Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 127 of 171
Found at i:40321972 original size:86 final size:86
Alignment explanation
Indices: 40321699--40321961 Score: 368
Period size: 86 Copynumber: 3.1 Consensus size: 86
40321689 ATCGGACACA
* ** * *
40321699 ATCGGACACCATCGACAACTTGGGCCGATGGAT-GTGCGGGACCATCGGGAGGTATCGGCACCTT
1 ATCGGACACCATCGGCAACTCAGGCCGATGG-TGGTGCGGGACCATCGGGAAGCATCGGCACCTT
40321763 GGTGCCTTC-GATGTGCGGGAGC
65 GGTGCC-TCGGATGTGCGGGAGC
* *
40321785 ATCGAACACCATCGGCAACTCAGGCCGATGGTGGTGCGGGACCGTCGGGAAGCATCGGCACCTTG
1 ATCGGACACCATCGGCAACTCAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTG
* **
40321850 GTGCCTAGGATGTGCAAGAGC
66 GTGCCTCGGATGTGCGGGAGC
* * *
40321871 ATCGGACACCATCGGCTACTCAGGCCGATGGTGGTGCGCGACCATCGGGAACCATCGGCACCTTG
1 ATCGGACACCATCGGCAACTCAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTG
*
40321936 GTGCCTCGGATGTGCGGGACC
66 GTGCCTCGGATGTGCGGGAGC
40321957 ATCGG
1 ATCGG
40321962 GAAGTATCGG
Statistics
Matches: 156, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
85 2 0.01
86 154 0.99
ACGTcount: A:0.19, C:0.28, G:0.35, T:0.18
Consensus pattern (86 bp):
ATCGGACACCATCGGCAACTCAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTG
GTGCCTCGGATGTGCGGGAGC
Found at i:40321994 original size:86 final size:86
Alignment explanation
Indices: 40321904--40322984 Score: 747
Period size: 86 Copynumber: 12.4 Consensus size: 86
40321894 GCCGATGGTG
* * * *
40321904 GTGCGCGACCATCGGGAACCATCGGCACCTTGGTGCC-TCGGAT-GTGCGGGACCATCGGGAAGT
1 GTGCGGGAGCATCGGGAACCATCGGCACCTAGGTGCCAT-GG-TGGTGCGGGACCATCGGGAAGC
40321967 ATCGGCACCTTGGTGCCTTCGAT
64 ATCGGCACCTTGGTGCCTTCGAT
* * * *
40321990 GTGCGGGAGCATC-GAACACCATCGGCAACTAAG-GCCGATGGTGGTGCGGAACCATCGGGAAAG
1 GTGCGGGAGCATCGGGA-ACCATCGGCACCTAGGTGCC-ATGGTGGTGCGGGACCATCGGG-AAG
40322053 CATCGGCACCTTGGTGCC-TCGGAT
63 CATCGGCACCTTGGTGCCTTC-GAT
* * ** * * * *
40322077 GTGCGAGAGCATCGGGCACCATCGATAACAAAG-GCCGATGGTGGTGCGGGACCGTCGGGAAGCA
1 GTGCGGGAGCATCGGGAACCATCGGCACCTAGGTGCC-ATGGTGGTGCGGGACCATCGGGAAGCA
**
40322141 TCGGCACCTTGGTGCCTAGGAT
65 TCGGCACCTTGGTGCCTTCGAT
** *
40322163 GTGCAAGAGCATC-GGACACCATCGGCTA-CTCA-G-GCCGATGGTGGTGCGCGACCATCGGGAA
1 GTGCGGGAGCATCGGGA-ACCATCGGC-ACCT-AGGTGCC-ATGGTGGTGCGGGACCATCGGGAA
*
40322224 CCATCGGCACCTTGGTGCC-TCGGAT
62 GCATCGGCACCTTGGTGCCTTC-GAT
* ** * * * *
40322249 GTGCGGGACCATCGGGAAGTATCGGCACCCT-GGTGCCTTCGAT-GTGCGGGAGCATC-GGACAC
1 GTGCGGGAGCATCGGGAACCATCGGCA-CCTAGGTGCCAT-GGTGGTGCGGGACCATCGGGA-AG
* ** * *
40322311 CATCGGCAACTAAG-GCCGAT-GGT
63 CATCGGCACCTTGGTGCC-TTCGAT
* * * *
40322334 GGTGCGGGACCATCGGGAAGCATCAGCACCTTGGTGCC-TCGGAT-GTGCGGGACCATCGGGAAG
1 -GTGCGGGAGCATCGGGAACCATCGGCACCTAGGTGCCAT-GG-TGGTGCGGGACCATCGGGAAG
*
40322397 TATCGGCACCTTGGTGCCTTCGAT
63 CATCGGCACCTTGGTGCCTTCGAT
* * * *
40322421 GTGCGGGAGCATC-GAACACCATCGGCAACTAAG-GCCGATGGTGGTGCGGAACCATCGGGAAAG
1 GTGCGGGAGCATCGGGA-ACCATCGGCACCTAGGTGCC-ATGGTGGTGCGGGACCATCGGG-AAG
40322484 CATCGGCACCTTGGTGCC-TCGGAT
