Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 167 of 276
Found at i:54803993 original size:35 final size:36
Alignment explanation
Indices: 54803954--54804024 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
54803944 TAAAATTGAA
*
54803954 TATCATATCTAAGATTGCA-ATCATATCTAATATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
54803989 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
54804025 CATATCATTG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:54804039 original size:36 final size:35
Alignment explanation
Indices: 54803954--54804040 Score: 106
Period size: 36 Copynumber: 2.5 Consensus size: 35
54803944 TAAAATTGAA
* *
54803954 TATCATATCTAAGATTGCAATCATATCTAATATTG
1 TATCATATCGAAGATTGCAATCATATCTAAGATTG
*
54803989 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCGAAGATTGCA-ATCATATCTAAGATTG
54804025 CATATCAT-T-GAAGATT
1 --TATCATATCGAAGATT
54804041 ATATTTCCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
35 19 0.40
36 21 0.45
37 1 0.02
38 6 0.13
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (35 bp):
TATCATATCGAAGATTGCAATCATATCTAAGATTG
Found at i:54805045 original size:17 final size:19
Alignment explanation
Indices: 54805020--54805058 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
54805010 GCCACTATTG
54805020 TTTAATTTTAA-AT-TTTT
1 TTTAATTTTAACATATTTT
*
54805037 TTTATTTTTAACATATTTT
1 TTTAATTTTAACATATTTT
54805056 TTT
1 TTT
54805059 CTATTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 2 0.11
19 7 0.37
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTAATTTTAACATATTTT
Found at i:54805220 original size:29 final size:27
Alignment explanation
Indices: 54805167--54805248 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 27
54805157 ATATTAAATA
* * *
54805167 TTAAATTTTTAAGTTTTTTATTTTTAATT
1 TTAAATTTTTAAATTTTTAAATTTT--TT
54805196 TTAAATTTTTAAATTTTTAAATTTTTT
1 TTAAATTTTTAAATTTTTAAATTTTTT
54805223 TTGAAGATTTTTATAATTTTTAAATT
1 TT-AA-ATTTTTA-AATTTTTAAATT
54805249 ATCATATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
27 4 0.09
28 2 0.04
29 29 0.62
30 12 0.26
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (27 bp):
TTAAATTTTTAAATTTTTAAATTTTTT
Found at i:54805248 original size:8 final size:8
Alignment explanation
Indices: 54805167--54805221 Score: 71
Period size: 8 Copynumber: 7.2 Consensus size: 8
54805157 ATATTAAATA
54805167 TTAAATTT
1 TTAAATTT
*
54805175 TTAAGTTT
1 TTAAATTT
*
54805183 TT-TATTT
1 TTAAATTT
54805190 TT-AA-TT
1 TTAAATTT
54805196 TTAAATTT
1 TTAAATTT
54805204 TTAAATTT
1 TTAAATTT
54805212 TTAAATTT
1 TTAAATTT
54805220 TT
1 TT
54805222 TTTGAAGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 4 0.10
7 8 0.20
8 29 0.71
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (8 bp):
TTAAATTT
Found at i:54805967 original size:15 final size:14
Alignment explanation
Indices: 54805928--54805979 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
54805918 AGCCTTAAAC
* * *
54805928 CCCTAACCCCTAAC
1 CCCTAAACCATAAT
54805942 CCCTAAACCATAAT
1 CCCTAAACCATAAT
54805956 CCCTAAATCCATAAT
1 CCCTAAA-CCATAAT
*
54805971 CCATAAACC
1 CCCTAAACC
54805980 TTAAAATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 20 0.61
15 13 0.39
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.19
Consensus pattern (14 bp):
CCCTAAACCATAAT
Found at i:54806040 original size:14 final size:14
Alignment explanation
Indices: 54806002--54806041 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
54805992 CTCATACACT
54806002 TTAAACCCTAAATC
1 TTAAACCCTAAATC
* *
54806016 ATATACCCTAAATC
1 TTAAACCCTAAATC
*
54806030 TTAAACTCTAAA
1 TTAAACCCTAAA
54806042 CTATAATGAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (14 bp):
TTAAACCCTAAATC
Found at i:54806680 original size:40 final size:39
Alignment explanation
Indices: 54806577--54806722 Score: 131
Period size: 40 Copynumber: 3.7 Consensus size: 39
54806567 AAATTCTTTT
* * *
54806577 GCGGCGTTTTT-TAAAAGCGCTGCTAAAGGTGTACCTAT-
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTTTA-CTATA
*
54806615 GCGGCGTTTCTTAATAAAA-TGCCGCTAAAGGTTTACATATA
1 GCGGCGTTT-TTAA-AAAAGCGCCGCTAAAGGTTTAC-TATA
* * *
54806656 GCGGCATTTTTAAAAAAGCACCGCTAATA--TTTGATCTTTA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAA-AGGTTT-A-CTATA
54806696 GCGGCGTTTTTAAAAAAGCGCCGCTAA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAA
54806723 TGCTCGTTCT
Statistics
Matches: 89, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
38 9 0.10
39 10 0.11
40 56 0.63
41 14 0.16
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (39 bp):
GCGGCGTTTTTAAAAAAGCGCCGCTAAAGGTTTACTATA
Found at i:54806723 original size:40 final size:40
Alignment explanation
Indices: 54806654--54806746 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
54806644 GGTTTACATA
* * *
54806654 TAGCGGCATTTTTAAAAAAGCACCGCTAATATTTGATCTT
1 TAGCGGCGTTTTTAAAAAAGCACCGCTAATACTCGATCTT
* * *
54806694 TAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGTTCTT
1 TAGCGGCGTTTTTAAAAAAGCACCGCTAATACTCGATCTT
*
54806734 TAGCGGTGTTTTT
1 TAGCGGCGTTTTT
54806747 CATTCAAACG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (40 bp):
TAGCGGCGTTTTTAAAAAAGCACCGCTAATACTCGATCTT
Found at i:54807027 original size:34 final size:33
Alignment explanation
Indices: 54806989--54807062 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
54806979 AACATATATC
* *
54806989 TATTTGGGCAGTTATGTCTATCCGAAGAGACATA
1 TATTTGGCCAGTTATGTCTATACGAA-AGACATA
** * *
54807023 TATTTTACCAGTTATGTCTATATGAAAGACATT
1 TATTTGGCCAGTTATGTCTATACGAAAGACATA
54807056 TATTTGG
1 TATTTGG
54807063 ACAATAATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (33 bp):
TATTTGGCCAGTTATGTCTATACGAAAGACATA
Found at i:54807060 original size:33 final size:34
Alignment explanation
Indices: 54806997--54807060 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
54806987 TCTATTTGGG
*
54806997 CAGTTATGTCTATCCGAAGAGACATATATTTTAC
1 CAGTTATGTCTATACGAAGAGACATATATTTTAC
* *
54807031 CAGTTATGTCTATATGAA-AGACATTTATTT
1 CAGTTATGTCTATACGAAGAGACATATATTT
54807061 GGACAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (34 bp):
CAGTTATGTCTATACGAAGAGACATATATTTTAC
Found at i:54814869 original size:22 final size:22
Alignment explanation
Indices: 54814844--54814887 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
54814834 TAGATGTTAA
54814844 GGTTCTGAGGAGAAAGTCCATT
1 GGTTCTGAGGAGAAAGTCCATT
*
54814866 GGTTCTGAGGAGGAAGTCCATT
1 GGTTCTGAGGAGAAAGTCCATT
54814888 CCTTTAGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.27
Consensus pattern (22 bp):
GGTTCTGAGGAGAAAGTCCATT
Found at i:54817662 original size:25 final size:22
Alignment explanation
Indices: 54817629--54817682 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
54817619 GTAGACTGCT
54817629 ATAAAAGTTGAAGAACCAGAGAAA
1 ATAAAAGTT--AGAACCAGAGAAA
*
54817653 ATAACAAGTTAGAACTAGAGAAA
1 ATAA-AAGTTAGAACCAGAGAAA
*
54817676 ATGAAAG
1 ATAAAAG
54817683 GGACAATAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.11
23 15 0.56
24 4 0.15
25 5 0.19
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.15
Consensus pattern (22 bp):
ATAAAAGTTAGAACCAGAGAAA
Found at i:54819122 original size:40 final size:41
Alignment explanation
Indices: 54819043--54819122 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
54819033 TTCTTTCTCT
* *
54819043 TTTTCCTTCTTTCTTTTTCTTTCGTTTTACTTCTCTGTTTC
1 TTTTCCTTCTTTCTATTTCTTTCGTTTTACTTATCTGTTTC
* *
54819084 TTTTCCTT-TTTCTATTTCATTTC-TTTTATTTATTTGTTT
1 TTTTCCTTCTTTCTATTTC-TTTCGTTTTACTTATCTGTTT
54819123 ATTCTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 22 0.65
41 12 0.35
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (41 bp):
TTTTCCTTCTTTCTATTTCTTTCGTTTTACTTATCTGTTTC
Found at i:54819153 original size:5 final size:5
Alignment explanation
Indices: 54819143--54819169 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
54819133 AATTATTATA
54819143 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
54819170 TAAGTATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:54819206 original size:20 final size:19
Alignment explanation
Indices: 54819181--54819228 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
54819171 AAGTATTACA
*
54819181 TATATTATTATATACATATG
1 TATATTATT-TATACACATG
*
54819201 TATATTATTTTTACACATG
1 TATATTATTTATACACATG
54819220 TA-ATTATTT
1 TATATTATTT
54819229 TTACCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 10 0.38
20 9 0.35
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTATACACATG
Found at i:54819227 original size:18 final size:19
Alignment explanation
Indices: 54819181--54819232 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
54819171 AAGTATTACA
* *
54819181 TATATTATTATATACATATG
1 TATATTATT-TTTACACATG
54819201 TATATTATTTTTACACATG
1 TATATTATTTTTACACATG
54819220 TA-ATTATTTTTAC
1 TATATTATTTTTAC
54819233 CATACACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 10 0.33
20 9 0.30
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTATTTTTACACATG
Found at i:54822983 original size:11 final size:10
Alignment explanation
Indices: 54822961--54823003 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
54822951 TTATAAAATT
54822961 TATAAGAAAAA
1 TATAA-AAAAA
54822972 TCATAAAAAAA
1 T-ATAAAAAAA
*
54822983 TTATTAAAAAA
1 -TATAAAAAAA
54822994 TATAAAAAAA
1 TATAAAAAAA
54823004 ATTATTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
10 9 0.32
11 14 0.50
12 5 0.18
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (10 bp):
TATAAAAAAA
Found at i:54822992 original size:22 final size:21
Alignment explanation
Indices: 54822967--54823032 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 21
54822957 AATTTATAAG
54822967 AAAAATCATAAAAAAATTATTA
1 AAAAAT-ATAAAAAAATTATTA
54822989 AAAAATATAAAAAAAATTATT-
1 AAAAATAT-AAAAAAATTATTA
* *
54823010 --GAATATTAAAAAATTATTA
1 AAAAATATAAAAAAATTATTA
54823029 AAAA
1 AAAA
54823033 TATGAAATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 11 0.30
19 5 0.14
21 3 0.08
22 18 0.49
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATATAAAAAAATTATTA
Found at i:54823029 original size:11 final size:11
Alignment explanation
Indices: 54822967--54823032 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
54822957 AATTTATAAG
* *
54822967 AAAAATCATAA
1 AAAAATTATTA
54822978 AAAAATTATTA
1 AAAAATTATTA
*
54822989 AAAAA-TATAAA
1 AAAAATTAT-TA
54823000 AAAAATTATT-
1 AAAAATTATTA
*
54823010 --GAA-TATTA
1 AAAAATTATTA
54823018 AAAAATTATTA
1 AAAAATTATTA
54823029 AAAA
1 AAAA
54823033 TATGAAATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
7 4 0.09
8 2 0.05
10 5 0.12
11 29 0.67
12 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (11 bp):
AAAAATTATTA
Found at i:54823107 original size:9 final size:10
Alignment explanation
Indices: 54822967--54823114 Score: 55
Period size: 9 Copynumber: 15.3 Consensus size: 10
54822957 AATTTATAAG
*
54822967 AAAAATCATAA
1 AAAAATTAT-A
54822978 AAAAATTATTA
1 AAAAATTA-TA
*
54822989 AAAAATATAAA
1 AAAAAT-TATA
*
54823000 AAAAATTATT
1 AAAAATTATA
* *
54823010 GAATA-T-TA
1 AAAAATTATA
*
