Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 176 of 344
Found at i:58675818 original size:36 final size:35
Alignment explanation
Indices: 58675768--58675880 Score: 86
Period size: 36 Copynumber: 3.5 Consensus size: 35
58675758 CCACTCCACC
* *
58675768 TCCTGCACCTCCACCCAGCCCATGGCCACTGCCAAG
1 TCCTCCACCACCACCCAGCCCATGGCCAC-GCCAAG
58675804 TCCTCCACCACCACCCA----AT--CCA--CC---
1 TCCTCCACCACCACCCAGCCCATGGCCACGCCAAG
* * *
58675828 TCCTGCACCTCCTCCCAGCCCATGGCCACCGCCAAG
1 TCCTCCACCACCACCCAGCCCATGGCCA-CGCCAAG
58675864 TCCTCCACCACCACCCA
1 TCCTCCACCACCACCCA
58675881 ATCTACCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 24
0.64 0.09 0.27
Matches are distributed among these distances:
24 14 0.25
27 2 0.04
28 2 0.04
30 6 0.11
32 2 0.04
33 2 0.04
36 29 0.51
ACGTcount: A:0.20, C:0.56, G:0.11, T:0.13
Consensus pattern (35 bp):
TCCTCCACCACCACCCAGCCCATGGCCACGCCAAG
Found at i:58676017 original size:120 final size:118
Alignment explanation
Indices: 58675653--58676022 Score: 343
Period size: 120 Copynumber: 3.1 Consensus size: 118
58675643 CCACCTCCTG
* * * * * *
58675653 CACCTCCACCAAGCCCATGGCCCCCACCGAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
1 CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTG--CCT
* * * * * * ** **
58675718 CCACCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCACTCCACCTCCTG
64 CCTCCAAGCCCATGACCACCCCCAAGTCCACCACCACCACCCAATCCACCAACAC
* *
58675773 CACCTCCACCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCT
1 CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTG--CCT
* * * * * ** **
58675838 CCTCCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCTACCTTCTG
64 CCTCCAAGCCCATGACCACCCCCAAGTCCACCACCACCACCCAATCCACCAACAC
*
58675893 CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCGCCCAATCCACCTCCTG-CTCC
1 CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCCTCC
***
58675957 TCCAAGCTTGTGACCACCACCCAA-TCCACCACCTGCACC-CCCAA-CAACACCAACAC
66 TCCAAGCCCATGACCACC-CCCAAGTCCACCA-C--CACCACCCAATC--CACCAACAC
58676013 CACCTCCACC
1 CACCTCCACC
58676023 ACCTAATCCT
Statistics
Matches: 219, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
117 23 0.11
118 6 0.03
119 5 0.02
120 185 0.84
ACGTcount: A:0.22, C:0.56, G:0.09, T:0.12
Consensus pattern (118 bp):
CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCCTCC
TCCAAGCCCATGACCACCCCCAAGTCCACCACCACCACCCAATCCACCAACAC
Found at i:58676019 original size:180 final size:178
Alignment explanation
Indices: 58675653--58676023 Score: 435
Period size: 180 Copynumber: 2.1 Consensus size: 178
58675643 CCACCTCCTG
* *
58675653 CACCTCCACCAAGCCCATGGCCCCCACCGAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
1 CACCTCCACCAAGCCCATGGCCACCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
* *
58675718 CCACCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCACTCCACCTCCTGCACCTCCACC
66 CCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCACCTCCA--
* ** * ** **
58675783 CAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTG
129 CAGCCCATGACCACACCCAAGTCCACCACCACCACCCAATCCACCAACAC
* * * * * *
58675833 CACCTCCTCCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCTACCTTCTGCACCT
1 CACCTCCACCAAGCCCATGGCCACCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
* *
58675898 CCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCGCCCAATCCACCTCCTGCTCCTCCA-A
66 CCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCACCTCCACA
***
58675962 GCTTGTGACCACCACCCAA-TCCACCACCTGCACC-CCCAA-CAACACCAACAC
131 GCCCATGACCA-CACCCAAGTCCACCA-C--CACCACCCAATC--CACCAACAC
58676013 CACCTCCACCA
1 CACCTCCACCA
58676024 CCTAATCCTC
Statistics
Matches: 160, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
177 14 0.09
178 7 0.04
179 5 0.03
180 134 0.84
ACGTcount: A:0.22, C:0.56, G:0.09, T:0.12
Consensus pattern (178 bp):
CACCTCCACCAAGCCCATGGCCACCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
CCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCACCTCCACA
GCCCATGACCACACCCAAGTCCACCACCACCACCCAATCCACCAACAC
Found at i:58676084 original size:15 final size:15
Alignment explanation
Indices: 58676004--58676103 Score: 62
Period size: 15 Copynumber: 6.5 Consensus size: 15
58675994 CCCCCAACAA
*
58676004 CACCAACACCACCTC
1 CACCACCACCACCTC
*
58676019 CACCACCTAATCCTCCTC
1 CACCACC--A-CCACCTC
58676037 C-CGCACCACCA-C-C
1 CAC-CACCACCACCTC
* *
58676050 CAGGCCTCCACCAACTC
1 CA--CCACCACCACCTC
*
58676067 CACCACCAGCACCTC
1 CACCACCACCACCTC
**
58676082 CACCAAGACCACCTC
1 CACCACCACCACCTC
58676097 CACCACC
1 CACCACC
58676104 TAATCCTCCT
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
13 2 0.03
14 1 0.02
15 42 0.66
16 3 0.05
17 5 0.08
18 11 0.17
ACGTcount: A:0.27, C:0.59, G:0.05, T:0.09
Consensus pattern (15 bp):
CACCACCACCACCTC
Found at i:58676093 original size:24 final size:24
Alignment explanation
Indices: 58676040--58676104 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
58676030 CCTCCTCCCG
*
58676040 CACCACCACCCAG-GCCTCCACCAA
1 CACCACCA-CCAGCACCTCCACCAA
*
58676064 CTCCACCACCAGCACCTCCACCAA
1 CACCACCACCAGCACCTCCACCAA
* * *
58676088 GACCACCTCCACCACCT
1 CACCACCACCAGCACCT
58676105 AATCCTCCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.28, C:0.58, G:0.06, T:0.08
Consensus pattern (24 bp):
CACCACCACCAGCACCTCCACCAA
Found at i:58676135 original size:21 final size:21
Alignment explanation
Indices: 58676118--58676227 Score: 97
Period size: 21 Copynumber: 5.4 Consensus size: 21
58676108 CCTCCTCCCG
58676118 CACCACCACCTAGGCCTCCAC
1 CACCACCACCTAGGCCTCCAC
* * *
58676139 CA-C-CC-CCAAGACCTCCTC
1 CACCACCACCTAGGCCTCCAC
*
58676157 CACCACCTAATCCT---CCTCCCC
1 CACCACC--A-CCTAGGCCTCCAC
58676178 CACCACCACCTAGGCCTCCAC
1 CACCACCACCTAGGCCTCCAC
* *
58676199 CACCGCCACCTAGCCCTCCAC
1 CACCACCACCTAGGCCTCCAC
58676220 CACCACCA
1 CACCACCA
58676228 AAGCCTCCAC
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
18 15 0.21
19 4 0.06
20 3 0.04
21 47 0.66
24 2 0.03
ACGTcount: A:0.23, C:0.60, G:0.06, T:0.11
Consensus pattern (21 bp):
CACCACCACCTAGGCCTCCAC
Found at i:58676139 original size:18 final size:18
Alignment explanation
Indices: 58676118--58676239 Score: 82
Period size: 18 Copynumber: 6.3 Consensus size: 18
58676108 CCTCCTCCCG
58676118 CACCACCACCTAGGCCTC
1 CACCACCACCTAGGCCTC
* * *
58676136 CACCACCCCCAAGACCTC
1 CACCACCACCTAGGCCTC
* **
58676154 CTCCACCACCTAATCCTCCTCCCC
1 CACCACCACCT-A--GGCCT---C
58676178 CACCACCACCTAGGCCTC
1 CACCACCACCTAGGCCTC
*
58676196 CACCACCGCCACCTAGCCCTC
1 CACCA---CCACCTAGGCCTC
* *
58676217 CACCACCACCAAAGCCTC
1 CACCACCACCTAGGCCTC
58676235 CACCA
1 CACCA
58676240 GCAGCCCCAC
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
18 44 0.55
19 1 0.01
21 23 0.29
23 1 0.01
24 11 0.14
ACGTcount: A:0.24, C:0.59, G:0.07, T:0.11
Consensus pattern (18 bp):
CACCACCACCTAGGCCTC
Found at i:58676181 original size:78 final size:78
Alignment explanation
Indices: 58676004--58676163 Score: 230
Period size: 78 Copynumber: 2.1 Consensus size: 78
58675994 CCCCCAACAA
* *
58676004 CACCAACACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCTCCACCAACTCCA
1 CACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCTCCACCAACCCCA
* * *
58676069 CCACCAGCACCTC
66 ACACCACCACCAC
* *
58676082 CACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCTAGGCCTCCACCACCCCCA
1 CACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCTCCACCAACCCCA
* * *
58676147 AGACCTCCTCCAC
66 ACACCACCACCAC
58676160 CACC
1 CACC
58676164 TAATCCTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.25, C:0.59, G:0.06, T:0.11
Consensus pattern (78 bp):
CACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCTCCACCAACCCCA
ACACCACCACCAC
Found at i:58676207 original size:24 final size:24
Alignment explanation
Indices: 58676156--58676227 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
58676146 AAGACCTCCT
** * *
58676156 CCACCACCTAATCCTCCTCCCCCA
1 CCACCACCTAGCCCTCCACCACCA
*
58676180 CCACCACCTAGGCCT---CCACCA
1 CCACCACCTAGCCCTCCACCACCA
*
58676201 CCGCCACCTAGCCCTCCACCACCA
1 CCACCACCTAGCCCTCCACCACCA
58676225 CCA
1 CCA
58676228 AAGCCTCCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 18 0.46
24 21 0.54
ACGTcount: A:0.22, C:0.61, G:0.06, T:0.11
Consensus pattern (24 bp):
CCACCACCTAGCCCTCCACCACCA
Found at i:58676223 original size:60 final size:60
Alignment explanation
Indices: 58676084--58676202 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
58676074 AGCACCTCCA
* *
58676084 CCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCTAGGCCTCCACCACCC
1 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCC
58676144 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACC
1 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACC
58676203 GCCACCTAGC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.23, C:0.59, G:0.06, T:0.13
Consensus pattern (60 bp):
CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCC
Found at i:58676235 original size:60 final size:59
Alignment explanation
Indices: 58676084--58676235 Score: 155
Period size: 60 Copynumber: 2.5 Consensus size: 59
58676074 AGCACCTCCA
* * ** *
58676084 CCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCTAGGCCTCCACCACCC
1 CCAAGACCTCCACCACCACCTAA-CAGCCTCCCCCACCACCACCTAGGCCTCCACCACCC
* **
58676144 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCGCC
1 CCAAGACCTCCACCACCACCTAA-CAGCCTCCCCCACCACCACCTAGGCCTCCACCA-C-CC
* *
58676206 ACCTAGCCCTCCACCACCACC-AA-AGCCTCC
1 -CCAAGACCTCCACCACCACCTAACAGCCTCC
58676236 ACCAGCAGCC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
60 60 0.73
61 1 0.01
62 4 0.05
63 17 0.21
ACGTcount: A:0.23, C:0.59, G:0.07, T:0.12
Consensus pattern (59 bp):
CCAAGACCTCCACCACCACCTAACAGCCTCCCCCACCACCACCTAGGCCTCCACCACCC
Found at i:58676293 original size:12 final size:12
Alignment explanation
Indices: 58676278--58676312 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
58676268 CAATACCTCC
58676278 ACCACCACCAAA
1 ACCACCACCAAA
* *
58676290 ACCACCACCTAG
1 ACCACCACCAAA
58676302 ACCACCACCAA
1 ACCACCACCAA
58676313 TGCCATGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.51, G:0.03, T:0.03
Consensus pattern (12 bp):
ACCACCACCAAA
Found at i:58680357 original size:42 final size:42
Alignment explanation
Indices: 58680257--58680369 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 42
58680247 AACGTATAGA
* *
58680257 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGACAG-GGTCTTATATGAAATCAAATATCG
*
58680300 ATGCCACTGTCCCAGACAGGGTCTTATATGAAATCATATA-CG
1 ATGCCA-TGTCCCAGACAGGGTCTTATATGAAATCAAATATCG
*
58680342 ATGCCGATGTCCCAGACATGGTCTTATA
1 ATGCC-ATGTCCCAGACAGGGTCTTATA
58680370 CGTAAAATAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
42 28 0.44
43 34 0.54
44 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACAGGGTCTTATATGAAATCAAATATCG
Found at i:58683401 original size:12 final size:12
Alignment explanation
Indices: 58683382--58683423 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
58683372 TCCTACACGT
58683382 CCGTGTGCTAGA
1 CCGTGTGCTAGA
* *
58683394 CTGTGTGCTAGG
1 CCGTGTGCTAGA
*
58683406 CCGTGTGCTAGG
1 CCGTGTGCTAGA
58683418 CCGTGT
1 CCGTGT
58683424 AACTCACTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.10, C:0.24, G:0.38, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGA
Found at i:58683981 original size:40 final size:39
Alignment explanation
Indices: 58683926--58684028 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 39
58683916 ATTATTTGAT
*
58683926 TTAGGGTTACCAAAGTACAAACAGCGGCACGTATGTAAAC
1 TTAGGGGTACCAAAGTACAAACAGCGGCAC-TATGTAAAC
* * * * ** *
58683966 TTAGGGGTACTAAAGTATAAATAGGGGCACTATGTGTAT
1 TTAGGGGTACCAAAGTACAAACAGCGGCACTATGTAAAC
* * *
58684005 TTAGGGGTATCGAAGTAGAAACAG
1 TTAGGGGTACCAAAGTACAAACAG
58684029 GGACACGCAT
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
39 25 0.50
40 25 0.50
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.24
Consensus pattern (39 bp):
TTAGGGGTACCAAAGTACAAACAGCGGCACTATGTAAAC
Found at i:58684053 original size:40 final size:40
Alignment explanation
Indices: 58683938--58684167 Score: 182
Period size: 40 Copynumber: 5.8 Consensus size: 40
58683928 AGGGTTACCA
* ** *
58683938 AAGTACAAACAGCGGCACGTATGTAAACTT-AGGGGTACTA-
1 AAGTACAAACAGGGGCACGTATGTGCA-TTCAAGGGTAC-AG
* * * * *
58683978 AAGTATAAATAGGGGCAC-TATGTGTATTTAGGGGTATC-G
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTA-CAG
* * *
58684017 AAGTAGAAACAGGGACACGCATGTGCATTCAAGGGTATC-G
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTA-CAG
* * * *
58684057 AAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTACAG
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACAG
* * * *
58684097 AAGTACAAACAGGGGCACATATATGTATTCAAGGGTACTG
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACAG
** *
58684137 AAGTACAAACAGGGGCATATATGTGCTTTCA
1 AAGTACAAACAGGGGCACGTATGTGCATTCA
58684168 TACAATAATT
Statistics
Matches: 154, Mismatches: 31, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
38 2 0.01
39 29 0.19
40 123 0.80
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACAG
Found at i:58684107 original size:80 final size:80
Alignment explanation
Indices: 58683970--58684151 Score: 217
Period size: 80 Copynumber: 2.3 Consensus size: 80
58683960 GTAAACTTAG
* * * * * * *
58683970 GGGTACTAAAGTATAAATAGGGGCAC-TATGTGTATTTAGGGGTATCGAAGTAGAAACAGGGACA
1 GGGTACTGAAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTATCGAAGTACAAACAGGGACA
* *
58684034 CGCATGTGCATTCAA
66 CACATATGCATTCAA
*
58684049 GGGTA-TCGAAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTA-CAGAAGTACAAACAGGGG
1 GGGTACT-GAAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTATC-GAAGTACAAACAGGGA
* *
58684112 CACATATATGTATTCAA
64 CACACATATGCATTCAA
58684129 GGGTACTGAAGTACAAACAGGGG
1 GGGTACTGAAGTACAAACAGGGG
58684152 CATATATGTG
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 21 0.24
80 64 0.74
81 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (80 bp):
GGGTACTGAAGTACAAACAGGGGTACGTAGGTGCATTTAGGGGTATCGAAGTACAAACAGGGACA
CACATATGCATTCAA
Found at i:58684110 original size:20 final size:19
Alignment explanation
Indices: 58684049--58684111 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
58684039 GTGCATTCAA
58684049 GGGTATCGAAGTACAAACAG
1 GGGTA-CGAAGTACAAACAG
* * ***
58684069 GGGTACGTAGGTGCATTTAG
1 GGGTACG-AAGTACAAACAG
58684089 GGGTACAGAAGTACAAACAG
1 GGGTAC-GAAGTACAAACAG
58684109 GGG
1 GGG
58684112 CACATATATG
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.90
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.37, T:0.17
Consensus pattern (19 bp):
GGGTACGAAGTACAAACAG
Found at i:58690307 original size:27 final size:27
Alignment explanation
Indices: 58690261--58690335 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
58690251 ATTACTGAAA
* * *
58690261 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCAAAG
* ****
58690288 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCAAAG
58690315 TACCCTCGATTTATAGAATTA
1 TACCCTCGATTTATAGAATTA
58690336 TCGTTTTACC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCAAAG
Found at i:58690336 original size:27 final size:27
Alignment explanation
Indices: 58690288--58690375 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
58690278 ATTACCAAAG
58690288 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
58690315 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
* * * *
58690342 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTATCGTTT
58690369 TACCCTC
1 TACCCTC
58690376 AATTGTGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTATCGTTT
Found at i:58690441 original size:27 final size:26
Alignment explanation
Indices: 58690411--58690508 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 26
58690401 TGTAGGATAG
*
58690411 AATTACCAAAATACCACTGGTTTGAAA
1 AATTACCAAAATACC-CTGATTTGAAA
* * *
58690438 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-GATTTGAAA
58690465 AATTACCAAAATACCCCTGATTT-ACAA
1 AATTACCAAAATA-CCCTGATTTGA-AA
*
58690492 AATTACAAAAATACCCT
1 AATTACCAAAATACCCT
58690509 TGACTTTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.10
27 50 0.83
28 4 0.07
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (26 bp):
AATTACCAAAATACCCTGATTTGAAA
Found at i:58693115 original size:27 final size:27
Alignment explanation
Indices: 58693080--58693266 Score: 259
Period size: 27 Copynumber: 7.0 Consensus size: 27
58693070 ATATATACAT
* * * *
58693080 CACAT-AGGGTAAAACATTCATCTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
58693106 CAAATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
58693133 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
58693160 CACATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
58693187 CACATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
58693214 CACATAATGGAAAAACAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
58693241 CACATAAGGGCAAAATGGTCATTTTA
1 CACATAAGGGAAAAATAGTCATTTTA
58693267 TCAATTAGGG
Statistics
Matches: 146, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
26 4 0.03
27 142 0.97
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (27 bp):
CACATAAGGGAAAAATAGTCATTTTAC
Found at i:58694763 original size:93 final size:93
Alignment explanation
Indices: 58694604--58694775 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
58694594 TGCCCATAAG
* * * *
58694604 CGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATGAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58694669 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
58694697 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58694762 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
58694776 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58694765 original size:46 final size:46
Alignment explanation
Indices: 58694597--58694772 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
58694587 TGTAACCTGC
* * * * *
58694597 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * *
58694643 CCATGAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
58694693 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
58694736 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58694773 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:58694791 original size:46 final size:46
Alignment explanation
Indices: 58694648--58694792 Score: 124
Period size: 46 Copynumber: 3.1 Consensus size: 46
58694638 CGCATCCATG
*
58694648 AGTGAACTTGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCTC
* * * *
58694696 A-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCA--TA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTC
58694741 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC-C
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTC
58694786 TAGTGAA
1 -AGTGAA
58694793 ATGTCACTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
44 7 0.09
45 3 0.04
46 34 0.44
47 29 0.37
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTC
Found at i:58699193 original size:27 final size:27
Alignment explanation
Indices: 58699153--58699263 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
58699143 AGGAAGCATC
* * *
58699153 CTGGTAGCTATGCCCCAATTATCTGA-T
1 CTGGTGGCTCTGCCACAATTATCT-ATT
58699180 CTGGTGGCTCTGCCAC-ATATATCTATT
1 CTGGTGGCTCTGCCACAAT-TATCTATT
58699207 CTGGTGGCTCTGCCACAATTATCTATT
1 CTGGTGGCTCTGCCACAATTATCTATT
* * * * *
58699234 TTGGTGACTCTGTCAC-ATTATTTGTT
1 CTGGTGGCTCTGCCACAATTATCTATT
58699260 CTGG
1 CTGG
58699264 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 14 0.19
27 56 0.78
28 2 0.03
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTATT
Found at i:58702080 original size:20 final size:20
Alignment explanation
Indices: 58702055--58702120 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
58702045 CTTATATACA
*
58702055 CAGGGGCACGTATGTGCACT
1 CAGGGGCACGTATGTGCAAT
* ** * * *
58702075 CAGGGGTACCAAAGTGTAAA
1 CAGGGGCACGTATGTGCAAT
*
58702095 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCAAT
58702115 CAGGGG
1 CAGGGG
58702121 TACCGAGGTA
Statistics
Matches: 32, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.36, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:58702136 original size:40 final size:40
Alignment explanation
Indices: 58702054--58702157 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
58702044 GCTTATATAC
* **
58702054 ACAGGGGCACGTATGTGCACTCAGGGGTACCAAAGTGTAA
1 ACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
* *
58702094 ACAGGGGCACGTATGTGCATTCAGGGGTACCGAGGTACAA
1 ACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
** *
58702134 ACAAAGGCACGCATGTGCATTCAG
1 ACAGGGGCACGTATGTGCATTCAG
58702158 ACAATAATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.30, C:0.21, G:0.32, T:0.17
Consensus pattern (40 bp):
ACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
Found at i:58705730 original size:24 final size:24
Alignment explanation
Indices: 58705696--58705746 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
58705686 ACAAACGCAA
*
58705696 CTCTTCATGAG-TGTCCTGATATAGG
1 CTCTTCATGAGCT-TCCTGACAT-GG
58705721 CTCTT-ATGAGCTTCCTGACATGG
1 CTCTTCATGAGCTTCCTGACATGG
58705744 CTC
1 CTC
58705747 ACTTGAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 13 0.54
25 6 0.25
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
CTCTTCATGAGCTTCCTGACATGG
Found at i:58715985 original size:46 final size:46
Alignment explanation
Indices: 58715767--58715988 Score: 227
Period size: 46 Copynumber: 4.8 Consensus size: 46
58715757 GTAAGGTGCA
* * *
58715767 AATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCC
1 AATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACATATCGTGGCC
* * *
58715813 AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
1 AATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCGTGGCC
* * * * * **
58715859 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GTT
1 AATGCATGTCCCAGACATGTCTTACACTAGCTCACATATC-GTGGCC
* *
58715905 GATGCCGTGTCCCAGACATGGTCTTACACTAGCTCACATAAT-GTGGCC
1 AATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACAT-ATCGTGGCC
58715953 AATGCATGTCCCAGACATGTCTTACACTAGCTCACA
1 AATGCATGTCCCAGACATGTCTTACACTAGCTCACA
58715989 CAAGTGACCC
Statistics
Matches: 148, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 74 0.50
47 27 0.18
48 21 0.14
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
AATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCGTGGCC
Found at i:58718099 original size:48 final size:46
Alignment explanation
Indices: 58717968--58718145 Score: 144
