consensus pattern (15 bp):
GTTCTAGAGATAAGG
Found at i:6488141 original size:111 final size:111
Alignment explanation
Indices: 6487942--6488161 Score: 318
Period size: 111 Copynumber: 2.0 Consensus size: 111
6487932 GTTGTGGAAA
* * **
6487942 AAAATGAGTGGATAAATGATCCCTATTTTCACCAAAAATTTTCCAGTCCCTCCTGCTATTCTCCG
1 AAAATGAGTGGATAAATGACCCCTATTTTCACCAAAAATTTGCCAGTCCCTCCTGCTACCCTCCG
*
6488007 GATCTTTCCCTTCCCATTGAATGCGTGGTAGAGGTTTAGGGTGTAC
66 GATCTTTCCCTTCCCATTGAATGCGTGGTAGAGGTTTAAGGTGTAC
* **
6488053 AAAATGAGTGGATAAATGACCCCTATTTTCACC-AAAATTATGCCATTCCCTCCTTTTACCCTCC
1 AAAATGAGTGGATAAATGACCCCTATTTTCACCAAAAATT-TGCCAGTCCCTCCTGCTACCCTCC
* *
6488117 GGATCTTTCCCTTTCCATCT-AATGCTTGGTAGAGGTTTAAGGTGT
65 GGATCTTTCCCTTCCCAT-TGAATGCGTGGTAGAGGTTTAAGGTGT
6488162 TCCTCAATTA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
110 6 0.06
111 90 0.93
112 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (111 bp):
AAAATGAGTGGATAAATGACCCCTATTTTCACCAAAAATTTGCCAGTCCCTCCTGCTACCCTCCG
GATCTTTCCCTTCCCATTGAATGCGTGGTAGAGGTTTAAGGTGTAC
Found at i:6488564 original size:111 final size:111
Alignment explanation
Indices: 6488370--6488763 Score: 616
Period size: 111 Copynumber: 3.6 Consensus size: 111
6488360 TGGTTGGAGC
*
6488370 TATTGGGGACAGAGAGCTTGGTTGTACTTTTATCCAGATTTATAGCAACTCTATTCCCTACACTG
1 TATTGGGGACAGAGAGCTTGGTTGTACTTTTATCCAGATTTATAGCAACACTATTCCCTACACTG
* * *
6488435 GACAGGGTTTTTGCTCCTTTTAGGTCGTCTGTTAATTGGATAGAGT
66 GACTGGGTTTCTGCTCCTTTTAGGTCTTCTGTTAATTGGATAGAGT
*
6488481 TATTGGGGACAGAGAGCTTGGTTGTACTTTTATCCAGATTTATAGCAACATTATTCCCTACACTG
1 TATTGGGGACAGAGAGCTTGGTTGTACTTTTATCCAGATTTATAGCAACACTATTCCCTACACTG
6488546 GACTGGGTTTCTGCTCCTTTTAGGTCTTCTGTTAATTGGATAGAGT
66 GACTGGGTTTCTGCTCCTTTTAGGTCTTCTGTTAATTGGATAGAGT
* * **
6488592 TATCGGGGACAGAGAGCTTGGTTGTAGTTTTATCCAGATTTATAGCAACACTATTCCCCGCACTG
1 TATTGGGGACAGAGAGCTTGGTTGTACTTTTATCCAGATTTATAGCAACACTATTCCCTACACTG
* *
6488657 GACTGGGTTTCT--T-CTTCTAGGTCTTTTGTTAATTGGATAGAGT
66 GACTGGGTTTCTGCTCCTTTTAGGTCTTCTGTTAATTGGATAGAGT
* * * *
6488700 TACTGGCGACAGATG-GCTTGGTTTTACTTTTATCCAGATTTATAGCAACACTATCCCCTACACT
1 TATTGGGGACAGA-GAGCTTGGTTGTACTTTTATCCAGATTTATAGCAACACTATTCCCTACACT
6488764 AGAGGTGGTA
Statistics
Matches: 262, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
108 82 0.31
109 2 0.01
111 178 0.68
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (111 bp):
TATTGGGGACAGAGAGCTTGGTTGTACTTTTATCCAGATTTATAGCAACACTATTCCCTACACTG
GACTGGGTTTCTGCTCCTTTTAGGTCTTCTGTTAATTGGATAGAGT
Found at i:6495835 original size:22 final size:22
Alignment explanation
Indices: 6495779--6495838 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
6495769 AAAATTGTTG
* *
6495779 AAAAACATACAAAATAAAAGGA
1 AAAAATATACAAAATAAAAAGA
* *
6495801 GAAAATAT-CAAAATAAAAATA
1 AAAAATATACAAAATAAAAAGA
*
6495822 AAAAATATATAAAATAA
1 AAAAATATACAAAATAA
6495839 TGAAAATGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAAATATACAAAATAAAAAGA
Found at i:6496152 original size:34 final size:33
Alignment explanation
Indices: 6496093--6496510 Score: 126
Period size: 36 Copynumber: 12.2 Consensus size: 33
6496083 TAATATCTAA
*
6496093 TATATATTTTTAAAAATATTTAAAATTATATAT
1 TATATATTTTTAAAAAAATTTAAAATTATATAT
* *
6496126 TATATGTTTTTAAAAAAATTTCAAA--AT-TA-
1 TATATATTTTTAAAAAAATTTAAAATTATATAT
* * *** *
6496155 TATA-GTTTTCAAAATGTTTTTAAAACTATATAT
1 TATATATTTTTAAAA-AAATTTAAAATTATATAT
* **
6496188 TATA-AGTTTTTGAAATGATTTCAAAACTATATAATATAT
1 TATATA-TTTTTAAAAAAATTT--AAA--AT-T-ATATAT
**
6496227 ATATATATGTTCTTCAAAATACTTTTTAAAA--AT-TA-
1 -TATATAT-TT-TT-AAAA-A-AATTTAAAATTATATAT
* ** * *
6496262 TATATA-TTTTCAAAATGTTTAAAAATATATAA
1 TATATATTTTTAAAAAAATTTAAAATTATATAT
*
6496294 TATATATTTTTAAAAAATGTTTTAAAAATTATATAT
1 TATATATTTTTAAAAAA--ATTT-AAAATTATATAT
* * * *
6496330 TATATTTATTTTCAAAATACTTTAAAAACTATATAAT
1 TATA--TATTTTTAAAAAAATTT-AAAATTATAT-AT
* * *
6496367 ATATATACTTTCAAAAATATTTAAAA--ACTATAT
1 -TATATATTTTTAAAAAAATTTAAAATTA-TATAT
* * * *
6496400 TATATTTATTTTCAAAATACTTTAAAAACTATATAAT
1 TATA--TATTTTTAAAAAAATTT-AAAATTATAT-AT
* *
6496437 ATATATATTTTCAAAAAAATTTAAAAACTATATA-
1 -TATATATTTTTAAAAAAATTT-AAAATTATATAT
* * * * *
6496471 TATATTTTTTTCAAAATATTTAAAAACTATATAA
1 TATATATTTTTAAAAAAATTT-AAAATTATATAT
6496505 TATATA
1 TATATA
6496511 AATATTTTTA
Statistics
Matches: 300, Mismatches: 45, Indels: 79
0.71 0.11 0.19
Matches are distributed among these distances:
28 17 0.06
29 11 0.04
30 7 0.02
31 8 0.03
32 14 0.05
33 69 0.23
34 34 0.11
35 15 0.05
36 71 0.24
37 8 0.03
38 20 0.07
39 6 0.02
40 5 0.02
41 4 0.01
42 2 0.01
43 6 0.02
45 3 0.01
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (33 bp):
TATATATTTTTAAAAAAATTTAAAATTATATAT
Found at i:6496275 original size:63 final size:63
Alignment explanation
Indices: 6496206--6496545 Score: 199
Period size: 70 Copynumber: 5.0 Consensus size: 63
6496196 TTTGAAATGA
* *
6496206 TTTCAAAA-CTAT-ATAATATAT-ATATATATGTTCTTCAAAATACT-TTTTAAAAATTATATAT
1 TTTCAAAATCTATAAAAATATATAATATATAT-TT-TT-AAAA-AATGTTTTAAAAATTATATAT
6496267 AT
62 AT
* *
6496269 TTTCAAAATGTTTAAAAATATATAATATATATTTTTAAAAAATGTTTTAAAAATTATATATTATA
1 TTTCAAAATCTATAAAAATATATAATATATATTTTTAAAAAATGTTTT-AAAA--AT-TA-TATA
6496334 TTTAT
61 --TAT
* * * *
6496339 TTTCAAAATACTTTAAAAACTATATAATATATATACTTTCAAAAAT-ATTTAAAAACTATATTAT
1 TTTCAAAAT-CTATAAAAA-TATATAATATATAT-TTTTAAAAAATGTTTTAAAAA-T-TA-TAT
6496403 ATTTAT
60 A--TAT
* *
6496409 TTTCAAAATACTTTAAAAACTATATAATATATATATTTTCAAAAAA--ATTTAAAAACTATATAT
1 TTTCAAAAT-CTATAAAAA-TATATAATATATAT-TTTT-AAAAAATGTTTTAAAAA-T-TATAT
6496472 ATATTTT
60 ATA---T
* * * * * *
6496479 TTTCAAAATATTTAAAAACTATATAATATATAAATATTTTTAAACATGTTTTCAAAACTATATAT
1 TTTCAAAATCTATAAAAA-TATATAATATAT--AT-TTTTAAAAAATGTTTTAAAAATTATATAT
6496544 AT
62 AT
6496546 ATATAAGTTT
Statistics
Matches: 238, Mismatches: 16, Indels: 42
0.80 0.05 0.14
Matches are distributed among these distances:
62 2 0.01
63 16 0.07
64 8 0.03
65 10 0.04
66 10 0.04
67 5 0.02
68 4 0.02
69 26 0.11
70 100 0.42
71 24 0.10
72 24 0.10
73 9 0.04
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (63 bp):
TTTCAAAATCTATAAAAATATATAATATATATTTTTAAAAAATGTTTTAAAAATTATATATAT
Found at i:6496300 original size:36 final size:36
Alignment explanation
Indices: 6496260--6496590 Score: 337
Period size: 36 Copynumber: 9.2 Consensus size: 36
6496250 TTTTAAAAAT
*
6496260 TATATATATTTTCAAAATGTTTAAAAA-TATATA-A
1 TATATATATTTTCAAAATATTTAAAAACTATATATA
* * *
6496294 TATATAT-TTTTAAAAAATGTTTTAAAAATTATATAT-
1 TATATATATTTT-CAAAAT-ATTTAAAAACTATATATA
*
6496330 TATATTTATTTTCAAAATACTTTAAAAACTATATA-A
1 TATATATATTTTCAAAATA-TTTAAAAACTATATATA
*
6496366 TATATATACTTTCAAAAATATTTAAAAACTATAT-TA
1 TATATATATTTTC-AAAATATTTAAAAACTATATATA
6496402 TAT-T-TATTTTCAAAATACTTTAAAAACTATATA-A
1 TATATATATTTTCAAAATA-TTTAAAAACTATATATA
*
6496436 TATATATATTTTCAAAAAAATTTAAAAACTATATATA
1 TATATATATTTTC-AAAATATTTAAAAACTATATATA
6496473 TAT-T-T-TTTTCAAAATATTTAAAAACTATATAATA
1 TATATATATTTTCAAAATATTTAAAAACTATAT-ATA
* * * *
6496507 TATAAATATTTTTAAACATGTTTTCAAAACTATATATA
1 TATATATATTTTCAAA-AT-ATTTAAAAACTATATATA
* ** *
6496545 TATATA-AGTTTTAAAAATATTTTTAAACTACAATATA
1 TATATATA-TTTTCAAAATATTTAAAAACTA-TATATA
6496582 TATATATAT
1 TATATATAT
6496591 ATATATATAT
Statistics
Matches: 252, Mismatches: 21, Indels: 45
0.79 0.07 0.14
Matches are distributed among these distances:
33 29 0.12
34 47 0.19
35 11 0.04
36 93 0.37
37 41 0.16
38 18 0.07
39 13 0.05
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (36 bp):
TATATATATTTTCAAAATATTTAAAAACTATATATA
Found at i:6496334 original size:70 final size:72
Alignment explanation
Indices: 6496258--6496592 Score: 366
Period size: 70 Copynumber: 4.7 Consensus size: 72
6496248 CTTTTTAAAA
* *
6496258 ATTATATATATTTTCAAAAT-GTTTAAAAA-TATATAATATATAT-TTTTAAAAAATGTTTTAAA
1 ATTATATATATTTTCAAAATACTTTAAAAACTATATAATATATATATTTTAAAAAAT-ATTTAAA
*
6496320 AATTATAT
65 AACTATAT
* * *
6496328 ATTATATTTATTTTCAAAATACTTTAAAAACTATATAATATATATACTTTCAAAAATATTTAAAA
1 ATTATATATATTTTCAAAATACTTTAAAAACTATATAATATATATATTTTAAAAAATATTTAAAA
6496393 AC--TAT
66 ACTATAT
*
6496398 ATTATATTTATTTTCAAAATACTTTAAAAACTATATAATATATATATTTTCAAAAAA-ATTTAAA
1 ATTATATATATTTTCAAAATACTTTAAAAACTATATAATATATATATTTT-AAAAAATATTTAAA
6496462 AACTATAT
65 AACTATAT
* * * * *
6496470 A-TATAT-TTTTTTCAAAATA-TTTAAAAACTATATAATATATAAATATTTTTAAACATGTTTTC
1 ATTATATATATTTTCAAAATACTTTAAAAACTATATAATATAT--ATATTTTAAAAAAT-ATTTA
6496532 AAAACTATAT
63 AAAACTATAT
* * * *
6496542 A-TATATATAAGTTTTAAAAATATTTTTAAACTACAATATATATATATATAT
1 ATTATATAT-A-TTTTCAAAATA-CTTTAAA-AACTATATA-ATATATATAT
6496593 ATATATATAT
Statistics
Matches: 231, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
69 21 0.09
70 97 0.42
71 25 0.11
72 45 0.19
73 10 0.04
75 10 0.04
77 10 0.04