54823018 AAAAATTATT
1 AAAAATTATA
54823028 AAAAA-TAT-
1 AAAAATTATA
*
54823036 -GAAATTGAT-
1 AAAAATT-ATA
*
54823045 -ATAATTATA
1 AAAAATTATA
54823054 AAAAACTTATA
1 AAAAA-TTATA
**
54823065 AAAAATTACC
1 AAAAATTATA
*
54823075 AACAA-TATA
1 AAAAATTATA
*
54823084 AAAAA-TCTA
1 AAAAATTATA
*
54823093 ATAAATTA-A
1 AAAAATTATA
*
54823102 AAAAATAATA
1 AAAAATTATA
54823112 AAA
1 AAA
54823115 TTTACAATAT
Statistics
Matches: 101, Mismatches: 25, Indels: 23
0.68 0.17 0.15
Matches are distributed among these distances:
7 3 0.03
8 7 0.07
9 31 0.31
10 26 0.26
11 31 0.31
12 3 0.03
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:54823211 original size:38 final size:38
Alignment explanation
Indices: 54823138--54823224 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
54823128 TTTAAAATTT
* *
54823138 TATAAAAACACATTAAAATTCTATAAAAATCATAAAAA
1 TATAAAAAAACATTAAAATTATATAAAAATCATAAAAA
* *
54823176 -ATAAAAAAAGCATTAAAATTA-ATATAAACTTATAAAAA
1 TATAAAAAAA-CATTAAAATTATATA-AAAATCATAAAAA
54823214 TTATAAAAAAA
1 -TATAAAAAAA
54823225 TCAAAAAACT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 11 0.27
38 21 0.51
40 9 0.22
ACGTcount: A:0.66, C:0.07, G:0.01, T:0.26
Consensus pattern (38 bp):
TATAAAAAAACATTAAAATTATATAAAAATCATAAAAA
Found at i:54824905 original size:45 final size:45
Alignment explanation
Indices: 54824826--54824935 Score: 120
Period size: 45 Copynumber: 2.5 Consensus size: 45
54824816 GACAGATTTT
* * * * *
54824826 ATCTGCATT-ATTTTGTTGTGTACATACAGTCATAGGCAGATTCC
1 ATCTGCATTGTTTTTGCTGTGTACACACAGCCATAGGCAAATTCC
54824870 ATCTGCATTGTTTTTGCTGTGTATC-CACAGCCATAGGCAAATTCC
1 ATCTGCATTGTTTTTGCTGTGTA-CACACAGCCATAGGCAAATTCC
*
54824915 ATCTG--TGGTGTTTTGCTGTGT
1 ATCTGCATTGT-TTTTGCTGTGT
54824936 GTTCACAGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
43 3 0.05
44 20 0.35
45 33 0.58
46 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (45 bp):
ATCTGCATTGTTTTTGCTGTGTACACACAGCCATAGGCAAATTCC
Found at i:54828746 original size:14 final size:13
Alignment explanation
Indices: 54828723--54828752 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
54828713 TTCTTTTAAA
54828723 TTAAACAATTATT
1 TTAAACAATTATT
54828736 TTAATACAATTATT
1 TTAA-ACAATTATT
54828750 TTA
1 TTA
54828753 GGACCTCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAACAATTATT
Found at i:54830735 original size:47 final size:46
Alignment explanation
Indices: 54830672--54830765 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 46
54830662 TAATTTTACC
* *
54830672 TGAAAATAGACTCATATATATTCTATCCATAAAATTTTCAGAATTT
1 TGAAAATAGACTCATATATATTATATCCATAAAATTTTCAAAATTT
*
54830718 NTGAAAATAGACTCATATATCTTATATCCATAAAATTTTCAAAATTT
1 -TGAAAATAGACTCATATATATTATATCCATAAAATTTTCAAAATTT
54830765 T
1 T
54830766 TGGTTTAGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.02
47 43 0.98
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.39
Consensus pattern (46 bp):
TGAAAATAGACTCATATATATTATATCCATAAAATTTTCAAAATTT
Found at i:54831527 original size:26 final size:26
Alignment explanation
Indices: 54831491--54831626 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
54831481 CATGAAATTC
54831491 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
54831517 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
54831543 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
54831569 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
54831595 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
54831621 TTATCA
1 TTATCA
54831627 ATTTGTATCA
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:54835196 original size:35 final size:35
Alignment explanation
Indices: 54835157--54835228 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
54835147 AATAGGCATT
54835157 TTTAGTGGATTACCCTTAATAACCAATAAGAAATA
1 TTTAGTGGATTACCCTTAATAACCAATAAGAAATA
54835192 TTTAGTGGATTACCCTTAATAACCAATAAGAAATA
1 TTTAGTGGATTACCCTTAATAACCAATAAGAAATA
54835227 TT
1 TT
54835229 CAATCTGGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (35 bp):
TTTAGTGGATTACCCTTAATAACCAATAAGAAATA
Found at i:54837860 original size:19 final size:18
Alignment explanation
Indices: 54837847--54837881 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
54837837 ATTTTAATTT
54837847 TTTTTA-TATTTTTTACAA
1 TTTTTATTATTTTTTA-AA
54837865 TTTTTATTATTTTTTAA
1 TTTTTATTATTTTTTAA
54837882 GAATTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATTATTTTTTAAA
Found at i:54837955 original size:27 final size:29
Alignment explanation
Indices: 54837925--54837991 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
54837915 TTTAAATAAG
*
54837925 TTTTATTTATTTT-ATAATTTATTAGA-T
1 TTTTATATATTTTGATAATTTATTAGACT
* *
54837952 TTTT-TATATTTTGATAATTTTTTATACT
1 TTTTATATATTTTGATAATTTATTAGACT
*
54837980 TTTTATAAATTT
1 TTTTATATATTT
54837992 ATATCAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 7 0.21
27 15 0.45
28 5 0.15
29 6 0.18
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (29 bp):
TTTTATATATTTTGATAATTTATTAGACT
Found at i:54837958 original size:19 final size:18
Alignment explanation
Indices: 54837934--54837977 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
54837924 GTTTTATTTA
54837934 TTTTATAATTT-ATTAGATT
1 TTTTATAATTTGA-TA-ATT
*
54837953 TTTTATATTTTGATAATT
1 TTTTATAATTTGATAATT
54837971 TTTTATA
1 TTTTATA
54837978 CTTTTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.43
19 12 0.52
20 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTGATAATT
Found at i:54837971 original size:18 final size:19
Alignment explanation
Indices: 54837950--54837987 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
54837940 AATTTATTAG
54837950 ATTTTTTATA-TTTTGATA
1 ATTTTTTATACTTTTGATA
*
54837968 ATTTTTTATACTTTTTATA
1 ATTTTTTATACTTTTGATA
54837987 A
1 A
54837988 ATTTATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
ATTTTTTATACTTTTGATA
Found at i:54838043 original size:16 final size:17
Alignment explanation
Indices: 54838024--54838057 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54838014 ATATTTAACC
54838024 ATTTTT-ATTTTTTTAT
1 ATTTTTAATTTTTTTAT
54838040 ATTTTTAAATTTTTTTAT
1 ATTTTT-AATTTTTTTAT
54838058 GAGGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTAATTTTTTTAT
Found at i:54842699 original size:28 final size:28
Alignment explanation
Indices: 54842644--54842699 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
54842634 TTATTTTTAA
* * *
54842644 ACAAAATTACCATATTAGGTCGATTTTT
1 ACAAAATTACCAGAATAGGCCGATTTTT
54842672 ACAAAATTAACCAGAATAGGCCGATTTT
1 ACAAAATT-ACCAGAATAGGCCGATTTT
54842700 GGAGAGAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.32
Consensus pattern (28 bp):
ACAAAATTACCAGAATAGGCCGATTTTT
Found at i:54844505 original size:18 final size:18
Alignment explanation
Indices: 54844482--54844518 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
54844472 TAAAATAGGC
54844482 ACTATGTGGGCGGAATTA
1 ACTATGTGGGCGGAATTA
*
54844500 ACTATGTGTGCGGAATTA
1 ACTATGTGGGCGGAATTA
54844518 A
1 A
54844519 ATGTCACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (18 bp):
ACTATGTGGGCGGAATTA
Found at i:54844695 original size:24 final size:24
Alignment explanation
Indices: 54844663--54844726 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
54844653 GAAAATTTCA
* *
54844663 GGCACTATGTGTGCG-GTTTAGTAT
1 GGCACTATGTGTGCGAGCTTAAT-T
54844687 GGCACTATGTGTGCGAGCTTAATT
1 GGCACTATGTGTGCGAGCTTAATT
*
54844711 AGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
54844727 ATTTGGTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGCTTAATT
Found at i:54846670 original size:32 final size:32
Alignment explanation
Indices: 54846634--54846696 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
54846624 TCATAAACTT
* *
54846634 ATAAATGAATTACTTGAATTTAATAACTCATG
1 ATAAATGAATTAATTCAATTTAATAACTCATG
* * *
54846666 ATAAATTAATTAATTCATTTTGATAACTCAT
1 ATAAATGAATTAATTCAATTTAATAACTCAT
54846697 ACTGATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (32 bp):
ATAAATGAATTAATTCAATTTAATAACTCATG
Found at i:54846785 original size:16 final size:17
Alignment explanation
Indices: 54846756--54846790 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
54846746 GAAAGAATGT
54846756 AAAATAAAATATGCATA
1 AAAATAAAATATGCATA
*
54846773 AAAATAATA-ATGCATA
1 AAAATAAAATATGCATA
54846789 AA
1 AA
54846791 TCTATGATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (17 bp):
AAAATAAAATATGCATA
Found at i:54847953 original size:34 final size:34
Alignment explanation
Indices: 54847869--54847960 Score: 114
Period size: 34 Copynumber: 2.7 Consensus size: 34
54847859 ACATATGCGA
*
54847869 ATATCATATCAAAATGTCACATTACCAAACACAT
1 ATATCATATCAAAATGTCATATTACCAAACACAT
* * * *
54847903 ATATCAAATTAGAATGTCATATTTCCAGAA-ACAT
1 ATATCATATCAAAATGTCATATTACCA-AACACAT
*
54847937 ATATCATATCAAAATGTTATATTA
1 ATATCATATCAAAATGTCATATTA
54847961 TATCAGAACA
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
34 45 0.96
35 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.33
Consensus pattern (34 bp):
ATATCATATCAAAATGTCATATTACCAAACACAT
Found at i:54851099 original size:29 final size:29
Alignment explanation
Indices: 54851051--54851114 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
54851041 ACAAAACCTA
* * * *
54851051 CCACACGGCCTACTATATGGTCATGTGAC
1 CCACACGACCTACCACATGGCCATGTGAC
* *
54851080 TCACACGACCTACCACATGGCCGTGTGAC
1 CCACACGACCTACCACATGGCCATGTGAC
54851109 CCACAC
1 CCACAC
54851115 AATTGTGTGG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.38, G:0.19, T:0.19
Consensus pattern (29 bp):
CCACACGACCTACCACATGGCCATGTGAC
Found at i:54851933 original size:13 final size:13
Alignment explanation
Indices: 54851915--54851939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54851905 TAAGTTATAT
54851915 GTGTGAAAATTTC
1 GTGTGAAAATTTC
54851928 GTGTGAAAATTT
1 GTGTGAAAATTT
54851940 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:54857908 original size:25 final size:25
Alignment explanation
Indices: 54857866--54857915 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
54857856 CTTTATTATT
* *
54857866 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
54857891 ATCATTATCATGAGTTATATGATTA
1 ATCATTATCAAGAATTATATGATTA
54857916 GTCCTCTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:54858041 original size:20 final size:20
Alignment explanation
Indices: 54858013--54858050 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54858003 CTAGAAACTA
54858013 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
54858033 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
54858051 TATATGTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:54863504 original size:19 final size:19
Alignment explanation
Indices: 54863482--54863531 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
54863472 ATTTTTGAAC
54863482 AAATATAAAAAATTATA-AA
1 AAAT-TAAAAAATTATATAA
54863501 AAATCCT-AAAAA-TATATAA
1 AAAT--TAAAAAATTATATAA
54863520 AAATTAAAAAAT
1 AAATTAAAAAAT
54863532 CTAAAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 1 0.04
18 9 0.35
19 15 0.58
20 1 0.04
