Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 199 of 216
Found at i:61749044 original size:99 final size:103
Alignment explanation
Indices: 61748838--61749086 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
61748828 ATTTGGGTAA
61748838 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
61748903 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
* * *
61748944 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGT-CCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
61749005 TAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCGA-CACG
* *
61749043 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
61749087 GTTATTATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
98 1 0.01
99 41 0.31
100 46 0.35
101 2 0.02
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
Found at i:61753732 original size:27 final size:26
Alignment explanation
Indices: 61753641--61753734 Score: 64
Period size: 27 Copynumber: 3.3 Consensus size: 26
61753631 TGTATGATTA
*
61753641 TATTAAATTATTTAAATATTATTTATTATT
1 TATTAAA-T-TTTAAATA--ATTTATTAAT
*
61753671 ATATTTGAAATTTTAAAATATTTTATGT-AT
1 -TA-TT-AAATTTT-AAATAATTTAT-TAAT
*
61753701 CATTAAATTTATAAATAATTTATTAAT
1 TATTAAATTT-TAAATAATTTATTAAT
61753728 TATTAAA
1 TATTAAA
61753735 ATGTATTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
26 1 0.02
27 24 0.46
28 3 0.06
29 1 0.02
30 6 0.12
31 6 0.12
32 8 0.15
33 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (26 bp):
TATTAAATTTTAAATAATTTATTAAT
Found at i:61764040 original size:16 final size:16
Alignment explanation
Indices: 61764015--61764046 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61764005 GATTTGGGAG
*
61764015 ATTTTCTTTTTATTTT
1 ATTTTATTTTTATTTT
61764031 ATTTTATTTTTATTTT
1 ATTTTATTTTTATTTT
61764047 TTTCTGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTATTTTTATTTT
Found at i:61769974 original size:23 final size:22
Alignment explanation
Indices: 61769909--61769975 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 22
61769899 TAAGGCTATA
*
61769909 AAAATATTTAAAAACTTAGAAATT
1 AAAATA-TTAAAAAATTA-AAATT
*
61769933 AAAATA-TAGAAAAATTTAAATTT
1 AAAATATTA-AAAAA-TTAAAATT
61769956 AAACATATTAAAAAATTAAA
1 AAA-ATATTAAAAAATTAAA
61769976 GAAAAAAGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 2 0.05
23 16 0.43
24 17 0.46
25 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (22 bp):
AAAATATTAAAAAATTAAAATT
Found at i:61783746 original size:20 final size:23
Alignment explanation
Indices: 61783721--61783772 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 23
61783711 TTTAAAATAC
61783721 TTTTAAAAT-ATTTTTT-AT-TT
1 TTTTAAAATAATTTTTTAATGTT
61783741 TTTTAAAATAATTTTTTAATGTT
1 TTTTAAAATAATTTTTTAATGTT
61783764 TATTTAAAA
1 T-TTTAAAA
61783773 AATGGGCCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.32
21 7 0.25
22 2 0.07
23 3 0.11
24 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTAAAATAATTTTTTAATGTT
Found at i:61788530 original size:14 final size:14
Alignment explanation
Indices: 61788485--61788530 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
61788475 ATTTGACCTA
61788485 AAAAATATTTA-T-
1 AAAAATATTTATTC
61788497 AAAAATAATTCTAGTTC
1 AAAAAT-ATT-TA-TTC
61788514 AAAAATATTTATTC
1 AAAAATATTTATTC
61788528 AAA
1 AAA
61788531 TAATCTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 8 0.28
15 2 0.07
16 4 0.14
17 6 0.21
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (14 bp):
AAAAATATTTATTC
Found at i:61789978 original size:23 final size:23
Alignment explanation
Indices: 61789926--61789973 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
61789916 GGGGACGGTT
*
61789926 TTATTTATTTAATATTAATATAA
1 TTATTTACTTAATATTAATATAA
*
61789949 TTTTTTACTTAAT-TT--TATAA
1 TTATTTACTTAATATTAATATAA
61789969 TTATT
1 TTATT
61789974 ATTTATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
22 2 0.09
23 11 0.50
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTTACTTAATATTAATATAA
Found at i:61804208 original size:9 final size:9
Alignment explanation
Indices: 61804195--61804234 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
61804185 TTTAGTTAAA
*
61804195 AATTAACCA
1 AATTAACCG
*
61804204 AATTACCCG
1 AATTAACCG
*
61804213 AATTACCCG
1 AATTAACCG
61804222 AATTAACCG
1 AATTAACCG
61804231 AATT
1 AATT
61804235 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:61807871 original size:26 final size:26
Alignment explanation
Indices: 61807838--61807900 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
61807828 TTTACTTGAG
61807838 TAAAATTTTGACAATTTTACCCTCT-A
1 TAAAATTTTGACAATTTTACCC-CTAA
**
61807864 TAAAATTTTGATGATTTTACCCCTAA
1 TAAAATTTTGACAATTTTACCCCTAA
61807890 TAAAATTTTGA
1 TAAAATTTTGA
61807901 GAAATTCGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 2 0.06
26 32 0.94
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (26 bp):
TAAAATTTTGACAATTTTACCCCTAA
Found at i:61828998 original size:46 final size:45
Alignment explanation
Indices: 61828777--61829364 Score: 398
Period size: 46 Copynumber: 13.6 Consensus size: 45
61828767 TTTAAAAAGG
* * * *
61828777 TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATT-CAGA
* *
61828823 TCTTATCTCCCTGA-GTTACAGCGGAGCAGATCGAAG-ATAT-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-TCAGA
* * ** **
61828865 TCCTATCT-CCTGAAGTTACAAGTGGAGCGGAT---A-AATAAAGA
1 TCTTATCTCCCTGAGGTTAC-AGTGGAGTAGATCGAAGAATTCAGA
* * * * *
61828906 TCTTATCTCTCTGAAGTTACAGTAGAG-AGATC---GCA-TCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCAGA
* *
61828946 TCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATT-CAGA
* *
61828992 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-TCAGA
* * ** * **
61829035 TCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-AATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA-GA
* * * *
61829079 TCTTATCTCTCTGA-GTTACAGTAGAGTAGATC---GCA-TCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCAGA
* *
61829119 TCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATT-CAGA
* *
61829165 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-ATAT-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-TCAGA
* * ** * **
61829208 TCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-AATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA-GA
* * * * *
61829252 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-TCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCAGA
* *
61829293 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATT-CAGA
61829339 TCTTATC-CCCTGAGGTTACAGTGGAG
1 TCTTATCTCCCTGAGGTTACAGTGGAG
61829365 CGGATTAAAC
Statistics
Matches: 431, Mismatches: 71, Indels: 81
0.74 0.12 0.14
Matches are distributed among these distances:
40 46 0.11
41 71 0.16
42 35 0.08
43 84 0.19
44 51 0.12
45 42 0.10
46 102 0.24
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCAGA
Found at i:61829093 original size:87 final size:87
Alignment explanation
Indices: 61828990--61829273 Score: 335
Period size: 87 Copynumber: 3.3 Consensus size: 87
61828980 AAGAATTGCA
61828990 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTAC
61829055 AGTGGAGCGGATTAAAATAAAG
66 AGTGGAGCGGATTAAAATAAAG
* ** * * ** * *
61829077 GATCTTATCTCTCTGA-GTTACAGTAGAGTAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
1 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
* ** ** **
61829138 CAGCGGAGTAGACCGAAGAATTGCA-
65 CAGTGGAGCGGA-TTAA-AA-TAAAG
61829163 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTAC
61829228 AGTGGAGCGGATTAAAATAAAG
66 AGTGGAGCGGATTAAAATAAAG
* *
61829250 GATCTTATCTCTCTGAAGTTACAG
1 GATCTTATCTCCCTGAGGTTACAG
61829274 TAGAGTAGAT
Statistics
Matches: 154, Mismatches: 34, Indels: 18
0.75 0.17 0.09
Matches are distributed among these distances:
84 28 0.18
85 3 0.02
86 35 0.23
87 57 0.37
88 3 0.02
89 28 0.18
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (87 bp):
GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTAC
AGTGGAGCGGATTAAAATAAAG
Found at i:61829139 original size:173 final size:174
Alignment explanation
Indices: 61828774--61829365 Score: 1056
Period size: 173 Copynumber: 3.4 Consensus size: 174
61828764 AGGTTTAAAA
* * * *
61828774 AGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTGCAGATCTTATCTCCCTGA-G
1 AGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGG
61828838 TTACAGCGGAGCAGATCGAAGATATAATCCTATCT-CCTGAAGTTACAAGTGGAGCGGA-T-AAA
66 TTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTAC-AGTGGAGCGGATTAAAA
61828900 TAAA-GATCTTATCTCTCTGAAGTTACAGTAGAG-AGATCGCATC
130 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
61828943 AGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGG
1 AGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGG
61829008 TTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
66 TTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
61829073 AAAGGATCTTATCTCTCTG-AGTTACAGTAGAGTAGATCGCATC
131 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
61829116 AGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGG
1 AGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGG
61829181 TTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
66 TTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
61829246 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
131 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
* *
61829290 AGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATC-CCCTGAGG
1 AGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGG
*
61829354 TTACAGTGGAGC
66 TTACAGCGGAGC
61829366 GGATTAAACA
Statistics
Matches: 409, Mismatches: 7, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
169 59 0.14
170 47 0.11
171 12 0.03
172 20 0.05
173 193 0.47
174 78 0.19
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (174 bp):
AGGTCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGG
TTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
Found at i:61829406 original size:129 final size:129
Alignment explanation
Indices: 61829163--61829450 Score: 415
Period size: 129 Copynumber: 2.2 Consensus size: 129
61829153 AAGAATTGCA
* * *
61829163 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGATATAATCCTATCTCCCTGAAGTTAC
* *
61829228 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 AGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
* * *
61829292 G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCTTATC-CCCTGAGG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGATA-T--A-ATCCTATCTCCCTGAAG