78 7 0.03
79 6 0.03
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (72 bp):
ATTATATATATTTTCAAAATACTTTAAAAACTATATAATATATATATTTTAAAAAATATTTAAAA
ACTATAT
Found at i:6496584 original size:2 final size:2
Alignment explanation
Indices: 6496577--6496641 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
6496567 TTAAACTACA
6496577 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6496619 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
6496642 AATGAGACGT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6499685 original size:26 final size:26
Alignment explanation
Indices: 6499656--6499707 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
6499646 TCTATATAAA
* * *
6499656 CAATTAATTAAATTAGTTGGTCAAAC
1 CAATTAATCAAATCAATTGGTCAAAC
6499682 CAATTAATCAAATCAATTGGTCAAAC
1 CAATTAATCAAATCAATTGGTCAAAC
6499708 TAATCCCAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (26 bp):
CAATTAATCAAATCAATTGGTCAAAC
Found at i:6501664 original size:8 final size:8
Alignment explanation
Indices: 6501648--6501678 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
6501638 ATTGTTTTCA
6501648 ATGTGCTG
1 ATGTGCTG
*
6501656 ATGTACTG
1 ATGTGCTG
6501664 ATGTGCTG
1 ATGTGCTG
6501672 ATGTGCT
1 ATGTGCT
6501679 TTGTTTTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.16, C:0.13, G:0.32, T:0.39
Consensus pattern (8 bp):
ATGTGCTG
Found at i:6504377 original size:35 final size:34
Alignment explanation
Indices: 6504330--6504399 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 34
6504320 CCTCCGGCCG
*
6504330 CCGTCTGTCGTCCGACATCCGCCGTCCACCGTCCA
1 CCGTCTGCCGTCCGACATCCGCCGTCCACCG-CCA
*
6504365 CCGTCTGCCGTCCGACATCCGCCGTCCGCCGCCA
1 CCGTCTGCCGTCCGACATCCGCCGTCCACCGCCA
6504399 C
1 C
6504400 TTTCCGTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
34 4 0.12
35 29 0.88
ACGTcount: A:0.10, C:0.51, G:0.21, T:0.17
Consensus pattern (34 bp):
CCGTCTGCCGTCCGACATCCGCCGTCCACCGCCA
Found at i:6504392 original size:7 final size:7
Alignment explanation
Indices: 6504327--6504395 Score: 57
Period size: 7 Copynumber: 9.9 Consensus size: 7
6504317 TTTCCTCCGG
6504327 CCGCCGT
1 CCGCCGT
* *
6504334 CTGTCGT
1 CCGCCGT
* *
6504341 CCGACAT
1 CCGCCGT
6504348 CCGCCGT
1 CCGCCGT
*
6504355 CCACCGT
1 CCGCCGT
*
6504362 CCACCGT
1 CCGCCGT
*
6504369 CTGCCGT
1 CCGCCGT
* *
6504376 CCGACAT
1 CCGCCGT
6504383 CCGCCGT
1 CCGCCGT
6504390 CCGCCG
1 CCGCCG
6504396 CCACTTTCCG
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.09, C:0.51, G:0.23, T:0.17
Consensus pattern (7 bp):
CCGCCGT
Found at i:6510497 original size:21 final size:21
Alignment explanation
Indices: 6510473--6510528 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
6510463 ACAAATATAG
6510473 AAAAATTAAATATAAATTACT
1 AAAAATTAAATATAAATTACT
* *
6510494 AAAAATTAAAAATAAATTATT
1 AAAAATTAAATATAAATTACT
* *
6510515 AAAAAATATATATA
1 AAAAATTAAATATA
6510529 TATATATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAATTAAATATAAATTACT
Found at i:6511172 original size:16 final size:16
Alignment explanation
Indices: 6511148--6511181 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6511138 CGGTTAATAT
* *
6511148 AATATGTGATCGGTTA
1 AATAAGTGATCAGTTA
6511164 AATAAGTGATCAGTTA
1 AATAAGTGATCAGTTA
6511180 AA
1 AA
6511182 ATTTAGACCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (16 bp):
AATAAGTGATCAGTTA
Found at i:6511258 original size:23 final size:23
Alignment explanation
Indices: 6511232--6511279 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
6511222 ATAAAGTACA
*
6511232 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
6511255 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
6511278 AT
1 AT
6511280 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:6511814 original size:23 final size:23
Alignment explanation
Indices: 6511755--6511827 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
6511745 ATACTTTACA
* * *
6511755 ATATAAGCACTACATATTACATT
1 ATATAAACGCTACCTATTACATT
6511778 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
** * *
6511801 ATATAAGTGTTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
6511824 ATAT
1 ATAT
6511828 TTTTACCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:6512228 original size:23 final size:23
Alignment explanation
Indices: 6512193--6512262 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
6512183 ATACTTTACA
*
6512193 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
6512216 ATATAAACGCTACCTATTACA-T
1 ATATAAGCGCTACCTATTACATT
*
6512238 -TATAAGCG-TACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
6512259 ATAT
1 ATAT
6512263 TTTTACCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 11 0.27
21 7 0.17
22 4 0.10
23 19 0.46
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:6512489 original size:434 final size:438
Alignment explanation
Indices: 6511649--6512523 Score: 1650
Period size: 434 Copynumber: 2.0 Consensus size: 438
6511639 ATACATATAA
* * * *
6511649 TTACTAAATTGATATCTTAAAACTCACTCAATAGATGACCTTAAATTAATGTTTTCCACGGTGAA
1 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
*
6511714 AAAAGTATAGACACTTTTATAAAAATGATAGATACTTTACAATATAAGCACTACATATTACATTA
66 AAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACATATTACATTA
*
6511779 TATAAACGCTACCTATTACATTATATAAGTGTTACCTATTACATCATATTTTTACCTATTATATT
131 TATAAACGCTACCTATTACATTATATAAGCGTTACCTATTACATCATATTTTTACCTATTATATT
6511844 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
196 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
6511909 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
261 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
6511974 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
326 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
6512039 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
391 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
6512087 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
1 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
* *
6512152 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTA
66 AAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACATATTACATTA
6512217 TATAAACGCTACCTATTACA-T-TATAAGCG-TACCTATTACATCATATTTTTACCTATTATATT
131 TATAAACGCTACCTATTACATTATATAAGCGTTACCTATTACATCATATTTTTACCTATTATATT
6512279 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
196 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
6512344 AA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
261 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
6512408 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
326 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
6512473 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
391 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
6512521 TTA
1 TTA
6512524 ATAATAATAT
Statistics
Matches: 429, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
434 178 0.41
435 100 0.23
436 7 0.02
437 1 0.00
438 143 0.33
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (438 bp):
TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
AAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTACATATTACATTA
TATAAACGCTACCTATTACATTATATAAGCGTTACCTATTACATCATATTTTTACCTATTATATT
GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
AATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
Found at i:6515027 original size:6 final size:6
Alignment explanation
Indices: 6515016--6515096 Score: 72
Period size: 6 Copynumber: 13.5 Consensus size: 6
6515006 ACTTGTTTGG
* * * * *
6515016 ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
6515064 AGCTTC ATCGTC ATCATC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATC
6515097 GTCAGTTTCA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:6515033 original size:12 final size:12
Alignment explanation
Indices: 6515017--6515113 Score: 106
Period size: 12 Copynumber: 7.8 Consensus size: 12
6515007 CTTGTTTGGA
* *
6515017 TCATCATCATCA
1 TCATCGTCATCT
6515029 TCATCGTCATCATCT
1 TCATCGTC---ATCT
6515044 TCATCGTCATCT
1 TCATCGTCATCT
*
6515056 TCATCGTCAGCT
1 TCATCGTCATCT
*
6515068 TCATCGTCATCA
1 TCATCGTCATCT
6515080 TCATCGTCATCT
1 TCATCGTCATCT
6515092 TCATCGTCAGT-T
1 TCATCGTCA-TCT
*
6515104 TCATCTTCAT
1 TCATCGTCAT
6515114 TGACCGCTTG
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
11 1 0.01
12 61 0.82
13 1 0.01
15 11 0.15
ACGTcount: A:0.21, C:0.32, G:0.08, T:0.39
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:6515053 original size:24 final size:24
Alignment explanation
Indices: 6515020--6515100 Score: 117
Period size: 24 Copynumber: 3.4 Consensus size: 24
6515010 GTTTGGATCA
* * *
6515020 TCATCATCATCATCGTCATCATCT
1 TCATCGTCATCATCATCGTCATCT