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATTAAAAAATTATATAA
Found at i:54863536 original size:9 final size:9
Alignment explanation
Indices: 54863482--54863539 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
54863472 ATTTTTGAAC
54863482 AAATATAAA
1 AAATATAAA
54863491 AAATTATAAA
1 AAA-TATAAA
*
54863501 AAATCCT-AA
1 AAAT-ATAAA
54863510 AAATATATAA
1 AAATATA-AA
54863520 AAAT-TAAA
1 AAATATAAA
*
54863528 AAATCTAAA
1 AAATATAAA
54863537 AAA
1 AAA
54863540 CACTTTAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 7 0.17
9 19 0.45
10 16 0.38
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATATAAA
Found at i:54864194 original size:16 final size:17
Alignment explanation
Indices: 54864165--54864199 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
54864155 GAAAGAATGT
54864165 AAAATAAAATATGCATA
1 AAAATAAAATATGCATA
*
54864182 AAAATAATA-ATGCATA
1 AAAATAAAATATGCATA
54864198 AA
1 AA
54864200 TCTAGGATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (17 bp):
AAAATAAAATATGCATA
Found at i:54864567 original size:15 final size:16
Alignment explanation
Indices: 54864547--54864577 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
54864537 TAATATATTA
54864547 ATTTTATT-TTTATAT
1 ATTTTATTATTTATAT
54864562 ATTTTATTATTTATAT
1 ATTTTATTATTTATAT
54864578 TATATACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTATTATTTATAT
Found at i:54865871 original size:23 final size:23
Alignment explanation
Indices: 54865845--54865892 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
54865835 AATGAAGAGT
*
54865845 TAGAGCTTCTTCATTTTCCACTG
1 TAGAGCTTCTTCATTGTCCACTG
54865868 TAGAGCTTCTTCATTGTCCACTG
1 TAGAGCTTCTTCATTGTCCACTG
54865891 TA
1 TA
54865893 TATGCTAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (23 bp):
TAGAGCTTCTTCATTGTCCACTG
Found at i:54869005 original size:16 final size:16
Alignment explanation
Indices: 54868945--54869007 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
54868935 ATTATAAAAA
54868945 TATTATATT-AATTA-
1 TATTATATTAAATTAT
* *
54868959 TA-TATGTTAAATAAT
1 TATTATATTAAATTAT
* *
54868974 TATTATATTTATTTAT
1 TATTATATTAAATTAT
*
54868990 TTTTATATTAAATTAT
1 TATTATATTAAATTAT
54869006 TA
1 TA
54869008 ACTCAATAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
13 5 0.14
14 6 0.17
15 2 0.06
16 23 0.64
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TATTATATTAAATTAT
Found at i:54875575 original size:23 final size:25
Alignment explanation
Indices: 54875549--54875606 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 25
54875539 AAATATTTAT
54875549 AATGTT-T-CAATGACTACATGTAA
1 AATGTTATACAATGACTACATGTAA
*
54875572 AATGTTATAAGAATGACTACATGTAA
1 AATGTTAT-ACAATGACTACATGTAA
54875598 AATGTTATA
1 AATGTTATA
54875607 AGTGATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 6 0.19
24 1 0.03
25 1 0.03
26 23 0.74
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (25 bp):
AATGTTATACAATGACTACATGTAA
Found at i:54875588 original size:26 final size:26
Alignment explanation
Indices: 54875557--54875608 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
54875547 ATAATGTTTC
54875557 AATGACTACATGTAAAATGTTATAAG
1 AATGACTACATGTAAAATGTTATAAG
54875583 AATGACTACATGTAAAATGTTATAAG
1 AATGACTACATGTAAAATGTTATAAG
54875609 TGATTTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (26 bp):
AATGACTACATGTAAAATGTTATAAG
Found at i:54875671 original size:34 final size:34
Alignment explanation
Indices: 54875631--54875698 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
54875621 TATAATGGAA
54875631 GGACTATAAGTATTGAGTTATGTTTCTTAGTTAT
1 GGACTATAAGTATTGAGTTATGTTTCTTAGTTAT
54875665 GGACTATAAGTATTGAGTTATGTTTCTTAGTTAT
1 GGACTATAAGTATTGAGTTATGTTTCTTAGTTAT
54875699 TAAATGGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (34 bp):
GGACTATAAGTATTGAGTTATGTTTCTTAGTTAT
Found at i:54879361 original size:58 final size:57
Alignment explanation
Indices: 54879229--54879363 Score: 182
Period size: 58 Copynumber: 2.3 Consensus size: 57
54879219 TTTAATTCAT
* **
54879229 ATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
* * *
54879287 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATATTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATTAT-TTTATTAAATTATATTTA
54879345 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
54879364 TTAATAAGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 19 0.28
58 48 0.71
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:54879548 original size:16 final size:16
Alignment explanation
Indices: 54879527--54879580 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
54879517 TGAATTGCTG
54879527 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
54879543 ATTACATCTCTATTCA
1 ATTACAGCTCTATTCC
54879559 ATTACAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
54879575 ATTACA
1 ATTACA
54879581 ATGAACCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
15 1 0.03
16 32 0.97
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:54882593 original size:27 final size:27
Alignment explanation
Indices: 54882562--54882739 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54882552 TAAATTGTAC
54882562 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54882589 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54882615 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54882643 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
54882671 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54882698 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54882725 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54882740 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54882676 original size:82 final size:81
Alignment explanation
Indices: 54882563--54882718 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
54882553 AAATTGTACA
* *
54882563 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
54882627 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
54882644 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
54882709 TGCGAGTTGA
65 TGCGAATTGA
54882719 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:54882730 original size:82 final size:81
Alignment explanation
Indices: 54882559--54882739 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
54882549 GATTAAATTG
* *
54882559 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
54882624 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
54882640 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
54882704 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
54882722 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54882740 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:54885810 original size:51 final size:51
Alignment explanation
Indices: 54885681--54885811 Score: 192
Period size: 50 Copynumber: 2.6 Consensus size: 51
54885671 ATGTGTTCTG
* * * *
54885681 CATTTAATAAAGTCATGCATTATGTAACTCTTATGTTAGTTAAGTTTGCGT
1 CATTAAATTAAGTCATGCATTATGTAACTCCTATGTTAGTTAAGTTTGCAT
* *
54885732 CA-TAAATTATGACATGCATTATGTAACTCCTATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCTATGTTAGTTAAGTTTGCAT
*
54885782 CATTAAATTAAGTCATGCATTAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
54885812 ATTTGTTCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
50 44 0.63
51 26 0.37
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCTATGTTAGTTAAGTTTGCAT
Found at i:54887718 original size:47 final size:46
Alignment explanation
Indices: 54887626--54887719 Score: 109
Period size: 50 Copynumber: 2.0 Consensus size: 46
54887616 TCTTCTTTCC
* *
54887626 AAAAAACCCTAAATTAAACCCCAAATCCATTCTTCTCATTTTTCTT
1 AAAAAACCCTAAAATAAACCCCAAATCCATTCTTCTCATTCTTCTT
*
54887672 AAAAAATCCCTAAAATAAACCCTCCACAGTCCATTCTTCTTC-TTCTTC
1 AAAAAA-CCCTAAAATAAA-CC-CCA-AATCCATTCTTC-TCATTCTTC
54887720 ATCATCAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
46 6 0.15
47 11 0.28
48 2 0.05
49 3 0.08
50 16 0.40
51 2 0.05
ACGTcount: A:0.35, C:0.31, G:0.01, T:0.33
Consensus pattern (46 bp):
AAAAAACCCTAAAATAAACCCCAAATCCATTCTTCTCATTCTTCTT
Found at i:54887724 original size:3 final size:3
Alignment explanation
Indices: 54887718--54887786 Score: 111
Period size: 3 Copynumber: 22.0 Consensus size: 3
54887708 TTCTTCTTCT
54887718 TCA TCA TCAA TTCA TTCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TC-A -TCA -TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
54887766 TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA
54887787 GTTCATTCAA
Statistics
Matches: 64, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
3 56 0.88
4 6 0.09
5 2 0.03
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:54888185 original size:14 final size:14
Alignment explanation
Indices: 54888166--54888199 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
54888156 AACTAATAAT
54888166 AATAATAAATGTAA
1 AATAATAAATGTAA
54888180 AATAATAAATGTAA
1 AATAATAAATGTAA
54888194 AATAAT
1 AATAAT
54888200 CTTTCTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (14 bp):
AATAATAAATGTAA
Found at i:54888185 original size:17 final size:15
Alignment explanation
Indices: 54888162--54888199 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
54888152 CTTTAACTAA
54888162 TAATAATAATAAATG
1 TAATAATAATAAATG
54888177 TAA-AATAATAAATG
1 TAATAATAATAAATG
54888191 TAA-AATAAT
1 TAATAATAAT
54888200 CTTTCTAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
TAATAATAATAAATG
Found at i:54889618 original size:14 final size:14
Alignment explanation
Indices: 54889599--54889634 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
54889589 AACTACCGCT
54889599 CTTGTAGGATAGCA
1 CTTGTAGGATAGCA
54889613 CTTGTAGGATAGCA
1 CTTGTAGGATAGCA
54889627 CTTGTAGG
1 CTTGTAGG
54889635 GCATCATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.31
Consensus pattern (14 bp):
CTTGTAGGATAGCA
Found at i:54895442 original size:48 final size:47
Alignment explanation
Indices: 54895390--54895657 Score: 208
Period size: 48 Copynumber: 5.6 Consensus size: 47
54895380 TATGAGAGCC
* *
54895390 AGTGTAAGACCATGTTTGGGACATGACATCGACGTTGATAGGTGCACT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-ACGTTGATAGGTGCACT
* * * *
54895438 AGTGTAAGACCATGTTTGGGACATGGCATCAGCGTCGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCA-CGTTGATAGGTGCACT
* * * *
54895486 AGTGTAAGATCATGTCTGGGACACGGGAACAGCCACATT-ATGAGG-G--CT
1 AGTGTAAGACCATGTCTGGGACA-TGG--CA-TCACGTTGAT-AGGTGCACT
* * * * *
54895534 AGTGTAAAACCATGTCTAGGACATGGCATC-GGTATTA-AGACGAG-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCACGT-TGATAG--GTGCA-CT
* * *
54895582 AGTGTAAGACCATGTTTGGGACATGGCATCAGCGTCGATATGTGCACT
1 AGTGTAAGACCATGTCTGGGACATGGCATCA-CGTTGATAGGTGCACT
*
54895630 AGTGTAAGACCATGTCTGGGACACGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCA
54895658 ACGGCCACAT
Statistics
Matches: 175, Mismatches: 28, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
43 3 0.02
44 2 0.01
45 4 0.02
46 1 0.01
47 3 0.02
48 144 0.82
49 4 0.02
50 6 0.03
51 6 0.03
52 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCACGTTGATAGGTGCACT
Found at i:54895506 original size:96 final size:95