63 CATCGGCACCTTGGTGCCTTC-GAT
* * ** * * * *
40322508 GTGCGAGAGCATCGGGCACCATCGATAACAAAG-GCCGATGGTGGTGCGGGACCATCGGGAAGTA
1 GTGCGGGAGCATCGGGAACCATCGGCACCTAGGTGCC-ATGGTGGTGCGGGACCATCGGGAAGCA
*
40322572 TCGGCACCCTGGTGCCTTCGAT
65 TCGGCACCTTGGTGCCTTCGAT
* *
40322594 GTGCGGGAGCATC-GGACACCATCGGCAACTAAG-GCCGATGGTGGTGCGGGACCATCGGGAAGC
1 GTGCGGGAGCATCGGGA-ACCATCGGCACCTAGGTGCC-ATGGTGGTGCGGGACCATCGGGAAGC
40322657 ATCGGCACCTTGGTGCC-TCGGAT
64 ATCGGCACCTTGGTGCCTTC-GAT
* ** * * * * * *
40322680 GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGAT-GTGCGGGAGCATC-GAACACC
1 GTGCGGGAGCATCGGGAACCATCGGCACCTAGGTGCCAT-GGTGGTGCGGGACCATCGGGA-AGC
* * ** * *
40322743 ATCGGTAACTCAG-GCCGAT-GGT
64 ATCGGCACCTTGGTGCC-TTCGAT
* * * *
40322765 GGTGCGAGACCATCGGGAAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCA
1 -GTGCGGGAGCATCGGGAACCATCGG-CACC-TAGG----T---GCC-ATGGTGGTGCGGGACCA
40322830 TCGGGAAGCATCGGCACCTTGGTGCCTTCGAT
55 TCGGGAAGCATCGGCACCTTGGTGCCTTCGAT
* *
40322862 GTGCGGGAGCATC-GGACACCATCGGCACCTAGGTGCC-TCGAAT-GTGCGGGAGCATC-GGACA
1 GTGCGGGAGCATCGGGA-ACCATCGGCACCTAGGTGCCAT-G-GTGGTGCGGGACCATCGGGA-A
* * * * *
40322923 CCATCGGCAACTTTG-GCCGAT-GGT
62 GCATCGGCACCTTGGTGCC-TTCGAT
* * *
40322947 GGTGCGGGACCATCGGGAAGCATCGGGACCTAGGTGCC
1 -GTGCGGGAGCATCGGGAACCATCGGCACCTAGGTGCC
40322985 TTGCATGTGC
Statistics
Matches: 809, Mismatches: 121, Indels: 130
0.76 0.11 0.12
Matches are distributed among these distances:
85 49 0.06
86 498 0.62
87 190 0.23
88 5 0.01
90 1 0.00
92 1 0.00
94 3 0.00
95 12 0.01
96 43 0.05
97 7 0.01
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (86 bp):
GTGCGGGAGCATCGGGAACCATCGGCACCTAGGTGCCATGGTGGTGCGGGACCATCGGGAAGCAT
CGGCACCTTGGTGCCTTCGAT
Found at i:40322146 original size:130 final size:129
Alignment explanation
Indices: 40321870--40322109 Score: 302
Period size: 130 Copynumber: 1.9 Consensus size: 129
40321860 TGTGCAAGAG
* * *
40321870 CATCGGACACCATCGGCTACTCAGGCCGATGGTGGTGCGCGACCATCGGGAACCATCGGCACCTT
1 CATCGAACACCATCGGCAACTAAGGCCGATGGTGGTGCGCGACCATCGGGAACCATCGGCACCTT
* ** * * *** * *
40321935 GGTGCCTCGGATGTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAG
66 GGTGCCTCGGATGTGCGAGACCATCGGGAACCATCGACAACAAAGTGCCATCGATGTGCGGGAC
*
40321999 CATCGAACACCATCGGCAACTAAGGCCGATGGTGGTGCG-GAACCATCGGGAAAGCATCGGCACC
1 CATCGAACACCATCGGCAACTAAGGCCGATGGTGGTGCGCG-ACCATCGGG-AACCATCGGCACC
* * *
40322063 TTGGTGCCTCGGATGTGCGAGAGCATCGGGCACCATCGATAACAAAG
64 TTGGTGCCTCGGATGTGCGAGACCATCGGGAACCATCGACAACAAAG
40322110 GCCGATGGTG
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
128 1 0.01
129 45 0.48
130 48 0.51
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (129 bp):
CATCGAACACCATCGGCAACTAAGGCCGATGGTGGTGCGCGACCATCGGGAACCATCGGCACCTT
GGTGCCTCGGATGTGCGAGACCATCGGGAACCATCGACAACAAAGTGCCATCGATGTGCGGGAC
Found at i:40322227 original size:129 final size:128
Alignment explanation
Indices: 40322120--40322523 Score: 612
Period size: 129 Copynumber: 3.1 Consensus size: 128