* *
6515044 TCATCGTCATCTTCATCGTCAGCT
1 TCATCGTCATCATCATCGTCATCT
6515068 TCATCGTCATCATCATCGTCATCT
1 TCATCGTCATCATCATCGTCATCT
6515092 TCATCGTCA
1 TCATCGTCA
6515101 GTTTCATCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.37
Consensus pattern (24 bp):
TCATCGTCATCATCATCGTCATCT
Found at i:6515112 original size:6 final size:6
Alignment explanation
Indices: 6515038--6515113 Score: 73
Period size: 6 Copynumber: 12.7 Consensus size: 6
6515028 ATCATCGTCA
* * * * * *
6515038 TCATCT TCATCG TCATCT TCATCG TCAGCT TCATCG TCATCA TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
6515086 TCATCT TCATCG TCAGT-T TCATCT TCAT
1 TCATCT TCATCT TCA-TCT TCATCT TCAT
6515114 TGACCGCTTG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
5 1 0.02
6 54 0.96
7 1 0.02
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (6 bp):
TCATCT
Found at i:6516983 original size:201 final size:201
Alignment explanation
Indices: 6516634--6517979 Score: 2361
Period size: 201 Copynumber: 6.7 Consensus size: 201
6516624 TTATATACTA
* *
6516634 ATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
* * * **
6516699 ATGGGTTTCGATGTTTATGTGATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCC
66 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
*
6516764 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAAGTGTCGACACATTATTT
131 TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTAAAAAAAGTGTCGACACATTATTT
6516829 AGACCT
196 AGACCT
*
6516835 ATTATCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
6516900 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCC
66 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
* * *
6516965 TGTTTGCCATTCATTCTGGACCAAAAATATCGATACAAACTAAAAAAAAGTATCGACACATTATT
131 TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACT-AAAAAAAGTGTCGACACATTATT
6517030 TAGACCT
195 TAGACCT
*
6517037 ATTATCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
6517102 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
66 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
*
6517167 TGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACTAAAAAAAGTGTCGACACATTATTT
131 TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTAAAAAAAGTGTCGACACATTATTT
6517232 AGACCT
196 AGACCT
6517238 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
6517303 TTGGGTTTCGATGTTTACGGGATCGACATTTTTTATATATGGATCGACACTTTACGGTTGCACCC
66 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
* * *
6517368 TGTTTGCCATTCATTATGAACCAAAAATATCGACACAAACTACAAAAAGTGTGGACACATTATTT
131 TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTAAAAAAAGTGTCGACACATTATTT
6517433 AGACCT
196 AGACCT
6517439 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
6517504 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
66 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
* *
6517569 TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAATTACAAAAAGTGTCGACACATTATTT
131 TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTAAAAAAAGTGTCGACACATTATTT
**
6517634 AGAGAT
196 AGACCT
*
6517640 ATTCTCTCATAAAATCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
*
6517705 TTGGGTTTTGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
66 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
*
6517770 TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACT-ACAAAAGTGTCGACACATTATTT
131 TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTAAAAAAAGTGTCGACACATTATTT
*
6517834 AGACTT
196 AGACCT
*
6517840 ATTCTCTCATAAAACCGGTATACTTGTACCAGTTAGATTGAAAAATTACATATTACATTATACTT
1 ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
* ** * * *
6517905 TTGGTTTTCGATGTTTTTGGGATCGACACTTTTTATATATGGATGGATACTTTATGGTTGCACCC
66 TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
*
6517970 TGTTTTCCAT
131 TGTTTGCCAT
6517980 ATTGTAAATT
Statistics
Matches: 1103, Mismatches: 41, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
200 155 0.14
201 750 0.68
202 198 0.18
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (201 bp):
ATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTT
TTGGGTTTCGATGTTTACGGGATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCC
TGTTTGCCATTCATTATGGACCAAAAATATCGACACAAACTAAAAAAAGTGTCGACACATTATTT
AGACCT
Found at i:6518103 original size:18 final size:18
Alignment explanation
Indices: 6518080--6518138 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
6518070 TCTCATTCAT
*
6518080 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
6518098 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
6518117 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
6518136 AAT
1 AAT
6518139 AAACCCTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
18 6 0.17
19 30 0.83
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:6518116 original size:19 final size:19
Alignment explanation
Indices: 6518092--6518138 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
6518082 TTATATTCAC
6518092 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
6518111 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
6518130 ATACAAAAT
1 ATACAAAAT
6518139 AAACCCTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:6519976 original size:33 final size:33
Alignment explanation
Indices: 6519939--6520004 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
6519929 CATCTTAATA
*
6519939 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
6519972 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
6520005 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:6520063 original size:21 final size:21
Alignment explanation
Indices: 6520038--6520102 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
6520028 CCCCTTATGC
* *
6520038 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
6520059 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
6520080 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
6520101 CT
1 CT
6520103 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:6522393 original size:20 final size:19
Alignment explanation
Indices: 6522338--6522384 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
6522328 TCTGGTATCG
6522338 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
6522357 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
6522378 TTTTACC
1 TTTTACC
6522385 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:6522566 original size:20 final size:19
Alignment explanation
Indices: 6522520--6522580 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
6522510 TCCGGTAACG
6522520 TTTTT-CCGGTTTTATCAT
1 TTTTTACCGGTTTTATCAT
*
6522538 TTTGATACCGGTTTTATCAT
1 TTT-TTACCGGTTTTATCAT
* * *
6522558 ATTTTTACCTGATATATCAT
1 -TTTTTACCGGTTTTATCAT
6522578 TTT
1 TTT
6522581 GGATCGATAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.09
19 4 0.11
20 25 0.71
21 3 0.09
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTTACCGGTTTTATCAT
Found at i:6522780 original size:181 final size:181
Alignment explanation
Indices: 6522303--6522778 Score: 682
Period size: 182 Copynumber: 2.6 Consensus size: 181
6522293 CGTACTTACG
* *
6522303 AAAGTATCGACACTTTCAAAATATATCTGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGT
1 AAAGTATCGACACTTT--AAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGT
* * *
6522368 TTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTTAAAGTATCGACACAT
64 TTTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACA-TTTTTTAAAAGTATCGACACAT
* *
6522433 TATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
128 TATAGGAGCTAAAACAGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* *
6522487 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTTCCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
6522552 TATCATATTTTTACCTGATATATCATTTTGGATCGATACATTTTTTAAAAGTATCGTCACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** * *
6522617 AGGATTTAAAACAGTTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACAGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * **
6522669 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
6522734 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
6522779 AATTTGGATC
Statistics
Matches: 261, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
181 66 0.25
182 179 0.69
184 16 0.06
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACAGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:6523519 original size:32 final size:31
Alignment explanation
Indices: 6523464--6523540 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 31
6523454 ACAAAGATAT
*
6523464 AAGATGCAAGTGCAATTGAAAATG-TAAATGCA
1 AAGATGCAAGTG-TATTGAAAATGCT-AATGCA
*
6523496 AAGATGCAAGTGTATGTGTAAATGCTAATGCA
1 AAGATGCAAGTGTAT-TGAAAATGCTAATGCA
* *