Period size: 48 Copynumber: 3.7 Consensus size: 46
58717958 TTAGGGGATA
* * * *
58717968 CATTGATTTGGATTCGGGCCATGATATTATCTCTTCGAGTGTG-AGTT
1 CATTGATTTGGCTTCAGGCCATGATATTAGCACTTC-AG-GTGCAGTT
* * ** *
58718015 ACATAGATTTAGCTTCAGGCCATGATATCGGTACTTCAGGTGCAAGCTT
1 -CATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGC-AG-TT
* * *
58718064 TATTGATTTGGCTTCAGGCCATGATATTAGCACTTCGGGTGCGAGATA
1 CATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGC-AG-TT
* *
58718112 CATTGAGTAGGCTTCAGGCCATGAT-TTGAGCACT
1 CATTGATTTGGCTTCAGGCCATGATATT-AGCACT
58718146 CAATGTGCGA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 3 0.03
47 4 0.04
48 95 0.91
49 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (46 bp):
CATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCAGTT
Found at i:58726408 original size:43 final size:43
Alignment explanation
Indices: 58726304--58726410 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
58726294 AACCCAGCTT
* * * *
58726304 TGGTCTTACACGA-ACTCAAATAACGATGTCAATGTCCTACAAA
1 TGGTCTTACAC-ATAATCACATAACGATGCCAATGTCCCACAAA
* * *
58726347 TGGCCTTACACATAATCACATAATGATGCCAATGTCCCAGAAA
1 TGGTCTTACACATAATCACATAACGATGCCAATGTCCCACAAA
58726390 TGGTCTTACACATAATCACAT
1 TGGTCTTACACATAATCACAT
58726411 CTCATTACTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (43 bp):
TGGTCTTACACATAATCACATAACGATGCCAATGTCCCACAAA
Found at i:58729122 original size:86 final size:85
Alignment explanation
Indices: 58728974--58729144 Score: 281
Period size: 86 Copynumber: 2.0 Consensus size: 85
58728964 AAATTGACTC
* *
58728974 ACACTGAGTTCATTTTGTTTGAAATTCATTATCAAGTTTTTGAGCTTCACAGATCTGTTGTATAA
1 ACACTGAGTTCATTTTGTTTGAAATTCATTATCAAGTTTTTGAGCTTCACAGACCTGCTGTATAA
*
58729039 ACAACGGTCTCGCTTTCCACT
66 ACAACGGTCTAGC-TTCCACT
*
58729060 ACACTGAGTTCATTTTGTTT-ACAATTCATTATCAAGTTTTTGAGCTTCATAGACCTGCTGTATA
1 ACACTGAGTTCATTTTGTTTGA-AATTCATTATCAAGTTTTTGAGCTTCACAGACCTGCTGTATA
58729124 AACAACGGTCTAGCTTCCACT
65 AACAACGGTCTAGCTTCCACT
58729145 CAGCTACTAA
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
85 8 0.10
86 72 0.90
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (85 bp):
ACACTGAGTTCATTTTGTTTGAAATTCATTATCAAGTTTTTGAGCTTCACAGACCTGCTGTATAA
ACAACGGTCTAGCTTCCACT
Found at i:58731955 original size:46 final size:46
Alignment explanation
Indices: 58731886--58732063 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
58731876 TGTAACCCGC
*
58731886 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTAGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* * * *
58731932 CCATAAGTGAACTCGGACCCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTAGCAT
* *** * * ** *
58731978 ACATCTCTCTAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
*
58732025 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
58732064 CCCAAACATC
Statistics
Matches: 104, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
46 71 0.68
47 33 0.32
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
Found at i:58732001 original size:93 final size:93
Alignment explanation
Indices: 58731895--58732065 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
58731885 CCCATAAGTG
***
58731895 AACTCGGACTCAACTCAACGAGCTCGGGTGTTAGCATCCATAAGTGAACTCGGACCCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCGGACCCAACTCAAC
58731960 AAGCTCGGATGCCTAGTTACATCTCTCT
66 AAGCTCGGATGCCTAGTTACATCTCTCT
* * *
58731988 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCGGACCCAACTCAAC
* *
58732053 GAGTTCGGATGCC
66 AAGCTCGGATGCC
58732066 CAAACATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCGGACCCAACTCAAC
AAGCTCGGATGCCTAGTTACATCTCTCT
Found at i:58735074 original size:76 final size:76
Alignment explanation
Indices: 58734948--58735103 Score: 294
Period size: 76 Copynumber: 2.1 Consensus size: 76
58734938 CTTATCATAT
*
58734948 GGAAACAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
1 GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
58735013 TCCCTTGAGCG
66 TCCCTTGAGCG
58735024 GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
1 GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
*
58735089 TCCCTTGAGTG
66 TCCCTTGAGCG
58735100 GGAA
1 GGAA
58735104 CTGGCACATT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.31
Consensus pattern (76 bp):
GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
TCCCTTGAGCG
Found at i:58736894 original size:43 final size:43
Alignment explanation
Indices: 58736847--58736997 Score: 194
Period size: 43 Copynumber: 3.5 Consensus size: 43
58736837 TAGCCTAGCT
* * * * *
58736847 ATGGTCTTACACAAAATCAAAGAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
* * * *
58736890 ATGGTCTTACACGTAACCACATAGTGATGCCAATGTCCTAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
* * *
58736933 ATGGTCTTACACGTACTCACATAATGATGCCAATGTCTCAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
58736976 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
58736998 CTCATTAATC
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
Found at i:58744089 original size:5 final size:5
Alignment explanation
Indices: 58744079--58744103 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
58744069 GATGGCAACC
58744079 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
58744104 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:58746348 original size:27 final size:27
Alignment explanation
Indices: 58746311--58746382 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
58746301 AGGGCAAAAT
** *
58746311 AGTCATTTTACCTTACAGGGGTATGTC
1 AGTCATTTTACAATACAAGGGTATGTC
* *
58746338 GGTCATTTTACAATACAAGGGTATTTC
1 AGTCATTTTACAATACAAGGGTATGTC
* *
58746365 AGTAATTTTACACTACAA
1 AGTCATTTTACAATACAA
58746383 TGATATTTCG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (27 bp):
AGTCATTTTACAATACAAGGGTATGTC
Found at i:58746389 original size:27 final size:27
Alignment explanation
Indices: 58746342--58746404 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
58746332 TATGTCGGTC
*
58746342 ATTTTACAATACAAGGGTATTTC-AGTA
1 ATTTTACAATACAAGGATATTTCGA-TA
* *
58746369 ATTTTACACTACAATGATATTTCGATA
1 ATTTTACAATACAAGGATATTTCGATA
58746396 ATTTTACAA
1 ATTTTACAA
58746405 ATTAGGGGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (27 bp):
ATTTTACAATACAAGGATATTTCGATA
Found at i:58746448 original size:27 final size:27
Alignment explanation
Indices: 58746418--58746677 Score: 265
Period size: 27 Copynumber: 9.7 Consensus size: 27
58746408 AGGGGTCTCA
** *
58746418 AGGGTATTTCAATAATTATACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
58746445 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
58746472 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*
58746499 AGCGTATTTCGGTAATTTTAC-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
58746525 AGGGTGTTTCAGTAATTTTACAAATAG
1 AGGGTATTTCGGTAATTTTACAAATCG
* ** * *
58746552 AGGTTATTTTAGTAAATTTGCAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATC-G
58746579 AGGGTATTTCGGTAATTTTACAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATC-G
* ** *
58746606 GGGGTATTTCAATAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
58746633 GGGGTATTTCGATAATTTTACAAACCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* **
58746660 GGGGTATTTTAGTAATTT
1 AGGGTATTTCGGTAATTT
58746678 CTCTTTATTA
Statistics
Matches: 199, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 23 0.12
27 175 0.88
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:58746613 original size:107 final size:108
Alignment explanation
Indices: 58746418--58746674 Score: 290
Period size: 107 Copynumber: 2.4 Consensus size: 108
58746408 AGGGGTCTCA
* * * * *
58746418 AGGGTATTTCAATAATTATACAAATCGAGGGTA-TTTCGATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAG-TAAATTTACAAATCGAGGGTATTTC
** *
58746482 GGTAATTTTACAAATCGAGCGTATTTCGGTAATTTTA-CAATCG
65 GGTAATTTTACAAATCGAGCGTATTTCAATAATTTTATAAATCG
* * * *
58746525 AGGGTGTTTCAGTAATTTTACAAATAGAGGTTATTTTAGTAAATTTGCAAA-CTGAGGGTATTTC
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAAATTTACAAATC-GAGGGTATTTC
* *
58746589 GGTAATTTTACAAA-CTGGGGGTATTTCAATAATTTTATAAATCG
65 GGTAATTTTACAAATC-GAGCGTATTTCAATAATTTTATAAATCG
* * *
58746633 GGGGTATTTC-GATAATTTTACAAACCGGGGGTATTTTAGTAA
1 AGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTTAGTAA
58746675 TTTCTCTTTA
Statistics
Matches: 125, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
106 2 0.02
107 80 0.64
108 43 0.34
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (108 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAAATTTACAAATCGAGGGTATTTCG
GTAATTTTACAAATCGAGCGTATTTCAATAATTTTATAAATCG
Found at i:58747029 original size:28 final size:28
Alignment explanation
Indices: 58746994--58747057 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
58746984 TGGCGCCTTT
58746994 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
* *
58747022 AGGCCCAATCTTGTTCATATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
58747050 AGGCCCAA
1 AGGCCCAA
58747058 CAACTTCCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCTCGTTCACATGGCCCATC
Found at i:58773974 original size:16 final size:17
Alignment explanation
Indices: 58773953--58773987 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
58773943 GCAGCAACAT
58773953 CAGCCC-CAACTCTGAC
1 CAGCCCACAACTCTGAC
58773969 CAGCCCATCAACTCTGAC
1 CAGCCCA-CAACTCTGAC
58773987 C
1 C
58773988 TTTTTCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.26, C:0.49, G:0.11, T:0.14
Consensus pattern (17 bp):
CAGCCCACAACTCTGAC
Found at i:58776823 original size:46 final size:45
Alignment explanation
Indices: 58776770--58776945 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
58776760 TATTTGGGCA
58776770 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-G
* * * *
58776816 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G
*
58776861 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAAG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAAG
* * *
58776909 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58776946 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 61 0.56
47 28 0.26
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAG
Found at i:58776925 original size:93 final size:93
Alignment explanation
Indices: 58776766--58776937 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
58776756 GGGATATTTG
* * *
58776766 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
58776831 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
58776859 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAA-GCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGC-AAATGCCCGAACTCGTTGA
*
58776923 GTTGAGTCTGAGTTC
65 GTTGAGTCCGAGTTC
58776938 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.96
94 3 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:58779888 original size:15 final size:15
Alignment explanation
Indices: 58779868--58779936 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
58779858 GTATCTTGGG
58779868 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
58779883 TCTCTTTATTCTGTA
1 TTTCTTTATCCTGGA
* *
58779898 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
58779913 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
58779928 TTTCTTTAT
1 TTTCTTTAT