40322110 GCCGATGGTG
* * ** **
40322120 GTGCGGGACCGTCGGGAAGCATCGGCACCTTGGTGCCTAGGATGTGCAAGAGCATCGGACACCAT
1 GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
* * *
40322185 CGGCTACTCAGGCCGATGGTGGTGCGCGACCATCGGGAACCATCGGCACCTTGGTGCCTCGGAT
66 CGGCAACTAAGGCCGATGGTGGTGCG-GACCATCGGGAACCATCGACACCTTGGTGCCTCGGAT
*
40322249 GTGCGGGACCATCGGGAAGTATCGGCACCCTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
1 GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
*
40322314 CGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATC-AGCACCTTGGTGCCTCGGAT
66 CGGCAACTAAGGCCGATGGTGGTGC-GGACCATCGGGAACCATCGA-CACCTTGGTGCCTCGGAT
*
40322378 GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCAT
1 GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
* *
40322443 CGGCAACTAAGGCCGATGGTGGTGCGGAACCATCGGGAAAGCATCGGCACCTTGGTGCCTCGGAT
66 CGGCAACTAAGGCCGATGGTGGTGCGG-ACCATCGGG-AACCATCGACACCTTGGTGCCTCGGAT
* *
40322508 GTGCGAGAGCATCGGG
1 GTGCGGGACCATCGGG
40322524 CACCATCGAT
Statistics
Matches: 254, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
128 2 0.01
129 212 0.83
130 40 0.16
ACGTcount: A:0.20, C:0.27, G:0.36, T:0.18
Consensus pattern (128 bp):
GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
CGGCAACTAAGGCCGATGGTGGTGCGGACCATCGGGAACCATCGACACCTTGGTGCCTCGGAT
Found at i:40322531 original size:431 final size:431
Alignment explanation
Indices: 40321818--40322888 Score: 1759
Period size: 431 Copynumber: 2.5 Consensus size: 431
40321808 GCCGATGGTG
* * ** **
40321818 GTGCGGGACCGTCGGGAAGCATCGGCACCTTGGTGCCTAGGATGTGCAAGAGCATCGGACACCAT
1 GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
* * *
40321883 CGGCTACTCAGGCCGATGGTGGTGCGCGACCATCGGGAACCATCGGCACCTTGGTGCCTCGGATG
66 CGGCAACTCAGGCCGATGGTGGTGCGAGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGGATG
40321948 TGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCATC
131 TGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCATC
40322013 GGCAACTAAGGCCGATGGTGGTGCGGAACCATCGGGAAAGCATCGGCACCTTGGTGCCTCGGATG
196 GGCAACTAAGGCCGATGGTGGTGCGGAACCATCGGGAAAGCATCGGCACCTTGGTGCCTCGGATG
*
40322078 TGCGAGAGCATCGGGCACCATCGATAACAAAGGCCGATGGTGGTGCGGGACCGTCGGGAAGCATC
261 TGCGAGAGCATCGGGCACCATCGATAACAAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATC
* * * *
40322143 GGCACCTTGGTGCCTAGGATGTGCAAGAGCATCGGACACCATCGGCTACTCAGGCCGATGGTGGT
326 GGCACCCTGGTGCCTACGATGTGCAAGAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGT
40322208 GCGCGACCATCGGGAACCATCGGCACCTTGGTGCCTCGGAT
391 GCGCGACCATCGGGAACCATCGGCACCTTGGTGCCTCGGAT
*
40322249 GTGCGGGACCATCGGGAAGTATCGGCACCCTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
1 GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
* * *
40322314 CGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCAGCACCTTGGTGCCTCGGATG
66 CGGCAACTCAGGCCGATGGTGGTGCGAGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGGATG
40322379 TGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCATC
131 TGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCATC
40322444 GGCAACTAAGGCCGATGGTGGTGCGGAACCATCGGGAAAGCATCGGCACCTTGGTGCCTCGGATG
196 GGCAACTAAGGCCGATGGTGGTGCGGAACCATCGGGAAAGCATCGGCACCTTGGTGCCTCGGATG
*
40322509 TGCGAGAGCATCGGGCACCATCGATAACAAAGGCCGATGGTGGTGCGGGACCATCGGGAAGTATC
261 TGCGAGAGCATCGGGCACCATCGATAACAAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATC
* **
40322574 GGCACCCTGGTGCCTTCGATGTGCGGGAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGT
326 GGCACCCTGGTGCCTACGATGTGCAAGAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGT
* *
40322639 GCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGGAT
391 GCGCGACCATCGGGAACCATCGGCACCTTGGTGCCTCGGAT
*
40322680 GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCAT
1 GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
* *
40322745 CGGTAACTCAGGCCGATGGTGGTGCGAGACCATCGGGAAGCATCGGACACCATCGGCAACTAAGG
66 CGGCAACTCAGGCCGATGGTGGTGCGAGACCATCGGGAAGCATCGG-CACC-TTGG----T---G
*
40322810 CCGAT-GG-TGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCA
122 CC--TCGGAT-GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCA
*
40322873 TCGGACACCATCGGCA
184 TCGAACACCATCGGCA
40322889 CCTAGGTGCC
Statistics
Matches: 596, Mismatches: 32, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
431 513 0.86
432 4 0.01
433 3 0.01
437 1 0.00
440 4 0.01
441 70 0.12
442 1 0.00
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (431 bp):
GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGGACACCAT
CGGCAACTCAGGCCGATGGTGGTGCGAGACCATCGGGAAGCATCGGCACCTTGGTGCCTCGGATG
TGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGAACACCATC
GGCAACTAAGGCCGATGGTGGTGCGGAACCATCGGGAAAGCATCGGCACCTTGGTGCCTCGGATG
TGCGAGAGCATCGGGCACCATCGATAACAAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATC
GGCACCCTGGTGCCTACGATGTGCAAGAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGT
GCGCGACCATCGGGAACCATCGGCACCTTGGTGCCTCGGAT
Found at i:40322686 original size:129 final size:129
Alignment explanation
Indices: 40322545--40323015 Score: 537
Period size: 129 Copynumber: 3.6 Consensus size: 129
40322535 ACAAAGGCCG
*
40322545 ATGGTGGTGCGGGACCATCGGGAAGTATCGGCACCCTGGTGCCTTCGATGTGCGGGAGCATCGGA
1 ATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCCTGGTGCCTTCGATGTGCGGGAGCATCGGA
40322610 CACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCC
66 CACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCC
* *
40322674 -TCGGAT-GTGCGGGACCATCGGGAAGTATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCG
1 AT-GG-TGGTGCGGGACCATCGGGAAGCATCGGCACCCTGGTGCCTTCGATGTGCGGGAGCATCG
* * * * *
40322737 AACACCATCGGTAACTCAGGCCGATGGTGGTGCGAGACCATCGGGAAGCATCGGACACCATCGGC
64 GACACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGG-CACC-TTGG-
40322802 AACTAAGGCC
126 ---T---GCC
*
40322812 GATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCTTCGATGTGCGGGAGCATCGG
1 -ATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCCTGGTGCCTTCGATGTGCGGGAGCATCGG
* * * * * * *
40322877 ACACCATCGGCACCTAGGTGCC--TCGAAT-GTGCGGGAGCATC-GGACACCATCGGCAACTTTG
65 ACACCATCGGCAACTAAG-GCCGAT-G-GTGGTGCGGGACCATCGGGA-AGCATCGGCACCTTGG
40322938 -GCC
126 TGCC
* *
40322941 GATGGTGGTGCGGGACCATCGGGAAGCATCGGGA-CCTAGGTGCCTT-GCATGTGCGGGAGCATG
1 -ATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCCT-GGTGCCTTCG-ATGTGCGGGAGCATC
*
40323004 GGACACCGTCGG
63 GGACACCATCGG
40323016 GCCAAAAAAA
Statistics
Matches: 299, Mismatches: 23, Indels: 40
0.83 0.06 0.11
Matches are distributed among these distances:
128 4 0.01
129 177 0.59
130 5 0.02
131 3 0.01
135 1 0.00
137 2 0.01
138 11 0.04
139 91 0.30
140 5 0.02
ACGTcount: A:0.20, C:0.26, G:0.36, T:0.18
Consensus pattern (129 bp):
ATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCCTGGTGCCTTCGATGTGCGGGAGCATCGGA
CACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCC
Found at i:40322843 original size:53 final size:53
Alignment explanation
Indices: 40322726--40322847 Score: 194
Period size: 53 Copynumber: 2.3 Consensus size: 53
40322716 CTTCGATGTG
* * *
40322726 CGGG-AGCATCGAACACCATCGGTAACTCAGGCCGATGGTGGTGCGAGACCAT
1 CGGGAAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGAGACCAT
*
40322778 CGGGAAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCAT
1 CGGGAAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGAGACCAT
40322831 CGGGAAGCATCGG-CACC
1 CGGGAAGCATCGGACACC
40322848 TTGGTGCCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
52 8 0.12
53 57 0.88
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.13
Consensus pattern (53 bp):
CGGGAAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGAGACCAT
Found at i:40322865 original size:182 final size:182
Alignment explanation
Indices: 40322597--40322972 Score: 616
Period size: 182 Copynumber: 2.1 Consensus size: 182
40322587 CTTCGATGTG
40322597 CGGG-AGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCG
1 CGGGAAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCG
** *
40322661 GCACCTTGGTGCCTCGGATGTGCGGGACCATCGGGA-AGTATCGGCACCTTGGTGCCTTCG-ATG
66 GCACCTTGGTGCCTCGGATGTGCGGGACCATC-GGACACCATCGGCACCTAGGTGCC-TCGAATG
*
40322724 TGCGGGAGCATCGAACACCATCGGTAACTCAGGCCGATGGTGGTGCGAGACCAT
129 TGCGGGAGCATCGAACACCATCGGCAACTCAGGCCGATGGTGGTGCGAGACCAT
40322778 CGGGAAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCG
1 CGGGAAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCG
*
40322843 GCACCTTGGTGCCTTC-GATGTGCGGGAGCATCGGACACCATCGGCACCTAGGTGCCTCGAATGT
66 GCACCTTGGTGCC-TCGGATGTGCGGGACCATCGGACACCATCGGCACCTAGGTGCCTCGAATGT
* ** *
40322907 GCGGGAGCATCGGACACCATCGGCAACTTTGGCCGATGGTGGTGCGGGACCAT
130 GCGGGAGCATCGAACACCATCGGCAACTCAGGCCGATGGTGGTGCGAGACCAT
40322960 CGGGAAGCATCGG
1 CGGGAAGCATCGG
40322973 GACCTAGGTG
Statistics
Matches: 182, Mismatches: 9, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
181 10 0.05
182 170 0.93