6523528 GA-ATGCAAATGTA
1 AAGATGCAAGTGTA
6523541 AGAAGAGGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 12 0.31
32 26 0.67
33 1 0.03
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (31 bp):
AAGATGCAAGTGTATTGAAAATGCTAATGCA
Found at i:6524546 original size:52 final size:52
Alignment explanation
Indices: 6524465--6524577 Score: 199
Period size: 52 Copynumber: 2.2 Consensus size: 52
6524455 TAATGGAACG
*
6524465 AGCAGTGATCGGGGTATGTTGATCCTCGAGCTGCATTCTACTTGTTGTTTCC
1 AGCAGTGATCGGGGTATGTTGATCATCGAGCTGCATTCTACTTGTTGTTTCC
*
6524517 AGCAGTGATCGGGGTATGTTGATCATCGAGTTGCATTCTACTTGTTGTTTCC
1 AGCAGTGATCGGGGTATGTTGATCATCGAGCTGCATTCTACTTGTTGTTTCC
*
6524569 AGTAGTGAT
1 AGCAGTGAT
6524578 GTAATAGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (52 bp):
AGCAGTGATCGGGGTATGTTGATCATCGAGCTGCATTCTACTTGTTGTTTCC
Found at i:6525446 original size:3 final size:3
Alignment explanation
Indices: 6525440--6525480 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6525430 ATACAAAATT
6525440 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6525481 TATATTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6536877 original size:46 final size:46
Alignment explanation
Indices: 6536774--6536887 Score: 114
Period size: 46 Copynumber: 2.6 Consensus size: 46
6536764 TTCTGCATTG
* *
6536774 AATGAGCTCTG-AAA--AGCT-AACTGGTGTAATATTGCTTCAATA
1 AATGAGCTCTGAAAAGTAGCTGAAATGGTGTAATACTGCTTCAATA
* * *
6536816 AATGAGCTCTGAAAAGTTGTTGAAATGGTGTATTACTGCTGT-AATA
1 AATGAGCTCTGAAAAGTAGCTGAAATGGTGTAATACTGCT-TCAATA
*
6536862 AATGA-CGTCTTAAAAGTAGCTGAAAT
1 AATGAGC-TCTGAAAAGTAGCTGAAAT
6536888 TGTGCATTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
42 11 0.19
43 3 0.05
45 3 0.05
46 40 0.69
47 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (46 bp):
AATGAGCTCTGAAAAGTAGCTGAAATGGTGTAATACTGCTTCAATA
Found at i:6537329 original size:274 final size:275
Alignment explanation
Indices: 6536819--6537462 Score: 728
Period size: 274 Copynumber: 2.3 Consensus size: 275
6536809 TTCAATAAAT
* * * * * *
6536819 GAGCTCTGAAAAGTTGTTGAAATGGTGTATTACTGCTGTAATAAATGACGTCTTAAAAGTAGCTG
1 GAGCTCTGAAAA--AGTTGAAATGGTGCATTA-TGCTGCAATAAATGACCTCTAAAAAGTAGTTG
** * * *
6536884 AAATTGTGCATTGATTAAGCACCG-AAAAGTAGATGAAACATTGAAAATTTTGGCCTAGTTAAAA
63 AAACGGTGCATTAATTAAGCACCGAAAAAATAGATGAAACATTGAAAATTTTGGCATAGTTAAAA
* * * *
6536948 TACACTTTTTTTTTAATGATTTAAAGTGATAATTCAACACTGAAAAGTTTTTTGATTTGAGTTGG
128 TACAC--TATTTTTAATGATTTAAAGTGATAATTCAACACTGAAAAGCTTTCTGATTTGAGTTGA
* * * ** * *
6537013 TATATCACTAAAAAGTCACAGAAGATGATAATGCATCACTATTTTCACTCGTTTTATGAAAAGTT
191 TATATCACTAAAAAGTCACAGAAGATGATAATGCACCACTATTTTCACCCATGGTATAAAAACTT
6537078 GCTTGAATTCTAC-ATTGAAC
256 GCTTGAATTCT-CTATTGAAC
* *
6537098 GAGCTCTGAAAAAGTTGAAATGGTGCATTATGGCTGCAATAAATGGCCTCTGAAAAGTAGTTGAA
1 GAGCTCTGAAAAAGTTGAAATGGTGCATTAT-GCTGCAATAAATGACCTCTAAAAAGTAGTTGAA
* *
6537163 ACGGTGCATTAATTGAGCACCGAAAAAATA-ATTGAATA-ATTGAATAA-TTTGGCATGGTTAAA
65 ACGGTGCATTAATTAAGCACCGAAAAAATAGA-TGAA-ACATTGAA-AATTTTGGCATAGTTAAA
* *
6537225 ATACAC-ATTTTT-ATGATTTTAAGTGATAATTTAACACTGGAAAA-CTTTCTGATTTGAGTTGA
127 ATACACTATTTTTAATGATTTAAAGTGATAATTCAACACT-GAAAAGCTTTCTGATTTGAGTTGA
** *
6537287 TATATCACTAAAAAGTTGCAGAAGATGATAATGCACCACTATTTTCACCCATGGTCTAAAAACTT
191 TATATCACTAAAAAGTCACAGAAGATGATAATGCACCACTATTTTCACCCATGGTATAAAAACTT
*
6537352 GCTTGAATTCTCTATTGAAT
256 GCTTGAATTCTCTATTGAAC
* ** * * * ** *
6537372 GAGCTTTGAAAAAACTGAAATTGTGCATAATTGATGCAATAAATGATTTCTAAAAATTAGTTGAA
1 GAGCTCTGAAAAAGTTGAAATGGTGCATTA-TGCTGCAATAAATGACCTCTAAAAAGTAGTTGAA
* * *
6537437 ACGATGCATTAATTTAGCATCGAAAA
65 ACGGTGCATTAATTAAGCACCGAAAA
6537463 GTAGTTAAAT
Statistics
Matches: 312, Mismatches: 45, Indels: 21
0.83 0.12 0.06
Matches are distributed among these distances:
273 1 0.00
274 186 0.60
275 11 0.04
276 1 0.00
277 63 0.20
278 35 0.11
279 15 0.05
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (275 bp):
GAGCTCTGAAAAAGTTGAAATGGTGCATTATGCTGCAATAAATGACCTCTAAAAAGTAGTTGAAA
CGGTGCATTAATTAAGCACCGAAAAAATAGATGAAACATTGAAAATTTTGGCATAGTTAAAATAC
ACTATTTTTAATGATTTAAAGTGATAATTCAACACTGAAAAGCTTTCTGATTTGAGTTGATATAT
CACTAAAAAGTCACAGAAGATGATAATGCACCACTATTTTCACCCATGGTATAAAAACTTGCTTG
AATTCTCTATTGAAC
Found at i:6538108 original size:18 final size:18
Alignment explanation
Indices: 6538087--6538128 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
6538077 TTACAATAGA
6538087 CGATGACACACCAATAAT
1 CGATGACACACCAATAAT
6538105 CGATGACACACCAATAAT
1 CGATGACACACCAATAAT
6538123 CGATGA
1 CGATGA
6538129 ATCTGATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.26, G:0.14, T:0.17
Consensus pattern (18 bp):
CGATGACACACCAATAAT
Found at i:6539801 original size:12 final size:12
Alignment explanation
Indices: 6539784--6539834 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
6539774 TTCAAAGTGG
6539784 TTTTATATTTAA
1 TTTTATATTTAA
6539796 TTTTATA-TTATA
1 TTTTATATTTA-A
*
6539808 TTTGAT-TTTAA
1 TTTTATATTTAA
6539819 TTTTA-ATATTAA
1 TTTTATAT-TTAA
6539831 TTTT
1 TTTT
6539835 TAAATAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:6539849 original size:23 final size:26
Alignment explanation
Indices: 6539817--6539891 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 26
6539807 ATTTGATTTT
*
6539817 AATTTTAATATTAATTTTTAA-A-TA
1 AATTATAATATTAATTTTTAATATTA
6539841 AATTA-AATATTAATTTTTAATATTA
1 AATTATAATATTAATTTTTAATATTA
*
6539866 TATTATAGATATTAA-TTTTAATATTA
1 AATTATA-ATATTAATTTTTAATATTA
6539892 CTTTTAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
23 15 0.33
24 5 0.11
25 6 0.13
26 12 0.27
27 7 0.16
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
AATTATAATATTAATTTTTAATATTA
Found at i:6539877 original size:14 final size:12
Alignment explanation
Indices: 6539815--6539913 Score: 60
Period size: 12 Copynumber: 8.2 Consensus size: 12
6539805 ATATTTGATT
*
6539815 TTAATTTTAATA
1 TTAATTATAATA
*
6539827 TTAATTTTTAA-A
1 TTAA-TTATAATA
*
6539839 TAAATTA-AATA
1 TTAATTATAATA
*
6539850 TTAATTTTTAATA
1 TTAA-TTATAATA
6539863 TTATATTATAGATA
1 TTA-ATTATA-ATA
*
6539877 TTAATTTTAATA
1 TTAATTATAATA
* * *
6539889 TTACTTTTAAAA
1 TTAATTATAATA
*
6539901 TAAATTA-AATA
1 TTAATTATAATA
6539912 TT
1 TT
6539914 GATTTTTTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
10 2 0.03
11 10 0.15
12 27 0.40
13 22 0.32
14 7 0.10
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (12 bp):
TTAATTATAATA
Found at i:6539891 original size:12 final size:12
Alignment explanation
Indices: 6539792--6539898 Score: 87
Period size: 12 Copynumber: 8.8 Consensus size: 12
6539782 GGTTTTATAT
6539792 TTAATTTT-ATA
1 TTAATTTTAATA
* *
6539803 TT-ATATTTGATT
1 TTAAT-TTTAATA
6539815 TTAATTTTAATA
1 TTAATTTTAATA
6539827 TTAATTTTTAA-A
1 TTAA-TTTTAATA
* *
6539839 -TAAATTAAATA
1 TTAATTTTAATA
6539850 TTAATTTTTAATA
1 TTAA-TTTTAATA
*
6539863 TTATATTATAGATA
1 TTA-ATTTTA-ATA
6539877 TTAATTTTAATA
1 TTAATTTTAATA
*
6539889 TTACTTTTAA
1 TTAATTTTAA
6539899 AATAAATTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
10 6 0.08
11 9 0.12
12 29 0.38
13 26 0.34
14 7 0.09
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:6539902 original size:62 final size:62
Alignment explanation
Indices: 6539792--6539950 Score: 227
Period size: 62 Copynumber: 2.6 Consensus size: 62
6539782 GGTTTTATAT
* *
6539792 TTAA-TTTT-ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTAAATAAATTAAATA
1 TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTAAAATAAATTAAATA
*
6539850 TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTACTTTTAAAATAAATTAAATA
1 TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTAAAATAAATTAAATA
*
6539912 TTGATTTTTTTAATATTATATTATAGATATTTAATTTTA
1 TT-A-ATTTTTAATATTATATTATAGATA-TTAATTTTA
6539951 TATCATATAA
Statistics
Matches: 90, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
58 4 0.04
59 4 0.04
60 10 0.11
61 1 0.01
62 38 0.42
63 1 0.01
64 23 0.26
65 9 0.10
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (62 bp):
TTAATTTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTAAAATAAATTAAATA
Found at i:6540005 original size:20 final size:19
Alignment explanation
Indices: 6539945--6540006 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
6539935 TAGATATTTA
*
6539945 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
6539964 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
6539982 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
6540002 ATTTT
1 ATTTT
6540007 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:6540506 original size:31 final size:31
Alignment explanation
Indices: 6540471--6540530 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
6540461 TAGTTGTATG
* *
6540471 AATTATTTAAATTTTAGTATTGTAAAACTAA
1 AATTATTTAAATTTCAGTATTGCAAAACTAA