*
61829354 TTACAGTGGAGCGGATT-AAACAAAGGATCTTATCTCTCTGAAATTATAGTAGAGTAGATCGCAT
62 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCAT
61829418 CAG
127 CAG
*
61829421 GAT-TTATCTCCCTGTGGTTACAGTGGAGTA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTA
61829451 CATGAAGCCA
Statistics
Matches: 143, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
127 1 0.01
128 35 0.24
129 74 0.52
130 26 0.18
131 7 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (129 bp):
GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGATATAATCCTATCTCCCTGAAGTTAC
AGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAG
Found at i:61829450 original size:41 final size:42
Alignment explanation
Indices: 61828904--61829450 Score: 292
Period size: 43 Copynumber: 12.7 Consensus size: 42
61828894 GATAAATAAA
* * *
61828904 GATCTTATCTCTCTGAAGTTACAGTAGAG-AGATCGCATCAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGCATCAG
* * *
61828945 G-TCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCA-
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATC---GCA-T-CAG
* * * *
61828990 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-AT
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCG--CATCAG
* * * ** *** *
61829033 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGA-TCGCAT-CAG
* *
61829077 GATCTTATCTCTCTGA-GTTACAGTAGAGTAGATCGCATCAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGCATCAG
* * *
61829118 G-TCTTATCTCCCTGAGGTTACAGCGGAGTAGACCGAAGAATTGCA-
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATC---GCA-T-CAG
* * * *
61829163 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-AT
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCG--CATCAG
* * * ** *** *
61829206 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGA-TCGCAT-CAG
* * *
61829250 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGCATCAG
* * *
61829292 G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA-
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATC---GCA-T-CAG
** ** *
61829337 GATCTTATC-CCCTGAGGTTACAGTGGAGCGGATTAAACA-AAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGA-T-CGCATCAG
* ** * *
61829379 GATCTTATCTCTCTGAAATTATAGTAGAGTAGATCGCATCAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGCATCAG
*
61829421 GAT-TTATCTCCCTGTGGTTACAGTGGAGTA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTA
61829451 CATGAAGCCA
Statistics
Matches: 386, Mismatches: 83, Indels: 74
0.71 0.15 0.14
Matches are distributed among these distances:
40 36 0.09
41 77 0.20
42 27 0.07
43 90 0.23
44 53 0.14
45 28 0.07
46 75 0.19
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGCATCAG
Found at i:61833472 original size:18 final size:18
Alignment explanation
Indices: 61833444--61833478 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
61833434 AATCGTTTCG
61833444 TACCATATTTGTATACATA
1 TACCATATTTGTA-ACATA
61833463 TACC-TATTTGTAACAT
1 TACCATATTTGTAACAT
61833479 GTACTTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (18 bp):
TACCATATTTGTAACATA
Found at i:61833952 original size:43 final size:43
Alignment explanation
Indices: 61833792--61833981 Score: 143
Period size: 43 Copynumber: 4.4 Consensus size: 43
61833782 CTAGCACCGC
* * *
61833792 AGTGCATCATCGGATAAACCAAAAGAAATATACTGACACACAT
1 AGTGCATCATCGGATAAATCAAAGGAATTATACTGACACACAT
* * * * *
61833835 AGTGTATAATCGAATAAATCGAA-GAATGTATACCGACACACAT
1 AGTGCATCATCGGATAAATCAAAGGAAT-TATACTGACACACAT
* * * * * * **
61833878 AGTGCACCATCAGATATA-CTGAAGCAATTATACTGGCATGCAT
1 AGTGCATCATCGGATAAATC-AAAGGAATTATACTGACACACAT
* *
61833921 AGTGCATCATCGGATAAATC-AAGGAAGTTATACTAACACATAT
1 AGTGCATCATCGGATAAATCAAAGGAA-TTATACTGACACACAT
* * *
61833964 AGTGTATTACCGGATAAA
1 AGTGCATCATCGGATAAA
61833982 CCGAAGTATA
Statistics
Matches: 112, Mismatches: 30, Indels: 10
0.74 0.20 0.07
Matches are distributed among these distances:
42 9 0.08
43 99 0.88
44 4 0.04
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (43 bp):
AGTGCATCATCGGATAAATCAAAGGAATTATACTGACACACAT
Found at i:61834890 original size:89 final size:89
Alignment explanation
Indices: 61834739--61834909 Score: 306
Period size: 89 Copynumber: 1.9 Consensus size: 89
61834729 TAAAACAGTT
*
61834739 TTACAAATTAGTACATGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
1 TTACAAATTAGTACACGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
*
61834804 GAAAAAGACTAGGTGAGTCGAATA
66 GAAAAAGACTAGATGAGTCGAATA
* *
61834828 TTACAACTTAGTACACGGGCTAGCTAAATTAAACTCCCATTACCTCAAAAACATAAAAATTACAA
1 TTACAAATTAGTACACGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
61834893 GAAAAAGACTAGATGAG
66 GAAAAAGACTAGATGAG
61834910 CCTAATATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (89 bp):
TTACAAATTAGTACACGGGCTAGCTAAATCAAACTCCCATTACCTCAAAAACATAAAAATTACAA
GAAAAAGACTAGATGAGTCGAATA
Found at i:61838421 original size:26 final size:27
Alignment explanation
Indices: 61838382--61838432 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
61838372 TAAACAAAAC
61838382 TTTTCAAAAGCACTTCTCAAAAATACT
1 TTTTCAAAAGCACTTCTCAAAAATACT
* * *
61838409 TTTTCACAA-CACTTTTTAAAAATA
1 TTTTCAAAAGCACTTCTCAAAAATA
61838433 TTACCAAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (27 bp):
TTTTCAAAAGCACTTCTCAAAAATACT
Found at i:61843778 original size:72 final size:75
Alignment explanation
Indices: 61843630--61843786 Score: 180
Period size: 72 Copynumber: 2.1 Consensus size: 75
61843620 GAAATTAGGG
* * * *
61843630 ATGTATATAATAGATTCGAATATGTATGAGTATACAAGTATAAATTCATGTTTTGATTATAAGTA
1 ATGTATATGATAGACTCGAATA-GTATGAGTATACAAGTATAAATTCATGTATTGATAATAAGTA
61843695 TGTAATTATAT
65 TGTAATTATAT
* * * *
61843706 ATGTATATGATAGACTCGAATA-TAT-A-TATACATGTATAGATTCTTGTATTGA-AACTAGGTA
1 ATGTATATGATAGACTCGAATAGTATGAGTATACAAGTATAAATTCATGTATTGATAA-TAAGTA
61843767 TG-AATTTATAT
65 TGTAA-TTATAT
61843778 ATGTATATG
1 ATGTATATG
61843787 TGAGGTTCGA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
71 3 0.04
72 44 0.62
73 1 0.01
74 3 0.04
76 20 0.28
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (75 bp):
ATGTATATGATAGACTCGAATAGTATGAGTATACAAGTATAAATTCATGTATTGATAATAAGTAT
GTAATTATAT
Found at i:61844258 original size:41 final size:41
Alignment explanation
Indices: 61844213--61844334 Score: 219
Period size: 41 Copynumber: 3.0 Consensus size: 41
61844203 AGGCTTAGCA
61844213 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAG
61844254 CCTAGCAGGCTAAGTGCCGGT-AATCTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAA-CTGAATCAGGTTATAAG
*
61844295 CCTAGCAGGCTAAGTGTCGGTGAACTGAATCAGGTTATAA
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAA
61844335 ATGAAACACC
Statistics
Matches: 78, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
40 2 0.03
41 74 0.95
42 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGTTATAAG
Found at i:61845773 original size:50 final size:50
Alignment explanation
Indices: 61845698--61845890 Score: 233
Period size: 50 Copynumber: 3.9 Consensus size: 50
61845688 TTTCCCGTAC
* * * * * ** * *
61845698 TGCCAATGCCATATCTCAGATATGGTCTTACATAGGAGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
* * **
61845748 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
* * **
61845798 TGCCAACGCCATGTCCTAGACATGGTCTTACACGGGACCTCTTATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
61845848 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
61845891 TACCCAAATG
Statistics
Matches: 123, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 123 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCAG
Found at i:61849253 original size:2 final size:2
Alignment explanation
Indices: 61849246--61849276 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
61849236 TTCAACTCAA
61849246 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
61849277 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:61851315 original size:36 final size:36
Alignment explanation
Indices: 61851268--61851336 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
61851258 TCTAAGCGTC
61851268 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTTGTT
1 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTTGTT
61851304 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTT
1 GACTGAAGCTGAAAAGAAGGGATACTTTGTTTT
61851337 TTCTTTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (36 bp):
GACTGAAGCTGAAAAGAAGGGATACTTTGTTTTGTT
Found at i:61851348 original size:14 final size:15
Alignment explanation
Indices: 61851329--61851358 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61851319 GAAGGGATAC
61851329 TTTGTTT-TTTCTTT
1 TTTGTTTGTTTCTTT
61851343 TTTGTTTGTTTCTTT
1 TTTGTTTGTTTCTTT
61851358 T
1 T
61851359 ATTAGATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTGTTTGTTTCTTT
Found at i:61855447 original size:25 final size:27
Alignment explanation
Indices: 61855406--61855457 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
61855396 AGTTTTAATC
*
61855406 AATAACTCTTTTATTTA-TAAA-ATAA
1 AATAACTATTTTATTTAGTAAATATAA
61855431 AATAACTATTATT-TTTAGTAAATATAA
1 AATAACTATT-TTATTTAGTAAATATAA
61855458 TTTTTATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 13 0.57
26 6 0.26
27 4 0.17
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (27 bp):
AATAACTATTTTATTTAGTAAATATAA
Found at i:61855668 original size:13 final size:13
Alignment explanation
Indices: 61855650--61855674 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61855640 TAAAAGAGTT
61855650 ATTAATTAAAAAG
1 ATTAATTAAAAAG
61855663 ATTAATTAAAAA
1 ATTAATTAAAAA
61855675 TAAAAAAACT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:61856693 original size:14 final size:15
Alignment explanation
Indices: 61856654--61856694 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
61856644 GATTTTTATT
* *
61856654 CTTTTAACATTAT-C
1 CTTTAAACATTTTAC
61856668 CTTTAAACATTTTAC
1 CTTTAAACATTTTAC
61856683 CTTTAAA-ATTTT
1 CTTTAAACATTTT
61856695 GAAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.51
Consensus pattern (15 bp):
CTTTAAACATTTTAC
Found at i:61863709 original size:48 final size:48
Alignment explanation
Indices: 61863652--61863746 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
61863642 TGGATGCGTA
*
61863652 TTTGTTGGGGGTAAAGGAGAGGACTGAATAGTAGGAAAAGCTAGAGTG
1 TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGTG
* * *
61863700 TTTGTTGGGGGTAAAGGAGATGATTGAACAGTAGGAAAGGCTAGAGT
1 TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGT
61863747 ATTAGTGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.04, G:0.39, T:0.24
Consensus pattern (48 bp):
TTTGTTGGGGGTAAAGGAGAGGACTGAACAGTAGGAAAAGCTAGAGTG
Found at i:61871653 original size:45 final size:43
Alignment explanation
Indices: 61871586--61871700 Score: 176
Period size: 45 Copynumber: 2.6 Consensus size: 43
61871576 GTAGGTAACT
*
61871586 TTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCTCAAC
1 TTTTTTTTGCGCTGTTTGCTTTTTTTTT-AAGATTATTCTCAAC
* *
61871630 TCTTTTTTTGCGCTGTTTACTTTTTTTTTTAGATTATTCTCAAC
1 T-TTTTTTTGCGCTGTTTGCTTTTTTTTTAAGATTATTCTCAAC
*
61871674 TTTTTTTTGCGCTTTTTGCTTTTTTTT
1 TTTTTTTTGCGCTGTTTGCTTTTTTTT
61871701 ATTAACTAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 24 0.37
44 15 0.23
45 26 0.40
ACGTcount: A:0.10, C:0.14, G:0.10, T:0.65
Consensus pattern (43 bp):
TTTTTTTTGCGCTGTTTGCTTTTTTTTTAAGATTATTCTCAAC
Found at i:61871655 original size:44 final size:43
Alignment explanation
Indices: 61871586--61871701 Score: 169
Period size: 43 Copynumber: 2.7 Consensus size: 43
61871576 GTAGGTAACT
*
61871586 TTTTTTTTGCGCTGTTTGCTTTTTTTTTAAAGATTTTTCTCAAC
1 TTTTTTTTGCGCTGTTTGC-TTTTTTTTAAAGATTATTCTCAAC
* **
61871630 TCTTTTTTTGCGCTGTTTACTTTTTTTTTTAGATTATTCTCAAC
1 T-TTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTATTCTCAAC
*
61871674 TTTTTTTTGCGCTTTTTGCTTTTTTTTA
1 TTTTTTTTGCGCTGTTTGCTTTTTTTTA
61871702 TTAACTAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
43 24 0.38
44 23 0.36
45 17 0.27
ACGTcount: A:0.11, C:0.14, G:0.10, T:0.65
Consensus pattern (43 bp):
TTTTTTTTGCGCTGTTTGCTTTTTTTTAAAGATTATTCTCAAC
Found at i:61872322 original size:31 final size:31
Alignment explanation
Indices: 61872229--61872324 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
61872219 GGCAAATTAC
*
61872229 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
61872260 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
61872292 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
61872323 AA
1 AA
61872325 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:61873101 original size:30 final size:25
Alignment explanation
Indices: 61873046--61873095 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
61873036 CATCAAAATG
61873046 TCTCGAGTCTTGATGTCCTTAACAA
1 TCTCGAGTCTTGATGTCCTTAACAA
61873071 TCTCGAGTCTTGATGTCCTTAACAA
1 TCTCGAGTCTTGATGTCCTTAACAA
61873096 CACAATAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (25 bp):
TCTCGAGTCTTGATGTCCTTAACAA
Found at i:61876045 original size:3 final size:3
Alignment explanation
Indices: 61876037--61876074 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
61876027 TTGCGGTCCT
61876037 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
61876075 TGTTTAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:61876824 original size:21 final size:21
Alignment explanation
Indices: 61876798--61876848 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
61876788 GTTGTTATTA
*
61876798 TTATTTTTAATTTT-CACAAT
1 TTATTTTTAATTTTGCAAAAT
*
61876818 TT-TATTTTAATTTTGTAAAAT
1 TTAT-TTTTAATTTTGCAAAAT
61876839 TTATTTTTAA
1 TTATTTTTAA
61876849 AAATATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 12 0.46
22 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
TTATTTTTAATTTTGCAAAAT
Found at i:61882837 original size:3 final size:3
Alignment explanation
Indices: 61882795--61882819 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61882785 ACAATAACTA
61882795 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
61882820 GAACATCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:61897294 original size:10 final size:10
Alignment explanation
Indices: 61897275--61897309 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
61897265 AACCAAAATA
*
61897275 ATATAGATAT
1 ATATACATAT
61897285 ATATACATAT
1 ATATACATAT
61897295 ATATACATAT
1 ATATACATAT
61897305 ATATA
1 ATATA
61897310 ATCTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:61902754 original size:5 final size:5
Alignment explanation
Indices: 61902740--61902807 Score: 129
Period size: 5 Copynumber: 13.8 Consensus size: 5
61902730 AATGTTTAAG
61902740 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
61902789 TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATA
61902808 AAATAAAGAA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.06
5 59 0.94
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:61902839 original size:24 final size:25
Alignment explanation
Indices: 61902807--61902857 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
61902797 ATTATATTAT
* * *
61902807 AAAATAAAGAAATAAAA-GAAATAG
1 AAAAGAAAGAAAGAAAACGAAACAG
61902831 AAAAGAAAGAAAGAAAACGAAACAG
1 AAAAGAAAGAAAGAAAACGAAACAG
61902856 AA
1 AA
61902858 GGGAAAAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.75, C:0.04, G:0.16, T:0.06
Consensus pattern (25 bp):
AAAAGAAAGAAAGAAAACGAAACAG
Found at i:61903831 original size:41 final size:39
Alignment explanation
Indices: 61903775--61903913 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 39
61903765 GACTTCTAGT
* *
61903775 CGATGAGACACTGGGTGTCAATTTATTACTTTGGATATATT
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGGAT-TATC
* * * *
61903816 CGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGATTATC
* *
61903853 CGATGAGACACTAGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTC-AATTATTACTTCGGATTATC
* **
61903893 CGATGAGGCACTTAGTGTCAA
1 CGATGAGACACTGGGTGTCAA
61903914 ACTGGTGTGT
Statistics
Matches: 80, Mismatches: 15, Indels: 8
0.78 0.15 0.08
Matches are distributed among these distances:
37 18 0.22
38 11 0.14
39 4 0.05
40 28 0.35
41 19 0.24
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGATTATC
Found at i:61905739 original size:46 final size:45
Alignment explanation
Indices: 61905641--61905884 Score: 287
Period size: 46 Copynumber: 5.6 Consensus size: 45
61905631 TACGTATGAT
* * * *
61905641 CACTTATCACTTGTC-CTTAATCAGATAAGCGTAGCT-AGGCTAC
1 CACTTATCACTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
61905684 CACTTATCACTATTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACT-TTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
61905730 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC-TTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
61905776 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG----
1 CACTTATCACTTT-TCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
61905812 CATTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC-TTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
61905858 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTT-TCACTTGATCAGA
61905885 AGTACTCAAA
Statistics
Matches: 175, Mismatches: 9, Indels: 31
0.81 0.04 0.14
Matches are distributed among these distances:
36 24 0.14
37 3 0.02
38 3 0.02
40 3 0.02
42 3 0.02
43 11 0.06
44 6 0.03
45 25 0.14
46 96 0.55
47 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:61905820 original size:36 final size:36
Alignment explanation
Indices: 61905779--61905848 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
61905769 AAGCTACCAC
*
61905779 TTATCACTTTGTCACTTGATCAGATAAGTATAGCAT
1 TTATCACTTTGTCACTTGATCAAATAAGTATAGCAT
* *
61905815 TTATCACTTTTTCACTTGATCAAATAAGTGTAGC
1 TTATCACTTTGTCACTTGATCAAATAAGTATAGC
61905849 TAAAGCTACC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (36 bp):
TTATCACTTTGTCACTTGATCAAATAAGTATAGCAT
Found at i:61905870 original size:82 final size:82
Alignment explanation
Indices: 61905733--61905884 Score: 277
Period size: 82 Copynumber: 1.9 Consensus size: 82
61905723 AGGCTACCAC
* *
61905733 TTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGA
1 TTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGA
61905798 TCAGATAAGTATAGCAT
66 TCAGATAAGTATAGCAT
*
61905815 TTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCTTGA
1 TTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGA
61905880 TCAGA
66 TCAGA
61905885 AGTACTCAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (82 bp):
TTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGA
TCAGATAAGTATAGCAT
Found at i:61911795 original size:27 final size:27
Alignment explanation
Indices: 61911742--61911795 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
61911732 TAAATATATA
**
61911742 TATTTTTTAATTTTAAAATAATTTTTT
1 TATTTTTTAATTTTAAAATAAAGTTTT
*
61911769 TATTTTTTATTTTTAAAATAAAGTTTT
1 TATTTTTTAATTTTAAAATAAAGTTTT
61911796 GGTGTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TATTTTTTAATTTTAAAATAAAGTTTT
Found at i:61914346 original size:37 final size:37
Alignment explanation
Indices: 61914296--61914369 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
61914286 AAATGCTGTG
61914296 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
1 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
61914333 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
1 TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
61914370 ATTCCATGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (37 bp):
TTACCCAAATTCTTCACTACACTAGTTTTTAACACAT
Found at i:61924629 original size:19 final size:18
Alignment explanation
Indices: 61924601--61924637 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
61924591 AAATATATAA
*
61924601 TAATATTTTATATTTCTT
1 TAATATTTTATAATTCTT
61924619 TAATGATTTTATAATTCTT
1 TAAT-ATTTTATAATTCTT
61924638 GTTATTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TAATATTTTATAATTCTT
Found at i:61938280 original size:53 final size:51
Alignment explanation
Indices: 61938182--61938354 Score: 197
Period size: 53 Copynumber: 3.3 Consensus size: 51
61938172 CATACATAAG
* *
61938182 AGGACTATGACTCATCAAACTTTATCAAAAGTAAAGTTCAATAATTTACAAA
1 AGGACAATGACTCATCAAACTTTAT-AAAAGTAAAGTACAATAATTTACAAA
* *
61938234 AGGACAATGACTCACTCATACTTTA-ATAAAGTAAAAGTACAATAATTTACAAG
1 AGGACAATGACTCA-TCAAACTTTATA-AAAGT-AAAGTACAATAATTTACAAA
* * * *
61938287 AGGGCGATGACTCATACAAACTTTTATAAAAGTAAAGGACAATAATTTACAAGC
1 AGGACAATGACTCAT-CAAAC-TTTATAAAAGTAAAGTACAATAATTTACAA-A
61938341 A-GACAATGACTCAT
1 AGGACAATGACTCAT
61938355 TCAATTAGTG
Statistics
Matches: 103, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
51 1 0.01
52 19 0.18
53 72 0.70
54 10 0.10
55 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.26
Consensus pattern (51 bp):
AGGACAATGACTCATCAAACTTTATAAAAGTAAAGTACAATAATTTACAAA
Found at i:61940323 original size:33 final size:31
Alignment explanation
Indices: 61940286--61940356 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 31
61940276 AGTGGGTTAG
* *