Alignment explanation
Indices: 54895383--54895707 Score: 264
Period size: 96 Copynumber: 3.4 Consensus size: 95
54895373 GCAATGTTAT
*
54895383 GAGAGCCAGTGTAAGACCATGTTTGGGACATGACATCGACGTTGATAGGTGCACTAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTTTGGGACATGACATC-ACGTTGATAGGTGCACTAGTGTAAGAC
* * * * *
54895448 CATGTTTGGGACATGGCATCAGCGTCGATAT
65 CATGTCTGGGACATGGCATCAGCATCAAGAC
* * * * * * *
54895479 GTGCGCTAGTGTAAGATCATGTCTGGGACACGGGAACAGCCACATT-ATGAGG-G--CTAGTGTA
1 GAGAGCTAGTGTAAGACCATGTTTGGGACA--TG-ACA-TCACGTTGAT-AGGTGCACTAGTGTA
* * * * *
54895540 AAACCATGTCTAGGACATGGCATCGGTATTAAGAC
61 AGACCATGTCTGGGACATGGCATCAGCATCAAGAC
* * *
54895575 GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCGTCGATATGTGCACTAGTGTAAGAC
1 GAGAGCTAGTGTAAGACCATGTTTGGGACATGACATCA-CGTTGATAGGTGCACTAGTGTAAGAC
* * * ** *
54895640 CATGTCTGGGACACGGCAACGGCCA-CATTAT
65 CATGTCTGGGACATGGCATCAG-CATCAAGAC
* * * *
54895671 GAGAGCCAGTGTAAAACCATGTTTGAGACATGGCATC
1 GAGAGCTAGTGTAAGACCATGTTTGGGACATGACATC
54895708 GACATTAAGA
Statistics
Matches: 178, Mismatches: 40, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
92 2 0.01
93 6 0.03
94 4 0.02
96 150 0.84
97 1 0.01
98 4 0.02
99 10 0.06
100 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (95 bp):
GAGAGCTAGTGTAAGACCATGTTTGGGACATGACATCACGTTGATAGGTGCACTAGTGTAAGACC
ATGTCTGGGACATGGCATCAGCATCAAGAC
Found at i:54895592 original size:144 final size:144
Alignment explanation
Indices: 54895379--54895796 Score: 545
Period size: 144 Copynumber: 2.9 Consensus size: 144
54895369 ATTGGCAATG
* * * * * * * * *
54895379 TTATGAGAGCCAGTGTAAGACCATGTTTGGGACATGACATCGACGTTGATAGGTGCA-CTAGTGT
1 TTATGAGAGCCAGTGTAAAACCATGTTAGAGACATGGCATCGACATTAAGACGAG-AGCTAGTGT
*
54895443 AAGACCATGTTTGGGACATGGCATCAGCGTCGATATGTGCGCTAGTGTAAGATCATGTCTGGGAC
65 AAGACCATGTTTGGGACATGGCATCAGCGTCGATATGTGCGCTAGTGTAAGACCATGTCTGGGAC
*
54895508 ACGGGAACAGCCACA
130 ACGGCAACAGCCACA
* * **
54895523 TTATGAGGGCTAGTGTAAAACCATGTCTAG-GACATGGCATCGGTATTAAGACGAGAGCTAGTGT
1 TTATGAGAGCCAGTGTAAAACCATGT-TAGAGACATGGCATCGACATTAAGACGAGAGCTAGTGT
*
54895587 AAGACCATGTTTGGGACATGGCATCAGCGTCGATATGTGCACTAGTGTAAGACCATGTCTGGGAC
65 AAGACCATGTTTGGGACATGGCATCAGCGTCGATATGTGCGCTAGTGTAAGACCATGTCTGGGAC
*
54895652 ACGGCAACGGCCACA
130 ACGGCAACAGCCACA
* *
54895667 TTATGAGAGCCAGTGTAAAACCATGTTTGAGACATGGCATCGACATTAAGACGAGAGCTAGAGTA
1 TTATGAGAGCCAGTGTAAAACCATGTTAGAGACATGGCATCGACATTAAGACGAGAGCTAGTGTA
* * * * * * * *
54895732 AGACCATATATGGGGCATGGCATC-GGGCTCGACATGTGAGCCAGTGTAAGACCATGTCTAGGAC
66 AGACCATGTTTGGGACATGGCATCAGCG-TCGATATGTGCGCTAGTGTAAGACCATGTCTGGGAC
54895796 A
130 A
54895797 TGGAATCGAC
Statistics
Matches: 239, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
143 5 0.02
144 232 0.97
145 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (144 bp):
TTATGAGAGCCAGTGTAAAACCATGTTAGAGACATGGCATCGACATTAAGACGAGAGCTAGTGTA
AGACCATGTTTGGGACATGGCATCAGCGTCGATATGTGCGCTAGTGTAAGACCATGTCTGGGACA
CGGCAACAGCCACA
Found at i:54895723 original size:48 final size:48
Alignment explanation
Indices: 54895383--54895807 Score: 206
Period size: 48 Copynumber: 8.9 Consensus size: 48
54895373 GCAATGTTAT
* * * * * * *
54895383 GAGAGCCAGTGTAAGACCATGTTTGGGACATGACATCGACGTTGATAG
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGAC
* * * ** * *
54895431 GTGCA-CTAGTGTAAGACCATGTTTGGGACATGGCATC-AGCGTCGATAT
1 GAG-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTAAGAC
* * * * * * *
54895479 GTGCGCTAGTGTAAGATCATGTCTGGGACACGGGAACAGCCACATTATGA-
1 GAGAGCTAGTGTAAGACCATGTCTGGGACA-TGG--CATCGACATTAAGAC
* * **
54895529 G-G-GCTAGTGTAAAACCATGTCTAGGACATGGCATCGGTATTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGAC
* * ** * *
54895575 GAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATC-AGCGTCGATAT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTAAGAC
* * * *
54895623 GTGCA-CTAGTGTAAGACCATGTCTGGGACACGGCAACGGCCACATT---AT
1 GAG-AGCTAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTAAGAC
* * * *
54895671 GAGAGCCAGTGTAAAACCATGTTTGAGACATGGCATCGACATTAAGAC
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGAC
* * * * * ** * *
54895719 GAGAGCTAGAGTAAGACCATATATGGGGCATGGCATCGGGC-TCGACAT
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACATTAAGAC
* * * *
54895767 GTGAGCCAGTGTAAGACCATGTCTAGGACATGGAATCGACA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA
54895808 ATCTACCCTT
Statistics
Matches: 286, Mismatches: 69, Indels: 44
0.72 0.17 0.11
Matches are distributed among these distances:
45 14 0.05
46 1 0.00
47 8 0.03
48 245 0.86
49 7 0.02
50 1 0.00
51 8 0.03
52 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (48 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAAGAC
Found at i:54897824 original size:32 final size:32
Alignment explanation
Indices: 54897788--54897851 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
54897778 TGAGCCTATA
54897788 TTCATTTCAACAATTAAATCTTAAGTTTAGCT
1 TTCATTTCAACAATTAAATCTTAAGTTTAGCT
* *
54897820 TTCATTTCAGCAATTATATCTTAAGTTTAGCT
1 TTCATTTCAACAATTAAATCTTAAGTTTAGCT
54897852 AGTGAGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.08, T:0.45
Consensus pattern (32 bp):
TTCATTTCAACAATTAAATCTTAAGTTTAGCT
Found at i:54901742 original size:31 final size:31
Alignment explanation
Indices: 54901707--54901795 Score: 117
Period size: 31 Copynumber: 2.8 Consensus size: 31
54901697 AGACCCCCAA
* * *
54901707 AAGTTTAAGTACCAACTTAAGAAAAATTGTC
1 AAGTTTAAATACCAAATTAAGAAAAAGTGTC
*
54901738 AAGTTTAAATATCAAATT-AGAAAAAAGTGTC
1 AAGTTTAAATACCAAATTAAG-AAAAAGTGTC
54901769 AAGTTTAAATACCAAATTGAAGAAAAA
1 AAGTTTAAATACCAAATT-AAGAAAAA
54901796 AATAGATACC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
30 2 0.04
31 41 0.82
32 5 0.10
33 2 0.04
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (31 bp):
AAGTTTAAATACCAAATTAAGAAAAAGTGTC
Found at i:54903587 original size:48 final size:45
Alignment explanation
Indices: 54903469--54903602 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 45
54903459 AGTGATAATT
*
54903469 TTAAATTTTCAATACTATTCGATATTATTTTAATTTATGCAAATTTAA
1 TTAAA-TTTCAATACTATT-GATATT-TTTTCATTTATGCAAATTTAA
54903517 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATGC-AATTATAA
1 TTAAATTT-CAATACTA-TTGATATTTT-TTCATTTATGCAAATT-TAA
* *
54903565 TTACAATTTCAATACTGCTTGATTTTTTTTCATTTATG
1 TTA-AATTTCAATACT-ATTGATATTTTTTCATTTATG
54903603 ATGTTTGCAT
Statistics
Matches: 77, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
47 19 0.25
48 51 0.66
49 7 0.09
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (45 bp):
TTAAATTTCAATACTATTGATATTTTTTCATTTATGCAAATTTAA
Found at i:54905212 original size:18 final size:18
Alignment explanation
Indices: 54905189--54905231 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
54905179 TGCGAGGTGC
*
54905189 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
54905207 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
54905225 GTTTCCT
1 GTATCCT
54905232 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:54909031 original size:126 final size:127
Alignment explanation
Indices: 54908806--54909093 Score: 490
Period size: 126 Copynumber: 2.3 Consensus size: 127
54908796 GAAACATCTG
*
54908806 CACTATTTGTTCAGAAACGTCTACTCAAAATTATTTTTCTATGAACTACTGTAGCAAAAGAGCGT
1 CACTATTTGTTCAGAAACGTCTACTCAAAATTATTTTTCTACGAACTACTGTAGCAAAAGAGCGT
54908871 CCACGTGAGAGCCTTTTCCAGAAATTTTGCTGACAGTGTATCCTGCTTGAAGCG-TTTTCAA
66 CCACGTGAGAGCCTTTTCCAGAAATTTTGCTGACAGTGTATCCTGCTTGAAGCGTTTTTCAA
* *
54908932 CACTATTTGTTCAGAAACGTCTACTCAGAATTATTTTTCTACGAACTACTGTAGCAAAAGAGTGT
1 CACTATTTGTTCAGAAACGTCTACTCAAAATTATTTTTCTACGAACTACTGTAGCAAAAGAGCGT
* * *
54908997 CCACGTGGGAGCTTTTTCCAGAAATTTTGCTGACAGTGTATCCTGCTTGAAGCGTTTTTCGA
66 CCACGTGAGAGCCTTTTCCAGAAATTTTGCTGACAGTGTATCCTGCTTGAAGCGTTTTTCAA
*
54909059 CACTATTT-TTCTAGAAACGTCTGCTCAAAATTATT
1 CACTATTTGTTC-AGAAACGTCTACTCAAAATTATT
54909094 CTTGCAGAAA
Statistics
Matches: 152, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
126 117 0.77
127 35 0.23
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (127 bp):
CACTATTTGTTCAGAAACGTCTACTCAAAATTATTTTTCTACGAACTACTGTAGCAAAAGAGCGT
CCACGTGAGAGCCTTTTCCAGAAATTTTGCTGACAGTGTATCCTGCTTGAAGCGTTTTTCAA
Found at i:54909576 original size:15 final size:15
Alignment explanation
Indices: 54909556--54909585 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
54909546 TTAAATTTTT
54909556 TCCTAAAACCCTAAA
1 TCCTAAAACCCTAAA
54909571 TCCTAAAACCCTAAA
1 TCCTAAAACCCTAAA
54909586 CCTTTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (15 bp):
TCCTAAAACCCTAAA
Found at i:54932446 original size:52 final size:53
Alignment explanation
Indices: 54932338--54932488 Score: 130
Period size: 52 Copynumber: 2.9 Consensus size: 53
54932328 GACGGAAAAG
* * * * * *
54932338 ATGTGATATGTGTTTTCGTATAAGACCATAGCTAGGCTATGACAT-TGATACA
1 ATGTGATATGAGATTCCGTATAAGACCATAGCTGGGCTATGGCATCAGATACA
***
54932390 ATGTGAT-TCGAG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCAG-TGTG
1 ATGTGATAT-GAGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCAGATACA
* ** *
54932442 ATGTGATAATGTGATTCCGTATAAGACCATATTTGGGATATGGCATC
1 ATGTGAT-ATGAGATTCCGTATAAGACCATAGCTGGGCTATGGCATC
54932489 GGTATGTTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
51 3 0.04
52 44 0.54
53 31 0.38
54 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (53 bp):
ATGTGATATGAGATTCCGTATAAGACCATAGCTGGGCTATGGCATCAGATACA
Found at i:54933302 original size:20 final size:20
Alignment explanation
Indices: 54933277--54933323 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
54933267 CAGAATCGCC
*
54933277 CACGGGCATGTCTCAGACCA
1 CACGGGCATGTCCCAGACCA
*
54933297 CACGGGCATGTCCCAGGCCA
1 CACGGGCATGTCCCAGACCA
*
54933317 CAGGGGC
1 CACGGGC
54933324 GTGTGCCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.36, G:0.32, T:0.11
Consensus pattern (20 bp):
CACGGGCATGTCCCAGACCA
Found at i:54937164 original size:21 final size:20
Alignment explanation
Indices: 54937140--54937217 Score: 61
Period size: 22 Copynumber: 3.8 Consensus size: 20
54937130 CATGTCAACA
54937140 TTTAATTAATTTTTAAAAAAT
1 TTTAA-TAATTTTTAAAAAAT
* *
54937161 TTTAA-AATATTTAAATCAAT
1 TTTAATAATTTTTAAA-AAAT
*
54937181 TTT-TTATATTTTTAATAATAAT
1 TTTAATA-ATTTTTAA-AA-AAT
*
54937203 TTTAATGATTTTTAA
1 TTTAATAATTTTTAA
54937218 TTTTTAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
19 9 0.20
20 7 0.16
21 12 0.27
22 15 0.34
23 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (20 bp):
TTTAATAATTTTTAAAAAAT
Found at i:54939014 original size:64 final size:64
Alignment explanation
Indices: 54938913--54939055 Score: 232
Period size: 64 Copynumber: 2.2 Consensus size: 64
54938903 TCATTCATAA
* * * *
54938913 CACATCTAGTTAGGAGCTTTTGATTCATTTTAATCATAGCATCCTAATTATTTGACATAAGTAT
1 CACATCTAGTTAGGAACATTTGATTCAGTTCAATCATAGCATCCTAATTATTTGACATAAGTAT
* *
54938977 CACATCTAGTTAGGAACATTTGATTCAGTTCGATCATAGCATCCTAATTATTTGACATCAGTAT
1 CACATCTAGTTAGGAACATTTGATTCAGTTCAATCATAGCATCCTAATTATTTGACATAAGTAT
54939041 CACATCTAGTTAGGA
1 CACATCTAGTTAGGA