6540502 AATTATTTAAATTTCAGTATTGCAAAACT
1 AATTATTTAAATTTCAGTATTGCAAAACT
6540531 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (31 bp):
AATTATTTAAATTTCAGTATTGCAAAACTAA
Found at i:6550349 original size:35 final size:35
Alignment explanation
Indices: 6550256--6550355 Score: 103
Period size: 35 Copynumber: 2.7 Consensus size: 35
6550246 AAATGCCCTT
6550256 TTTGTTGATTAATCAGAAAACAAAAAAAACTAAATATA
1 TTTGTTGATTAATCAG--AA-AAAAAAAACTAAATATA
* ** * *
6550294 TTT-TTGGTTCGTAAACAAAAAAAAAACTAAATATA
1 TTTGTTGATTAAT-CAGAAAAAAAAAACTAAATATA
6550329 TTTGTTGATTAATCAGAAAAATAAAAA
1 TTTGTTGATTAATCAGAAAAA-AAAAA
6550356 TAGTATTTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
35 26 0.53
36 13 0.27
37 6 0.12
38 4 0.08
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (35 bp):
TTTGTTGATTAATCAGAAAAAAAAAACTAAATATA
Found at i:6550609 original size:15 final size:15
Alignment explanation
Indices: 6550582--6550614 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
6550572 AAAAGTATAT
6550582 AAATAATATTAA-TA
1 AAATAATATTAATTA
6550596 AAATAATAATTAATTA
1 AAATAAT-ATTAATTA
6550612 AAA
1 AAA
6550615 AATTGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 5 0.29
16 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAATATTAATTA
Found at i:6561812 original size:158 final size:157
Alignment explanation
Indices: 6561470--6561813 Score: 442
Period size: 157 Copynumber: 2.2 Consensus size: 157
6561460 TGCGGTATAT
* * *
6561470 GAGCAAGTGGTTCAAATTTGGTAAAAAATAGACTTAAAATAAATCACAAATTGAAGGAATAAGGA
1 GAGCATGTGGTTCAAATTTGGTAAAAAACAGACTTAAAATAAATCACAAATTGAAGAAATAAGGA
* * **
6561535 GATTATAAAAAATTAAAGGACTAAATTGTAAAATAAAAATTAATTATAAAATAGAGGAATTGAAA
66 GATTATAAAAAATTAAAGGACTAAATTGAAAAATAAAAATTAATTATAAAAAAGAACAATTGAAA
* **
6561600 GTACACATGTATTCTATTATGGTTTAG
131 GTACACATGTATTCTACTACAGTTTAG
* * **
6561627 GAGCATGTGGCTT-AAATTTGGTAAAAAACATACTTAAAATAAATGATGAATTGAAGAAATAAGG
1 GAGCATGTGG-TTCAAATTTGGTAAAAAACAGACTTAAAATAAATCACAAATTGAAGAAATAAGG
* * *
6561691 AGATTATTAAAAATTGAAGGACTAAATT-AAAAATTAAAAAAATT-GTTATAAAAAAGAACAATT
65 AGATTATAAAAAATTAAAGGACTAAATTGAAAAA-T--AAAAATTAATTATAAAAAAGAACAATT
*
6561754 GAAAGTACACATGTATTGTACTACAGTTTAG
127 GAAAGTACACATGTATTCTACTACAGTTTAG
* * *
6561785 GAGTATGTGGTTCAAATTTGTTTAAAAAC
1 GAGCATGTGGTTCAAATTTGGTAAAAAAC
6561814 TTAAAATGAA
Statistics
Matches: 161, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
156 4 0.02
157 83 0.52
158 67 0.42
159 7 0.04
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (157 bp):
GAGCATGTGGTTCAAATTTGGTAAAAAACAGACTTAAAATAAATCACAAATTGAAGAAATAAGGA
GATTATAAAAAATTAAAGGACTAAATTGAAAAATAAAAATTAATTATAAAAAAGAACAATTGAAA
GTACACATGTATTCTACTACAGTTTAG
Found at i:6565709 original size:21 final size:22
Alignment explanation
Indices: 6565685--6565728 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
6565675 TTTTATACAA
*
6565685 TATAAATAGATAT-TACTTTTT
1 TATAAATACATATGTACTTTTT
* *
6565706 TATATATACATATGTATTTTTT
1 TATAAATACATATGTACTTTTT
6565728 T
1 T
6565729 TCTTTTCGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
TATAAATACATATGTACTTTTT
Found at i:6567104 original size:35 final size:35
Alignment explanation
Indices: 6567064--6567139 Score: 127
Period size: 34 Copynumber: 2.2 Consensus size: 35
6567054 CCTTTTGTAA
6567064 AGGGAAAAAGTTATAGCTTATCCCGTGTAAAAGCT
1 AGGGAAAAAGTTATAGCTTATCCCGTGTAAAAGCT
* *
6567099 AGGG-AAAGGTTCTAGCTTATCCCGTGTAAAAGCT
1 AGGGAAAAAGTTATAGCTTATCCCGTGTAAAAGCT
6567133 AGGGAAA
1 AGGGAAA
6567140 TGTTCTAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 32 0.84
35 6 0.16
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (35 bp):
AGGGAAAAAGTTATAGCTTATCCCGTGTAAAAGCT
Found at i:6567117 original size:34 final size:34
Alignment explanation
Indices: 6567077--6567169 Score: 136
Period size: 34 Copynumber: 2.8 Consensus size: 34
6567067 GAAAAAGTTA
6567077 TAGCTTATCCCGTGTAAAAGCTAGGGAAAGGTTC
1 TAGCTTATCCCGTGTAAAAGCTAGGGAAAGGTTC
*
6567111 TAGCTTATCCCGTGTAAAAGCTAGGGAAATGTTC
1 TAGCTTATCCCGTGTAAAAGCTAGGGAAAGGTTC
* * *
6567145 TAGTTTAGCCCG-G-AAAAACTAGGGA
1 TAGCTTATCCCGTGTAAAAGCTAGGGA
6567170 GTTGTAAGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 11 0.20
33 1 0.02
34 43 0.78
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (34 bp):
TAGCTTATCCCGTGTAAAAGCTAGGGAAAGGTTC
Found at i:6569670 original size:12 final size:12
Alignment explanation
Indices: 6569653--6569677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6569643 GGGGGAGCTT
6569653 TGATTTTTCAAA
1 TGATTTTTCAAA
6569665 TGATTTTTCAAA
1 TGATTTTTCAAA
6569677 T
1 T
6569678 TTTAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TGATTTTTCAAA
Found at i:6570121 original size:21 final size:21
Alignment explanation
Indices: 6570095--6570215 Score: 129
Period size: 21 Copynumber: 5.7 Consensus size: 21
6570085 AGGGTGTCAA
6570095 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* *
6570116 AGTGCATCCATGTACCTCTGC
1 AGTGCATCCATGCACCCCTGC
6570137 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* * *
6570158 AGTACATCCATGCGCCTACC-AC
1 AGTGCATCCATGCACC--CCTGC
* * *
6570180 TAGTGCATCGATGCA-CCATGT
1 -AGTGCATCCATGCACCCCTGC
6570201 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
6570216 TCCATTTTGA
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
20 14 0.17
21 52 0.64
22 2 0.02
23 13 0.16
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:6570260 original size:20 final size:20
Alignment explanation
Indices: 6570235--6570277 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
6570225 AATGCAATTA
6570235 GTGCATCGATGCATCATGCT
1 GTGCATCGATGCATCATGCT
*
6570255 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCATGCT
6570275 GTG
1 GTG
6570278 TATCCATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCATGCT
Found at i:6570693 original size:34 final size:32
Alignment explanation
Indices: 6570654--6570722 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 32
6570644 TTTTGTAAAG
* *
6570654 GGGAAAAGTTATAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAAGTTATAGCTTAGCCCG-G-AAAAACTA
* *
6570688 GGGAAAAGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAAGTTATAGCTTAGCCCGGAAAAACTA
6570720 GGG
1 GGG
6570723 GGTTGTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 10 0.32
33 1 0.03
34 20 0.65
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (32 bp):
GGGAAAAGTTATAGCTTAGCCCGGAAAAACTA
Found at i:6571606 original size:35 final size:36
Alignment explanation
Indices: 6571464--6571608 Score: 140
Period size: 35 Copynumber: 4.1 Consensus size: 36
6571454 TTCATTCTAG
* *
6571464 TTGAAT-AGAAAGTGTGATG-TCTCCTTCTGTTTGAC
1 TTGAATCAGAAAGTGCGATGCT-TCCTTCCGTTTGAC
* * * *
6571499 TTAAATCAG-AAGTGTGATCCTTCATTCCGTTCT-AC
1 TTGAATCAGAAAGTGCGATGCTTCCTTCCGTT-TGAC
* * **
6571534 TTAAATC-GAAAGTGCGATGCCTCCTTCCGTTCAAC
1 TTGAATCAGAAAGTGCGATGCTTCCTTCCGTTTGAC
6571569 TTGAATCAG-AAGTGCGATGCTTCCTTCCGTTTGAC
1 TTGAATCAGAAAGTGCGATGCTTCCTTCCGTTTGAC
6571604 TTGAA
1 TTGAA
6571609 ACGGTGCAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
34 1 0.01
35 85 0.93
36 5 0.05
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (36 bp):
TTGAATCAGAAAGTGCGATGCTTCCTTCCGTTTGAC
Found at i:6573304 original size:43 final size:41
Alignment explanation
Indices: 6573142--6573357 Score: 276
Period size: 41 Copynumber: 5.2 Consensus size: 41
6573132 AACAGAGTAG
*
6573142 TACTTTAGTGGCGTTTTTATACAAACGTCGCTATAGACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
*
6573183 TACTTTAGTGGCGTTTTTATACAAACGTCGCTATAGACTCA
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
* * * *
6573224 TACTTTAATGGCATTTTTATAGAAACGCCGCTATAGACTCG
1 TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
*
6573265 TACTTTAGTGGCGTTTATGTTTTA-AAACGCCGCTATAGACTCA
1 TACTTTAGTGGCG-TT-T-TTATACAAACGCCGCTATAGACTCA
* * *
6573308 TACTTTAGTGGCGTTTATGTTTA-AAATGCCTCTATAGACTC-
1 TACTTTAGTGGCGTTT-T-TATACAAACGCCGCTATAGACTCA
6573349 TACTTTAGT
1 TACTTTAGT
6573358 TTTGTTTAAA
Statistics
Matches: 159, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
41 99 0.62
42 24 0.15
43 32 0.20
44 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (41 bp):
TACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCA
Found at i:6574298 original size:76 final size:75
Alignment explanation
Indices: 6574214--6574361 Score: 235
Period size: 76 Copynumber: 2.0 Consensus size: 75
6574204 TTAACTCAAA
6574214 TTTAGGATAATATTTTAAACATTATAT-TTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTA
1 TTTAGGATAATATTTT-AACATTATATATTTATCTTTTTATTTTAGTTTAAATAGG-TTTTAGTA
6574278 TTTTAATTAAGT
64 TTTTAATTAAGT
* * * *
6574290 TTTAGGATATTATTTTTATATTTTATATTTATCTTTTTATTTTAGTTTAAATAGGTTTTAGTATT
1 TTTAGGATAATATTTTAACATTATATATTTATCTTTTTATTTTAGTTTAAATAGGTTTTAGTATT