61940286 TTTAACTCATAAAAAAAAGATTTATTTGAATTT
1 TTTAACTCATAAAAAAAA-ATAT-TTTAAATTT
** *
61940319 TTTAA-TTTTATAAAAAAATATTTTAAATTT
1 TTTAACTCATAAAAAAAAATATTTTAAATTT
61940349 TTTAACTC
1 TTTAACTC
61940357 TATTTTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
30 13 0.42
31 4 0.13
32 9 0.29
33 5 0.16
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.48
Consensus pattern (31 bp):
TTTAACTCATAAAAAAAAATATTTTAAATTT
Found at i:61943453 original size:27 final size:26
Alignment explanation
Indices: 61943423--61943510 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 26
61943413 TTTATAAAAA
**
61943423 TTTTAAATATTTAACTTTTTTAGAATT
1 TTTTAAATATTTAAAATTTTT-GAATT
*
61943450 TTTTGAAAGTA-TAAAAATTTTTGAATT
1 TTTT-AAA-TATTTAAAATTTTTGAATT
*
61943477 TTTATAAATATTTTTGAAATTTTTAGAATT
1 TTT-TAAATA--TTTAAAATTTTT-GAATT
61943507 TTTT
1 TTTT
61943511 GTTGAGAGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
26 2 0.04
27 15 0.31
28 12 0.24
29 12 0.24
30 8 0.16
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (26 bp):
TTTTAAATATTTAAAATTTTTGAATT
Found at i:61943482 original size:20 final size:21
Alignment explanation
Indices: 61943459--61943501 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
61943449 TTTTTGAAAG
61943459 TATAAAAATTTTTG-AATTTT
1 TATAAAAATTTTTGAAATTTT
*
61943479 TATAAATATTTTTGAAATTTT
1 TATAAAAATTTTTGAAATTTT
61943500 TA
1 TA
61943502 GAATTTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
TATAAAAATTTTTGAAATTTT
Found at i:61952586 original size:22 final size:23
Alignment explanation
Indices: 61952556--61952598 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
61952546 AGTATGATTA
61952556 AAAACTATTACGATTAAAAACAC
1 AAAACTATTACGATTAAAAACAC
*
61952579 AAAA-TATTAGGATTAAAAAC
1 AAAACTATTACGATTAAAAAC
61952599 TAAAGTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.58, C:0.12, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAACTATTACGATTAAAAACAC
Found at i:61963326 original size:9 final size:10
Alignment explanation
Indices: 61963267--61963325 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 10
61963257 TCCTATCATT
61963267 TTATTTATTA
1 TTATTTATTA
61963277 TTGAGTTTATTA
1 TT-A-TTTATTA
61963289 TTA-TTATTA
1 TTATTTATTA
*
61963298 TTA-TCATTA
1 TTATTTATTA
*
61963307 TTATTGCATT-
1 TTATT-TATTA
61963317 TTATTTATT
1 TTATTTATT
61963326 TATTTGTACC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
9 20 0.47
10 8 0.19
11 6 0.14
12 9 0.21
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (10 bp):
TTATTTATTA
Found at i:61976194 original size:87 final size:85
Alignment explanation
Indices: 61975933--61976222 Score: 240
Period size: 87 Copynumber: 3.4 Consensus size: 85
61975923 AGAATTTGCA
*
61975933 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-ACA-T-ATCCTATCTCCCTGAGATTA
61975998 CAGTGGAGCGGA-T----TAAAG
63 CAGTGGAGCGGATTAAAATAAAG
* ** * * * ** * *
61976016 GATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACA
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAACATATCCTATCTCCCTGAGATTACA
* * * **
61976080 GTGGAACAGACTAAAGAATTTCA-
65 GTGGAGCGGA-TTAA-AA-TAAAG
*
61976103 GATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGACACTATCCTATCTCCCTGA-AGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA-ACA-TATCCTATCTCCCTGAGA-TTA
61976167 CAGTGGAGCGGATTAAAATAAAG
63 CAGTGGAGCGGATTAAAATAAAG
* *
61976190 GATCTTATCT-CCTGA-AGTTACAGCAGAGTAGAT
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGAT
61976223 CGCATCAAGT
Statistics
Matches: 157, Mismatches: 35, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
80 27 0.17
82 2 0.01
83 31 0.20
85 1 0.01
86 20 0.13
87 42 0.27
88 9 0.06
89 25 0.16
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (85 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACATATCCTATCTCCCTGAGATTACAG
TGGAGCGGATTAAAATAAAG
Found at i:61976257 original size:173 final size:171
Alignment explanation
Indices: 61975887--61976264 Score: 532
Period size: 173 Copynumber: 2.2 Consensus size: 171
61975877 CATTATACAG
* * **
61975887 GTCTTATTCCCCTGAGATTACGGTGGAACAGACCGAAGAATTTGCAGATCTTATCTCCCTGAGAT
1 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTGCAGATCTTATCTCCCTGAGAT
* * * *
61975952 TACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGG
66 TACAACGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGG
* *
61976017 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAG
131 ATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAA
61976058 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTT-CAGATCTTATCTCCCTGAGAT
1 GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTGCAGATCTTATCTCCCTGAGAT
61976122 TACAACGGAGCAGATTGAAGACACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAA
66 TACAACGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGA-TTACAGTGGAGCGGA-T----
* *
61976185 TAAAGGATCTTATCTC-CTGAAGTTACAGCAGAGTAGATCGCATCAA
125 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAA
* *
61976231 GTCTTATTTCCCTGAAGA-TGCAGTGGAATAGACT
1 GTCTTATTTCCCTG-AGATTACAGTGGAACAGACT
61976265 GAAAACAACA
Statistics
Matches: 186, Mismatches: 14, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
168 1 0.01
169 30 0.16
170 43 0.23
171 39 0.21
173 54 0.29
174 19 0.10
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (171 bp):
GTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTGCAGATCTTATCTCCCTGAGAT
TACAACGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGG
ATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAA
Found at i:61977920 original size:9 final size:10
Alignment explanation
Indices: 61977861--61977919 Score: 52
Period size: 9 Copynumber: 5.9 Consensus size: 10
61977851 TCCTATCATT
61977861 TTATTTATTA
1 TTATTTATTA
61977871 TTGAGTTTATTA
1 TT-A-TTTATTA
61977883 TTA-TTATTA
1 TTATTTATTA
*
61977892 TTA-TCATTA
1 TTATTTATTA
*
61977901 TTATTGCATT-
1 TTATT-TATTA
61977911 TTATTTATT
1 TTATTTATT
61977920 TATTTGTACC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
9 20 0.47
10 8 0.19
11 6 0.14
12 9 0.21
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (10 bp):
TTATTTATTA
Found at i:61979548 original size:28 final size:27
Alignment explanation
Indices: 61979517--61979571 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
61979507 AATTAATAAT
*
61979517 GTTA-ATGATCTTATAATAATTTTTTAAA
1 GTTAGATGAT-TTA-AACAATTTTTTAAA
*
61979545 GTTAGATGATTTAAACATTTTTTTAAA
1 GTTAGATGATTTAAACAATTTTTTAAA
61979572 CAATATATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.50
28 7 0.29
29 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (27 bp):
GTTAGATGATTTAAACAATTTTTTAAA
Found at i:61989944 original size:65 final size:65
Alignment explanation
Indices: 61989838--61989982 Score: 161
Period size: 65 Copynumber: 2.2 Consensus size: 65
61989828 TGTTTTAAAA
** *
61989838 AAAATTTTAAAAATATATTAGACTTTTTTAAAAATTATAAAAATAATAAAAACTATTTAAAA-AC
1 AAAATTTT-AAAATATATTAGACAGTTATAAAAATTATAAAAATAATAAAAACTATTTAAAATA-
61989902 TAT
64 T-T
* * * *
61989905 AAAATTTTAAAAT-TATTAGA-AGTTATAAAATATTGTAAAAATTATAAAAATTATTTGAAATAT
1 AAAATTTTAAAATATATTAGACAGTTATAAAA-ATTATAAAAATAATAAAAACTATTTAAAATAT
61989968 T
65 T
*
61989969 AAAATTTAAAAATA
1 AAAATTTTAAAATA
61989983 GTAAAAATAG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
64 20 0.30
65 33 0.49
66 6 0.09
67 8 0.12
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (65 bp):
AAAATTTTAAAATATATTAGACAGTTATAAAAATTATAAAAATAATAAAAACTATTTAAAATATT
Found at i:61989957 original size:9 final size:9
Alignment explanation
Indices: 61989866--61989958 Score: 73
Period size: 9 Copynumber: 10.1 Consensus size: 9
61989856 TAGACTTTTT
61989866 TAAAAATTA
1 TAAAAATTA
*
61989875 TAAAAATAA
1 TAAAAATTA
*
61989884 TAAAAACTATT
1 TAAAAA-T-TA
*
61989895 TAAAAACTA
1 TAAAAATTA
61989904 T-AAAATT-
1 TAAAAATTA
*
61989911 TTAAAATTA
1 TAAAAATTA
* *
61989920 TTAGAAGTTA
1 -TAAAAATTA
*
61989930 TAAAATATTG
1 TAAAA-ATTA
61989940 TAAAAATTA
1 TAAAAATTA
61989949 TAAAAATTA
1 TAAAAATTA
61989958 T
1 T
61989959 TTGAAATATT
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
7 1 0.02
8 11 0.17
9 33 0.51
10 14 0.22
11 6 0.09
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:61989965 original size:19 final size:18
Alignment explanation
Indices: 61989906--61989974 Score: 52
Period size: 18 Copynumber: 3.7 Consensus size: 18
61989896 AAAAACTATA
* *
61989906 AAATTTTAAAATTATTAG
1 AAATTATAAAATTATTTG
* *
61989924 AAGTTATAAAA-TATTGTAA
1 AAATTATAAAATTATT-T-G
61989943 AAATTATAAAAATTATTTG
1 AAATTAT-AAAATTATTTG
61989962 AAA-TATTAAAATT
1 AAATTA-TAAAATT
61989975 TAAAAATAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
17 4 0.10
18 17 0.43
19 10 0.25
20 5 0.12
21 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
AAATTATAAAATTATTTG
Found at i:61989988 original size:35 final size:38
Alignment explanation
Indices: 61989905--61989990 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 38
61989895 TAAAAACTAT
* *
61989905 AAAATT-TTAAAATTATTAGAAGTTATAAAATATTGTA
1 AAAATTATAAAAATTATTAGAAGATATAAAATATTGTA
* *
61989942 AAAATTATAAAAATTATTTGAA-ATATTAAA-ATT-TA
1 AAAATTATAAAAATTATTAGAAGATATAAAATATTGTA
61989977 AAAA-TAGTAAAAAT
1 AAAATTA-TAAAAAT
61989991 AGTTATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
34 2 0.05
35 13 0.30
36 3 0.07
37 12 0.28
38 13 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (38 bp):
AAAATTATAAAAATTATTAGAAGATATAAAATATTGTA
Found at i:61990663 original size:49 final size:47
Alignment explanation
Indices: 61990562--61990674 Score: 129
Period size: 48 Copynumber: 2.3 Consensus size: 47
61990552 AAAATATTAA
* * *
61990562 AATTTTTATTTTTTTAATTTTTAGTAAATTTTATAAAATTTTTTTTGT
1 AATTTTCA-TTTTTTAATTTTTAATAAATTTTATAAAATTTTTTTTAT
* *
61990610 AATTTTACATTTTTTATATTTTTAATAAGTTTTGT-AAATTTTTTTTAT
1 AATTTT-CATTTTTTA-ATTTTTAATAAATTTTATAAAATTTTTTTTAT
*
61990658 AAATTTTTATTTTTTAA
1 -AATTTTCATTTTTTAA
61990675 AGATTTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
47 1 0.02
48 33 0.59
49 22 0.39
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (47 bp):
AATTTTCATTTTTTAATTTTTAATAAATTTTATAAAATTTTTTTTAT
Found at i:61990673 original size:48 final size:50
Alignment explanation
Indices: 61990561--61990682 Score: 144
Period size: 49 Copynumber: 2.5 Consensus size: 50
61990551 TAAAATATTA
* *
61990561 AAATTTTTATTTTTT-TAATTTTTAGTAAATTTTATAAAATTTTTTTTGT
1 AAATTTTTATTTTTTATAATTTTTAATAAATTTTATAAAATTTTTTTTAT
* * *
61990610 -AATTTTACATTTTTTAT-ATTTTTAATAAGTTTTGT-AAATTTTTTTTAT
1 AAATTTT-TATTTTTTATAATTTTTAATAAATTTTATAAAATTTTTTTTAT
*