58779937 TCGGTTTTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:58779931 original size:30 final size:30
Alignment explanation
Indices: 58779859--58779946 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
58779849 CATAGTATCG
* * * *
58779859 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
58779889 TAT-TCTGTATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
58779919 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
58779947 TGTTATCTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.17
30 39 0.81
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.15, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:58782381 original size:46 final size:46
Alignment explanation
Indices: 58782328--58782502 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
58782318 ATTTGGGCAC
*
58782328 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGT
* * * *
58782374 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGT
* * * *
58782421 CCGAATTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGT
* *
58782467 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58782503 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGT
Found at i:58782476 original size:93 final size:93
Alignment explanation
Indices: 58782323--58782494 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
58782313 GGGATATTTG
* * *
58782323 GGCACCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCACCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
58782388 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
58782416 GGCATCCGAATTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCACCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
*
58782481 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
58782495 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCACCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:58784493 original size:26 final size:26
Alignment explanation
Indices: 58784464--58784522 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
58784454 TGCTCAATAC
*
58784464 AGTCATACATCTCATAAGGGCATAAT
1 AGTCATACACCTCATAAGGGCATAAT
** *
58784490 AGTCATTTTACCTCATAGGGGCATAAT
1 AGTCA-TACACCTCATAAGGGCATAAT
58784517 AGTCAT
1 AGTCAT
58784523 TTATCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (26 bp):
AGTCATACACCTCATAAGGGCATAAT
Found at i:58795939 original size:45 final size:47
Alignment explanation
Indices: 58795867--58796104 Score: 220
Period size: 45 Copynumber: 5.0 Consensus size: 47
58795857 TAACCAAGCT
*
58795867 ATCTGGTAC-GCTAGTAGCCTGCACTTAGTACTACACATGCGACCAAA
1 ATCTGGTACAG-TAGTAGCCTGCACTTAGTACTACACATGTGACCAAA
* *
58795914 ATCTGGTACAGT-GTAG-CTGCACTTAGTACTACACA-GTGACTAAC
1 ATCTGGTACAGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAA
* * ** *
58795958 ATCTGATACACTA-TAGCCTGCACTTAGTACTACACATGTGATTGAAG
1 ATCTGGTACAGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAA
* * * * * *
58796005 TTGTCGGGAC-GCATAGTAGCCTG-ACTTAGTACTGCACATGCGACCTAACT
1 ATCT-GGTACAG--TAGTAGCCTGCACTTAGTACTACACATGTGACC-AA-A
58796055 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAA
1 ATCTGGTACA-GTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAA
58796104 A
1 A
58796105 CCATCTTAAA
Statistics
Matches: 153, Mismatches: 24, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
44 19 0.12
45 38 0.25
46 8 0.05
47 14 0.09
48 4 0.03
49 37 0.24
50 32 0.21
51 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (47 bp):
ATCTGGTACAGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAA
Found at i:58809789 original size:28 final size:28
Alignment explanation
Indices: 58809747--58809849 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
58809737 TGACCCATTT
* * *
58809747 AGGCCTAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATAGCCCATC
*
58809775 GGGCCCAATCACATTCATATAGCCCATC
1 AGGCCCAATCACATTCATATAGCCCATC
* *
58809803 AGGCCCAATCACTTTCATATAGCCCGTC
1 AGGCCCAATCACATTCATATAGCCCATC
58809831 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
58809850 GTCATGCAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATAGCCCATC
Found at i:58815941 original size:49 final size:50
Alignment explanation
Indices: 58815805--58815929 Score: 175
Period size: 50 Copynumber: 2.5 Consensus size: 50
58815795 TTCAATCATG
*
58815805 TGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACA
* *
58815855 TGT-TCTGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTT-GGTCGA-A
1 TGTGT-AGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTC-ACA
*
58815904 TGTGTAGTACTAAGTGCGGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
58815930 TGCGTAACAG
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
49 28 0.42
50 39 0.58
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACA
Found at i:58816162 original size:16 final size:15
Alignment explanation
Indices: 58816141--58816170 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58816131 GAATGGAGTA
58816141 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
58816157 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
58816171 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:58822651 original size:50 final size:50
Alignment explanation
Indices: 58822532--58822826 Score: 220
Period size: 50 Copynumber: 5.9 Consensus size: 50
58822522 ATTGTGAGAA
* * ** *** * *
58822532 CACATGTGTAGTACTATGTGCAGGATACTTTGTGTTTAAGATGGTTTTAGTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
*
58822584 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * * * * *
58822634 CGCATGTGCAGTACTAAGTCCAGGCTACTATGCGTGCCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * ** *
58822685 CACATGTGTAGTACTAAGTGTAGGCTACTAGGTGCATTAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
58822735 CACGTGTGTAGTACTAAGTGCAAGCTACAACGTGTACCAGAT--TTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * *
58822783 CGCATGTGTAGAACTAAGTGTAGGCTACTA-GATGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACG-TGTACCAGATAG
58822827 CTTTGGTTAC
Statistics
Matches: 186, Mismatches: 51, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
47 1 0.01
48 39 0.21
49 1 0.01
50 75 0.40
51 34 0.18
52 36 0.19
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:58823045 original size:16 final size:15
Alignment explanation
Indices: 58823024--58823053 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58823014 GAATTGAGTA
58823024 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
58823040 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
58823054 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:58834401 original size:26 final size:27
Alignment explanation
Indices: 58834341--58834393 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
58834331 CAAAATTGAT
*
58834341 AAATGACTATTATGCCCCTATGAGGTA
1 AAATGACTATTATGCCCCTATGAGATA
*
58834368 AAATGACTATTATGCCCTTATGAGAT
1 AAATGACTATTATGCCCCTATGAGAT
58834394 GTATGACTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (27 bp):
AAATGACTATTATGCCCCTATGAGATA
Found at i:58836435 original size:46 final size:45
Alignment explanation
Indices: 58836363--58836538 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
58836353 TGTAACCCGC
* *
58836363 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* * *
58836409 CCATGAGTGAACTCGGACTCAACTCAACGAATTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * * *
58836459 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCAT
58836502 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGG
58836539 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:58836530 original size:93 final size:93
Alignment explanation
Indices: 58836371--58836542 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
58836361 GCCCATAAGT
* * *
58836371 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
58836436 CGAATTCGGATGCCTAGTTACATCTCAC
66 CGAATTCGGATGCCTAGTTACATCTCAC
* * *
58836464 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
58836529 CGAGTTCGGGTGCC
66 CGAATTCGGATGCC
58836543 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAATTCGGATGCCTAGTTACATCTCAC
Found at i:58838938 original size:15 final size:15
Alignment explanation
Indices: 58838898--58838992 Score: 72
Period size: 15 Copynumber: 6.4 Consensus size: 15
58838888 TTATGGAACA
*
58838898 AAGATAACAGAAAACC
1 AAGATAA-AGAAATCC
*
58838914 GA-ATAAAGAAATCC
1 AAGATAAAGAAATCC
*
58838928 AAGATAGAGAAA-CC
1 AAGATAAAGAAATCC
*
58838942 -AGAATAAAGAAATAC
1 AAG-ATAAAGAAATCC
*
58838957 -AGAATAAAGAGATCC
1 AAG-ATAAAGAAATCC
* *
58838972 AGGATAAAGAAACCC
1 AAGATAAAGAAATCC
58838987 AAGATA
1 AAGATA
58838993 CGATACTATG
Statistics
Matches: 63, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
13 2 0.03
14 18 0.29
15 41 0.65
16 2 0.03
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGATAAAGAAATCC
Found at i:58838972 original size:44 final size:44
Alignment explanation
Indices: 58838901--58838985 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
58838891 TGGAACAAAG
* *
58838901 ATAACAGAAAACCGAATAAAGAAATCCAAGATAGAGAAACCAGA
1 ATAACAGAAAACAGAATAAAGAAATCCAAGATAAAGAAACCAGA
* *
58838945 ATAA-AGAAATACAGAATAAAGAGATCCAGGATAAAGAAACC
1 ATAACAGAAA-ACAGAATAAAGAAATCCAAGATAAAGAAACC
58838986 CAAGATACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 5 0.14
44 31 0.86
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (44 bp):
ATAACAGAAAACAGAATAAAGAAATCCAAGATAAAGAAACCAGA
Found at i:58848553 original size:17 final size:17
Alignment explanation
Indices: 58848533--58848582 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
58848523 TTTTTTAATC
58848533 TCAATCTCTTTTTCTTT
1 TCAATCTCTTTTTCTTT
58848550 TCAAGT-TCTTTTTC-TT
1 TCAA-TCTCTTTTTCTTT
*
58848566 TCATCTCTCTTTTTCTT
1 TCA-ATCTCTTTTTCTT
58848583 CTTTCGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 6 0.21
17 20 0.71
18 2 0.07
ACGTcount: A:0.10, C:0.24, G:0.02, T:0.64
Consensus pattern (17 bp):
TCAATCTCTTTTTCTTT
Found at i:58855431 original size:79 final size:82
Alignment explanation
Indices: 58855320--58855504 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
58855310 GCTACTCGTT
* * *
58855320 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
58855383 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
58855400 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
58855463 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
58855480 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58855505 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:58855504 original size:40 final size:40
Alignment explanation
Indices: 58855301--58855504 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
58855291 CGGAATTTAA
** *
58855301 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
58855341 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58855381 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58855420 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
58855460 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58855500 CCGGA
1 CCGGA
58855505 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58857982 original size:27 final size:27
Alignment explanation
Indices: 58857952--58858161 Score: 260
Period size: 27 Copynumber: 7.8 Consensus size: 27
58857942 TCATAATCTG
58857952 CCACAAAGGCATTTCTTTCATGATTCA
1 CCACAAAGGCATTTCTTTCATGATTCA