183 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.36, T:0.17
Consensus pattern (182 bp):
CGGGAAGCATCGGACACCATCGGCAACTAAGGCCGATGGTGGTGCGGGACCATCGGGAAGCATCG
GCACCTTGGTGCCTCGGATGTGCGGGACCATCGGACACCATCGGCACCTAGGTGCCTCGAATGTG
CGGGAGCATCGAACACCATCGGCAACTCAGGCCGATGGTGGTGCGAGACCAT
Found at i:40323016 original size:43 final size:43
Alignment explanation
Indices: 40322778--40323015 Score: 184
Period size: 43 Copynumber: 5.5 Consensus size: 43
40322768 GCGAGACCAT
* * * *
40322778 CGGGAAGCATCGGACACCATCGGCAACTAAG-GCCGATG-GTGGTG
1 CGGG-AGCATCGGACACCATCGGCACCTAGGTGCC-TTGCAT-GTG
* * *
40322822 CGGGACCATCGGGA-AGCATCGGCACCTTGGTGCCTT-CGATGTG
1 CGGGAGCATC-GGACACCATCGGCACCTAGGTGCCTTGC-ATGTG
* *
40322865 CGGGAGCATCGGACACCATCGGCACCTAGGTGCCTCGAATGTG
1 CGGGAGCATCGGACACCATCGGCACCTAGGTGCCTTGCATGTG
* ** * *
40322908 CGGGAGCATCGGACACCATCGGCAACTTTG-GCCGATG-GTGGTG
1 CGGGAGCATCGGACACCATCGGCACCTAGGTGCC-TTGCAT-GTG
* * *
40322951 CGGGACCATCGGGA-AGCATCGGGACCTAGGTGCCTTGCATGTG
1 CGGGAGCATC-GGACACCATCGGCACCTAGGTGCCTTGCATGTG
* *
40322994 CGGGAGCATGGGACACCGTCGG
1 CGGGAGCATCGGACACCATCGG
40323016 GCCAAAAAAA
Statistics
Matches: 152, Mismatches: 30, Indels: 25
0.73 0.14 0.12
Matches are distributed among these distances:
42 10 0.07
43 124 0.82
44 18 0.12
ACGTcount: A:0.20, C:0.27, G:0.37, T:0.17
Consensus pattern (43 bp):
CGGGAGCATCGGACACCATCGGCACCTAGGTGCCTTGCATGTG
Found at i:40323713 original size:43 final size:43
Alignment explanation
Indices: 40323652--40324767 Score: 770
Period size: 43 Copynumber: 26.4 Consensus size: 43
40323642 TGTTCCAGAC
*
40323652 ATGTGCGAGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
* * *
40323695 ATGTGCGGGAGCCTCGGACACCATCGTCAACTTGGTGCCTTGG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
* *
40323738 ATGTGCGGGA-CCATCGGACACCACCGGCACCCTGGTGCC-CTGG
1 ATGTGCGGGAGCC-TCGGACACCATCGGCACCTTGGTGCCTC-GG
* ** * *
40323781 TTGTGCGACAGCATCGGACACCATCGGTACCTTGGTGCC-CTGG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTC-GG
* * * * * *
40323824 ATGTGCGGCAGCATCGGACGCCTTCGGCACCTTAGAT-CGAT-GG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTT-GGTGC-CTCGG
** *
40323867 -TGGTGCGGGA-CCATCGGGA-ATAATCGGCACCTTGGTGCGTCGG
1 AT-GTGCGGGAGCC-TC-GGACACCATCGGCACCTTGGTGCCTCGG
**
40323910 ATGTGCGGGA-CCATCGGGA-AGTATCGGCACCTTGGTGCCTTC-G
1 ATGTGCGGGAGCC-TC-GGACACCATCGGCACCTTGGTGCC-TCGG
* * * **
40323953 ATGTGCGAGAGCATCGGACACCATCGGCAACTCAG-GCCGGT-GG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCC--TCGG
*
40323996 -TGGTGCGGGA-CCATCGGGA-AGCATCGGCACCTTGGTGCCTCGG
1 AT-GTGCGGGAGCC-TC-GGACACCATCGGCACCTTGGTGCCTCGG
* * * **
40324039 ATGTGCGAG-GCCATCGGGCACCATCGGCAACTAAG-GCCGAT-GG
1 ATGTGCGGGAGCC-TCGGACACCATCGGCACCTTGGTGCC--TCGG
** *
40324082 -TGGTGCGGGA-CCATCGGGA-AGTATCGGCACCATGGTGCCTTC-G
1 AT-GTGCGGGAGCC-TC-GGACACCATCGGCACCTTGGTGCC-TCGG
* * * **
40324125 ATGTGCGGGAGCATCGGACACCATCGGTAACTAAG-GCCGAT-GG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCC--TCGG