61990658 AAATTTTTATTTTTTAAAGATTTTT
1 AAATTTTTATTTTTTATA-ATTTTT
61990683 TTATGTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
48 26 0.43
49 28 0.46
50 7 0.11
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (50 bp):
AAATTTTTATTTTTTATAATTTTTAATAAATTTTATAAAATTTTTTTTAT
Found at i:61993445 original size:19 final size:19
Alignment explanation
Indices: 61993421--61993471 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
61993411 ACAGTCGTGT
61993421 GTCCAGGCCGTGTGACGGA
1 GTCCAGGCCGTGTGACGGA
61993440 GTCCAGGCCGTGTGACGGA
1 GTCCAGGCCGTGTGACGGA
*
61993459 GTCCAGCCCGTGT
1 GTCCAGGCCGTGT
61993472 AACTTCAAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.14, C:0.29, G:0.39, T:0.18
Consensus pattern (19 bp):
GTCCAGGCCGTGTGACGGA
Found at i:61994499 original size:40 final size:40
Alignment explanation
Indices: 61994444--61994551 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
61994434 AGAGCATTCT
* * * *
61994444 TTTCAATAAATTCAGTAGGTATGGCTTAAGAGT-GCATACG
1 TTTCAGTAGATTCAGTAGGTATGGCTCAA-AATCGCATACG
* *
61994484 TTTTAGTAGATTCAGTAGGTATGGCTCAAAATCGCATATG
1 TTTCAGTAGATTCAGTAGGTATGGCTCAAAATCGCATACG
*
61994524 TTTCAGTAGATTCAGTAGGTATGACTCA
1 TTTCAGTAGATTCAGTAGGTATGGCTCA
61994552 TCTGAGCACC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
39 2 0.03
40 57 0.97
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (40 bp):
TTTCAGTAGATTCAGTAGGTATGGCTCAAAATCGCATACG
Found at i:61996358 original size:30 final size:31
Alignment explanation
Indices: 61996317--61996377 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
61996307 GGGTTGGGAG
* *
61996317 GGGAGAGGAGTAAAAGTTTTGGGGGGAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
61996348 GGGA-AGGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
61996378 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.44, T:0.20
Consensus pattern (31 bp):
GGGAGAGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:62000088 original size:16 final size:16
Alignment explanation
Indices: 62000067--62000099 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62000057 CAGTCCAAAT
62000067 AGCCCAAGTCACAACA
1 AGCCCAAGTCACAACA
62000083 AGCCCAAGTCACAACA
1 AGCCCAAGTCACAACA
62000099 A
1 A
62000100 CAAACAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.36, G:0.12, T:0.06
Consensus pattern (16 bp):
AGCCCAAGTCACAACA
Found at i:62007832 original size:15 final size:15
Alignment explanation
Indices: 62007812--62007844 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
62007802 TGTTGTTCTC
62007812 CATTTCTTTTCTTTT
1 CATTTCTTTTCTTTT
*
62007827 CATTTCTTTTTTTTT
1 CATTTCTTTTCTTTT
62007842 CAT
1 CAT
62007845 ATACAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (15 bp):
CATTTCTTTTCTTTT
Found at i:62013572 original size:17 final size:17
Alignment explanation
Indices: 62013537--62013621 Score: 50
Period size: 17 Copynumber: 4.9 Consensus size: 17
62013527 AATGAAAATG
* *
62013537 AAAATGAAAAAAA-ATC
1 AAAATAAAAAAAAGAAC
62013553 AAAATAAAAAAAAGAAC
1 AAAATAAAAAAAAGAAC
62013570 AAAA-AGAAGAAAGAAGAA-
1 AAAATA-AA-AAA-AAGAAC
** *
62013588 AAAATTAAAATCAAGATC
1 AAAA-TAAAAAAAAGAAC
* *
62013606 AAAATGAAAATAAGAA
1 AAAATAAAAAAAAGAA
62013622 AAAGAAAGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
16 13 0.25
17 20 0.38
18 12 0.23
19 7 0.13
20 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAAAAGAAC
Found at i:62013599 original size:47 final size:50
Alignment explanation
Indices: 62013547--62013641 Score: 117
Period size: 50 Copynumber: 1.9 Consensus size: 50
62013537 AAAATGAAAA
62013547 AAAATCAAAAT-AAAA-AAAAGAACAAAAAG-AAGAAAGAA-GAAAAAATT
1 AAAATCAAAATCAAAAGAAAAGAACAAAAAGAAAG-AAGAATGAAAAAATT
* * *
62013594 AAAATCAAGATCAAAATGAAAATAAGAAAAAGAAAGAAGAATGAAAAA
1 AAAATCAAAATCAAAA-GAAAAGAACAAAAAGAAAGAAGAATGAAAAA
62013642 GGAGAAATCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
47 10 0.25
48 4 0.10
50 17 0.43
51 9 0.22
ACGTcount: A:0.74, C:0.04, G:0.13, T:0.09
Consensus pattern (50 bp):
AAAATCAAAATCAAAAGAAAAGAACAAAAAGAAAGAAGAATGAAAAAATT
Found at i:62015783 original size:43 final size:43
Alignment explanation
Indices: 62015734--62015874 Score: 194
Period size: 43 Copynumber: 3.3 Consensus size: 43
62015724 AATATTGCAG
62015734 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
* * * *
62015777 ATCTTATCTTCTCCAGGAGTAGGGAAACAGATCTAAG-TGCCGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCT-ACGA
* **
62015820 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCGAAGACGGCGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAG-CTACGA
62015864 ATCTTATCTTC
1 ATCTTATCTTC
62015875 AAGTGTAAGG
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 71 0.83
44 14 0.16
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (43 bp):
ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCCAAGCTACGA
Found at i:62016022 original size:50 final size:50
Alignment explanation
Indices: 62015939--62016306 Score: 273
Period size: 50 Copynumber: 7.3 Consensus size: 50
62015929 GCCGTGAACC
* * * *
62015939 ACATCGGTGAATCTTACTTCCCCGACATTGCAGTTCAAAAGATTAAAGAT
1 ACATCGGCGAATCTTACCTCCCTGACATTGCAGTTCAAAAGATTAAAGCT
* * ** * *
62015989 ACAACAGCGAATCTTACCT-CCT-A-AGTGATGCAGTGGAACAGATTAAAGCC
1 ACATCGGCGAATCTTACCTCCCTGACA-T--TGCAGTTCAAAAGATTAAAGCT
* * *
62016039 ACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAAAGATTAAAGCT
1 ACATCGGCGAATCTTACCTCCCTGACATTGCAGTTCAAAAGATTAAAGCT
* * ** * ** * *
62016089 ACATCAGCGAATCTTACCTTCAGGGCGA-TGCAGTGGAACAGATTAAAGCC
1 ACATCGGCGAATCTTACCTCCCTGAC-ATTGCAGTTCAAAAGATTAAAGCT
* *
62016139 ACATCGGTGAATCTTACTTCCCTGACATTGCAGTTCAAAAGATTAAAGCT
1 ACATCGGCGAATCTTACCTCCCTGACATTGCAGTTCAAAAGATTAAAGCT
* * * * * * * *
62016189 ACATCGGCGAATCTTACCTTCCAGGCAGTGCAG-TGAAGCATATTAAAGCC
1 ACATCGGCGAATCTTACCTCCCTGACATTGCAGTTCAA-AAGATTAAAGCT
* * * * * *
62016239 ACATCGGTGAATCTT-GCTTCCTCGACATTGTAGTTAAAAAAGATTAAAGCC
1 ACATCGGCGAATCTTACCTCCCT-GACATTGCAGTT-CAAAAGATTAAAGCT
62016290 ACAAT-GGCGAATCTTAC
1 AC-ATCGGCGAATCTTAC
62016307 TACCAAAAAT
Statistics
Matches: 241, Mismatches: 63, Indels: 26
0.73 0.19 0.08
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 11 0.05
50 194 0.80
51 26 0.11
52 6 0.02
53 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.26
Consensus pattern (50 bp):
ACATCGGCGAATCTTACCTCCCTGACATTGCAGTTCAAAAGATTAAAGCT
Found at i:62016067 original size:100 final size:98
Alignment explanation
Indices: 62015937--62016306 Score: 494
Period size: 100 Copynumber: 3.7 Consensus size: 98
62015927 ATGCCGTGAA
* *
62015937 CCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTCAAAAGATTAAAGATACAACAGCGAATC
1 CCACATCGGTGAATCTTACTTCCCTGACATTGCAGTTCAAAAGATTAAAGCTACAACAGCGAATC
62016002 TTACCTCCTAAGTGATGCAGTGGAACAGATTAAAG
66 TTACCTCC-AAG-GATGCAGTGGAACAGATTAAAG
* *
62016037 CCACATCGGTGAATCTTGCTTCCCTGACATTGCAGTTCAAAAGATTAAAGCTACATCAGCGAATC
1 CCACATCGGTGAATCTTACTTCCCTGACATTGCAGTTCAAAAGATTAAAGCTACAACAGCGAATC
* *
62016102 TTACCTTCAGGGCGATGCAGTGGAACAGATTAAAG
66 TTACCTCCA-AG-GATGCAGTGGAACAGATTAAAG
* *
62016137 CCACATCGGTGAATCTTACTTCCCTGACATTGCAGTTCAAAAGATTAAAGCTACATCGGCGAATC
1 CCACATCGGTGAATCTTACTTCCCTGACATTGCAGTTCAAAAGATTAAAGCTACAACAGCGAATC
*
62016202 TTACCTTCC-AGGCAGTGCAGT-GAAGCATATTAAAG
66 TTACC-TCCAAGG-A-TGCAGTGGAA-CAGATTAAAG
* * * * **
62016237 CCACATCGGTGAATCTTGCTT-CCTCGACATTGTAGTTAAAAAAGATTAAAGCCACAATGGCGAA
1 CCACATCGGTGAATCTTACTTCCCT-GACATTGCAGTT-CAAAAGATTAAAGCTACAACAGCGAA
62016301 TCTTAC
64 TCTTAC
62016307 TACCAAAAAT
Statistics
Matches: 245, Mismatches: 18, Indels: 13
0.89 0.07 0.05
Matches are distributed among these distances:
98 1 0.00
99 9 0.04
100 205 0.84
101 30 0.12
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (98 bp):
CCACATCGGTGAATCTTACTTCCCTGACATTGCAGTTCAAAAGATTAAAGCTACAACAGCGAATC
TTACCTCCAAGGATGCAGTGGAACAGATTAAAG
Found at i:62016201 original size:200 final size:201
Alignment explanation
Indices: 62015937--62016306 Score: 556
Period size: 200 Copynumber: 1.8 Consensus size: 201
62015927 ATGCCGTGAA
62015937 CCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTCAAAAGATTAAAGATACAACAGCGAATC
1 CCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTCAAAAGATTAAAGATACAACAGCGAATC
62016002 TTACC-TCCTAAGTG-A-TGCAGTGGAA-CAGATTAAAGCCACATCGGTGAATCTTGCTTCC-CT
66 TTACCTTCC--AG-GCAGTGCAGT-GAAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCTC-
* *
62016062 GACATTGCAGTT-CAAAAGATTAAAGCTAC-ATCAGCGAATCTTACCTTCAGGGCGATGCAGTGG
126 GACATTGCAGTTAAAAAAGATTAAAGCCACAAT-AGCGAATCTTACCTTCAGGGCGATGCAGTGG
62016125 AACAGATTAAAG
190 AACAGATTAAAG
* * * *
62016137 CCACATCGGTGAATCTTACTTCCCTGACATTGCAGTTCAAAAGATTAAAGCTACATCGGCGAATC
1 CCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTCAAAAGATTAAAGATACAACAGCGAATC
*
62016202 TTACCTTCCAGGCAGTGCAGTGAAGCATATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
66 TTACCTTCCAGGCAGTGCAGTGAAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
* *
62016267 TGTAGTTAAAAAAGATTAAAGCCACAATGGCGAATCTTAC
131 TGCAGTTAAAAAAGATTAAAGCCACAATAGCGAATCTTAC
62016307 TACCAAAAAT
Statistics
Matches: 154, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
198 1 0.01
199 6 0.04
200 115 0.75
201 30 0.19
202 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (201 bp):
CCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTCAAAAGATTAAAGATACAACAGCGAATC
TTACCTTCCAGGCAGTGCAGTGAAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAT
TGCAGTTAAAAAAGATTAAAGCCACAATAGCGAATCTTACCTTCAGGGCGATGCAGTGGAACAGA
TTAAAG
Found at i:62022424 original size:7 final size:6
Alignment explanation
Indices: 62022396--62022420 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62022386 TTTTCATTTT
62022396 AGAAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA A
62022421 AGAATACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:62025367 original size:30 final size:31
Alignment explanation
Indices: 62025327--62025388 Score: 101
Period size: 30 Copynumber: 2.0 Consensus size: 31
62025317 AAATTTAAAG
62025327 TTAAAATATATATTATA-ATATTATA-ATAT
1 TTAAAATATATATTATATATATTATATATAT
62025356 TTAAGAATATATATTATATATATTATATATAT
1 TTAA-AATATATATTATATATATTATATATAT
62025388 T
1 T
62025389 ATATAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 4 0.13
30 13 0.43
31 8 0.27
32 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
TTAAAATATATATTATATATATTATATATAT
Found at i:62025378 original size:11 final size:9
Alignment explanation
Indices: 62025332--62025393 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
62025322 TAAAGTTAAA