** *
58857979 CCACAAAGGCAACTCTTTCATGATACA
1 CCACAAAGGCATTTCTTTCATGATTCA
* *
58858006 CCACAAAGGCAATTCTTTCATGATTCT
1 CCACAAAGGCATTTCTTTCATGATTCA
* ** * *
58858033 CTACAAATACATCTCTTTCATGATTCG
1 CCACAAAGGCATTTCTTTCATGATTCA
*
58858060 CCACAAAGGCAATTCTTTCATGATTCA
1 CCACAAAGGCATTTCTTTCATGATTCA
* * * *
58858087 CTATAAAGACATTTCTTTCATGATTCG
1 CCACAAAGGCATTTCTTTCATGATTCA
*
58858114 CCACAAAGGCATTTCTTTCATGATTCG
1 CCACAAAGGCATTTCTTTCATGATTCA
58858141 CCACAAAGGCAATTT-TTTCAT
1 CCACAAAGGC-ATTTCTTTCAT
58858162 TACGTGTTTA
Statistics
Matches: 156, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 152 0.97
28 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (27 bp):
CCACAAAGGCATTTCTTTCATGATTCA
Found at i:58858054 original size:81 final size:81
Alignment explanation
Indices: 58857951--58858161 Score: 287
Period size: 81 Copynumber: 2.6 Consensus size: 81
58857941 TTCATAATCT
* * * * *
58857951 GCCACAAAGGCATTTCTTTCATGATTCACCACAAAGGCAACTCTTTCATGATACACCACAAAGGC
1 GCCACAAAGACATCTCTTTCATGATTCGCCACAAAGGCAATTCTTTCATGATACACCACAAAGAC
58858016 AATTCTTTCATGATTC
66 AATTCTTTCATGATTC
* * * * * *
58858032 TCTACAAATACATCTCTTTCATGATTCGCCACAAAGGCAATTCTTTCATGATTCACTATAAAGAC
1 GCCACAAAGACATCTCTTTCATGATTCGCCACAAAGGCAATTCTTTCATGATACACCACAAAGAC
*
58858097 ATTTCTTTCATGATTC
66 AATTCTTTCATGATTC
* * *
58858113 GCCACAAAGGCATTTCTTTCATGATTCGCCACAAAGGCAATTTTTTCAT
1 GCCACAAAGACATCTCTTTCATGATTCGCCACAAAGGCAATTCTTTCAT
58858162 TACGTGTTTA
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 112 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (81 bp):
GCCACAAAGACATCTCTTTCATGATTCGCCACAAAGGCAATTCTTTCATGATACACCACAAAGAC
AATTCTTTCATGATTC
Found at i:58871265 original size:40 final size:40
Alignment explanation
Indices: 58871210--58871477 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
58871200 GAGCATTGGA
*
58871210 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58871250 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
58871290 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58871330 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * * *
58871370 ATATGTCCGAGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58871410 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
58871450 ATATATCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
58871478 ATGTGTTTGC
Statistics
Matches: 213, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 213 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:58879743 original size:40 final size:40
Alignment explanation
Indices: 58879688--58879953 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
58879678 AGCATTGGAT
58879688 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
58879728 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
58879768 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
58879808 TATATCCGGGCTAAGACCCGAAGGCAA-TATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
58879847 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
58879887 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
58879927 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
58879954 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
39 37 0.17
40 180 0.83
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:58879900 original size:119 final size:120
Alignment explanation
Indices: 58879688--58879953 Score: 480
Period size: 119 Copynumber: 2.2 Consensus size: 120
58879678 AGCATTGGAT
58879688 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
*
58879753 AATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
66 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
**
58879808 TATATCCGGGCTAAGACCCGAAGGCAA-TATGCGAGTTGATATATCCGGGCTGTGACCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
58879872 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
66 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
58879927 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
58879954 ATGTGTTTGC
Statistics
Matches: 141, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
119 114 0.81
120 27 0.19
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (120 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGC
AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:58883946 original size:46 final size:47
Alignment explanation
Indices: 58883803--58884019 Score: 232
Period size: 46 Copynumber: 4.6 Consensus size: 47
58883793 ATGCCAATGC
* * *
58883803 CATGTCCCAGACATGGTATTACACTGGCTCTCACATATC-CGTGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATCTCAAG-GCCGATG
* *
58883852 CATGTCCCAGACATGTCTTACACTAG--C-ACATCTCGTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTACATCTC-AAGGCCGATG
*
58883896 CATGTCCCAGACATGTCTTACATTGGCT-TACATCTCAAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTACATCTCAAGGCCGATG
* * * * *
58883942 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTTTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTACATCTCAAGGCCGATG
58883988 CCATGTCCCAGACATGGTCTTACACTGGCTCT
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCT
58884020 CATAATGTGG
Statistics
Matches: 145, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
44 37 0.26
45 1 0.01
46 53 0.37
47 15 0.10
48 25 0.17
49 14 0.10
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTACATCTCAAGGCCGATG
Found at i:58884040 original size:47 final size:46
Alignment explanation
Indices: 58883803--58884062 Score: 168
Period size: 46 Copynumber: 5.6 Consensus size: 46
58883793 ATGCCAATGC
* *
58883803 CATGTCCCAGACATGGTATTACACTGGCTCTC-A-CATATCCGTGCCGATG-
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGATCA-AT--GT--CGATGA
*
58883852 CATGTCCCAGACATGTCTTACACTAGCACATCTCG-T--A-GCCGATG-
1 CATGTCCCAGACATGTCTTACACTAG--C-TCTCGATCAATGTCGATGA
* * * *
58883896 CATGTCCCAGACATGTCTTACATTGGCT-TAC-ATCTCAAGGCCGATG-
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CGA--TCAATGTCGATGA
* *
58883942 CATGTCCCAGACATGTCTTACACTAGCTCTCGTTTCAATGTCGATGC
1 CATGTCCCAGACATGTCTTACACTAGCTCTCG-ATCAATGTCGATGA
* * *
58883989 CATGTCCCAGACATGGTCTTACACTGGCTCTC-AT-AATGTGGTTGATA
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGATCAATGTCGATG--A
*
58884036 CATGTCTCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
58884063 ACACACATAT
Statistics
Matches: 175, Mismatches: 17, Indels: 41
0.75 0.07 0.18
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
42 1 0.01
43 1 0.01
44 29 0.17
45 9 0.05
46 58 0.33
47 28 0.16
48 26 0.15
49 15 0.09
50 1 0.01
51 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGATCAATGTCGATGA
Found at i:58884057 original size:94 final size:91
Alignment explanation
Indices: 58883799--58884063 Score: 292
Period size: 94 Copynumber: 2.9 Consensus size: 91
58883789 TATAATGCCA
* *
58883799 ATGCCATGTCCCAGACATGGTATTACACTGGCTCTCACATATCCGT-GCCGATGCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-CGTGGCCGATGCATGTCCCAGA
58883863 CATGTCTTACACTAGCACATCTCGTAGCCG
64 CATGTCTTACACTAG--CATCTCGTAGCCG
* * **
58883893 ATG-CATGTCCCAGACAT-GTCTTACATTGGCT-TACAT-CTCAAGGCCGATGCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATCGTGGCCGATGCATGTCCCAGAC
*
58883954 ATGTCTTACACTAGC-TCTCGTTTCAATGTCG
65 ATGTCTTACACTAGCATCTCG--T--A-GCCG
** * *
58883985 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGTTGATACATGTCTCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTCCCAGACA
58884049 TGTCTTACACTAGCA
66 TGTCTTACACTAGCA
58884064 CACACATATC
Statistics
Matches: 144, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
87 5 0.03
88 1 0.01
89 2 0.01
90 34 0.24
91 2 0.01
92 20 0.14
93 28 0.19
94 50 0.35
95 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (91 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATCGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCATCTCGTAGCCG
Found at i:58887818 original size:40 final size:40
Alignment explanation
Indices: 58887773--58888308 Score: 858
Period size: 40 Copynumber: 13.6 Consensus size: 40
58887763 CAAGCTCAAT
* * * * *
58887773 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
58887813 TGCCTTCGGGTCATAGCCCGAATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
58887853 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
58887893 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58887933 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58887973 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58888013 TGCC-T---G----A-CCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58888044 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58888084 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58888124 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58888164 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58888204 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58888244 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58888284 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
58888309 CATTCAAATG
Statistics
Matches: 462, Mismatches: 23, Indels: 22
0.91 0.05 0.04
Matches are distributed among these distances:
31 28 0.06
32 2 0.00
35 1 0.00
36 1 0.00
39 4 0.01
40 425 0.92
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:58888027 original size:31 final size:31
Alignment explanation
Indices: 58887989--58888048 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
58887979 CGGGTCTTAG
58887989 CCCGGATATATCAATTCGCACAAATGCCTGA
1 CCCGGATATATCAATTCGCACAAATGCCTGA
58888020 CCCGGATATATCAATTCGCACAAATGCCT
1 CCCGGATATATCAATTCGCACAAATGCCT
58888049 TCGGGTCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (31 bp):
CCCGGATATATCAATTCGCACAAATGCCTGA
Found at i:58895405 original size:40 final size:40
Alignment explanation
Indices: 58895345--58895925 Score: 956
Period size: 40 Copynumber: 14.6 Consensus size: 40
58895335 CAAGCTCAAT
* * * * * *
58895345 TGCCTTTGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58895385 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
58895425 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
58895465 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58895505 TGCCTT-GGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58895544 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58895584 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCG-ACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58895623 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58895663 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58895703 TG-CTTC-GGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58895741 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
58895781 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
58895821 TGCCTTCGGGTCTTAACCCGAATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58895861 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
58895901 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
58895926 CATTCAAATG
Statistics
Matches: 511, Mismatches: 24, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
38 34 0.07
39 85 0.17
40 391 0.77
41 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:58895541 original size:119 final size:120
Alignment explanation
Indices: 58895345--58895925 Score: 965
Period size: 119 Copynumber: 4.9 Consensus size: 120