54939056 GTATTTTTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 73 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAACATTTGATTCAGTTCAATCATAGCATCCTAATTATTTGACATAAGTAT
Found at i:54939493 original size:45 final size:44
Alignment explanation
Indices: 54939345--54939644 Score: 172
Period size: 44 Copynumber: 6.8 Consensus size: 44
54939335 TATAAATAAA
* ** * * *
54939345 CAGATCTTATCTCTTTGAAGTTGCAGTAGAGTAGA-T-CA-TAG
1 CAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAG
* * **
54939386 CAGACCTTATCTCCCTAAAGTTGCAGTGAAGCAGGTTGAAGTAG
1 CAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAG
* * *
54939430 CA-AGTCTTATCTCTCTGAAGTTGCAATGGAGCAGACTGAA-TATG
1 CAGA-CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTA-G
*
54939474 ACAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAA--AG
1 -CAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAG
* ** ** * * * *
54939516 TCATAATCCTTATCTTTCTGAAGTTGCAGTAAAGTAGGA-TAAAAATACA
1 -CA-GA-CCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACT-GAAGTA-G
* *
54939565 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCCA-ATTGAAGATAG
1 CAGACCTTATCTCCCTGAAGTTGCAGTGGAG-CAGACTGAAG-TAG
* *
54939610 C-GAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 CAG-ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
54939645 TTAAAGCTAT
Statistics
Matches: 200, Mismatches: 40, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
41 27 0.14
42 4 0.02
43 6 0.03
44 64 0.32
45 64 0.32
46 29 0.14
47 3 0.01
48 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
CAGACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTAG
Found at i:54939583 original size:46 final size:44
Alignment explanation
Indices: 54939389--54939645 Score: 142
Period size: 45 Copynumber: 5.8 Consensus size: 44
54939379 ATCATAGCAG
* * * ** *
54939389 ACCTTATCTCCCTAAAGTTGCAGTGAAGCAGGTTGAAGT-AGCAA
1 ACCTTATCTCCCTGAAGTTGCAGTAAAGCAGATAAAAATCA-CAA
** * * ** * * * *
54939433 GTCTTATCTCTCTGAAGTTGCAATGGAGCAGACTGAATATGACAG
1 ACCTTATCTCCCTGAAGTTGCAGTAAAGCAGA-TAAAAATCACAA
** * * *
54939478 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAAGTCATAA
1 ACCTTATCTCCCTGAAGTTGCAGTAAAGCAGATAAAAATCACAA
* ** *
54939522 TCCTTATCTTTCTGAAGTTGCAGTAAAGTAGGATAAAAATACACAA
1 ACCTTATCTCCCTGAAGTTGCAGTAAAGCA-GATAAAAAT-CACAA
** * * *
54939568 ACCTTATCTCCCTGAAGTTGCAGTGGAGCCA-ATTGAAGAT-AGCGA
1 ACCTTATCTCCCTGAAGTTGCAGTAAAG-CAGA-TAAAAATCA-CAA
* *
54939613 ACCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 ACCTTATCTCCCTGAAGTTGCAGTAAAGCAGAT
54939646 TAAAGCTATA
Statistics
Matches: 163, Mismatches: 42, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
44 59 0.36
45 70 0.43
46 33 0.20
47 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
ACCTTATCTCCCTGAAGTTGCAGTAAAGCAGATAAAAATCACAA
Found at i:54939681 original size:135 final size:135
Alignment explanation
Indices: 54939435--54939681 Score: 317
Period size: 135 Copynumber: 1.8 Consensus size: 135
54939425 AGTAGCAAGT
* *
54939435 CTTATCTCTCTGAAGTTGCAATGGAGCAGACTGAATATGACAGACCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATGACAGACCTTATCTCCCTGAAGTTGCA
* * *
54939500 GTGGAGCAGATCAAAGTCATAATCCTTATCTTTCTGAAGTTGCAGTAAAGTAGGATAAAAATACA
66 GTAGAGCAGATCAAAGTCATAATCCTTATCTCTCTGAAGTTACAGTAAAGTAGGATAAAAATACA
54939565 CAAAC
131 CAAAC
* * *
54939570 CTTATCTCCCTGAAGTTGCAGTGGAGCCA-ATTGAAGAT-AGC-GAACCTTATCTCTCTGAAGTT
1 CTTATCTCCCTGAAGTTGCAATGGAG-CAGACTGAAGATGA-CAG-ACCTTATCTCCCTGAAGTT
*
54939632 GCAGTAGAGCAGATTAAAG-CTATAAATCC-TATAC-CTCTGAAGTTACAGTA
63 GCAGTAGAGCAGATCAAAGTC-AT-AATCCTTAT-CTCTCTGAAGTTACAGTA
54939682 GGTCGGATCA
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
134 3 0.03
135 86 0.89
136 8 0.08
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (135 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATGACAGACCTTATCTCCCTGAAGTTGCA
GTAGAGCAGATCAAAGTCATAATCCTTATCTCTCTGAAGTTACAGTAAAGTAGGATAAAAATACA
CAAAC
Found at i:54939831 original size:44 final size:45
Alignment explanation
Indices: 54939754--54939859 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
54939744 GCCACAAACT
* * ** * ** *
54939754 TTATCCCCCTGAAGTTACAGTGGGGCAAGTTGAAGTTA-TGAGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGAGAGTGAATC
54939798 TTATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGAGAGTGAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGAGAGTGAATC
*
54939843 TTATCTCTCTGAAGTTG
1 TTATCTCCCTGAAGTTG
54939860 TAGTAGAGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
44 31 0.60
45 21 0.40
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAAATTGAAGAGAGTGAATC
Found at i:54940221 original size:18 final size:18
Alignment explanation
Indices: 54940195--54940229 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54940185 TTGTATCGCT
*
54940195 GTATTATTTTGAAAACGA
1 GTATCATTTTGAAAACGA
54940213 GTATCATTTTGAAAACG
1 GTATCATTTTGAAAACG
54940230 CGCCCTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (18 bp):
GTATCATTTTGAAAACGA
Found at i:54940680 original size:10 final size:10
Alignment explanation
Indices: 54940656--54940702 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
54940646 CATCTCATAA
54940656 CATATCATGT
1 CATATCATGT
54940666 GCATATCATGT
1 -CATATCATGT
*
54940677 CATAACATGT
1 CATATCATGT
54940687 CATATCATGT
1 CATATCATGT
54940697 -ATATCA
1 CATATCA
54940703 AAATCTCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 6 0.18
10 18 0.53
11 10 0.29
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (10 bp):
CATATCATGT
Found at i:54940680 original size:21 final size:21
Alignment explanation
Indices: 54940636--54940702 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
54940626 TATAATGAAT
* * **
54940636 ATATCTTGTGCATCTCATAAC
1 ATATCATGTGCATATCATGTC
54940657 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATGTC
*
54940678 ATAACATGT-CATATCATGT-
1 ATATCATGTGCATATCATGTC
54940697 ATATCA
1 ATATCA
54940703 AAATCTCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.12
20 10 0.25
21 25 0.62
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATGTC
Found at i:54948501 original size:11 final size:10
Alignment explanation
Indices: 54948485--54948521 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
54948475 CATCTCATAA
54948485 CATATCATGT
1 CATATCATGT
54948495 GCATATCATGT
1 -CATATCATGT
54948506 CATATCATGT
1 CATATCATGT
54948516 -ATATCA
1 CATATCA
54948522 AAATCTCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:54948509 original size:21 final size:21
Alignment explanation
Indices: 54948451--54948515 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
54948441 ACCCAACCCA
* * *
54948451 TGCATATAATGAATATATCTTG
1 TGCATATCAT-AACATATCATG
*
54948473 TGCATCTCATAACATATCATG
1 TGCATATCATAACATATCATG
**
54948494 TGCATATCATGTCATATCATG
1 TGCATATCATAACATATCATG
54948515 T
1 T
54948516 ATATCAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 28 0.78
22 8 0.22
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
TGCATATCATAACATATCATG
Found at i:54950625 original size:44 final size:45
Alignment explanation
Indices: 54950546--54950654 Score: 116
Period size: 44 Copynumber: 2.4 Consensus size: 45
54950536 AGCCACAAAC
* ** * *
54950546 CTTATCCCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTA-CA-AGT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAAGCTGAAGATAGCAGA-T
*
54950590 CTTATCTCCCAGAAGTTGCAGTGGAAC-AGACTGAAGATAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAAG-CTGAAGATAGCAGAT
*
54950635 CTTATCTCCTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCA
54950655 ATAAAGCAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 2 0.04
44 30 0.56
45 21 0.39
46 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAAGCTGAAGATAGCAGAT
Found at i:54952298 original size:29 final size:28
Alignment explanation
Indices: 54952238--54952301 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
54952228 ATGTCACTTA
* *
54952238 TTTTAAATAGTTTTATATACATTATTTG
1 TTTTAAATAATTTTATATACATTATATG
* *
54952266 TTTTAAATAATTTATATATATATGTATATT
1 TTTTAAATAATTT-TATATACAT-TATATG
54952296 TTTTAA
1 TTTTAA
54952302 TTGTTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 12 0.40
29 8 0.27
30 10 0.33
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTAAATAATTTTATATACATTATATG
Found at i:54952485 original size:19 final size:20
Alignment explanation
Indices: 54952463--54952532 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 20
54952453 ATATATTATA
54952463 TATTTTAAACTCTATAT-TT
1 TATTTTAAACTCTATATATT
* * *
54952482 TATTTTAAATTGTTATATATA
1 TATTTTAAACT-CTATATATT
*
54952503 TATATTTAAACTCTATTTATT
1 TAT-TTTAAACTCTATATATT
54952524 TATTTTAAA
1 TATTTTAAA
54952533 ATATTTTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
19 10 0.24
20 11 0.27
21 13 0.32
22 7 0.17
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (20 bp):
TATTTTAAACTCTATATATT
Found at i:54952526 original size:42 final size:43
Alignment explanation
Indices: 54952451--54952532 Score: 132
Period size: 42 Copynumber: 1.9 Consensus size: 43
54952441 CAGATTTTTT
54952451 TTATATATTATATATTTTAAACTCTATATTTTATTTTAAATTG
1 TTATATATTATATATTTTAAACTCTATATTTTATTTTAAATTG
*
54952494 TTATATA-TATATA-TTTAAACTCTATTTATTTATTTTAAA
1 TTATATATTATATATTTTAAACTCTATAT-TTTATTTTAAA
54952533 ATATTTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 13 0.35
42 17 0.46
43 7 0.19
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.57
Consensus pattern (43 bp):
TTATATATTATATATTTTAAACTCTATATTTTATTTTAAATTG
Found at i:54952571 original size:24 final size:26
Alignment explanation
Indices: 54952525--54952572 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
54952515 CTATTTATTT
*
54952525 ATTTTAAAATATTTTATTTATTATCC
1 ATTTTAAAATATTTTATTCATTATCC
*
54952551 ATTTTAAGAT-TTTT-TTCATTAT
1 ATTTTAAAATATTTTATTCATTAT
54952573 ACTTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 4 0.20
26 9 0.45
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTAAAATATTTTATTCATTATCC
Found at i:54959700 original size:18 final size:18
Alignment explanation
Indices: 54959674--54959709 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54959664 ATTCACTTCT
*
54959674 TGATTAATGATAGGTATG
1 TGATCAATGATAGGTATG
54959692 TGATCAATGATAGGTATG
1 TGATCAATGATAGGTATG
54959710 AGAACCTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (18 bp):
TGATCAATGATAGGTATG
Found at i:54966211 original size:25 final size:24
Alignment explanation
Indices: 54966174--54966227 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
54966164 TTAAAGTAGA
* *
54966174 AAAT-AAATCAATTTGATTAAAAT
1 AAATCAAATCAATTGGAATAAAAT
*
54966197 CAAATCAAATTAATTGGAATAAAAT
1 -AAATCAAATCAATTGGAATAAAAT
54966222 AAATCA
1 AAATCA
54966228 GGATATATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (24 bp):
AAATCAAATCAATTGGAATAAAAT
Found at i:54969763 original size:82 final size:82
Alignment explanation
Indices: 54969675--54969872 Score: 308
Period size: 82 Copynumber: 2.4 Consensus size: 82
54969665 TCTTCGCTTA
* * * *
54969675 GAAACAAAATTAAGA-TCGAATAAAATCTGTTAAACAGTGGGAATAAATCCCAAAACAGATTATT
1 GAAACAAAATCAAAACT-GAATAAAATCTGTTAAACAGCGAGAATAAATCCCAAAACAGATTATT