6574355 TTAATTA
66 TTAATTA
6574362 GGATTTAGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
75 24 0.36
76 43 0.64
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (75 bp):
TTTAGGATAATATTTTAACATTATATATTTATCTTTTTATTTTAGTTTAAATAGGTTTTAGTATT
TTAATTAAGT
Found at i:6574313 original size:21 final size:20
Alignment explanation
Indices: 6574289--6574334 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
6574279 TTTAATTAAG
6574289 TTTTAGGATATTAT-TTTTATA
1 TTTTAGGAT-TTATCTTTT-TA
*
6574310 TTTTA-TATTTATCTTTTTA
1 TTTTAGGATTTATCTTTTTA
6574329 TTTTAG
1 TTTTAG
6574335 TTTAAATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 11 0.50
20 6 0.27
21 5 0.23
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTAGGATTTATCTTTTTA
Found at i:6574387 original size:75 final size:77
Alignment explanation
Indices: 6574235--6574388 Score: 242
Period size: 75 Copynumber: 2.0 Consensus size: 77
6574225 ATTTTAAACA
* *
6574235 TTATATTTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTTAGGATAT
1 TTATATTTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATAT
*
6574300 TATTTTTATATT
66 TATTTATATATT
*
6574312 TTATA-TTTATCTTTTTATTTTAGTTTAAATAGG-TTTTAGTATTTTAATTAGGATTTAGAATAT
1 TTATATTTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATAT
6574375 TATATTAT-TATT
66 TAT-TTATATATT
6574387 TT
1 TT
6574389 TAGTTATTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
75 36 0.50
76 31 0.43
77 5 0.07
ACGTcount: A:0.29, C:0.01, G:0.09, T:0.61
Consensus pattern (77 bp):
TTATATTTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATAT
TATTTATATATT
Found at i:6574390 original size:76 final size:77
Alignment explanation
Indices: 6574235--6574399 Score: 246
Period size: 76 Copynumber: 2.1 Consensus size: 77
6574225 ATTTTAAACA
* *
6574235 TTATATTTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTTAGGATAT
1 TTATATTTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATAT
6574300 TATTTTTATATT
66 TATTTTTATATT
*
6574312 TTATA-TTTATCTTTTTATTTTAGTTTAAATAGG-TTTTAGTATTTTAATTAGGATTTAGAATAT
1 TTATATTTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATAT
6574375 TATATTATTAT-TT
66 TAT-TT-TTATATT
6574388 TTAGTTATTTTA
1 TTA--TATTTTA
6574400 GTTTAAATAG
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
75 30 0.38
76 35 0.44
77 9 0.11
78 2 0.03
79 4 0.05
ACGTcount: A:0.28, C:0.01, G:0.09, T:0.61
Consensus pattern (77 bp):
TTATATTTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATAT
TATTTTTATATT
Found at i:6574411 original size:75 final size:76
Alignment explanation
Indices: 6574242--6574412 Score: 197
Period size: 75 Copynumber: 2.3 Consensus size: 76
6574232 ACATTATATT
** * * *
6574242 TTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTT
1 TTATCTTTTTATAATAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTATTTAT
*
6574307 ATATTTTATAT
66 ATATTTTATAG
** *
6574318 TTATCTTTTTATTTTAGTTTAAATAGG-TTTTAGTATTTTAATTAGGATTTAGAATATTATATTA
1 TTATCTTTTTATAATAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTAT-TTA
6574382 T-TATTTT-TAG
65 TATATTTTATAG
*
6574392 TTATTTTAGTTTA-AATAGTTT
1 TTATCTT--TTTATAATAGTTT
6574413 TAAGTGTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
74 8 0.10
75 42 0.50
76 34 0.40
ACGTcount: A:0.29, C:0.01, G:0.10, T:0.60
Consensus pattern (76 bp):
TTATCTTTTTATAATAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATATTATTTAT
ATATTTTATAG
Found at i:6576832 original size:15 final size:15
Alignment explanation
Indices: 6576812--6576845 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6576802 CCAGCAGAAA
*
6576812 AAGACGCATATCAGG
1 AAGACGCATATCAAG
6576827 AAGACGCATATCAAG
1 AAGACGCATATCAAG
6576842 AAGA
1 AAGA
6576846 ACAAGAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.12
Consensus pattern (15 bp):
AAGACGCATATCAAG
Found at i:6580911 original size:52 final size:52
Alignment explanation
Indices: 6580835--6580944 Score: 186
Period size: 52 Copynumber: 2.1 Consensus size: 52
6580825 TTAACAAAAA
6580835 AACAGTGCAGAAAAAATGACTTGGTTCGAACTGTGCAGAAAAATTCGAACAG
1 AACAGTGCAGAAAAAATGACTTGGTTCGAACTGTGCAGAAAAATTCGAACAG
* *
6580887 AACAGTGCA-AAAAAACTGATTTGGTTCGAACTGTGCAGAAAAGTTCGAACAG
1 AACAGTGCAGAAAAAA-TGACTTGGTTCGAACTGTGCAGAAAAATTCGAACAG
6580939 AACAGT
1 AACAGT
6580945 ACATCATCGG
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
51 6 0.11
52 49 0.89
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (52 bp):
AACAGTGCAGAAAAAATGACTTGGTTCGAACTGTGCAGAAAAATTCGAACAG
Found at i:6582637 original size:70 final size:68
Alignment explanation
Indices: 6582539--6582730 Score: 241
Period size: 64 Copynumber: 2.9 Consensus size: 68
6582529 ATTTTAAACA
* *
6582539 TTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGTTTTAGGATAT
1 TTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATAT
6582604 TATTT
66 TA--T
* *
6582609 TTATATTTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAGTATTTTAACTAGGATTTAGAATAT
1 TTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATAT
6582673 TAT
66 TAT
* ** * * *
6582676 AT-TATTTT-T-TAGGTATTTTAGTTTAAATA-GTTTTAAGTGTTTTAATTAGGATTTA
1 TTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTA
6582731 AGATGTTTTA
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 39 0.35
65 1 0.01
66 6 0.05
67 2 0.02
69 28 0.25
70 34 0.31
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (68 bp):
TTATATTTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTATTTTAATTAAGATTTAGAATAT
TAT
Found at i:6592562 original size:43 final size:43
Alignment explanation
Indices: 6592515--6592741 Score: 165
Period size: 43 Copynumber: 5.3 Consensus size: 43
6592505 TTATATGACC
* *
6592515 TTTTGCGGTGTTTGTTCTAAAAACGCCGCTATAGATGTTAACA
1 TTTTGCGGCGTTTGTTCTAAAAACGCCGCTACAGATGTTAACA
* * * * *
6592558 TTTTGCGACGTTTGTT-TCAAAAATGCCACTACATATGTTGACA
1 TTTTGCGGCGTTTGTTCT-AAAAACGCCGCTACAGATGTTAACA
* * * * * *
6592601 TTTTGCGGTGTTTGTT-TCAAAAACGTCGTTACAGATCTCAACC
1 TTTTGCGGCGTTTGTTCT-AAAAACGCCGCTACAGATGTTAACA
* ** * * * *
6592644 TTTTGCGGCGTTTGTTCCAAAAACGTTGCTAAAGAT-CTGACC
1 TTTTGCGGCGTTTGTTCTAAAAACGCCGCTACAGATGTTAACA
* * * * *
6592686 TTTTGCGACGTTTGTTGC-AAAAACGCCGCTATAGATCTTGACC
1 TTTTGCGGCGTTTGTT-CTAAAAACGCCGCTACAGATGTTAACA
*
6592729 TATTGCGGCGTTT
1 TTTTGCGGCGTTT
6592742 TTTGTTCTCA
Statistics
Matches: 147, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
42 34 0.23
43 113 0.77
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (43 bp):
TTTTGCGGCGTTTGTTCTAAAAACGCCGCTACAGATGTTAACA
Found at i:6592722 original size:85 final size:85
Alignment explanation
Indices: 6592510--6592741 Score: 250
Period size: 86 Copynumber: 2.7 Consensus size: 85
6592500 GTTAATTATA
* * * *
6592510 TGACCTTTTGCGGTGTTTGTTCTAAAAACGCCGCTATAGATGTTAACATTTTGCGACGTTTGTTT
1 TGACCTTTTGCGGTGTTTGTTC-AAAAACGCCGCTATAGATCTTAACCTTTTGCGGCGTTTGTTC
* * * *
6592575 CAAAAATGCCACTACATATGT
65 CAAAAACGCCACTAAAGATGC
* * * * *
6592596 TGACATTTTGCGGTGTTTGTTTCAAAAACGTCGTTACAGATCTCAACCTTTTGCGGCGTTTGTTC
1 TGACCTTTTGCGGTGTTTG-TTCAAAAACGCCGCTATAGATCTTAACCTTTTGCGGCGTTTGTTC
***
6592661 CAAAAACGTTGCTAAAGAT-C
65 CAAAAACGCCACTAAAGATGC
** * *
6592681 TGACCTTTTGCGACGTTTGTTGCAAAAACGCCGCTATAGATCTTGACCTATTGCGGCGTTT
1 TGACCTTTTGCGGTGTTTGTT-CAAAAACGCCGCTATAGATCTTAACCTTTTGCGGCGTTT
6592742 TTTGTTCTCA
Statistics
Matches: 119, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
84 2 0.02
85 49 0.41
86 65 0.55
87 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (85 bp):
TGACCTTTTGCGGTGTTTGTTCAAAAACGCCGCTATAGATCTTAACCTTTTGCGGCGTTTGTTCC
AAAAACGCCACTAAAGATGC
Found at i:6597577 original size:23 final size:24
Alignment explanation
Indices: 6597526--6597582 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
6597516 ATCAATTATG
6597526 GGAATTATCTTTTGTAATTTATTA
1 GGAATTATCTTTTGTAATTTATTA
*
6597550 GGAATTATCTTTTGTGATTT-TTA
1 GGAATTATCTTTTGTAATTTATTA
6597573 GGAATTATCT
1 GGAATTATCT
6597583 CTTAGGGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (24 bp):
GGAATTATCTTTTGTAATTTATTA
Found at i:6597593 original size:23 final size:23
Alignment explanation
Indices: 6597526--6597597 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
6597516 ATCAATTATG
* *
6597526 GGAATTATCTTTTGTAATTTATTA
1 GGAATTATCTTTAGTGATTT-TTA
*
6597550 GGAATTATCTTTTGTGATTTTTA
1 GGAATTATCTTTAGTGATTTTTA
*
6597573 GGAATTATCTCTTAG-GGTTTTTA
1 GGAATTATCT-TTAGTGATTTTTA
6597596 GG
1 GG
6597598 GTTTTTTAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
23 22 0.50
24 22 0.50
ACGTcount: A:0.24, C:0.06, G:0.19, T:0.51
Consensus pattern (23 bp):
GGAATTATCTTTAGTGATTTTTA
Found at i:6609754 original size:23 final size:24
Alignment explanation
Indices: 6609710--6609760 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