58895335 CAAGCTCAAT
* * * * *
58895345 TGCCTTTGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
* *
58895410 ATCAACTT-GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
66 ATCAA-TTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* * * * *
58895465 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAATGCCTT-GGGTCTTATCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
58895529 ATCAATTCGCACAAATGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
66 ATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
* *
58895584 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCG-ACAAATGCCTTCAGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
58895648 ATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
66 ATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
58895703 TG-CTTC-GGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
58895766 ATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
66 ATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
*
58895821 TGCCTTCGGGTCTTAACCCGAATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
*
58895886 ATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
66 ATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATAT
58895926 CATTCAAATG
Statistics
Matches: 434, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
117 25 0.06
118 103 0.24
119 174 0.40
120 132 0.30
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (120 bp):
TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
ATCAATTCGCACAAATGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
Found at i:58904583 original size:31 final size:31
Alignment explanation
Indices: 58904528--58904587 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
58904518 CCTTTTCATA
* *
58904528 TTTCATATTTCATAACAGTGGGCCGAAGCAT
1 TTTCATATTTCATAACACTAGGCCGAAGCAT
**
58904559 TTTCATATTTCATATTACTAGGCCGAAGC
1 TTTCATATTTCATAACACTAGGCCGAAGC
58904588 CTCCACTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCAT
Found at i:58904839 original size:24 final size:24
Alignment explanation
Indices: 58904799--58904882 Score: 98
Period size: 26 Copynumber: 3.4 Consensus size: 24
58904789 CTAGAGGCCT
58904799 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
58904823 AGCCCTTTTGATAAACTGGGGCACA
1 AGCCCTTTTAATAAACTGGGGCA-A
* *
58904848 AACCCTTTTTAGTAAACTGGGGCAAA
1 AGCCC-TTTTAATAAACTGGGGC-AA
58904874 AGCCCTTTT
1 AGCCCTTTT
58904883 TGCACTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
23 7 0.14
24 14 0.27
25 9 0.18
26 20 0.39
27 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:58904952 original size:9 final size:9
Alignment explanation
Indices: 58904938--58905014 Score: 73
Period size: 9 Copynumber: 7.9 Consensus size: 9
58904928 ACATCATGTG
58904938 CATATCATA
1 CATATCATA
*
58904947 CATATCATGTG
1 CATATCA--TA
58904958 CATATCATA
1 CATATCATA
*
58904967 CATATCATCTG
1 CATATCA--TA
58904978 CATATCATA
1 CATATCATA
*
58904987 CATATCATGTG
1 CATATCA--TA
58904998 CATATCATA
1 CATATCATA
58905007 CATATCAT
1 CATATCAT
58905015 GTATATCAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
9 32 0.57
11 24 0.43
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:58904953 original size:20 final size:20
Alignment explanation
Indices: 58904930--58905016 Score: 165
Period size: 20 Copynumber: 4.3 Consensus size: 20
58904920 TTATGAATAC
58904930 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58904950 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
58904970 ATCATCTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58904990 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58905010 ATCATGT
1 ATCATGT
58905017 ATATCAGAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58904960 original size:40 final size:40
Alignment explanation
Indices: 58904916--58905014 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
58904906 CCCATCCCAA
*
58904916 TGCATTATGAATAC-ATCATGTGCATATCATACATATCATG
1 TGCATTAT-AATACAATCATCTGCATATCATACATATCATG
*
58904956 TGCA-TATCATACATATCATCTGCATATCATACATATCATG
1 TGCATTATAATACA-ATCATCTGCATATCATACATATCATG
*
58904996 TGCA-TATCATACATATCAT
1 TGCATTATAATACA-ATCAT
58905015 GTATATCAGA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
38 4 0.07
39 3 0.05
40 48 0.87
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (40 bp):
TGCATTATAATACAATCATCTGCATATCATACATATCATG
Found at i:58905095 original size:24 final size:24
Alignment explanation
Indices: 58905053--58905098 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
58905043 ATAATTAAAC
* * *
58905053 CCTAGGGGTATAATGGTCATTTTA
1 CCTAGGGGCAAAATAGTCATTTTA
58905077 CCTAGGGGCAAAATAGTCATTT
1 CCTAGGGGCAAAATAGTCATTT
58905099 CCATATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (24 bp):
CCTAGGGGCAAAATAGTCATTTTA
Found at i:58914938 original size:40 final size:40
Alignment explanation
Indices: 58914892--58915116 Score: 263
Period size: 40 Copynumber: 5.6 Consensus size: 40
58914882 CTTGCACAAG
* * * *
58914892 GCCTTCGGGTCTTAGCTCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58914932 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * * *
58914972 GCCTTCAGGTTTTAGCTCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58915012 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
58915052 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
58915093 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58915117 CATTCGAATA
Statistics
Matches: 154, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 124 0.81
41 29 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58914991 original size:80 final size:79
Alignment explanation
Indices: 58914856--58915116 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 79
58914846 CTCAAGTAAT
* * * * * * *
58914856 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCTCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTC-GGTCTTAGCTCGGATATAGT
*
58914919 CACTAGCATAAATGC
65 CACTAGCACAAATGC
* * *
58914934 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCAGGTTTTAGCTCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTC-GGTCTTAGCTCGGATATAG
*
58914998 TCGCTAGCACAAATGC
64 TCACTAGCACAAATGC
* * * *
58915014 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAG-TCCGGTTATAG
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGG-TCTTAGCT-CGGATATAG
*
58915078 TCACCTAGCACAAAAGC
64 TCA-CTAGCACAAATGC
58915095 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
58915117 CATTCGAATA
Statistics
Matches: 154, Mismatches: 22, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
78 12 0.08
79 19 0.12
80 90 0.58
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGTCTTAGCTCGGATATAGTC
ACTAGCACAAATGC
Found at i:58919636 original size:40 final size:40
Alignment explanation
Indices: 58919590--58919814 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
58919580 CTTGCACAAG
* * *
58919590 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58919630 GCCTTCGGGACTTAGCCCGGATATAGTCTCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
58919670 GCCTTCGGGTTTTAGCTCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
58919710 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
58919750 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
58919791 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58919815 CATTCGAATA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 29 0.19
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:58919685 original size:80 final size:78
Alignment explanation
Indices: 58919554--58919814 Score: 299
Period size: 80 Copynumber: 3.3 Consensus size: 78
58919544 CTCAAGTAAT
* * * * * *
58919554 CTTCGGGATTTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATGTGGTC
1 CTTCGGGACTTAGCCCGGATATAGCT-CTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTC
*
58919618 ACTAGCATAAATGC
65 ACTAGCACAAATGC
* * *
58919632 CTTCGGGACTTAGCCCGGATATAGTCTCTAGCACAAATGCCTTCGGGTTTTAGCTCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAG-CTCTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGT
*
58919697 CGCTAGCACAAATGC
64 CACTAGCACAAATGC
* * * * * *
58919712 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGC-TCTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGT
*
58919777 CACCTAGCACAAAAGC
64 CA-CTAGCACAAATGC
58919793 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
58919815 CATTCGAATA
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 93 0.60
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (78 bp):
CTTCGGGACTTAGCCCGGATATAGCTCTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAGTCA
CTAGCACAAATGC
Found at i:58924700 original size:40 final size:40
Alignment explanation
Indices: 58924642--58924873 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
58924632 ATTTGAATGA
*
58924642 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
58924682 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* *
58924722 TATCCGGGTTAAAACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
58924762 TATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
58924802 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
58924842 TACCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCT
58924874 TGTGGTTATA
Statistics
Matches: 175, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 172 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:58929203 original size:30 final size:30
Alignment explanation
Indices: 58929167--58929226 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58929157 TTCCCAAGCC
*
58929167 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
58929197 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
58929227 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:58936848 original size:15 final size:16
Alignment explanation
Indices: 58936828--58936857 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58936818 TCATTGTAGC
58936828 TTATTTTTA-TATGTT
1 TTATTTTTATTATGTT
58936843 TTATTTTTATTATGT
1 TTATTTTTATTATGT
58936858 ATCATAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (16 bp):
TTATTTTTATTATGTT
Found at i:58938165 original size:13 final size:13
Alignment explanation
Indices: 58938124--58938156 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
58938114 ACGGCCTCTG
58938124 GCCATGGGCATGT
1 GCCATGGGCATGT
58938137 GCCATGGGCATGT
1 GCCATGGGCATGT
58938150 GCCATGG
1 GCCATGG
58938157 CCGTGTGCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.21
Consensus pattern (13 bp):
GCCATGGGCATGT
Found at i:58944268 original size:79 final size:82
Alignment explanation
Indices: 58944151--58944335 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
58944141 GCTACTCGTT
* * *
58944151 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
58944214 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
58944231 CAAATGCCTTCTGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
58944294 GATATAGTAACTTAGCA
66 GATATAGTAACTTAGCA
58944311 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58944336 CATCAGTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:58944335 original size:40 final size:40
Alignment explanation
Indices: 58944132--58944335 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
58944122 CGGAATTTAA