62025332 ATATATATT
1 ATATATATT
62025341 ATA-ATATT
1 ATATATATT
62025349 ATA-ATATT
1 ATATATATT
*
62025357 -TA-AGA--
1 ATATATATT
62025362 ATATATATT
1 ATATATATT
62025371 ATATATATT
1 ATATATATT
62025380 ATATATATT
1 ATATATATT
62025389 ATATA
1 ATATA
62025394 ATAAAAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
6 2 0.04
7 6 0.13
8 13 0.28
9 26 0.55
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (9 bp):
ATATATATT
Found at i:62025712 original size:24 final size:24
Alignment explanation
Indices: 62025685--62025731 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
62025675 ATTGAAATGG
62025685 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
62025709 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
62025732 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:62035213 original size:37 final size:37
Alignment explanation
Indices: 62035162--62035335 Score: 280
Period size: 37 Copynumber: 4.8 Consensus size: 37
62035152 TTTGAGTACT
62035162 TCTGATCAAG--ACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
62035197 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
62035234 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
62035271 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
62035308 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
62035336 TAGCTTCAGC
Statistics
Matches: 132, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 10 0.08
37 122 0.92
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:62035407 original size:45 final size:46
Alignment explanation
Indices: 62035298--62035421 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
62035288 GTGATAAGTG
* *
62035298 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
62035344 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
62035389 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
62035422 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:62042898 original size:37 final size:37
Alignment explanation
Indices: 62042847--62043020 Score: 280
Period size: 37 Copynumber: 4.8 Consensus size: 37
62042837 TTTGAGTACT
62042847 TCTGATCAAG--ACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
62042882 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
62042919 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
62042956 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
62042993 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
62043021 TAGCTTCAGC
Statistics
Matches: 132, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 10 0.08
37 122 0.92
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:62043092 original size:45 final size:46
Alignment explanation
Indices: 62042983--62043106 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
62042973 GTGATAAGTG
* *
62042983 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
62043029 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
62043074 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
62043107 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:62045252 original size:88 final size:88
Alignment explanation
Indices: 62045095--62045717 Score: 732
Period size: 88 Copynumber: 7.0 Consensus size: 88
62045085 ATAGATTGAA
* * * *
62045095 GAAGATTGTAGATTTTGTCTTCTTGTACTGGCAGTGAAGTAGATCGAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTT
62045160 CCTGAGCAGCAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * * *
62045183 GAATATTGTAGATCTTGTCTTCCTGTACTAGCAGTGAAGCAGATCGAAAACACCAGTCTTATTTT
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTT
*
62045248 CCTGAACAGCAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* **
62045271 AAAGATTACAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTT
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTT
62045336 CCTGAGCAGCAGTGGAGTAGGTT
66 CCTGAGCAGCAGTGGAGTAGGTT
* * * * * *
62045359 GAAGATTGCAGATCTTGTCTTCCTGTATTGGCAATGAAGCAGATC-AAAATAACAAACCTTATCT
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAA-CACCAGCCTTATCT
* *
62045423 CCCTGAGCAGTAGTGGAGTAGGTT
65 TCCTGAGCAGCAGTGGAGTAGGTT
*
62045447 GAAGATTGTAGATCTTGTCTTCCTTTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTT
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTT
*
62045512 CCTAAGCAGCAGTGGAGTAAGTTTCAGTAGGTT
66 CCTGAGCAGCAGT---G---G----AGTAGGTT
* * * ** * *
62045545 TAAGATTGTAGATCTTGTCTTCTTGTATTAACAGTGAAGCAGATCGAAATA-ACAAACCTTATC-
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAA-ACACCAGCCTTATCT
* **
62045608 TCCTTGAACAGTTGTGGAGTAGGTT
65 TCC-TGAGCAGCAGTGGAGTAGGTT
* * * * * * *
62045633 GAAGATAGTAGATCTTGTCTTCTTGTATTGGCAGAGAAGTAGATCGAAGACACCAGTCTTATC-T
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTT
*
62045697 CCTTAAGCAGCAGTGGAGTAG
66 CC-TGAGCAGCAGTGGAGTAG
62045718 TGTAACACCC
Statistics
Matches: 458, Mismatches: 62, Indels: 30
0.83 0.11 0.05
Matches are distributed among these distances:
87 5 0.01
88 373 0.81
89 4 0.01
91 1 0.00
92 1 0.00
94 1 0.00
95 1 0.00
97 3 0.01
98 68 0.15
99 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (88 bp):
GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTT
CCTGAGCAGCAGTGGAGTAGGTT
Found at i:62045294 original size:44 final size:43
Alignment explanation
Indices: 62045160--62045383 Score: 123
Period size: 44 Copynumber: 5.1 Consensus size: 43
62045150 GCCTTATCTC
* * **
62045160 CCTGAGCAGCAGTGGAGTAGGTTGAATATTGTAGATCTTGTCTT
1 CCTGAACAGCAGTGGAGTAGGTT-AAAATTACAGATCTTGTCTT
* * * * * * * *
62045204 CCTGTACTAGCAGTGAAGCAGATCGAAAA-CACCAG-TCTTATTTT
1 CCTGAAC-AGCAGTGGAGTAGGT-TAAAATTA-CAGATCTTGTCTT
62045248 CCTGAACAGCAGTGGAGTAGGTTAAAGATTACAGATCTTGTCTT
1 CCTGAACAGCAGTGGAGTAGGTTAAA-ATTACAGATCTTGTCTT
* * * * * * * * *
62045292 CCTGTACTGGCAGTGAAGCAGATCGAAAA-CACCAG-CCTTATCTT
1 CCTGAAC-AGCAGTGGAGTAGGT-TAAAATTA-CAGATCTTGTCTT
* * *
62045336 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCTTGTCTT
1 CCTGAACAGCAGTGGAGTAGGTT-AAAATTACAGATCTTGTCTT
62045380 CCTG
1 CCTG
62045384 TATTGGCAAT
Statistics
Matches: 127, Mismatches: 41, Indels: 24
0.66 0.21 0.12
Matches are distributed among these distances:
42 3 0.02
43 33 0.26
44 56 0.44
45 32 0.25
46 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
CCTGAACAGCAGTGGAGTAGGTTAAAATTACAGATCTTGTCTT
Found at i:62045679 original size:186 final size:186
Alignment explanation
Indices: 62045175--62045716 Score: 637
Period size: 186 Copynumber: 3.0 Consensus size: 186
62045165 GCAGCAGTGG
* * * * * * * *
62045175 AGTAGGTTGAATATTGTAGATCTTGTCTTCCTGTACTAGCAGTGAAGCAGATCGAAAA-CACCAG
1 AGTAGGTTGAAGATTGCAGATCTTGTCTTCCTGTATTAACAATGAAGCAGATC-AAAATAACAAA
* * * * * * *
62045239 TCTTATTTTCCTGAACAGCAGTGGAGTAGGTTAAAGATTA-CAGATCTTGTCTTCCTGTACTGGC
65 CCTTATCTCCCTGAACAGTAGTGGAGTAGGTTGAAGA-TAGTAGATCTTGTCTTCCTTTACTGGC
* *
62045303 AGTGAAGCAGATCGAAAACACCAGCCTTATCTTCC-TGAGCAGCAGT---G---G----
129 AGAGAAGCAGATCGAAAACACCAGCCTTATC-TCCTTAAGCAGCAGTGGAGTAAGTTTC
**
62045351 AGTAGGTTGAAGATTGCAGATCTTGTCTTCCTGTATTGGCAATGAAGCAGATCAAAATAACAAAC
1 AGTAGGTTGAAGATTGCAGATCTTGTCTTCCTGTATTAACAATGAAGCAGATCAAAATAACAAAC
* *
62045416 CTTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTTTACTGGCAG
66 CTTATCTCCCTGAACAGTAGTGGAGTAGGTTGAAGATAGTAGATCTTGTCTTCCTTTACTGGCAG
*
62045481 TGAAGCAGATCGAAAACACCAGCCTTATCTTCC-TAAGCAGCAGTGGAGTAAGTTTC
131 AGAAGCAGATCGAAAACACCAGCCTTATC-TCCTTAAGCAGCAGTGGAGTAAGTTTC
* * * * *
62045537 AGTAGGTTTAAGATTGTAGATCTTGTCTTCTTGTATTAACAGTGAAGCAGATCGAAATAACAAAC
1 AGTAGGTTGAAGATTGCAGATCTTGTCTTCCTGTATTAACAATGAAGCAGATCAAAATAACAAAC
* * *
62045602 CTTATCTCCTTGAACAGTTGTGGAGTAGGTTGAAGATAGTAGATCTTGTCTT-CTTGTATTGGCA
66 CTTATCTCCCTGAACAGTAGTGGAGTAGGTTGAAGATAGTAGATCTTGTCTTCCTT-TACTGGCA
* * *
62045666 GAGAAGTAGATCGAAGACACCAGTCTTATCTCCTTAAGCAGCAGTGGAGTA
130 GAGAAGCAGATCGAAAACACCAGCCTTATCTCCTTAAGCAGCAGTGGAGTA
62045717 GTGTAACACC
Statistics
Matches: 318, Mismatches: 34, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
175 5 0.02
176 149 0.47
179 1 0.00
182 1 0.00
185 6 0.02
186 156 0.49
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (186 bp):
AGTAGGTTGAAGATTGCAGATCTTGTCTTCCTGTATTAACAATGAAGCAGATCAAAATAACAAAC
CTTATCTCCCTGAACAGTAGTGGAGTAGGTTGAAGATAGTAGATCTTGTCTTCCTTTACTGGCAG
AGAAGCAGATCGAAAACACCAGCCTTATCTCCTTAAGCAGCAGTGGAGTAAGTTTC
Found at i:62048054 original size:22 final size:23
Alignment explanation
Indices: 62048005--62048059 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
62047995 ACCTACTTTC
*
62048005 TTACTGTAGTAATTTTCGGAGTA
1 TTACAGTAGTAATTTTCGGAGTA
*
62048028 TTACAGTAGTAATTTTTGGA-TA
1 TTACAGTAGTAATTTTCGGAGTA
62048050 TTACAAGTAG
1 TTAC-AGTAG
62048060 GTTGAAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 6 0.21
23 23 0.79
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGAGTA
Found at i:62050296 original size:3 final size:3
Alignment explanation
Indices: 62050282--62050348 Score: 77
Period size: 3 Copynumber: 22.3 Consensus size: 3
62050272 TTATATTTAC
*
62050282 TTA TTCA TTA TTA TTA -TA TTA TTA -TA TT- TTA CTA TTA GCTTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA --TTA TTA
62050327 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
62050349 ATTTCTATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
2 6 0.11
3 44 0.79
4 3 0.05
5 3 0.05
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:62050301 original size:8 final size:8
Alignment explanation
Indices: 62050290--62050351 Score: 65
Period size: 8 Copynumber: 7.5 Consensus size: 8
62050280 ACTTATTCAT
62050290 TATTATTA
1 TATTATTA
62050298 TATTATTA
1 TATTATTA
62050306 TATT-TTA
1 TATTATTA
*
62050313 CTATTAGCT-
1 -TATTA-TTA
62050322 TATTATTA
1 TATTATTA
62050330 TTATTATTA
1 -TATTATTA
62050339 TTATTATTA
1 -TATTATTA
62050348 TATT
1 TATT
62050352 TCTATTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
7 4 0.09
8 25 0.53
9 17 0.36
10 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTATTA
Found at i:62050302 original size:50 final size:48
Alignment explanation
Indices: 62050248--62050370 Score: 135
Period size: 50 Copynumber: 2.5 Consensus size: 48
62050238 TTAATCTAGT
* *
62050248 TATTATCATATTTATATTTTCTTTTTA-TATTTACTTATTCATTATTATTA
1 TATTATCATATTTATATTTGCTTATTATTA-TTA-TTATT-ATTATTATTA
* *
62050298 TATTATTATATTTTACTATTAGCTTATTATTATTATTATTATTATTATTA
1 TATTATCATA-TTTA-TATTTGCTTATTATTATTATTATTATTATTATTA
*
62050348 TATT-TC-TATTTATATTTACTTAT
1 TATTATCATATTTATATTTGCTTAT
62050371 CTAAATTTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
46 9 0.14
47 4 0.06
48 2 0.03
49 1 0.02
50 23 0.37
51 9 0.14
52 13 0.21