6609700 TTTATATTTA
6609710 ATTTACTTATATATTCATAAATAT
1 ATTTACTTATATATTCATAAATAT
*
6609734 ATTTATTTA-ATA-TCATCAAATAT
1 ATTTACTTATATATTCAT-AAATAT
6609757 ATTT
1 ATTT
6609761 TTATTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 4 0.16
23 13 0.52
24 8 0.32
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTTACTTATATATTCATAAATAT
Found at i:6613410 original size:3 final size:3
Alignment explanation
Indices: 6613393--6613426 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
6613383 AATCGCTTTA
6613393 TCT T-T TCT CTCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT -TCT TCT TCT TCT TCT TCT TCT TCT T
6613427 TTGCCAGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:6615197 original size:14 final size:16
Alignment explanation
Indices: 6615166--6615199 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6615156 ATTAAAAAAT
6615166 AAAATATTAGTATTTA
1 AAAATATTAGTATTTA
6615182 AAAATATTA-T-TTTA
1 AAAATATTAGTATTTA
6615196 AAAA
1 AAAA
6615200 ATCTATAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 1 0.06
16 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AAAATATTAGTATTTA
Found at i:6617257 original size:31 final size:31
Alignment explanation
Indices: 6617219--6617298 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
6617209 TGATTTAAAA
*
6617219 AAAATTAAAAGTTTAGGTACTAAAACGGATC
1 AAAATTAAAAGTTTAGATACTAAAACGGATC
** * * *
6617250 AAAATTAAAAACTCATATATTAAAACGGATC
1 AAAATTAAAAGTTTAGATACTAAAACGGATC
* *
6617281 AAAATTGATAGTTTAGAT
1 AAAATTAAAAGTTTAGAT
6617299 GCCAAACGCA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (31 bp):
AAAATTAAAAGTTTAGATACTAAAACGGATC
Found at i:6620472 original size:7 final size:7
Alignment explanation
Indices: 6620460--6620486 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
6620450 GGAAGGGGAG
6620460 GGTGGAC
1 GGTGGAC
6620467 GGTGGAC
1 GGTGGAC
6620474 GGTGGAC
1 GGTGGAC
6620481 GGTGGA
1 GGTGGA
6620487 GGAGTAGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.59, T:0.15
Consensus pattern (7 bp):
GGTGGAC
Found at i:6631922 original size:15 final size:16
Alignment explanation
Indices: 6631902--6631933 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6631892 TTTGAAATGT
6631902 ATTTTATAAA-ATTTA
1 ATTTTATAAATATTTA
6631917 ATTTTATAAATATTTA
1 ATTTTATAAATATTTA
6631933 A
1 A
6631934 AATAATTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTATAAATATTTA
Found at i:6632237 original size:23 final size:23
Alignment explanation
Indices: 6632178--6632237 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
6632168 TACCTTTATA
*
6632178 ACACGTTTATCTTTGTATTTGTG
1 ACACGTTTATCTCTGTATTTGTG
* * *
6632201 GCACGTTTAACTCTGTCTTTGTG
1 ACACGTTTATCTCTGTATTTGTG
*
6632224 ACACGTTTTTCTCT
1 ACACGTTTATCTCT
6632238 TCCTTTTGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (23 bp):
ACACGTTTATCTCTGTATTTGTG
Found at i:6638012 original size:23 final size:22
Alignment explanation
Indices: 6637984--6638033 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
6637974 TATAAATTAA
* **
6637984 TAATTTTATTTTTTTAATTATAT
1 TAATTTTATTCTTAAAATTAT-T
6638007 TAATTTTATTCTTAAAATTATT
1 TAATTTTATTCTTAAAATTATT
6638029 TAATT
1 TAATT
6638034 GTATCAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TAATTTTATTCTTAAAATTATT
Found at i:6639232 original size:3 final size:3
Alignment explanation
Indices: 6639226--6639275 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
6639216 ATCATCATCA
6639226 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6639274 TA
1 TA
6639276 AATAAAAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6640625 original size:23 final size:22
Alignment explanation
Indices: 6640586--6640638 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
6640576 TATTTTAGTC
6640586 ATTGTTTATTTATATTTATATT-TT
1 ATTGTTTA--TATATTTA-ATTATT
6640610 ATATGTTTATATATTTAATTATT
1 AT-TGTTTATATATTTAATTATT
6640633 ATTGTT
1 ATTGTT
6640639 ATTATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.26
23 12 0.44
24 2 0.07
25 6 0.22
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (22 bp):
ATTGTTTATATATTTAATTATT
Found at i:6640869 original size:146 final size:144
Alignment explanation
Indices: 6640719--6641003 Score: 369
Period size: 146 Copynumber: 2.0 Consensus size: 144
6640709 TAAAAATCCT
6640719 ATTTA-TAAATTTAATTTTATATAAATTACTTTTAAGAA-AAATAATCATATTTTAATATTAAGA
1 ATTTATTAAA-TTAATTTTATATAAA-TA-TTTTAAGAATAAATAATCATATTTTAATATTAAGA
* *
6640782 AATGGGTTGTCTTAAAGCACCTAGGAGTCATTTTCTGATA-TTCTTAAATAAATAAATATCCTAT
63 AATGGGTTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTTC-TAAATAAATAAATATCCTAT
*
6640846 TTTTATAAAATATGTATTA
127 TTATA-AAAATATGTATTA
* * ** ** * * *
6640865 ATTTATTTTAATTATTTTTATATAAATATTTTATTAATATTTATTTATTTTTTAATATTAAGAAA
1 ATTTA-TTAAATTAATTTTATATAAATATTTTAAGAATAAATAATCATATTTTAATATTAAGAAA
* *
6640930 TGGGTTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTTCTAAGTAAATAAATATCTTATTTA
65 TGGGTTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTTCTAAATAAATAAATATCCTATTTA
6640995 TAAAAATAT
130 TAAAAATAT
6641004 AAATATTTTC
Statistics
Matches: 121, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
145 14 0.12
146 87 0.72
147 17 0.14
148 3 0.02
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (144 bp):
ATTTATTAAATTAATTTTATATAAATATTTTAAGAATAAATAATCATATTTTAATATTAAGAAAT
GGGTTGTCTTAAAGCACCTAGAAGTCATTTTCTAATATTTCTAAATAAATAAATATCCTATTTAT
AAAAATATGTATTA
Found at i:6640918 original size:34 final size:33
Alignment explanation
Indices: 6640843--6640916 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
6640833 ATAAATATCC
6640843 TATTTTTATAAAATATGTATTAATTTATTTTAAT
1 TATTTTTATAAAATATGTATTAA-TTATTTTAAT
* *
6640877 TATTTTTATATAAATATTTTATTAA-TA-TTTATT
1 TATTTTTATA-AAATA-TGTATTAATTATTTTAAT
6640910 TATTTTT
1 TATTTTT
6640917 TAATATTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
33 12 0.33
34 12 0.33
35 5 0.14
36 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (33 bp):
TATTTTTATAAAATATGTATTAATTATTTTAAT
Found at i:6643604 original size:26 final size:26
Alignment explanation
Indices: 6643566--6643619 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
6643556 GCAAAAGTGT
6643566 ATAAATATAAAAGGAAAGTAACCAAA
1 ATAAATATAAAAGGAAAGTAACCAAA
*
6643592 ATAAATATGAAAGGAAAGTAACCAAA
1 ATAAATATAAAAGGAAAGTAACCAAA
6643618 AT
1 AT
6643620 CTTTCCAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (26 bp):
ATAAATATAAAAGGAAAGTAACCAAA
Found at i:6644634 original size:16 final size:16
Alignment explanation
Indices: 6644619--6644649 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6644609 AGTCTGTTTA
6644619 ATTTTTA-TTTTATTT
1 ATTTTTATTTTTATTT
6644634 ATTTTTATTTTTATTT
1 ATTTTTATTTTTATTT
6644650 TTATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTTATTTTTATTT
Found at i:6644640 original size:6 final size:6
Alignment explanation
Indices: 6644619--6644657 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
6644609 AGTCTGTTTA
6644619 ATTTTT A-TTTT A--TTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
6644658 TAATAAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 5 0.16
6 22 0.71
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:6645107 original size:14 final size:14
Alignment explanation
Indices: 6645070--6645114 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
6645060 TTCGATTATC
*
6645070 CGTTCGTTTATGTT
1 CGTTCATTTATGTT
*
6645084 -GTTGATTTATGTT
1 CGTTCATTTATGTT
*
6645097 CGTTCATTTATGTC
1 CGTTCATTTATGTT
6645111 CGTT
1 CGTT
6645115 TATGTTCGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (14 bp):
CGTTCATTTATGTT
Found at i:6645421 original size:26 final size:26
Alignment explanation
Indices: 6645385--6645436 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
6645375 GTTTATATTT
6645385 TAACGAACGGACATGAACGAACATGA
1 TAACGAACGGACATGAACGAACATGA
*
6645411 TAACGAACGGATATGAACGAACATGA
1 TAACGAACGGACATGAACGAACATGA
6645437 ACAAGCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.13
Consensus pattern (26 bp):
TAACGAACGGACATGAACGAACATGA
Found at i:6655255 original size:21 final size:21
Alignment explanation
Indices: 6655231--6655277 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
6655221 AGTATTGTAG
6655231 ATTGTGATGCAAGCTTTGTGA
1 ATTGTGATGCAAGCTTTGTGA
*
6655252 ATTGTTATGCAAGCTTTGTGA
1 ATTGTGATGCAAGCTTTGTGA
6655273 ATTGT
1 ATTGT
6655278 CATGTAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.43
Consensus pattern (21 bp):
ATTGTGATGCAAGCTTTGTGA
Found at i:6655490 original size:21 final size:21
Alignment explanation
Indices: 6655466--6655521 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
6655456 AGTATTGTAG
6655466 ATTGTCATGCAAGTTTTGTGA
1 ATTGTCATGCAAGTTTTGTGA
* *