** *
58944132 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
58944172 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58944212 CCGGATTTAGTAACTCGCACAAATGCCTTCTGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58944251 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
*
58944291 CCGGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58944331 CCGGA
1 CCGGA
58944336 CATCAGTCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58964019 original size:15 final size:16
Alignment explanation
Indices: 58963990--58964022 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
58963980 GAAATGTATT
58963990 TTCTCAATATCTCATA
1 TTCTCAATATCTCATA
*
58964006 TTCT-AATATTTCATA
1 TTCTCAATATCTCATA
58964021 TT
1 TT
58964023 AATAATCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (16 bp):
TTCTCAATATCTCATA
Found at i:58970728 original size:17 final size:18
Alignment explanation
Indices: 58970694--58970729 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
58970684 TGAATTTCTA
58970694 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
58970712 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
58970729 T
1 T
58970730 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:58971316 original size:16 final size:16
Alignment explanation
Indices: 58971295--58971325 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
58971285 AATTAATAAT
58971295 ATAATACAAATGTATC
1 ATAATACAAATGTATC
58971311 ATAATACAAATGTAT
1 ATAATACAAATGTAT
58971326 ACATTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (16 bp):
ATAATACAAATGTATC
Found at i:58971641 original size:26 final size:23
Alignment explanation
Indices: 58971587--58971632 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
58971577 ATAATATCAC
*
58971587 ATAATTATAATAAATATCTATTT
1 ATAATAATAATAAATATCTATTT
58971610 A-AATAATAATAAATATCTATTT
1 ATAATAATAATAAATATCTATTT
58971632 A
1 A
58971633 CTTTAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAATAATAATAAATATCTATTT
Found at i:58981762 original size:13 final size:13
Alignment explanation
Indices: 58981744--58981768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58981734 ATTTATGATC
58981744 TCAAGTTCAATTT
1 TCAAGTTCAATTT
58981757 TCAAGTTCAATT
1 TCAAGTTCAATT
58981769 ACCAATTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:58984875 original size:9 final size:9
Alignment explanation
Indices: 58984861--58984898 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
58984851 TTCTTTAGAC
58984861 CATCATCAG
1 CATCATCAG
58984870 CATCATCAG
1 CATCATCAG
*
58984879 CATCATCAT
1 CATCATCAG
*
58984888 CAACATCAG
1 CATCATCAG
58984897 CA
1 CA
58984899 GCCTCGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.37, C:0.34, G:0.08, T:0.21
Consensus pattern (9 bp):
CATCATCAG
Found at i:58987646 original size:19 final size:20
Alignment explanation
Indices: 58987603--58987646 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
58987593 TCCCTTTTTT
58987603 CTTTTGTTTTTTCTTCTTAA
1 CTTTTGTTTTTTCTTCTTAA
* * *
58987623 ATTTTG-TTTTTCTTTTTAC
1 CTTTTGTTTTTTCTTCTTAA
58987642 CTTTT
1 CTTTT
58987647 TAAGCTGACT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.09, C:0.14, G:0.05, T:0.73
Consensus pattern (20 bp):
CTTTTGTTTTTTCTTCTTAA
Found at i:58990628 original size:22 final size:22
Alignment explanation
Indices: 58990594--58990635 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
58990584 GATGCCATTA
58990594 GTTTAAGTTAATTAAAGATTAGT
1 GTTTAAGTTAATT-AAGATTAGT
58990617 GTTTAA-TTAATTAAGATTA
1 GTTTAAGTTAATTAAGATTA
58990636 AACTAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 6 0.32
23 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (22 bp):
GTTTAAGTTAATTAAGATTAGT
Found at i:58990820 original size:25 final size:25
Alignment explanation
Indices: 58990786--58990840 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
58990776 GACCATCATT
58990786 TCCCTAGCCATCATTTACAAGTAAG
1 TCCCTAGCCATCATTTACAAGTAAG
58990811 TCCCTAGCCATCATTTACAAGTAAG
1 TCCCTAGCCATCATTTACAAGTAAG
58990836 TCCCT
1 TCCCT
58990841 TATACGCCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (25 bp):
TCCCTAGCCATCATTTACAAGTAAG
Found at i:58990894 original size:19 final size:19
Alignment explanation
Indices: 58990846--58990882 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
58990836 TCCCTTATAC
58990846 GCCAGGATGCACCTCATGT
1 GCCAGGATGCACCTCATGT
*
58990865 GCCAGGATGCACTTCATG
1 GCCAGGATGCACCTCATG
58990883 CTCTAGGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.30, G:0.27, T:0.22
Consensus pattern (19 bp):
GCCAGGATGCACCTCATGT
Found at i:58993553 original size:11 final size:11
Alignment explanation
Indices: 58993505--58993556 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
58993495 ATTTGGTAAT
58993505 AATTA-TATTA
1 AATTATTATTA
* *
58993515 AAATATGATTA
1 AATTATTATTA
58993526 AATTATTTATT-
1 AATTA-TTATTA
*
58993537 ATTTATTATTA
1 AATTATTATTA
58993548 AATTATTAT
1 AATTATTAT
58993557 AATAATAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
10 9 0.27
11 20 0.61
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (11 bp):
AATTATTATTA
Found at i:58995031 original size:31 final size:29
Alignment explanation
Indices: 58994995--58995074 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
58994985 ATCTAATAAC
*
58994995 TATACATGAATTATGATTCAATGTGTAATTA
1 TATACATGAATTTTGATT--ATGTGTAATTA
** * *
58995026 TATACACAAATTTTGATTTTGTGTAATTT
1 TATACATGAATTTTGATTATGTGTAATTA
58995055 TATACATGAAATTTTGATTA
1 TATACATG-AATTTTGATTA
58995075 ATTCAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 15 0.38
30 10 0.25
31 15 0.38
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.46
Consensus pattern (29 bp):
TATACATGAATTTTGATTATGTGTAATTA
Found at i:58995049 original size:29 final size:30
Alignment explanation
Indices: 58995016--58995073 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
58995006 TATGATTCAA
58995016 TGTGTAATTATATACA-CAAATTTTGATTT
1 TGTGTAATTATATACATCAAATTTTGATTT
* *
58995045 TGTGTAATTTTATACATGAAATTTTGATT
1 TGTGTAATTATATACATCAAATTTTGATT
58995074 AATTCAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (30 bp):
TGTGTAATTATATACATCAAATTTTGATTT
Found at i:58996263 original size:21 final size:21
Alignment explanation
Indices: 58996225--58996269 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58996215 TATTTTAAAA
* *
58996225 AATGATAGTAATAGTAATAGT
1 AATGATAATAAAAGTAATAGT
* *
58996246 AATGATAATAAAATTAATGGT
1 AATGATAATAAAAGTAATAGT
58996267 AAT
1 AAT
58996270 AATACAAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (21 bp):
AATGATAATAAAAGTAATAGT
Found at i:58996400 original size:3 final size:3
Alignment explanation
Indices: 58996392--58996780 Score: 173
Period size: 3 Copynumber: 129.0 Consensus size: 3
58996382 GGTAAAAAAT
*
58996392 ATA ATA ATA ATA AT- ATA ATA GTA ATA ATA ATA ATA ATA AGGTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA ATA
* * ** *
58996438 ATA ATA ATG ATA ACA ATA ATA ATA AT- ATA AGTAA ATA CGGA GAGA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A ATA -ATA -ATA ATA
* * * *
58996485 ATGT ATA AT- ATA ATA ATA ACA AT- ATA A-A ATTA ATCA GT- CTA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA AT-A ATA ATA ATA
* * * * * * **
58996529 AT- ATG ATG ATA ATT CTA GTA ATA ATA ATA A-A GTGGA A-A ACG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA
* * * * * **
58996573 ATA ATA ATA CATTA ATA AGA ATA AAA ACA AT- ATA TTT ATA ATA ACG
1 ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * **
58996619 ATAA ATA ATA ATA ATA A-A ATA AGGA ATA ATA A-A GACA ACC ATA AT-
1 AT-A ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA -ATA ATA ATA ATA
*
58996664 ATAA ATA ATAA ATA AAA ATA ATA ATA ATA ATA A-A AT- ATA AGTA ATA
1 AT-A ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
* * * *
58996710 GTA ATA ATA AT- ATA ATA ATA ATA GTA GTA ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
58996757 ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
58996781 GTGTTAGAAA
Statistics
Matches: 295, Mismatches: 56, Indels: 70
0.70 0.13 0.17
Matches are distributed among these distances:
2 31 0.11
3 230 0.78
4 26 0.09
5 8 0.03
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:58998583 original size:44 final size:44
Alignment explanation
Indices: 58998240--58998585 Score: 241
Period size: 44 Copynumber: 7.8 Consensus size: 44
58998230 TGATTTCTAA
* * * *
58998240 CTTCAATCTACTCCA-TCGCAACTTCAGGGAGACAAAATTTGTTAT
1 CTTCAATCTTCTCCACT-GCAACTTCAGGGAGATAAGACTTG-TAT
* * * * *
58998285 CTTCACTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAA
1 CTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * *
58998329 CTTCAA-CTTGCTCTACTGCAACTTCAAGGAGGTAAGAATTGT-T
1 CTTCAATCTT-CTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
** * * * * * *
58998372 GCTTTGATCTACTCCACTACAACTTTAGGGAGATAAGAATCGTAA
1 -CTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * * * ** **
58998417 CTTCAACCTGCTCTACTGCAACTTAAGGGGGATAAGGTTTGTGG
1 CTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
* *
58998461 CTTCAAT-TTGCTTCACTGTAACTTCAGGGAGATAAGACTTGCTAT
1 CTTCAATCTT-CTCCACTGCAACTTCAGGGAGATAAGACTTG-TAT
* * * * * *
58998506 CTTCAGTCTACTCCACTGTAACGTCAGGAAGATAAGACTTGCAT
1 CTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
** *
58998550 CTTCAATCTTCTCCACTATAACTTTAGGGAGATAAG
1 CTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAG
58998586 GTTTGTGACT
Statistics
Matches: 232, Mismatches: 61, Indels: 17
0.75 0.20 0.05
Matches are distributed among these distances:
43 3 0.01
44 158 0.68
45 69 0.30
46 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
CTTCAATCTTCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
Found at i:58998708 original size:88 final size:88
Alignment explanation
Indices: 58998602--58999026 Score: 573
Period size: 88 Copynumber: 4.8 Consensus size: 88
58998592 GACTTCAATC
* *
58998602 GCTCCAATGCCATGTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTTCGCTGAAACTTCAAGGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
* * *
58998667 GATACGAACTGTGGCTTAGAGGA
66 GATACGAACTATGGCTTCGAGCA
* * * *
58998690 GATCCAATGCCATTTCAGGGAGAAGATATTTGTAGCCTCGATCTACTCCGATGAAACTTCAAGGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
*
58998755 GATACGAACTATGGCTTCGAGCC
66 GATACGAACTATGGCTTCGAGCA
* * *
58998778 GCTCTAATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTAAAACTTCAAGGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
*
58998843 GATACGAACTGTGGCTTCGAGCCA
66 GATACGAACTATGGCTTCGAG-CA
* * * *
58998867 -CTCCAATGCCATTTCAGGGAGAAGAGATTTGTAACTTCAATCTACTCCGCTGGAACTTCAAAGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
* * *
58998931 GATACGTATTATGGCTTCGAGCC
66 GATACGAACTATGGCTTCGAGCA
* ** * * * * *
58998954 GCTCTAATTTCATTTCAGGGAGAAGAGGTTTGTACCTTCGATCTACTCTGCTGGAACTTCAAAGA
1 GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
58999019 GATACGAA
66 GATACGAA
58999027 TTGTTGATTT
Statistics
Matches: 299, Mismatches: 36, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
87 1 0.00
88 297 0.99
89 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
GCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGA
GATACGAACTATGGCTTCGAGCA
Found at i:58999092 original size:44 final size:44
Alignment explanation