54969739 CAATTCAATTCTAATTTG
65 CAATTCAATTCTAATTTG
* *
54969757 GAAACAAAATCAAAACTGAATAAAATCTATTAAACAGCGAGAATAAATCCCGAAACAGATTATTC
1 GAAACAAAATCAAAACTGAATAAAATCTGTTAAACAGCGAGAATAAATCCCAAAACAGATTATTC
54969822 AATTCAATTCTAATTTG
66 AATTCAATTCTAATTTG
* *
54969839 GTAACAAAATCAAAACTAAATAAAATCTGTTAAA
1 GAAACAAAATCAAAACTGAATAAAATCTGTTAAA
54969873 AACAGATTTC
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
82 105 0.99
83 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.26
Consensus pattern (82 bp):
GAAACAAAATCAAAACTGAATAAAATCTGTTAAACAGCGAGAATAAATCCCAAAACAGATTATTC
AATTCAATTCTAATTTG
Found at i:54970007 original size:87 final size:86
Alignment explanation
Indices: 54969901--54970301 Score: 381
Period size: 87 Copynumber: 4.6 Consensus size: 86
54969891 TAATTTCTCA
* * * * *
54969901 TTTGGCAACTAAATAAAAAAATGGAATAAAATTTGTTGAACAACGGGAATAAATCCCGAAACATA
1 TTTGGAAACAAAAT-AAAAAATAGAATAAAATTTGTTGAACGACGGGAATAAATCCCGAAACAGA
*
54969966 TTTTAATTAATTTTAATACTTAT
65 TTTTAATTAATTTTAACA-TTAT
* * *
54969989 TTTGGAAACAAAATAAAAAATAGAATAAAATCTGTTGAACGACGGGAATAAATCTCGAAACATAT
1 TTTGGAAACAAAATAAAAAATAGAATAAAATTTGTTGAACGACGGGAATAAATCCCGAAACAGAT
* *
54970054 TTTATTTAATTTTAACATTCGT
66 TTTAATTAATTTTAACATT-AT
* *
54970076 TTTGGAAATAAAAT-AAAAATAGAATAAAATTTGTTGAACGACAGGAATAAATAATAAATCCCGA
1 TTTGGAAACAAAATAAAAAATAGAATAAAATTTGTTGAACGAC-GG------GAATAAATCCCGA
* *
54970140 AATAGATTTT-ATTCACTTTT---A--A-
59 AACAGATTTTAATT-AATTTTAACATTAT
*
54970162 TTTGGAAACAAAATAAAAAATAGAAT-AAATTCTGTAGAAC-AGCGGGAATAAATCCCGAAACAG
1 TTTGGAAACAAAATAAAAAATAGAATAAAATT-TGTTGAACGA-CGGGAATAAATCCCGAAACAG
* **
54970225 ATTTTATTTAATTTTAACACTCGT
64 ATTTTAATTAATTTTAACA-TTAT
* * * * * *
54970249 TTTGAAAATAAAATCAAAATTTGAATAAAATATGTTGAACGACGGGAATAAAT
1 TTTGGAAACAAAATAAAAAATAGAATAAAATTTGTTGAACGACGGGAATAAAT
54970302 AATAAATCCT
Statistics
Matches: 259, Mismatches: 32, Indels: 45
0.77 0.10 0.13
Matches are distributed among these distances:
80 26 0.10
81 2 0.01
83 1 0.00
86 50 0.19
87 136 0.53
88 17 0.07
90 1 0.00
92 2 0.01
93 24 0.09
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.31
Consensus pattern (86 bp):
TTTGGAAACAAAATAAAAAATAGAATAAAATTTGTTGAACGACGGGAATAAATCCCGAAACAGAT
TTTAATTAATTTTAACATTAT
Found at i:54970112 original size:173 final size:167
Alignment explanation
Indices: 54969917--54970408 Score: 482
Period size: 173 Copynumber: 2.9 Consensus size: 167
54969907 AACTAAATAA
* * * *
54969917 AAAAATGGAATAAAATTTGTTGAACAACGGGAATAAATCCCGAAACATATTTTAATTAATTTTAA
1 AAAAATAGAATAAAATTTGTTGAACGACGGGAATAAATCCCGAAACAGATTTT-ATTAACTTT--
* *
54969982 TACTTATTTTGGAAACAAAATAAAAAATAGAATAAAATCTGTTGAAC-GACGGGAATAAATCTCG
63 TA---A-TTTGGAAACAAAATAAAAAATAGAATAAAATCTGTAGAACAG-CGGGAATAAATCCCG
* * *
54970046 AAACATATTTTATTTAATTTTAACATTCGTTTTGGAAATAAAAT-
123 AAACAGATTTTATTTAATTTTAACACTCGTTTTGAAAATAAAATC
* * *
54970090 AAAAATAGAATAAAATTTGTTGAACGACAGGAATAAATAATAAATCCCGAAATAGATTTTATTCA
1 AAAAATAGAATAAAATTTGTTGAACGAC-GG------GAATAAATCCCGAAACAGATTTTATTAA
*
54970155 CTTTTAATTTGGAAACAAAATAAAAAATAGAATAAATTCTGTAGAACAGCGGGAATAAATCCCGA
59 CTTTTAATTTGGAAACAAAATAAAAAATAGAATAAAATCTGTAGAACAGCGGGAATAAATCCCGA
54970220 AACAGATTTTATTTAATTTTAACACTCGTTTTGAAAATAAAATC
124 AACAGATTTTATTTAATTTTAACACTCGTTTTGAAAATAAAATC
* * * * * * *
54970264 AAAATTTGAATAAAATATGTTGAACGACGGGAATAAATAATAAATCCTGAAACATATTTTGTTCA
1 AAAAATAGAATAAAATTTGTTGAACGACGGG-------AATAAATCCCGAAACAGATTTTATTAA
* * *
54970329 CTTTTAATTTGGAAACAAAAT------CA-AATAAAATCTGTTA-AACGGAGGGAATAAATCCCG
59 CTTTTAATTTGGAAACAAAATAAAAAATAGAATAAAATCTG-TAGAACAGCGGGAATAAATCCCG
* *
54970386 AAATAGATTTTATTTAACTTTAA
123 AAACAGATTTTATTTAATTTTAA
54970409 TTTTTATTTT
Statistics
Matches: 275, Mismatches: 27, Indels: 40
0.80 0.08 0.12
Matches are distributed among these distances:
167 49 0.18
168 3 0.01
173 121 0.44
174 73 0.27
177 2 0.01
179 7 0.03
180 20 0.07
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (167 bp):
AAAAATAGAATAAAATTTGTTGAACGACGGGAATAAATCCCGAAACAGATTTTATTAACTTTTAA
TTTGGAAACAAAATAAAAAATAGAATAAAATCTGTAGAACAGCGGGAATAAATCCCGAAACAGAT
TTTATTTAATTTTAACACTCGTTTTGAAAATAAAATC
Found at i:54970349 original size:87 final size:87
Alignment explanation
Indices: 54970076--54970353 Score: 268
Period size: 87 Copynumber: 3.2 Consensus size: 87
54970066 TAACATTCGT
* * *
54970076 TTTGGAAATAAAAT-AAAAATAGAATAAAATTTGTTGAACGACAGGAATAAATAATAAATCCCGA
1 TTTGGAAACAAAATCAAAAATAGAATAAAATATGTTGAACGACGGGAATAAATAATAAATCCCGA
*
54970140 AATAGATTTTATTCACTTTTAA
66 AACAGATTTTATTCACTTTTAA
* * * *
54970162 TTTGGAAACAAAATAAAAAATAGAATAAATTCTGTAGAAC-AGCGGG-------AATAAATCCCG
1 TTTGGAAACAAAATCAAAAATAGAATAAAATATGTTGAACGA-CGGGAATAAATAATAAATCCCG
* *
54970219 AAACAGATTTTATTTAATTTTAACA
65 AAACAGATTTTATTCACTTTT-A-A
* * * *
54970244 CTCGTTTTGAAAATAAAATCAAAATTTGAATAAAATATGTTGAACGACGGGAATAAATAATAAAT
1 -----TTTGGAAACAAAATCAAAAATAGAATAAAATATGTTGAACGACGGGAATAAATAATAAAT
* * *
54970309 CCTGAAACATATTTTGTTCACTTTTAA
61 CCCGAAACAGATTTTATTCACTTTTAA
54970336 TTTGGAAACAAAATCAAA
1 TTTGGAAACAAAATCAAA
54970354 TAAAATCTGT
Statistics
Matches: 152, Mismatches: 23, Indels: 33
0.73 0.11 0.16
Matches are distributed among these distances:
80 29 0.19
81 1 0.01
82 1 0.01
86 14 0.09
87 77 0.51
88 1 0.01
92 1 0.01
93 1 0.01
94 27 0.18
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (87 bp):
TTTGGAAACAAAATCAAAAATAGAATAAAATATGTTGAACGACGGGAATAAATAATAAATCCCGA
AACAGATTTTATTCACTTTTAA
Found at i:54971046 original size:20 final size:19
Alignment explanation
Indices: 54971017--54971067 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
54971007 TTAAAGTAGC
* *
54971017 AAATAAATCAATTTGATTA
1 AAATAAATCAAATTAATTA
54971036 AAATCAAATCAAATTAATTA
1 AAAT-AAATCAAATTAATTA
54971056 AAA-AAATCAAAT
1 AAATAAATCAAAT
54971068 AAATCAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 4 0.14
20 16 0.55
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATAAATCAAATTAATTA
Found at i:54974874 original size:17 final size:18
Alignment explanation
Indices: 54974852--54974887 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
54974842 TAAATGAGTT
54974852 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
54974869 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
54974887 A
1 A
54974888 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:54975706 original size:4 final size:4
Alignment explanation
Indices: 54975692--54975726 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
54975682 GAAGAATAGC
*
54975692 TAAA AAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
54975727 TTGTATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:54982469 original size:17 final size:18
Alignment explanation
Indices: 54982447--54982482 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
54982437 TAAATGAGTT
54982447 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
54982464 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
54982482 A
1 A
54982483 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:54982998 original size:21 final size:21
Alignment explanation
Indices: 54982922--54982986 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
54982912 TTATCGACTT
*
54982922 TGTCG-ATCAGGCA-CTGTATG
1 TGTCGTATCAGGCACCT-CATG
*
54982942 TGTCGTATCAGGCACCTCGTG
1 TGTCGTATCAGGCACCTCATG
54982963 TGTCGTATCAGGCACCTCATG
1 TGTCGTATCAGGCACCTCATG
54982984 TGT
1 TGT
54982987 TGTTTTAGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 5 0.12
21 33 0.82
22 2 0.05
ACGTcount: A:0.17, C:0.25, G:0.28, T:0.31
Consensus pattern (21 bp):
TGTCGTATCAGGCACCTCATG
Found at i:54988678 original size:11 final size:11
Alignment explanation
Indices: 54988648--54988679 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
54988638 ATTTGTGCAC
54988648 ATGTTGTTTTA
1 ATGTTGTTTTA
54988659 ATG--GTTTTA
1 ATGTTGTTTTA
54988668 ATGTTGTTTTA
1 ATGTTGTTTTA
54988679 A
1 A
54988680 AAATGCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (11 bp):
ATGTTGTTTTA
Found at i:54989870 original size:134 final size:131
Alignment explanation
Indices: 54989613--54990016 Score: 467
Period size: 131 Copynumber: 3.0 Consensus size: 131
54989603 TAATTATTTA
* * * * *
54989613 TTTAAAGAACTTTTTAAAACGAA-GACGATGTTCGATATTTGGCAATTCGAAGAATCGTGCCCTA
1 TTTAAA-AACTCTTCAAAACGAAGGA-AATGTTCGATGTTTGGCAATTCG-GGAATCGTGCCCTA
* *
54989677 TCGTGCTGGGTTGC-AATTTCTTGTTTGCTCAAAATAATCGAATG-TCCCTTTAGAATTTCACTC
63 TCGTGCTGGGTTGCGAATTTCTTGTTTGTTCAAAATAATCGAA-GATTCCTTTAGAATTTCACTC
54989740 ATGT-
127 ATGTC
** * *
54989744 TTTCCAAAAACTCTTTGAAACGAAGGAAATGTTCGATGTTTGGTAATTTGGGAATCGTGCCCTAT
1 TTT--AAAAACTCTTCAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTAT
* * * *
54989809 CGTGCTGGGTTGCGATTTTTTTTCATTTGTTCAAAATAATCGAAGATTCCTTTGGAATTTCACTC
64 CGTGCTGGGTTGCGA-ATTTCTT-GTTTGTTCAAAATAATCGAAGATTCCTTTAGAATTTCACTC
54989874 ATGTC
127 ATGTC
* **
54989879 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGAAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATC
* * * * *
54989944 GTGCTGGGTTGCG-GTTTCCTGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTTCATTCATG
65 GTGCTGGGTTGCGAATTTCTTGTTTGTTCAAAATAATCGAAGATTCCTTTAGAATTTCACTCATG
54990008 CTC
130 -TC
*
54990011 TCTAAA
1 TTTAAA
54990017 TTCTAAAATA
Statistics
Matches: 234, Mismatches: 29, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
131 69 0.29
132 45 0.19
133 48 0.21
134 69 0.29
135 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (131 bp):
TTTAAAAACTCTTCAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGGGTTGCGAATTTCTTGTTTGTTCAAAATAATCGAAGATTCCTTTAGAATTTCACTCATGT
C
Found at i:54992989 original size:21 final size:21
Alignment explanation
Indices: 54992950--54992989 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54992940 AAGTTTAAGC
*
54992950 AAAATAGAAGAAATGAAAGGA
1 AAAATAGAAGAAATAAAAGGA
*
54992971 AAAATAGAAGAATTAAAAG
1 AAAATAGAAGAAATAAAAG
54992990 CGTCACTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (21 bp):
AAAATAGAAGAAATAAAAGGA
Found at i:55001801 original size:133 final size:133
Alignment explanation
Indices: 55001563--55001938 Score: 529
Period size: 133 Copynumber: 2.8 Consensus size: 133
55001553 CTAATTCTAC
* * * * *
55001563 AGATCTTGTCTCCCTGAAGTTGCAGCGGAGCAGATCA-AAAATGGCGAATCTAGTCATCCTGAAG
1 AGATCTTGTTTCCCTGAAGTTGCAGCGGAGCAGAT-AGAAGATGGTGAATCTTGTCTTCCTGAAG
** *
55001627 TTGCAGTGAAACAGATTTAAGCTGCCATCCTATCTCCCTAAAGTTGTAGTTGGGTAGGTTGAAGA
65 TTGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGGGTAGGTTGAAGA
55001692 TTGT
130 TTGT
* *
55001696 AGATCTTGTTTCCCTAAAGTTGCAGCGGAGGAGATAGAAGATGGTGAATCTTGTCTTCCTGAAGT
1 AGATCTTGTTTCCCTGAAGTTGCAGCGGAGCAGATAGAAGATGGTGAATCTTGTCTTCCTGAAGT
*
55001761 TGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGGGTAGGTTGAATAT
66 TGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGGGTAGGTTGAAGAT
55001826 TGT
131 TGT
* * * * * *
55001829 AGATCTTGTTTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGTGAGTCTTGTCTTCCTGAAGA
1 AGATCTTGTTTCCCTGAAGTTGCAGCGGAGCAGATAGAAGATGGTGAATCTTGTCTTCCTGAAGT
* * * * *
55001894 TGCAGTGAAGCAGATTGAAGTCACTATCCTTATCTCTCTAAAGTT