6655487 ATTGTTATGCAAGCTTTGTGA
1 ATTGTCATGCAAGTTTTGTGA
*
6655508 ATTGTCATGTAAGT
1 ATTGTCATGCAAGT
6655522 GTTATGACAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.43
Consensus pattern (21 bp):
ATTGTCATGCAAGTTTTGTGA
Found at i:6655574 original size:235 final size:237
Alignment explanation
Indices: 6655159--6655631 Score: 887
Period size: 235 Copynumber: 2.0 Consensus size: 237
6655149 AATTAATTAA
6655159 GCTTATCTATCACATCATCATCTATCATGTACTATCATAACAACACCGTGAGCTATCCCATCAGT
1 GCTTATCTATCACATCATCATCTATCATGTACTATCATAACAACACCGTGAGCTATCCCATCAGT
*
6655224 ATTGTAGATTGTGATGCAAGCTTTGTGAATTGTTATGCAAGCTTTGTGAATTGTCATGTAAGTGT
66 ATTGTAGATTGTCATGCAAGCTTTGTGAATTGTTATGCAAGCTTTGTGAATTGTCATGTAAGTGT
6655289 TATGACAATCGATGTTTGATTCCTCTAGTCAAATAGTTATATA-TTTTTTT-TCTCTCAGTTTTA
131 TATGACAATCGATGTTTGATTCCTCTAGTCAAATAGTTATATATTTTTTTTCTCTCTCAGTTTTA
6655352 AGGGTTATATTGAGTGCAATAAAAGTTAAAGGGTTATACTAT
196 AGGGTTATATTGAGTGCAATAAAAGTTAAAGGGTTATACTAT
*
6655394 GCTTATCTATCACATCATCATCTATCATGTACTATCATAACAACACCGTGAGCTATTCCATCAGT
1 GCTTATCTATCACATCATCATCTATCATGTACTATCATAACAACACCGTGAGCTATCCCATCAGT
*
6655459 ATTGTAGATTGTCATGCAAGTTTTGTGAATTGTTATGCAAGCTTTGTGAATTGTCATGTAAGTGT
66 ATTGTAGATTGTCATGCAAGCTTTGTGAATTGTTATGCAAGCTTTGTGAATTGTCATGTAAGTGT
*
6655524 TATGACAATCGATGTTTGATTCCTCTAGTCAAATAGTTATATTCTTTTTTTTCTCTCTCAGTTTT
131 TATGACAATCGATGTTTGATTCCTCTAGTCAAATAGTTATA-TATTTTTTTTCTCTCTCAGTTTT
6655589 AAGGGTTATATTGAGTGCAATAAAAGTTAAAGGGTTATACTAT
195 AAGGGTTATATTGAGTGCAATAAAAGTTAAAGGGTTATACTAT
6655632 TTTTCCCCAA
Statistics
Matches: 231, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
235 168 0.73
236 1 0.00
237 7 0.03
238 55 0.24
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (237 bp):
GCTTATCTATCACATCATCATCTATCATGTACTATCATAACAACACCGTGAGCTATCCCATCAGT
ATTGTAGATTGTCATGCAAGCTTTGTGAATTGTTATGCAAGCTTTGTGAATTGTCATGTAAGTGT
TATGACAATCGATGTTTGATTCCTCTAGTCAAATAGTTATATATTTTTTTTCTCTCTCAGTTTTA
AGGGTTATATTGAGTGCAATAAAAGTTAAAGGGTTATACTAT
Found at i:6655921 original size:27 final size:26
Alignment explanation
Indices: 6655867--6655928 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
6655857 AAGTTATGTA
*
6655867 ATAATTTTTAATAATTATATTTTAAT
1 ATAATTTTTAACAATTATATTTTAAT
*
6655893 ATAATTATTTAACAATTAT-TTGTTCAT
1 ATAATT-TTTAACAATTATATT-TTAAT
6655920 ATATATTTT
1 ATA-ATTTT
6655929 AAAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 8 0.26
27 20 0.65
28 3 0.10
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (26 bp):
ATAATTTTTAACAATTATATTTTAAT
Found at i:6662093 original size:61 final size:60
Alignment explanation
Indices: 6661994--6662121 Score: 150
Period size: 61 Copynumber: 2.1 Consensus size: 60
6661984 ATGGTTGGAT
* * *
6661994 GACCA-TTTTGTAACTTTTAAAAACCGATGAACTCAACAAAGCAACACTCTATAGTCAGAG
1 GACCATTTTTGTAACTTTTAAAAACCAATGAACTCAACAAAGCAACACCCTATAGTC-GAA
* * * * * **
6662054 GACCATTTTTGTAACTTTTAATAATCAATGGACTTAACAAAGTAATGCCCTATAGTCGAA
1 GACCATTTTTGTAACTTTTAAAAACCAATGAACTCAACAAAGCAACACCCTATAGTCGAA
6662114 GACCATTT
1 GACCATTT
6662122 GAATACTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 15 0.26
61 42 0.74
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (60 bp):
GACCATTTTTGTAACTTTTAAAAACCAATGAACTCAACAAAGCAACACCCTATAGTCGAA
Found at i:6667727 original size:30 final size:31
Alignment explanation
Indices: 6667693--6667758 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
6667683 CAAAAATATA
*
6667693 TAAGACATG-TCACTTTCGTTTTTATTTAAT
1 TAAGACATGATCACTTTCGTTTTTAGTTAAT
** * *
6667723 TAAGATGTGATCACTTTTGTTTTTAGTTATT
1 TAAGACATGATCACTTTCGTTTTTAGTTAAT
6667754 TAAGA
1 TAAGA
6667759 TGTGGTCACT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (31 bp):
TAAGACATGATCACTTTCGTTTTTAGTTAAT
Found at i:6667737 original size:31 final size:31
Alignment explanation
Indices: 6667702--6667768 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
6667692 ATAAGACATG
*
6667702 TCACTTTCGTTTTTATTTAATTAAGATGTGA
1 TCACTTTCGTTTTTAGTTAATTAAGATGTGA
* * *
6667733 TCACTTTTGTTTTTAGTTATTTAAGATGTGG
1 TCACTTTCGTTTTTAGTTAATTAAGATGTGA
6667764 TCACT
1 TCACT
6667769 AAGGGTTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.15, T:0.52
Consensus pattern (31 bp):
TCACTTTCGTTTTTAGTTAATTAAGATGTGA
Found at i:6681336 original size:15 final size:15
Alignment explanation
Indices: 6681296--6681336 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
6681286 CTCATAGTTA
6681296 TTGTTGGAATTGTTG
1 TTGTTGGAATTGTTG
*
6681311 TTGCTGGAATTGTTG
1 TTGTTGGAATTGTTG
*
6681326 TTGTTGTAATT
1 TTGTTGGAATT
6681337 CCAGCCTCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.02, G:0.29, T:0.54
Consensus pattern (15 bp):
TTGTTGGAATTGTTG
Found at i:6684852 original size:15 final size:15
Alignment explanation
Indices: 6684832--6684860 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6684822 ATTATTAGTA
6684832 ATATTTAATGATTTG
1 ATATTTAATGATTTG
6684847 ATATTTAATGATTT
1 ATATTTAATGATTT
6684861 AGTAACGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATATTTAATGATTTG
Found at i:6684970 original size:24 final size:24
Alignment explanation
Indices: 6684934--6685018 Score: 100
Period size: 24 Copynumber: 3.5 Consensus size: 24
6684924 TACTATTAAT
*
6684934 TTAATAATGATTAGTAATAATGAAA
1 TTAATAATGATTACTAATAATG-AA
* *
6684959 TT-ATAATAATTACTAATAATGAT
1 TTAATAATGATTACTAATAATGAA
* *
6684982 TTAATAATGATTACTAATAATTAT
1 TTAATAATGATTACTAATAATGAA
*
6685006 TTAATAATAATTA
1 TTAATAATGATTA
6685019 AATAATTAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 3 0.06
24 48 0.91
25 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.42
Consensus pattern (24 bp):
TTAATAATGATTACTAATAATGAA
Found at i:6685015 original size:14 final size:13
Alignment explanation
Indices: 6684935--6685018 Score: 50
Period size: 13 Copynumber: 6.7 Consensus size: 13
6684925 ACTATTAATT
* *
6684935 TAATAATGATTAG
1 TAATAATTATTAA
*
6684948 TAATAATGA--AA
1 TAATAATTATTAA
* * *
6684959 TTATAATAATTAC
1 TAATAATTATTAA
*
6684972 TAATAATGATT--
1 TAATAATTATTAA
* *
6684983 TAATAATGATTAC
1 TAATAATTATTAA
6684996 TAATAATTATTTAA
1 TAATAATTA-TTAA
6685010 TAATAATTA
1 TAATAATTA
6685019 AATAATTAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
11 19 0.33
13 27 0.47
14 12 0.21
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (13 bp):
TAATAATTATTAA
Found at i:6685175 original size:17 final size:15
Alignment explanation
Indices: 6685141--6685180 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
6685131 GTAGACATGC
6685141 ATATTTAATATTATA
1 ATATTTAATATTATA
*
6685156 ATATTTAAGTTTTAATA
1 ATATTTAA-TATT-ATA
6685173 ATATTTAA
1 ATATTTAA
6685181 CATAACCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 3 0.14
17 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATTTAATATTATA
Found at i:6685894 original size:7 final size:7
Alignment explanation
Indices: 6685830--6685890 Score: 72
Period size: 7 Copynumber: 8.7 Consensus size: 7
6685820 TTATTATTGA
6685830 AAACCTT
1 AAACCTT
6685837 AAACCTT
1 AAACCTT
6685844 AAACCTT
1 AAACCTT
6685851 AAACCTT
1 AAACCTT
6685858 AAA-CTCT
1 AAACCT-T
*
6685865 AAACATT
1 AAACCTT
6685872 AAA-CTCT
1 AAACCT-T
*
6685879 AAACCCT
1 AAACCTT
6685886 AAACC
1 AAACC
6685891 CTAATCATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 3 0.06
7 42 0.89
8 2 0.04
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (7 bp):
AAACCTT
Found at i:6686321 original size:17 final size:15
Alignment explanation
Indices: 6686299--6686338 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
6686289 TGGGGTTATG
6686299 TTAAATATTATTAAAA
1 TTAAATATTA-TAAAA
*
6686315 CTTAAATATTATAATA
1 -TTAAATATTATAAAA
6686331 TTAAATAT
1 TTAAATAT
6686339 GCATGTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 4 0.18
17 10 0.45
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATTATAAAA
Found at i:6686395 original size:22 final size:22
Alignment explanation
Indices: 6686367--6686408 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6686357 TGTAAAAAGA
6686367 ATAAATTCGACTAT-TTATAACT
1 ATAAATTCGACT-TGTTATAACT
*
6686389 ATAAATTTGACTTGTTATAA
1 ATAAATTCGACTTGTTATAA
6686409 GTTCAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (22 bp):
ATAAATTCGACTTGTTATAACT
Found at i:6686480 original size:14 final size:13
Alignment explanation
Indices: 6686461--6686518 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
6686451 TTTAAATATT
*
6686461 TAATTATTATTAAA
1 TAATTATTAGT-AA
6686475 TAATTATTAGTAA
1 TAATTATTAGTAA
*
6686488 TCATTATTA--AA
1 TAATTATTAGTAA
*
6686499 TCATTATTAGTAA
1 TAATTATTAGTAA
*
6686512 TTATTAT
1 TAATTAT
6686519 AATTTCATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
11 11 0.28
13 18 0.46
14 10 0.26
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (13 bp):
TAATTATTAGTAA
Done.