53 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (48 bp):
TATTATCATATTTATATTTGCTTATTATTATTATTATTATTATTATTA
Found at i:62073535 original size:24 final size:24
Alignment explanation
Indices: 62073470--62073535 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 24
62073460 TTATGAGCGT
*
62073470 CCCGATATATGGCTCTGTGGAGCTA
1 CCCGTTATATGGCTCT-TGGAGCTA
* *
62073495 CCCGTTATATGGTTCTTGCGAGCTT
1 CCCGTTATATGGCTCTTG-GAGCTA
62073520 CCCGTT-TATGGCTCTT
1 CCCGTTATATGGCTCTT
62073536 ATGAGCTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 11 0.31
25 25 0.69
ACGTcount: A:0.14, C:0.26, G:0.24, T:0.36
Consensus pattern (24 bp):
CCCGTTATATGGCTCTTGGAGCTA
Found at i:62073541 original size:24 final size:24
Alignment explanation
Indices: 62073456--62073543 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 24
62073446 ATACACCGTA
* *
62073456 GCTCTTATGAGCGTCCCGATATATG
1 GCTCTTATGAGCTTCCCG-TTTATG
* *
62073481 GCTCTGT-GGAGCTACCCGTTATATG
1 GCTCT-TATGAGCTTCCCGTT-TATG
* **
62073506 GTTCTTGCGAGCTTCCCGTTTATG
1 GCTCTTATGAGCTTCCCGTTTATG
62073530 GCTCTTATGAGCTT
1 GCTCTTATGAGCTT
62073544 TTCGATAATT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 17 0.34
25 32 0.64
26 1 0.02
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGTTTATG
Found at i:62073607 original size:50 final size:50
Alignment explanation
Indices: 62073528--62073625 Score: 110
Period size: 50 Copynumber: 2.0 Consensus size: 50
62073518 TTCCCGTTTA
* * *
62073528 TGGCTCTTATGAGCTTTTCGATAATTGGCTTTTCAGAGCTTCGCGATAAC
1 TGGCTCTTATGAGCTTTCCGATAATTGGCTCTCCAGAGCTTCGCGATAAC
* * *
62073578 TGGCTCTTGTGAG-TTTCCTGATTAA-TGGCTCTCCGGAGCTTCTCGATA
1 TGGCTCTTATGAGCTTTCC-GA-TAATTGGCTCTCCAGAGCTTCGCGATA
62073626 TTGGCTCGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.10
50 33 0.82
51 3 0.08
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (50 bp):
TGGCTCTTATGAGCTTTCCGATAATTGGCTCTCCAGAGCTTCGCGATAAC
Found at i:62073706 original size:25 final size:25
Alignment explanation
Indices: 62073678--62073753 Score: 93
Period size: 25 Copynumber: 3.0 Consensus size: 25
62073668 CTGTTATACA
*
62073678 GCTCGAATGAGCTTCCCATTTCATG
1 GCTCGAATGAGCTTCCCGTTTCATG
62073703 GCTC-ACATGAGCTTCCCGTTAT-ATG
1 GCTCGA-ATGAGCTTCCCGTT-TCATG
*
62073728 GCTCGAAAGAGCTTCCCGTTTACATG
1 GCTCGAATGAGCTTCCCGTTT-CATG
62073754 TTGGCAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
24 2 0.05
25 37 0.84
26 5 0.11
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (25 bp):
GCTCGAATGAGCTTCCCGTTTCATG
Found at i:62075968 original size:23 final size:24
Alignment explanation
Indices: 62075924--62076025 Score: 91
Period size: 26 Copynumber: 4.2 Consensus size: 24
62075914 GGATAGCTAT
* * *
62075924 ATATCGAGAAGTTCAAG-CGAGCC
1 ATATCGAGAAGCTCATGAAGAGCC
*
62075947 ATATCGAGAAGCTC-TGGAGAGCC
1 ATATCGAGAAGCTCATGAAGAGCC
* *
62075970 ATTGATCAAGAAGCTCACGAAGAGCC
1 A-T-ATCGAGAAGCTCATGAAGAGCC
*
62075996 TTTAATCGAGAAGCTCATGAAGAGCC
1 -AT-ATCGAGAAGCTCATGAAGAGCC
62076022 ATAT
1 ATAT
62076026 AACGAGACTC
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
22 1 0.02
23 19 0.30
24 3 0.05
25 12 0.19
26 28 0.44
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (24 bp):
ATATCGAGAAGCTCATGAAGAGCC
Found at i:62076007 original size:26 final size:26
Alignment explanation
Indices: 62075942--62076032 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 26
62075932 AAGTTCAAGC
*
62075942 GAGCCA-T-ATCGAGAAGCTC-TGGA
1 GAGCCATTAATCGAGAAGCTCATGAA
* * *
62075965 GAGCCATTGATCAAGAAGCTCACGAA
1 GAGCCATTAATCGAGAAGCTCATGAA
*
62075991 GAGCCTTTAATCGAGAAGCTCATGAA
1 GAGCCATTAATCGAGAAGCTCATGAA
62076017 GAGCCATATAA-CGAGA
1 GAGCCAT-TAATCGAGA
62076033 CTCTTATAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
23 6 0.11
24 1 0.02
25 11 0.20
26 35 0.62
27 3 0.05
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (26 bp):
GAGCCATTAATCGAGAAGCTCATGAA
Found at i:62085577 original size:27 final size:25
Alignment explanation
Indices: 62085542--62085591 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
62085532 ATGTTACTAT
62085542 TTTAATAATATATATATTTCATCATTA
1 TTTAATAATA-A-ATATTTCATCATTA
*
62085569 TTTAATAATAAATGTTTCATCAT
1 TTTAATAATAAATATTTCATCAT
62085592 AGAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
26 1 0.05
27 10 0.45
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (25 bp):
TTTAATAATAAATATTTCATCATTA
Found at i:62088832 original size:17 final size:17
Alignment explanation
Indices: 62088810--62088850 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
62088800 TATTTTCTTT
62088810 CAAAGTTAACTAATAGA
1 CAAAGTTAACTAATAGA
**
62088827 CAAAGTTGGCTAATAGA
1 CAAAGTTAACTAATAGA
*
62088844 TAAAGTT
1 CAAAGTT
62088851 GGAGAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
CAAAGTTAACTAATAGA
Found at i:62088851 original size:17 final size:17
Alignment explanation
Indices: 62088819--62088852 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
62088809 TCAAAGTTAA
62088819 CTAATAGACAAAGTTGG
1 CTAATAGACAAAGTTGG
*
62088836 CTAATAGATAAAGTTGG
1 CTAATAGACAAAGTTGG
62088853 AGAAGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (17 bp):
CTAATAGACAAAGTTGG
Found at i:62089094 original size:14 final size:15
Alignment explanation
Indices: 62089064--62089098 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
62089054 CAAACTCGAG
*
62089064 GCCCAACAATCTCAA
1 GCCCAACAATCTAAA
62089079 GCCCAA-AATCTAAA
1 GCCCAACAATCTAAA
62089093 GCCCAA
1 GCCCAA
62089099 TACCTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.43, C:0.37, G:0.09, T:0.11
Consensus pattern (15 bp):
GCCCAACAATCTAAA
Found at i:62101586 original size:104 final size:104
Alignment explanation
Indices: 62101395--62101589 Score: 302
Period size: 104 Copynumber: 1.9 Consensus size: 104
62101385 TTTTTGAATC
* * * *
62101395 TTAGCAAAATTTGTTATCCTGATTAATTTATTCATCTCGAGCTTTGCTTTAAATAAAATTTCATT
1 TTAGCAAAATTTGCTATCCTGATTAACTTATTCATCTCAAGCTTTGCTTTAAATAAAATTTCATC
*
62101460 TTGTCCATTGTAATAATCTTTTTCAACTTATTTCGTATA
66 TTGTCCATTGTAACAATCTTTTTCAACTTATTTCGTATA
*
62101499 TTAGCAAAATTTGCTATCCTGATTAACTTATTCATCTCAAGCTTTG-TTCTCAATAAAATTTCAT
1 TTAGCAAAATTTGCTATCCTGATTAACTTATTCATCTCAAGCTTTGCTT-TAAATAAAATTTCAT
* *
62101563 CTTGTCCATTGTGACAATTTTTTTCAA
65 CTTGTCCATTGTAACAATCTTTTTCAA
62101590 ACGTTTTTCA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 2 0.02
104 80 0.98
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.46
Consensus pattern (104 bp):
TTAGCAAAATTTGCTATCCTGATTAACTTATTCATCTCAAGCTTTGCTTTAAATAAAATTTCATC
TTGTCCATTGTAACAATCTTTTTCAACTTATTTCGTATA
Found at i:62102759 original size:227 final size:227
Alignment explanation
Indices: 62102358--62102849 Score: 659
Period size: 227 Copynumber: 2.2 Consensus size: 227
62102348 AATCACCACA
* * * * * *
62102358 AATCCTATCTTCTTGAAGTTACAGCGGAGTAGATTAAAGATATCAAATCTTATTTCCCTGAAGTT
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTT
* * * * *
62102423 GTAGTGGAATAGATTAAATCTACCATAACATATCTCATCTCTCTGAAGTTGCAGTAGAGCAGGTT
66 GCAGTGGAACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGCAGTAGAGCAGGTT
* * *
62102488 GAAATAGCAAATCTTATCCCCATGAAGTTGCAGTGGGGCAAGTTGAAGTTACTAA-TCCTA-CGT
131 AAAATAGCAAATCTTATCCCCATGAAGTTGCAGTGGGACAAGTTGAAGATAC-AAGTCCTATC-T
* *
62102551 CTCTGAAGTTACAGTGGAGCAGATTAAAATGA-T
194 CCCTGAAATTACAGTGGAGCAGATTAAAATGACT
* * *
62102584 GGATCCTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGATAGCAAATTTTATTTCCCTAAAGT
1 -AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTAAAGT
*
62102649 TGCAGTGGAACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGT
65 TGCAGTGGAACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGCAGTAGAGCAGGT
* *
62102714 TAAAATAGTAAA-CATTATCCCCATGAAGTTGCAGTGGGACAAGTTGAAGATACAAGTCTTATCT
130 TAAAATAGCAAATC-TTATCCCCATGAAGTTGCAGTGGGACAAGTTGAAGATACAAGTCCTATCT
* * * *
62102778 CCCTGAAATTATAGTGGAGCAGATTGAAGTTACT
194 CCCTGAAATTACAGTGGAGCAGATTAAAATGACT
* * *
62102812 AATCCTACCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA
62102850 ATGATGGATC
Statistics
Matches: 230, Mismatches: 31, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
226 3 0.01
227 225 0.98
228 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (227 bp):
AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTT
GCAGTGGAACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGCAGTAGAGCAGGTT
AAAATAGCAAATCTTATCCCCATGAAGTTGCAGTGGGACAAGTTGAAGATACAAGTCCTATCTCC
CTGAAATTACAGTGGAGCAGATTAAAATGACT
Found at i:62102805 original size:44 final size:44
Alignment explanation
Indices: 62102757--62102935 Score: 139
Period size: 44 Copynumber: 4.0 Consensus size: 44
62102747 GTGGGACAAG
* * *
62102757 TTGAAGATACAAGTCTTATCTCCCTGAAATTATAGTGGAGCAGA
1 TTGAAGATACAAGTCCTATCTCCCTGAAGTTGTAGTGGAGCAGA
* * * *
62102801 TTGAAGTTACTAA-TCCTACCTCCCTGAAGTTGCAGTGGAGCGGA
1 TTGAAGATAC-AAGTCCTATCTCCCTGAAGTTGTAGTGGAGCAGA
* ** * *
62102845 TT-AAAATGA-TGGATCCTATCTCCCTGAAGTTGTAGAGGAGTAGA
1 TTGAAGAT-ACAAG-TCCTATCTCCCTGAAGTTGTAGTGGAGCAGA
* * * * * *
62102889 TTAAAGATAGCAAATCTTATTTCCCTGAAGTTTTAGTGGAACAGA
1 TTGAAGATA-CAAGTCCTATCTCCCTGAAGTTGTAGTGGAGCAGA
62102934 TT
1 TT
62102936 AAATCTACCA
Statistics
Matches: 102, Mismatches: 26, Indels: 13
0.72 0.18 0.09
Matches are distributed among these distances:
43 3 0.03
44 66 0.65
45 33 0.32
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (44 bp):
TTGAAGATACAAGTCCTATCTCCCTGAAGTTGTAGTGGAGCAGA
Found at i:62102949 original size:271 final size:271
Alignment explanation
Indices: 62102466--62103070 Score: 762
Period size: 271 Copynumber: 2.2 Consensus size: 271
62102456 CTCATCTCTC
* * * *
62102466 TGAAGTTGCAGTAGAGCAGGTTGAAATAGCAAATCTTATCCCCATGAAGTTGCAGTGGGGCAAGT
1 TGAAGTTGCAGTAGAGCAAGTTGAAATAGCAAATCTTATCCCCATGAAATTACAGTGGAGCAAGT
* *
62102531 TGAAGTTACTAATCCTACGTCTCTGAAGTTACAGTGGAGCAGATTAAAATGATGGATCCTATCTC
66 TGAAGTTACTAATCCTACCTCCCTGAAGTTACAGTGGAGCAGATTAAAATGATGGATCCTATCTC
* *
62102596 CCTGAAGTTACAGTGGAACAGATTAAAGATAGCAAATTTTATTTCCCTAAAGTTGCAGTGGAACA
131 CCTGAAGTTACAGAGGAACAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACA
62102661 AATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGTTAAAATAGTAAA
196 AATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGTTAAAATAGTAAA
62102726 CATTATCCCCA
261 CATTATCCCCA
* * *
62102737 TGAAGTTGCAGT-GGGACAAGTTGAAGATA-CAAGTCTTATCTCCC-TGAAATTATAGTGGAGC-
1 TGAAGTTGCAGTAGAG-CAAGTTGAA-ATAGCAAATCTTATC-CCCATGAAATTACAGTGGAGCA
* *
62102798 AGATTGAAGTTACTAATCCTACCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATGATGGATCCTA
63 AG-TTGAAGTTACTAATCCTACCTCCCTGAAGTTACAGTGGAGCAGATTAAAATGATGGATCCTA
** ** * **
62102863 TCTCCCTGAAGTTGTAGAGGAGTAGATTAAAGATAGCAAATCTTATTTCCCTGAAGTTTTAGTGG
127 TCTCCCTGAAGTTACAGAGGAACAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGG
* * ** * **
62102928 AACAGATTAAATCTACCATAACAGATCTCATCTCTCTGAAGTTACAATAGAGCA-G--ATCATA-
192 AACAAATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGTTAAAATAG
* * *
62102989 TCAAACTTTTTCTCTC-
257 T-AAACATTATC-CCCA
* * * * *
62103005 TAAAGTTGCAGTAGAGCAGGTTGAAATAGCAAACCTTATCCCCATGAAGTTGCAGT-GAGGCAAG
1 TGAAGTTGCAGTAGAGCAAGTTGAAATAGCAAATCTTATCCCCATGAAATTACAGTGGA-GCAAG
62103069 TT
65 TT
62103071 AAAGATACAA
Statistics
Matches: 285, Mismatches: 38, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
267 9 0.03
268 53 0.19
269 6 0.02
270 5 0.02
271 206 0.72
272 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (271 bp):
TGAAGTTGCAGTAGAGCAAGTTGAAATAGCAAATCTTATCCCCATGAAATTACAGTGGAGCAAGT
TGAAGTTACTAATCCTACCTCCCTGAAGTTACAGTGGAGCAGATTAAAATGATGGATCCTATCTC
CCTGAAGTTACAGAGGAACAGATTAAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACA
AATTAAATCTACCATAACAGATCTCATCTCTCTAAAGTTGTAGTAGAGCAGGTTAAAATAGTAAA
CATTATCCCCA
Found at i:62107739 original size:10 final size:10
Alignment explanation
Indices: 62107724--62107748 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
62107714 GTGTGATCTT
62107724 GCTCCGACCC
1 GCTCCGACCC
62107734 GCTCCGACCC
1 GCTCCGACCC
62107744 GCTCC
1 GCTCC
62107749 AACCTTTACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.60, G:0.20, T:0.12
Consensus pattern (10 bp):
GCTCCGACCC
Found at i:62111838 original size:19 final size:21
Alignment explanation
Indices: 62111814--62111866 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 21
62111804 GAATTTATAA
62111814 ATTATAAAATTTATT-AA-AT
1 ATTATAAAATTTATTGAATAT
*
62111833 ATTATAAAATATTTTTGAATAT
1 ATTATAAAAT-TTATTGAATAT
62111855 ATTATGAAAATT
1 ATTAT-AAAATT
62111867 ATGAAAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 10 0.34
20 4 0.14
21 2 0.07
22 8 0.28
23 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTATAAAATTTATTGAATAT
Found at i:62112245 original size:10 final size:9
Alignment explanation
Indices: 62112204--62112264 Score: 61
Period size: 10 Copynumber: 6.3 Consensus size: 9
62112194 AAGCTTTTAG
62112204 AAATTATTAA
1 AAATTA-TAA
62112214 AATATTATAA
1 AA-ATTATAA
62112224 AAATGT-TAA
1 AAAT-TATAA
62112233 AAATTATAGA
1 AAATTATA-A
*
62112243 AAATTATAT
1 AAATTATAA
62112252 AAATTATTAA
1 AAATTA-TAA
62112262 AAA
1 AAA
62112265 AATTAGAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 1 0.02
9 17 0.39
10 22 0.50
11 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:62113288 original size:22 final size:21
Alignment explanation
Indices: 62113258--62113301 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
62113248 ATTTCAACTA
* *
62113258 AAACCTTATTTATTTTTAACAT
1 AAACCTTATATATATTT-ACAT
*
62113280 AAACTTTATATATATTTACAT
1 AAACCTTATATATATTTACAT
62113301 A
1 A
62113302 TTTGTTTCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (21 bp):
AAACCTTATATATATTTACAT
Found at i:62126442 original size:66 final size:66
Alignment explanation
Indices: 62126361--62126492 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
62126351 TTTCTTATGT
62126361 CTTATAAGTTGCATTATTTATCCACATAAATTCATGTTTAATCTTAAAAATACAAGAGATTAGTG
1 CTTATAAGTTGCATTATTTATCCACATAAATTCATGTTTAATCTTAAAAATACAAGAGATTAGTG
62126426 A
66 A
62126427 CTTATAAGTTGCATTATTTATCCACATAAATTCATGTTTAATCTTAAAAATACAAGAGATTAGTG
1 CTTATAAGTTGCATTATTTATCCACATAAATTCATGTTTAATCTTAAAAATACAAGAGATTAGTG
62126492 A
66 A
62126493 GTTGCTTTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (66 bp):
CTTATAAGTTGCATTATTTATCCACATAAATTCATGTTTAATCTTAAAAATACAAGAGATTAGTG
A
Found at i:62128192 original size:23 final size:23
Alignment explanation
Indices: 62128157--62128201 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62128147 TCTTATTTAA
**
62128157 TTCAAATTTATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
62128180 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
62128202 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:62128570 original size:92 final size:92
Alignment explanation
Indices: 62128413--62128597 Score: 277
Period size: 92 Copynumber: 2.0 Consensus size: 92
62128403 TTGATTTTAG
* * *
62128413 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
*
62128478 ATTTAA-TATTAATTATTTTAAATTATA
66 ATGTAATTATT-ATTATTTTAAATTATA
*
62128505 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATT
62128568 ATATGTAATTATTATTATTTTAAATTATA
64 ATATGTAATTATTATTATTTTAAATTATA
62128597 T
1 T
62128598 TCATAAAATA
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
90 1 0.01
91 29 0.34
92 51 0.60
93 4 0.05
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (92 bp):
TAAATTCATATAAGAACAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
ATGTAATTATTATTATTTTAAATTATA
Found at i:62128788 original size:16 final size:16
Alignment explanation
Indices: 62128767--62128808 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
62128757 TTATTAAATT
*
62128767 ATATATTTTAATTATA
1 ATATATTTTAATAATA
62128783 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
62128798 AT-TATGTTTAA
1 ATATAT-TTTAA
62128809 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:62128793 original size:15 final size:15
Alignment explanation
Indices: 62128758--62128799 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62128748 TTAAGAATTT
*
62128758 TATTAAATTAT-ATA
1 TATTTAATTATAATA
62128772 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
62128786 TATTTAATAATAAT
1 TATTTAATTATAAT
62128800 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:62131488 original size:16 final size:16
Alignment explanation
Indices: 62131463--62131498 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
62131453 GATTTGCTAT
*
62131463 TACACCTCTAATCCAA
1 TACACATCTAATCCAA
*
62131479 TACACATCTAATCTAA
1 TACACATCTAATCCAA
62131495 TACA
1 TACA
62131499 GCGAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.31, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACATCTAATCCAA
Found at i:62143162 original size:24 final size:25
Alignment explanation
Indices: 62143054--62143204 Score: 132
Period size: 25 Copynumber: 6.1 Consensus size: 25
62143044 ATTCGAGAAT
*
62143054 GCTCATACGAGCACATA-AACAGGAA
1 GCTCATGCGAGC-CATATAACAGGAA
* **
62143079 GCTCTTTTGAGCCATATAACAGGAA
1 GCTCATGCGAGCCATATAACAGGAA
* *
62143104 GCTCATGTGAGCCATGTAACAGGAA
1 GCTCATGCGAGCCATATAACAGGAA
*
62143129 GCTCATGCGAGCCA-ATATCAGGAA
1 GCTCATGCGAGCCATATAACAGGAA
* * * *
62143153 GTTCAAGCGAGCCA-ATATCGGGAA
1 GCTCATGCGAGCCATATAACAGGAA
*
62143177 GCTC-TGGAGAGCCAT-TAATCAGGAA
1 GCTCAT-GCGAGCCATATAA-CAGGAA
62143202 GCT
1 GCT
62143205 TATAAAAGCT
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
24 45 0.43
25 60 0.57
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
GCTCATGCGAGCCATATAACAGGAA
Found at i:62143243 original size:25 final size:25
Alignment explanation
Indices: 62143168--62143265 Score: 71
Period size: 25 Copynumber: 3.9 Consensus size: 25
62143158 AGCGAGCCAA
* *
62143168 TATCGGGAAGCTCTGGAGAGCCA-T
1 TATCGGAAAGCTCTGAAGAGCCAGT
* * *
62143192 TAATCAGG-AAGCT-TATAAAAGCTAGT
1 T-ATC-GGAAAGCTCT-GAAGAGCCAGT
62143218 TATCGGAAAGCTCTGAAGAGCCAGT
1 TATCGGAAAGCTCTGAAGAGCCAGT
62143243 TATC-GAGAAGCTC-GCAAGAGCCA
1 TATCGGA-AAGCTCTG-AAGAGCCA
62143266 TATAACGGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
24 7 0.12
25 47 0.80
26 5 0.08
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (25 bp):
TATCGGAAAGCTCTGAAGAGCCAGT
Found at i:62143383 original size:25 final size:25
Alignment explanation
Indices: 62143349--62143396 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
62143339 GATCACAACC
62143349 AATCAGGATGCTCATAAGAGCTATG
1 AATCAGGATGCTCATAAGAGCTATG
* * *
62143374 AATCGGGATGCTTATGAGAGCTA
1 AATCAGGATGCTCATAAGAGCTA
62143397 ATAATGGGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (25 bp):
AATCAGGATGCTCATAAGAGCTATG
Found at i:62146504 original size:11 final size:11
Alignment explanation
Indices: 62146488--62146516 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
62146478 GATAAACAAC
62146488 TCTTTTTTTTT
1 TCTTTTTTTTT
62146499 TCTTTTTTTTT
1 TCTTTTTTTTT
62146510 T-TTTTTT
1 TCTTTTTT
62146517 ACACTCCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:62148168 original size:20 final size:22
Alignment explanation
Indices: 62148146--62148193 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
62148136 TATTTAAAAT
62148146 AAATAATATAAA-A-TTTTAATA
1 AAAT-ATATAAATAGTTTTAATA
*
62148167 AAATTTATAAATAGTTTTAATA
1 AAATATATAAATAGTTTTAATA
62148189 AAATA
1 AAATA
62148194 AAAATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
22 12 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATATATAAATAGTTTTAATA
Found at i:62148204 original size:20 final size:21
Alignment explanation
Indices: 62148157--62148204 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
62148147 AATAATATAA
*
62148157 AATTTTAATAAAATTTATAAAT
1 AATTTTAATAAAA-TTAAAAAT
*
62148179 AGTTTTAATAAAA-TAAAAAT
1 AATTTTAATAAAATTAAAAAT
62148199 AATTTT
1 AATTTT
62148205 TGAAGTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 11 0.48
22 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTTTAATAAAATTAAAAAT
Found at i:62153413 original size:18 final size:19
Alignment explanation
Indices: 62153382--62153425 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
62153372 TAAAAATATG
*
62153382 TTTTTATACTTTTTAATAA
1 TTTTTATACATTTTAATAA
* *
62153401 TTTTTATA-ATTTTAGTAT
1 TTTTTATACATTTTAATAA
62153419 TTTTTAT
1 TTTTTAT
62153426 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTTATACATTTTAATAA
Found at i:62161336 original size:22 final size:21
Alignment explanation
Indices: 62161298--62161344 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
62161288 TATTGAATAT
*
62161298 AATTAAAATATATTAATTTATA
1 AATTAAAATATATTAATATA-A
*
62161320 AATTCAAATAT-TATAATATAA
1 AATTAAAATATAT-TAATATAA
62161341 AATT
1 AATT
62161345 TTAAAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTAAAATATATTAATATAA
Found at i:62163520 original size:12 final size:13
Alignment explanation
Indices: 62163493--62163521 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
62163483 CGTTCGTTTT
62163493 ATTTTACTTCTAA
1 ATTTTACTTCTAA
62163506 ATTTTACTT-TAA
1 ATTTTACTTCTAA
62163518 ATTT
1 ATTT
62163522 CAGTCCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTACTTCTAA
Done.