66 TGCAGTGAAACAGATTTAAGCCACCATCC-TATCTCCCTAAAGTT
55001939 CCAGTAGAGC
Statistics
Matches: 217, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
132 1 0.00
133 202 0.93
134 14 0.06
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (133 bp):
AGATCTTGTTTCCCTGAAGTTGCAGCGGAGCAGATAGAAGATGGTGAATCTTGTCTTCCTGAAGT
TGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGGGTAGGTTGAAGAT
TGT
Found at i:55004990 original size:133 final size:131
Alignment explanation
Indices: 55004762--55005122 Score: 476
Period size: 133 Copynumber: 2.7 Consensus size: 131
55004752 AATGAAGGCG
* * *
55004762 ATGTTCGATATTTGGCAATTCGCGGAATCATGCCCTATCGTGCTGGGTTGC-AATTTCTCGTTTG
1 ATGTTCGATGTTTGGCAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTCTCGTTTG
* * * **
55004826 CTCAAAATAATCGAATGTCCCTTTAGAATTTCACCCATGT-TTTCCAAAAACCCTTTGAAACGAA
65 TTCAAAATAATCGAATATTCCTTTAGAATTTCACCCATGTCTTT--AAAAACCCTTCAAAACGAA
55004890 GGAA
128 GGAA
* * * *
55004894 ATGTTCGATGTTTGGTAATTCGGGAATCGTTCCCTATCGTGCTGGGTTGCGATTTTTTTCATTTG
1 ATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGA-TTTTCTCGTTTG
* * * *
55004959 TTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGTCTTTAAAAACTCTTCAAAACGAAGG
65 TTCAAAATAATCGAATATTCCTTTAGAATTTCACCCATGTCTTTAAAAACCCTTCAAAACGAAGG
*
55005024 TA
130 AA
** *
55005026 ATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCT-GTTTG
1 ATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTCTCGTTTG
55005090 TTCAAAATAATCGAATATTCCTTTAGAATTTCA
65 TTCAAAATAATCGAATATTCCTTTAGAATTTCA
55005123 TTCATGCTCT
Statistics
Matches: 199, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
131 61 0.31
132 62 0.31
133 73 0.37
134 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (131 bp):
ATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTTCTCGTTTGT
TCAAAATAATCGAATATTCCTTTAGAATTTCACCCATGTCTTTAAAAACCCTTCAAAACGAAGGA
A
Found at i:55005019 original size:132 final size:131
Alignment explanation
Indices: 55004739--55005137 Score: 489
Period size: 132 Copynumber: 3.0 Consensus size: 131
55004729 TATTCATTTA
* * ** * *
55004739 AAAAACTTTTTAAAATGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCATGCCCTATCGTG
1 AAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCG-GGAATCGTGCCCTATCGTG
* * * * *
55004804 CTGGGTTGC-AATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCACCCATGT-T
65 CTGGGTTGCGATTTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCT
55004867 TT
130 TT
* * * *
55004869 CCAAAAACCCTTTGAAACGAAGGAAATGTTCGATGTTTGGTAATTCGGGAATCGTTCCCTATCGT
1 --AAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGT
* * * *
55004934 GCTGGGTTGCGATTTTTTTCATTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGT
64 GCTGGGTTGCGA-TTTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
55004999 CTTT
128 CTTT
* * **
55005003 AAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
1 AAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGTG
* *
55005068 CTGGGTTGCGATTTCCT-GTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCATTCATGCTC
65 CTGGGTTGCGATTTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATG-TC
*
55005132 TCT
129 TTT
55005135 AAA
1 AAA
55005138 TTCTAAAATA
Statistics
Matches: 228, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
131 66 0.29
132 86 0.38
133 73 0.32
134 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (131 bp):
AAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGC
TGGGTTGCGATTTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTCTT
T
Found at i:55005207 original size:127 final size:130
Alignment explanation
Indices: 55004778--55005208 Score: 392
Period size: 133 Copynumber: 3.3 Consensus size: 130
55004768 GATATTTGGC
* * * * *
55004778 AATTCGCGGAATCATGCCCTATCGTGCTGGGTTGCAATTT-CTCGTTTGCTCAAAATAATCGAAT
1 AATTCG-GGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCTCATTTGTTCAAAACAATCGAAT
* * * * * * ** * ** * *
55004842 GTCCCTTTAGAATTTCACCCATGTTTTCCAAAAACCCTTTGAAACGAAGGAAATGTTCGATGTTT
65 ATTCCTTTAGAATTTCACTCATG-TCT-CTAAAACTCTTCAAAACGAAGGTAATACTCGATATCT
* *
55004907 GGT
128 AGA
* **
55004910 AATTCGGGAATCGTTCCCTATCGTGCTGGGTTGCGATTTTTTTCATTTGTTCAAAACAATCGAAT
1 AATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGA-TTTCCTCATTTGTTCAAAACAATCGAAT
* * * * *
55004975 ATTCCTTTGGAATTTCACTCATGTCTTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTG
65 ATTCCTTTAGAATTTCACTCATGTCTCT-AAAACTCTTCAAAACGAAGGTAATACTCGATATCTA
*
55005040 GC
129 GA
* *
55005042 AATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCT-GTTTGTTCAAAATAATCGAAT
1 AATTC-GGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCTCATTTGTTCAAAACAATCGAAT
* * * *
55005106 ATTCCTTTAGAATTTCATTCATGCTCTCT-AAATTC-T-AAAA-TAAGGTAAT-GTCTGATATCT
65 ATTCCTTTAGAATTTCACTCATG-TCTCTAAAACTCTTCAAAACGAAGGTAATACTC-GATATCT
55005166 AGA
128 AGA
*
55005169 AATTCGAGGAATCGTGCCCTA-CTGTGCTGGGTTTCGATTT
1 AATTCG-GGAATCGTGCCCTATC-GTGCTGGGTTGCGATTT
55005209 TTTCGTTGGA
Statistics
Matches: 254, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
126 4 0.02
127 49 0.19
128 4 0.02
129 1 0.00
130 5 0.02
131 67 0.26
132 55 0.22
133 69 0.27
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (130 bp):
AATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGATTTCCTCATTTGTTCAAAACAATCGAATA
TTCCTTTAGAATTTCACTCATGTCTCTAAAACTCTTCAAAACGAAGGTAATACTCGATATCTAGA
Found at i:55010081 original size:69 final size:69
Alignment explanation
Indices: 55010008--55010150 Score: 164
Period size: 68 Copynumber: 2.1 Consensus size: 69
55009998 GGTTGCAATT
* * * * * *
55010008 TTAAATC-AGCTAACCTCTATAATATGAGCTAGGAACATAGGTCCGCGAGCTGTTTTGGAGGTCG
1 TTAAATCTAGCGAACCTCTAGAATATCAGCTAGGAA-ATAAGCCCGCGAGCTATTTTGGAGGTCG
55010072 TGATA
65 TGATA
* * * * *
55010077 TTAAA-CTGGCGAGCCTTTAGGATATCAGCTAGGAAGTAAGCCCGCGAGCTATTTTGGAGGTCGT
1 TTAAATCTAGCGAACCTCTAGAATATCAGCTAGGAAATAAGCCCGCGAGCTATTTTGGAGGTCGT
55010141 GATA
66 GATA
55010145 TTAAAT
1 TTAAAT
55010151 TGGTGAGTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
68 35 0.57
69 26 0.43
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (69 bp):
TTAAATCTAGCGAACCTCTAGAATATCAGCTAGGAAATAAGCCCGCGAGCTATTTTGGAGGTCGT
GATA
Found at i:55010464 original size:18 final size:18
Alignment explanation
Indices: 55010441--55010478 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55010431 AATATATATT
55010441 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
* *
55010459 AACCCAATTACGCAACCC
1 AACCCAAGTACCCAACCC
55010477 AA
1 AA
55010479 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.45, G:0.05, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:55010546 original size:20 final size:20
Alignment explanation
Indices: 55010507--55010544 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55010497 ATTTAATAAA
55010507 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATCTAAAAC
*
55010527 TAAAATTAAAAAT-TAAAA
1 TAAAAATAAAAATCTAAAA
55010545 ACATATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAATAAAAATCTAAAAC
Found at i:55010578 original size:9 final size:9
Alignment explanation
Indices: 55010564--55010622 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
55010554 TTTATACAAA
55010564 TAATTCGGT
1 TAATTCGGT
55010573 TAATTCGGT
1 TAATTCGGT
55010582 TAATTCGGT
1 TAATTCGGT
* *
55010591 TAATTTGGG
1 TAATTCGGT
*
55010600 TAATTCGGG
1 TAATTCGGT
55010609 TAATTCGGT
1 TAATTCGGT
55010618 TAATT
1 TAATT
55010623 TTATACTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:55011139 original size:71 final size:70
Alignment explanation
Indices: 55011010--55011347 Score: 290
Period size: 71 Copynumber: 4.8 Consensus size: 70
55011000 TGGACTTGGA
* ** * * * *
55011010 AGCCTTAAGTTGACAGCTGGGAGCTTTTAACTCTTGCTAACTATGTTGGAGGCCGTGGTTTTGAA
1 AGCCTTAATTTGACAGCTGGGAGCTTTTAACTCTCACTAACTGTGTTAGAGGCTGTAGTTTTGAA
55011075 CCTGGT
66 CCT-GT
* * * * * *
55011081 AGCCATAATTTGGCAGCTGAGAGCTTTTAACTCTCACTAATTGTGTTAGAGGCTGTGGTTTTAAA
1 AGCCTTAATTTGACAGCTGGGAGCTTTTAACTCTCACTAACTGTGTTAGAGGCTGTAGTTTTGAA
55011146 CCTACG-
66 CCT--GT
* * * * *
55011152 AGCCTTAGTTTAACAGCTGGGAGTTTTTAACTCTCACTAACTATGTTTA-AAGCTGTAGTTTTGA
1 AGCCTTAATTTGACAGCTGGGAGCTTTTAACTCTCACTAACTGTG-TTAGAGGCTGTAGTTTTGA
* *
55011216 TCCTAT
65 ACCTGT
* * * *
55011222 GAGCCTTAATATGATAGTTGGGAG-TTTGTAACTCTCACTAACTGTGTTAGAGGTTGTAGTTTT-
1 -AGCCTTAATTTGACAGCTGGGAGCTTT-TAACTCTCACTAACTGTGTTAGAGGCTGTAGTTTTG
*
55011285 AATCCTGCG
64 AA-CCTG-T
** * * *
55011294 AGCCTTAATAAGATAGTTGGGAG-TTTGTAGCTCTCACTAACTGTGTTAGAGGCT
1 AGCCTTAATTTGACAGCTGGGAGCTTT-TAACTCTCACTAACTGTGTTAGAGGCT
55011348 TCAATTTTAA
Statistics
Matches: 220, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
70 7 0.03
71 209 0.95
72 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (70 bp):
AGCCTTAATTTGACAGCTGGGAGCTTTTAACTCTCACTAACTGTGTTAGAGGCTGTAGTTTTGAA
CCTGT
Found at i:55011356 original size:71 final size:71
Alignment explanation
Indices: 55011094--55011668 Score: 478
Period size: 71 Copynumber: 8.1 Consensus size: 71
55011084 CATAATTTGG
* * * *
55011094 CAGCTGAGAGCTTT-TAACTCTCACTAATTGTGTTAGAGGCTGT-GGTTTTAAACCTACGAGCCT
1 CAGCTGGGAG-TTTGTAACTCTCACTAACTGTGTTAGAGGCT-TCAGTTTTAATCCTACGAGCCT
* * *
55011157 TAGTTTAA
64 TAATATGA
* * * * *
55011165 CAGCTGGGAGTTTTTAACTCTCACTAACTATGTTTA-AAGCTGT-AGTTTTGATCCTATGAGCCT
1 CAGCTGGGAGTTTGTAACTCTCACTAACTGTG-TTAGAGGCT-TCAGTTTTAATCCTACGAGCCT
55011228 TAATATGA
64 TAATATGA
* * * *
55011236 TAGTTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGG-TTGTAGTTTTAATCCTGCGAGCCTT
1 CAGCTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTT-CAGTTTTAATCCTACGAGCCTT
*
55011300 AATAAGA
65 AATATGA
* * * *
55011307 TAGTTGGGAGTTTGTAGCTCTCACTAACTGTGTTAGAGGCTTCAATTTTAATCCTACGAGCCTTA
1 CAGCTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTTCAGTTTTAATCCTACGAGCCTTA
*
55011372 ATGTGA
66 ATATGA
* * * ** * * * * * * *
55011378 TAGCTAGGAGTTTGCAACTCTTGCTAATTATGTTGGAGGCTGCTGTTTTGATCCTACGAACCTTA
1 CAGCTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTTCAGTTTTAATCCTACGAGCCTTA
*
55011443 ATATAA
66 ATATGA
* * * * * * * * * * * *
55011449 CAACTAGGAGCTTGCAACTCTCACTAACTATGTTAGAAGATGCGGCTTTAATCTTGCGAGCCTTA
1 CAGCTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTTCAGTTTTAATCCTACGAGCCTTA
55011514 ATATGA
66 ATATGA
* * * * * **
55011520 CAACTAGGAGTTTGTAATTCTCGCTAACTGTGTTGGAGG-TTACAGTTTTAATCCCGCGAGCCTT
1 CAGCTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTT-CAGTTTTAATCCTACGAGCCTT
*
55011584 AACATGA
65 AATATGA
* * ** * * * * *
55011591 CAGTTGAGAGTTTGTAACTCTGGCTAACTGTGTTAGAGGCTGCAGTTTTGATCCTTCAAACCTTA
1 CAGCTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTTCAGTTTTAATCCTACGAGCCTTA
55011656 ATATGA
66 ATATGA
55011662 CAGCTGG
1 CAGCTGG
55011669 AAGCCTTAAT
Statistics
Matches: 409, Mismatches: 87, Indels: 16
0.80 0.17 0.03
Matches are distributed among these distances:
69 1 0.00
70 8 0.02
71 394 0.96
72 6 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (71 bp):
CAGCTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTTCAGTTTTAATCCTACGAGCCTTA
ATATGA
Found at i:55011428 original size:213 final size:213
Alignment explanation