* *
40324168 -TGGTGCGGGA-CCGTCGAGA-AGCATCGGCACCTCGGTGCCTTC-G
1 AT-GTGCGGGAGCC-TCG-GACACCATCGGCACCTTGGTGCC-TCGG
* * * * **
40324211 ATGTGCGGGAGCATCGG-CAACTTAGGC-CGATGGTG--T---
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
* *
40324247 -T-T--GGGA-CCGTCGGGA-AGCATCGGCACCTTGGTGCCTAGG
1 ATGTGCGGGAGCC-TC-GGACACCATCGGCACCTTGGTGCCTCGG
* * * * *
40324286 ATGTGCGAGAGCATCGGACACCATCGGTAACTTAG-GCCGAT-GG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCC--TCGG
*
40324329 -TGGTGCGGGA-CCATCGGGA-ATCATCGGCACCTTGGTGCCTCGG
1 AT-GTGCGGGAGCC-TC-GGACACCATCGGCACCTTGGTGCCTCGG
* ** *
40324372 ATGTGCGGGA-CCATTGGGA-AGTATCGGCACCATGGTGCCTTC-G
1 ATGTGCGGGAGCC--TCGGACACCATCGGCACCTTGGTGCC-TCGG
*
40324415 ATGTGCGGGTGCCTCGGACACCATCGGCACC----T---T-GG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
* *
40324450 ATGTGCAGGAGCCTCGGACACCGTCGGCACCTTGGTGCCTCGG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
40324493 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCC-CTGG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTC-GG
*
40324536 ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCC-CTGG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTC-GG
* *
40324579 TTGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCC-CTGG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTC-GG
* *
40324622 TTGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGC
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
*
40324665 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGCTGCCTCGG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
* *
40324708 ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCCTTGG
1 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
*
40324751 ATGTGCGGGAGCATCGG
1 ATGTGCGGGAGCCTCGG
40324768 GCTAAAAATA
Statistics
Matches: 862, Mismatches: 128, Indels: 166
0.75 0.11 0.14
Matches are distributed among these distances:
31 1 0.00
32 6 0.01
33 8 0.01
34 7 0.01
35 31 0.04
36 1 0.00
38 1 0.00
39 2 0.00
40 1 0.00
41 6 0.01
42 52 0.06
43 699 0.81
44 47 0.05
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (43 bp):
ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGG
Found at i:40323798 original size:86 final size:86
Alignment explanation
Indices: 40323652--40324767 Score: 868
Period size: 86 Copynumber: 13.2 Consensus size: 86
40323642 TGTTCCAGAC
* *
40323652 ATGTGCGAGAGCC-TCGGACACCATCGGCACCTTGGTG-CCTCGGATGTGCGGGAGCCTCGGACA
1 ATGTGCGGGA-CCATCGGACACCATCGGCACCTTGGTGCCCT-GGATGTGCGGGAGCATCGGACA
* *
40323715 CCATCGTCAACTTGGTGCCTTGG
64 CCATCGGCACCTTGGTGCCTTGG
* * * **
40323738 ATGTGCGGGACCATCGGACACCACCGGCACCCTGGTGCCCTGGTTGTGCGACAGCATCGGACACC
1 ATGTGCGGGACCATCGGACACCATCGGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACACC
* *
40323803 ATCGGTACCTTGGTGCCCTGG
66 ATCGGCACCTTGGTGCCTTGG
* * * * * ** *
40323824 ATGTGCGGCAGCATCGGACGCCTTCGGCACCTTAGAT-CGATGG-TGGTGCGGGACCATCGGGA-