Indices: 58999042--58999864 Score: 270
Period size: 44 Copynumber: 18.9 Consensus size: 44
58999032 GATTTCAACT
* ** *
58999042 TGCTCCACTACTGCTTAGGGAGACAAGATTTGTTATCTTTGATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
** * * ** * **
58999086 TGCTCCACTACTTATTAGGGAGATAATATCTATAATCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
* * * * * *
58999130 TACTCCACTACTTCTTAGGGAGATATGATGGTG---GCTTAAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCAATCTTTAATC
* * ** **
58999172 TGCTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
* * * * **
58999216 TGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
* * * * * *
58999260 TACTCCACTACTACTTAGGGAGATAGGATGGTG---GCTTAAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCAATCTTTAATC
* * ** ** **
58999302 TGCTCCACCACTACTTAGGGAGATAAGATTCACTGTCTTCGATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
* * * **
58999346 TGCTCCACTACTGCTTA-GGAGATAAGATCTACAATCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
** * * * *
58999389 TATTCCACTACTGCTTAAGGAGATAAGA--TGGAAGCTTCAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
* **
58999431 TGCTCCACTACTGCTTAGGGAGATAAGATTTGTAAT-TTCTAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTT-TAATC
* * ** ** ** **
58999475 TGTTACC-CTACTGCTTATGGG-GTTAAGGCTCACTGTCTTCGATC
1 TGCT-CCACTACTGCTTA-GGGAGATAAGATTTGCAATCTTTAATC
* * ** **
58999519 TGCTCCGCTACTGCTTAGGGAGATAAGATCTATAAT-TTTCAGGC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTT-AATC
* * * * ***** * **
58999563 TGTTACC-CTACTACTTAGGGGGTTAAGGCCCACCATCTTCGATC
1 TGCT-CCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
* * * * **
58999607 TGCTTC-CTATTGCTTAGGGTGATAAGATTTGTAAT-TTCTAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTT-TAATC
** * * ** * * * *
58999650 TATTACC-CTACTACTTAGAGG-GTTAAGGCTCGTC-GTCTTTGATT
1 TGCT-CCACTACTGCTTAG-GGAGATAAGATTTG-CAATCTTTAATC
* * * *
58999694 TGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATC-TTCATCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAAT-C
* * * * *
58999738 TACTCCACTACTGCTTAGGGAGATAGGATGGTG---GCTTAAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCAATCTTTAATC
* * * * * * *
58999780 TTCTCCACTATTGCTTAGAGAGACAAGATTCGCCATCTTTGATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
* * *
58999824 TACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTA
1 TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTA
58999865 GCCTGTTCTA
Statistics
Matches: 552, Mismatches: 193, Indels: 68
0.68 0.24 0.08
Matches are distributed among these distances:
41 2 0.00
42 123 0.22
43 75 0.14
44 333 0.60
45 19 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (44 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATCTTTAATC
Found at i:58999247 original size:130 final size:130
Alignment explanation
Indices: 58999042--58999460 Score: 615
Period size: 130 Copynumber: 3.2 Consensus size: 130
58999032 GATTTCAACT
* * * * ** *
58999042 TGCTCCACTACTGCTTAGGGAGACAAGATTTGTTATCTTTGATCTGCTCCACTACTTATTAGGGA
1 TGCTCCACTACTGCTTAGGGAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAAGGA
* * * *
58999107 GATAATATCTATAATCTTCAGCCTACTCCACTACTTCTTAGGGAGATATGATGGTGGCTTAAATC
66 GATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAAGATGGTGGCTTAAATC
*
58999172 TGCTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGGA
1 TGCTCCACTACTGCTTAGGGAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAAGGA
*
58999237 GATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATC
66 GATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAAGATGGTGGCTTAAATC
* * * *
58999302 TGCTCCACCACTACTTAGGGAGATAAGATTCACTGTCTTCGATCTGCTCCACTACTGCTT-AGGA
1 TGCTCCACTACTGCTTAGGGAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAAGGA
* * * ** *
58999366 GATAAGATCTACAATCTTCAGCCTATTCCACTACTGCTTAAGGAGATAAGATGGAAGCTTCAATC
66 GATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAAGATGGTGGCTTAAATC
*
58999431 TGCTCCACTACTGCTTAGGGAGATAAGATT
1 TGCTCCACTACTGCTTAGGGAGACAAGATT
58999461 TGTAATTTCT
Statistics
Matches: 263, Mismatches: 26, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
129 90 0.34
130 173 0.66
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (130 bp):
TGCTCCACTACTGCTTAGGGAGACAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAAGGA
GATAAGATCTACAATCTTCAGCCTACTCCACTACTACTTAGGGAGATAAGATGGTGGCTTAAATC
Found at i:58999650 original size:175 final size:174
Alignment explanation
Indices: 58999331--58999762 Score: 523
Period size: 175 Copynumber: 2.5 Consensus size: 174
58999321 GAGATAAGAT
*
58999331 TCACTGTCTTCGATCTGCTCCACTACTGCTTA-GGAGATAAGATCTACAATCTTCAGCCTATTCC
1 TCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCCTATTCC
* ***
58999395 ACTACTGCTTAAGGAGATAAGATGGAAGCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
66 ACTACTACTTAAGGAGATAAGACCCAAGCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
* *
58999460 TTGTAATTTCTAGCCTGTTACCCTACTGCTTATG-GGGTTAAGGC
131 TTGTAATTTCTAGCCTATTACCCTACTACTTA-GAGGGTTAAGGC
* * * *
58999504 TCACTGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAATTTTCAGGCTGTTAC
1 TCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCCTATT-C
* * * * * * * * *
58999569 C-CTACTACTTAGGGGGTTAAGGCCCACCATCTTCGATCTGCTTC-CTATTGCTTAGGGTGATAA
65 CACTACTACTTAAGGAGATAAGACCCA--AGCTTCAATCTGCTCCACTACTGCTTAGGGAGATAA
58999632 GATTTGTAATTTCTAGCCTATTACCCTACTACTTAGAGGGTTAAGGC
128 GATTTGTAATTTCTAGCCTATTACCCTACTACTTAGAGGGTTAAGGC
* * * * * * *
58999679 TC-GTCGTCTTTGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCATCCTACTC
1 TCACT-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCCTATTC
* *
58999743 CACTACTGCTTAGGGAGATA
65 CACTACTACTTAAGGAGATA
58999763 GGATGGTGGC
Statistics
Matches: 218, Mismatches: 34, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
173 31 0.14
174 47 0.22
175 127 0.58
176 13 0.06
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (174 bp):
TCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCCTATTCC
ACTACTACTTAAGGAGATAAGACCCAAGCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
TTGTAATTTCTAGCCTATTACCCTACTACTTAGAGGGTTAAGGC
Found at i:58999749 original size:88 final size:87
Alignment explanation
Indices: 58999336--58999755 Score: 419
Period size: 88 Copynumber: 4.8 Consensus size: 87
58999326 AAGATTCACT
**
58999336 GTCTTCGATCTGCTCCACTACTGCTTA-GGAGATAAGATCTACAATCTTCAGCCTATT-CCACTA
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCCTATTACC-CTA
* * * *
58999399 CTGCTTA-AGGAGATAA-GATGGAA
64 CTGCTTAGAGG-GTTAAGGCTCGAC
* * *
58999422 G-CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTCTAGCCTGTTACCCTAC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTATTACCCTAC
58999486 TGCTTATG-GGGTTAAGGCTC-AC
65 TGCTTA-GAGGGTTAAGGCTCGAC
* * * *
58999508 TGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAATTTTCAGGCTGTTACCCTA
1 -GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTATTACCCTA
* * *
58999573 CTACTTAGGGGGTTAAGGC-CCACC
64 CTGCTTAGAGGGTTAAGGCTCGA-C
* * * * *
58999597 ATCTTCGATCTGCTTC-CTATTGCTTAGGGTGATAAGATTTGTAATTTCTAGCCTATTACCCTAC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTATTACCCTAC
* *
58999661 TACTTAGAGGGTTAAGGCTCGTC
65 TGCTTAGAGGGTTAAGGCTCGAC
* * * * *
58999684 GTCTTTGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCATCCTACT-CCACTA
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAGCCTATTACC-CTA
58999748 CTGCTTAG
64 CTGCTTAG
58999756 GGAGATAGGA
Statistics
Matches: 280, Mismatches: 37, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
85 27 0.10
86 42 0.15
87 77 0.28
88 126 0.45
89 8 0.03
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (87 bp):
GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAGCCTATTACCCTACT
GCTTAGAGGGTTAAGGCTCGAC
Found at i:59003425 original size:17 final size:17
Alignment explanation
Indices: 59003403--59003437 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
59003393 GATATGATAC
59003403 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
59003420 TAAAATATATAAAAAAT
1 TAAAATATATAAAAAAT
59003437 T
1 T
59003438 TTGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:59003726 original size:22 final size:21
Alignment explanation
Indices: 59003691--59003766 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
59003681 AAAAGGTATC
* *
59003691 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
59003712 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
59003735 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
59003754 TGC-AATCATATCT
1 TACAAATCATATCT
59003767 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:59003783 original size:35 final size:37
Alignment explanation
Indices: 59003720--59003817 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
59003710 ATTACAAAAT
59003720 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
59003756 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
59003791 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
59003818 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:59003825 original size:17 final size:19
Alignment explanation
Indices: 59003727--59003817 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
59003717 AATCATATCT
59003727 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
59003746 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
59003764 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
59003781 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
59003800 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
59003818 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:59004221 original size:45 final size:44
Alignment explanation
Indices: 59004166--59004319 Score: 164
Period size: 45 Copynumber: 3.4 Consensus size: 44
59004156 GGAAGGCGAT
* * *
59004166 ATCTGCTATCTTTGATCTGCTTCTGGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTTGATCTGCTCCT-GTCTAATACAGAGATGCCAA
* *
59004211 ATCTGTTATCTTCGATCTGCTCCCCGTCTAAATACAGAGATGCCAA
1 ATCTGTTATCTTTGATCTGCT-CCTGTCT-AATACAGAGATGCCAA
* * * *
59004257 ATCTATTATCTCTGATTTGCTCCCTGTCTAATACAGAAATGCCAA
1 ATCTGTTATCTTTGATCTGCT-CCTGTCTAATACAGAGATGCCAA
* * *
59004302 ATTTGTCATCTTGGATCT
1 ATCTGTTATCTTTGATCT
59004320 TCTTCGATGT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
45 50 0.56
46 40 0.44
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (44 bp):
ATCTGTTATCTTTGATCTGCTCCTGTCTAATACAGAGATGCCAA
Found at i:59004465 original size:78 final size:78
Alignment explanation
Indices: 59004336--59004630 Score: 457
Period size: 78 Copynumber: 3.8 Consensus size: 78
59004326 ATGTAAACAC
* **
59004336 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
59004401 TGGATCTGCTTCA
66 TGGATCTGCTTCA
** *
59004414 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTACTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
59004478 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
*
59004492 ATGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
59004557 TAGATCTGCTTCA
66 TGGATCTGCTTCA
* * * **
59004570 ATGAAGGTTAGATCTACTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
59004631 TGTTTCTTCG
Statistics
Matches: 200, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
77 2 0.01
78 196 0.98
79 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Done.