Indices: 55011108--55011659 Score: 565
Period size: 213 Copynumber: 2.6 Consensus size: 213
55011098 TGAGAGCTTT
* * * * * * *
55011108 TAACTCTCACTAATTGTGTTAGAGGCTGT-GGTTTTAAACCTACGAGCCTTAGTTTAACAGCTGG
1 TAACTCTCACTAACTGTGTTAGAGGCT-TCAGTTTTAATCCTACGAGCCTTAATATGACAGCTAG
* * * * * *
55011172 GAGTTTTTAACTCTCACTAACTATGTTTA-AAGCTG-TAGTTTTGATCCTATGAGCCTTAATATG
65 GAGTTTGTAACTCTCGCTAACTATG-TTAGAGGCTGCT-GTTTTGATCCTACGAACCTTAATATA
* ** * * * * * * * *
55011235 ATAGTTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGTTGTAGTTTTAATCCTGCGAGCCTT
128 ACAACTAGGAGCTTGCAACTCTCACTAACTATGTTAGAAGATGCAGCTTTAATCCTGCGAGCCTT
* ** *
55011300 AATAAGATAGTTGGGAGTTTG
193 AATAAGACAACTAGGAGTTTG
* * * *
55011321 TAGCTCTCACTAACTGTGTTAGAGGCTTCAATTTTAATCCTACGAGCCTTAATGTGATAGCTAGG
1 TAACTCTCACTAACTGTGTTAGAGGCTTCAGTTTTAATCCTACGAGCCTTAATATGACAGCTAGG
* * * *
55011386 AGTTTGCAACTCTTGCTAATTATGTTGGAGGCTGCTGTTTTGATCCTACGAACCTTAATATAACA
66 AGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCTGTTTTGATCCTACGAACCTTAATATAACA
* *
55011451 ACTAGGAGCTTGCAACTCTCACTAACTATGTTAGAAGATGCGGCTTTAATCTTGCGAGCCTTAAT
131 ACTAGGAGCTTGCAACTCTCACTAACTATGTTAGAAGATGCAGCTTTAATCCTGCGAGCCTTAAT
*
55011516 ATGACAACTAGGAGTTTG
196 AAGACAACTAGGAGTTTG
* * * ** * *
55011534 TAATTCTCGCTAACTGTGTTGGAGG-TTACAGTTTTAATCCCGCGAGCCTTAACATGACAG-TTG
1 TAACTCTCACTAACTGTGTTAGAGGCTT-CAGTTTTAATCCTACGAGCCTTAATATGACAGCTAG
* * * * *
55011597 AGAGTTTGTAACTCTGGCTAACTGTGTTAGAGGCTGCAGTTTTGATCCTTCAAACCTTAATAT
65 -GAGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCTGTTTTGATCCTACGAACCTTAATAT
55011660 GACAGCTGGA
Statistics
Matches: 277, Mismatches: 57, Indels: 10
0.81 0.17 0.03
Matches are distributed among these distances:
212 7 0.03
213 269 0.97
214 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (213 bp):
TAACTCTCACTAACTGTGTTAGAGGCTTCAGTTTTAATCCTACGAGCCTTAATATGACAGCTAGG
AGTTTGTAACTCTCGCTAACTATGTTAGAGGCTGCTGTTTTGATCCTACGAACCTTAATATAACA
ACTAGGAGCTTGCAACTCTCACTAACTATGTTAGAAGATGCAGCTTTAATCCTGCGAGCCTTAAT
AAGACAACTAGGAGTTTG
Found at i:55011737 original size:92 final size:92
Alignment explanation
Indices: 55011578--55011762 Score: 273
Period size: 92 Copynumber: 2.0 Consensus size: 92
55011568 TAATCCCGCG
** *
55011578 AGCCTTAACATGACAGTTGAGAGTTTGTAACTCTGGCTAACTGTGTTAGAGGCTGCAGTTTTGAT
1 AGCCTTAACATGACAGTTGAGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTGCAGTTTTAAT
55011643 CCT-TCAAACCTTAATATGACAGCTGGA
66 CCTGT-AAACCTTAATATGACAGCTGGA
* * * * *
55011670 AGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGGAGGCTGCAGTTTTAAT
1 AGCCTTAACATGACAGTTGAGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTGCAGTTTTAAT
*
55011735 CCTGTAAGCCTTAATATGACAGCTGGA
66 CCTGTAAACCTTAATATGACAGCTGGA
55011762 A
1 A
55011763 TTTTGTAACT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 82 0.99
93 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (92 bp):
AGCCTTAACATGACAGTTGAGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTGCAGTTTTAAT
CCTGTAAACCTTAATATGACAGCTGGA
Found at i:55011782 original size:163 final size:164
Alignment explanation
Indices: 55011507--55011834 Score: 410
Period size: 163 Copynumber: 2.0 Consensus size: 164
55011497 TAATCTTGCG
* * *
55011507 AGCCTTAATATGACAACTAGGAGTTTGTAATTCTCGCTAACTGTGTTGGAGGTTACAGTTTTAAT
1 AGCCTTAATATGACAACTAGGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTACAGTTTTAAT
* * *
55011572 CCCGCGAGCCTTAACATGACAGTTGAGAGTTTGTAACTCTGGCTAACTGTGTTAGAGGCTGCAGT
66 CCCGCAAGCCTTAACATGACAGTGGAGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGT
55011637 TTTGATCCT-TCAAACCTTAATATGACAGCT-GGA
131 TTTGATCCTGT-AAACCTTAATATGACAGCTAGGA
* ** * * *
55011670 AGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGGAGGCTGCAGTTTTAAT
1 AGCCTTAATATGACAACTAGGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTACAGTTTTAAT
* * * * * * **
55011735 CCTGTAAGCCTTAATATGACAGCTGGA-ATTTTGTAACTCTCGCTAACTGTGTTGGAGGTTGTGG
66 CCCGCAAGCCTTAACATGACAG-TGGAGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAG
* * *
55011799 TTTTGATCCTGTGAGCCTTAATGTGACAGCTAGGA
130 TTTTGATCCTGTAAACCTTAATATGACAGCTAGGA
55011834 A
1 A
55011835 TTTGCAACTT
Statistics
Matches: 139, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
163 131 0.94
164 8 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (164 bp):
AGCCTTAATATGACAACTAGGAGTTTGTAACTCTCACTAACTGTGTTGGAGGCTACAGTTTTAAT
CCCGCAAGCCTTAACATGACAGTGGAGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGT
TTTGATCCTGTAAACCTTAATATGACAGCTAGGA
Found at i:55011786 original size:71 final size:71
Alignment explanation
Indices: 55011669--55012109 Score: 366
Period size: 71 Copynumber: 6.2 Consensus size: 71
55011659 TGACAGCTGG
* * * * *
55011669 AAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGGAGGCTGCAGTTTTAA
1 AAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAA
*
55011734 TCCTGT
66 TCCTGC
* * * * ** *
55011740 AAGCCTTAATATGACAGCTGGAATTTTGTAACTCTCGCTAACTGTGTTGGAGGTTGTGGTTTTGA
1 AAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAA
*
55011805 TCCTGT
66 TCCTGC
* * * * * * * * *
55011811 GAGCCTTAATGTGACAGCTAGGAATTTGCAACTTTCGCTAACTGTGTTGGAGGCTGCGGTTTTGA
1 AAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAA
* *
55011876 TCGTGT
66 TCCTGC
* * * ** ** * * *
55011882 GAGCCTTAATGTGACAGTTGGGCA-TTTACAACAATCGTTACCTGTGTTAGAGGCT-CTGATTTT
1 AAGCCTTAATATGACAGCTGGG-AGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAG-TTTT
*
55011945 GATCCTGC
64 AATCCTGC
* * * *
55011953 GAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAA-TGTGTTAGAGACTGTAATTTTAA
1 AAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAA
* *
55012017 TACTAC
66 TCCTGC
* * * * ** * * *
55012023 AGGTCTTAATATGATAGTTGGGAGTTTGTAACTCTCTTTAATTATGTTAGAGGTTGCAGTTTTAA
1 AAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAA
*
55012088 TACTGC
66 TCCTGC
*
55012094 AAGCCTCAATATGACA
1 AAGCCTTAATATGACA
55012110 ATTAGGAGCC
Statistics
Matches: 302, Mismatches: 63, Indels: 10
0.81 0.17 0.03
Matches are distributed among these distances:
70 58 0.19
71 243 0.80
72 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (71 bp):
AAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCAGTTTTAA
TCCTGC
Found at i:55011929 original size:305 final size:304
Alignment explanation
Indices: 55011365--55011973 Score: 679
Period size: 305 Copynumber: 2.0 Consensus size: 304
55011355 TAATCCTACG
* ** * *
55011365 AGCCTTAATGTGATAGCTAGGAGTTTGCAACTCTTGCTAATTATGTTGGAGGCTGCTGTTTTGAT
1 AGCCTTAATATGATAGCTAGGAGTTTGCAACTCTCACTAATTATGTTGGAGGCTGCAGTTTTAAT
55011430 CCTACGAACCTTAATATAACAACTAGGAGCTTGCAACTCTCACTAACTATGTTAGAAGATGCGGC
66 CCTA-GAACCTTAATATAACAACTAGGAGCTTGCAACTCTCACTAACTATGTTAGAAGATGCGGC
* * * *
55011495 TTTAATCTTGCGAGCCTTAATATGACAACTAGGAGTTTGTAATTCTCGCTAACTGTGTTGGAGGT
130 TTTAATCCTGCGAGCCTTAATATGACAACTAGGAATTTGCAATTCTCGCTAACTGTGTTGGAGGC
** ** *
55011560 TACAGTTTTAATCCCGCGAGCCTTAACATGACAGTTGAGAGTTTGTAACTCTGGCTAACTGTGTT
195 TACAGTTTTAATCCCGCGAGCCTTAACATGACAGTTGAGAGTTTACAACAATCGCTAACTGTGTT
*
55011625 AGAGGCTGCAG-TTTTGATCCTTCAAACCTTAATATGACAGCTGGA
260 AGAGGCT-CAGATTTTGATCCTGCAAACCTTAATATGACAGCTGGA
* * * *
55011670 AGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGGAGGCTGCAGTTTTAAT
1 AGCCTTAATATGATAGCTAGGAGTTTGCAACTCTCACTAATTATGTTGGAGGCTGCAGTTTTAAT
* * ** * * * * * * *
55011735 CCT-GTAAGCCTTAATATGACAGCT-GGAATTTTGTAACTCTCGCTAACTGTGTTGGAGGTTGTG
66 CCTAG-AA-CCTTAATATAACAACTAGG-AGCTTGCAACTCTCACTAACTATGTTAGAAGATGCG
* * * * *
55011798 GTTTTGATCCTGTGAGCCTTAATGTGACAGCTAGGAATTTGCAACTT-TCGCTAACTGTGTTGGA
128 GCTTTAATCCTGCGAGCCTTAATATGACAACTAGGAATTTGCAA-TTCTCGCTAACTGTGTTGGA
* * * ** * ** * * *
55011862 GGCTGCGGTTTTGATCGTGTGAGCCTTAATGTGACAGTTGGGCA-TTTACAACAATCGTTACCTG
192 GGCTACAGTTTTAATCCCGCGAGCCTTAACATGACAGTTGAG-AGTTTACAACAATCGCTAACTG
* * *
55011926 TGTTAGAGGCTCTGATTTTGATCCTGCGAGCCTTAATATGACAGCTGG
256 TGTTAGAGGCTCAGATTTTGATCCTGCAAACCTTAATATGACAGCTGG
55011974 GAGTTTGTAA
Statistics
Matches: 249, Mismatches: 49, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
303 1 0.00
304 6 0.02
305 239 0.96
306 3 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (304 bp):
AGCCTTAATATGATAGCTAGGAGTTTGCAACTCTCACTAATTATGTTGGAGGCTGCAGTTTTAAT
CCTAGAACCTTAATATAACAACTAGGAGCTTGCAACTCTCACTAACTATGTTAGAAGATGCGGCT
TTAATCCTGCGAGCCTTAATATGACAACTAGGAATTTGCAATTCTCGCTAACTGTGTTGGAGGCT
ACAGTTTTAATCCCGCGAGCCTTAACATGACAGTTGAGAGTTTACAACAATCGCTAACTGTGTTA
GAGGCTCAGATTTTGATCCTGCAAACCTTAATATGACAGCTGGA
Found at i:55011987 original size:376 final size:375
Alignment explanation
Indices: 55011294--55012003 Score: 852
Period size: 376 Copynumber: 1.9 Consensus size: 375
55011284 TAATCCTGCG
* *
55011294 AGCCTTAATAAGATAGTTGGGAGTTTGTAGCTCTCACTAACTGTGTTAGAGGCTTCAATTTTAAT
1 AGCCTTAATAAGATAGTTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTGCAATTTTAAT
* * * * *
55011359 CCTACGAGCCTTAATGTGATAGCTAGGAGTTTGCAACTCTTGCTAATTATGTTGGAGGCTGCTGT
66 CCTACAAGCCTTAATATGACAGCTAGGAGTTTGCAACTCTCGCTAACTATGTTGGAGGCTGCTGT
*
55011424 TTTGATCCTACGAACCTTAATATAACAACTAGGAGCTTGCAACTCTCACTAACTATGTTAGAAGA
131 TTTGATCCTACGAACCTTAATATAACAACTAGGAACTTGCAACTCTCACTAACTATGTTAGAAGA
* ** ***
55011489 TGCGGCTTTAATCTTGCGAGCCTTAATATGACAACTAGGAGTTTGTAATTCTCGCTAACTGTGTT
196 TGCGGCTTTAATCGTGCGAGCCTTAATATGACAACTAGGAGTTTACAACAATCGCTAACTGTGTT
* * * *
55011554 GGAGGTTACAGTTTTAATCCCGCGAGCCTTAACATGACAGTTGAGAGTTTGTAACTCTGGCTAAC
261 AGAGGCTACAGTTTTAATCCCGCGAGCCTTAACATGACAGCTGAGAGTTTGTAACTCTCGCTAA-
55011619 TGTGTTAGAGGCTGCAGTTTTGATCCTTCAAACCTTAATATGACAGCTGGA
325 TGTGTTAGAGGCTGCAGTTTTGATCCTTCAAACCTTAATATGACAGCTGGA
* * * *
55011670 AGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGGAGGCTGCAGTTTTAAT
1 AGCCTTAATAAGATAGTTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTGCAATTTTAAT
** * * * *
55011735 CCTGTAAGCCTTAATATGACAGCT-GGAATTTTGTAACTCTCGCTAACTGTGTTGGAGGTTG-TG
66 CCTACAAGCCTTAATATGACAGCTAGG-AGTTTGCAACTCTCGCTAACTATGTTGGAGGCTGCT-
** * * * * * * * * * *
55011798 GTTTTGATCCTGTGAGCCTTAATGTGACAGCTAGGAATTTGCAACTTTCGCTAACTGTGTTGGAG
129 GTTTTGATCCTACGAACCTTAATATAACAACTAGGAACTTGCAACTCTCACTAACTATGTTAGAA
* * * * * ** * * *
55011863 GCTGCGGTTTTGATCGTGTGAGCCTTAATGTGACAGTTGGGCA-TTTACAACAATCGTTACCTGT
194 GATGCGGCTTTAATCGTGCGAGCCTTAATATGACAACTAGG-AGTTTACAACAATCGCTAACTGT
* * * * *
55011927 GTTAGAGGCT-CTGATTTTGATCCTGCGAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGC
258 GTTAGAGGCTACAG-TTTTAATCCCGCGAGCCTTAACATGACAGCTGAGAGTTTGTAACTCTCGC
55011991 TAATGTGTTAGAG
322 TAATGTGTTAGAG
55012004 ACTGTAATTT
Statistics
Matches: 275, Mismatches: 55, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
375 15 0.05
376 259 0.94
377 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (375 bp):
AGCCTTAATAAGATAGTTGGGAGTTTGTAACTCTCACTAACTGTGTTAGAGGCTGCAATTTTAAT
CCTACAAGCCTTAATATGACAGCTAGGAGTTTGCAACTCTCGCTAACTATGTTGGAGGCTGCTGT
TTTGATCCTACGAACCTTAATATAACAACTAGGAACTTGCAACTCTCACTAACTATGTTAGAAGA
TGCGGCTTTAATCGTGCGAGCCTTAATATGACAACTAGGAGTTTACAACAATCGCTAACTGTGTT
AGAGGCTACAGTTTTAATCCCGCGAGCCTTAACATGACAGCTGAGAGTTTGTAACTCTCGCTAAT
GTGTTAGAGGCTGCAGTTTTGATCCTTCAAACCTTAATATGACAGCTGGA
Done.