1 ATGTGCGGGACCATCGGACACCATCGGCACCTT-GGTGCCCTGGAT-GTGCGGGAGCATC-GGAC
** * *
40323886 ATAATCGGCACCTTGGTGCGTCGG
63 ACCATCGGCACCTTGGTGCCTTGG
** * * *
40323910 ATGTGCGGGACCATCGGGA-AGTATCGGCACCTTGGTGCCTTCGATGTGCGAGAGCATCGGACAC
1 ATGTGCGGGACCATC-GGACACCATCGGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACAC
* ** *
40323974 CATCGGCAACTCAG-GCCGGTGG
65 CATCGGCACCTTGGTGCC-TTGG
* * *
40323996 -TGGTGCGGGACCATCGGGA-AGCATCGGCACCTTGGTG-CCTCGGATGTGCGAGG-CCATCGGG
1 AT-GTGCGGGACCATC-GGACACCATCGGCACCTTGGTGCCCT-GGATGTGCG-GGAGCATCGGA
* ** *
40324057 CACCATCGGCAACTAAG-GCCGATGG
62 CACCATCGGCACCTTGGTGCC-TTGG
** * * *
40324082 -TGGTGCGGGACCATCGGGA-AGTATCGGCACCATGGTGCCTTCGATGTGCGGGAGCATCGGACA
1 AT-GTGCGGGACCATC-GGACACCATCGGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACA
* * ** *
40324145 CCATCGGTAACTAAG-GCCGATGG
64 CCATCGGCACCTTGGTGCC-TTGG
* * * * *
40324168 -TGGTGCGGGACCGTCGAGA-AGCATCGGCACCTCGGTGCCTTCGATGTGCGGGAGCATCGG-CA
1 AT-GTGCGGGACCATCG-GACACCATCGGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACA
* * * **
40324230 ACTTAGGC-CGATGGTG---T--
64 CCATCGGCACCTTGGTGCCTTGG
* * *
40324247 -T-T--GGGACCGTCGGGA-AGCATCGGCACCTTGGTG-CCTAGGATGTGCGAGAGCATCGGACA
1 ATGTGCGGGACCATC-GGACACCATCGGCACCTTGGTGCCCT-GGATGTGCGGGAGCATCGGACA
* * * *
40324306 CCATCGGTAACTTAG-GCCGATGG
64 CCATCGGCACCTTGGTGCC-TTGG
* * *
40324329 -TGGTGCGGGACCATCGGGA-ATCATCGGCACCTTGGTG-CCTCGGATGTGCGGGACCATTGGGA
1 AT-GTGCGGGACCATC-GGACACCATCGGCACCTTGGTGCCCT-GGATGTGCGGGAGCA-TCGGA
** * *
40324391 -AGTATCGGCACCATGGTGCCTTCG
62 CACCATCGGCACCTTGGTGCCTTGG
* * *
40324415 ATGTGCGGGTGCC-TCGGACACCATCGGCACC----T----TGGATGTGCAGGAGCCTCGGACAC
1 ATGTGCGGG-ACCATCGGACACCATCGGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACAC
* *
40324471 CGTCGGCACCTTGGTGCCTCGG
65 CATCGGCACCTTGGTGCCTTGG
40324493 ATGTGCGGGAGCC-TCGGACACCATCGGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACAC
1 ATGTGCGGGA-CCATCGGACACCATCGGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACAC
*
40324557 CATCGGCACCTTGGTGCCCTGG
65 CATCGGCACCTTGGTGCCTTGG
* * * *
40324579 TTGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCCCTGGTTGTGCGGGAGCCTCGGACACC
1 ATGTGCGGGACCATCGGACACCATCGGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACACC
* *
40324644 ATCGGCACCTTGGTGCCTCGC
66 ATCGGCACCTTGGTGCCTTGG
*
40324665 ATGTGCGGGAGCC-TCGGACACCATCGGCACCTTGCTG-CCTCGGATGTGCGGGAGCATCGGACA
1 ATGTGCGGGA-CCATCGGACACCATCGGCACCTTGGTGCCCT-GGATGTGCGGGAGCATCGGACA
40324728 CCATCGGCACCTTGGTGCCTTGG
64 CCATCGGCACCTTGGTGCCTTGG
*
40324751 ATGTGCGGGAGCATCGG
1 ATGTGCGGGACCATCGG
40324768 GCTAAAAATA
Statistics
Matches: 844, Mismatches: 136, Indels: 100
0.78 0.13 0.09
Matches are distributed among these distances:
74 2 0.00
75 45 0.05
76 8 0.01
77 7 0.01
78 59 0.07
79 2 0.00
80 1 0.00
81 1 0.00
82 3 0.00
84 2 0.00
85 31 0.04
86 657 0.78
87 26 0.03
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (86 bp):
ATGTGCGGGACCATCGGACACCATCGGCACCTTGGTGCCCTGGATGTGCGGGAGCATCGGACACC
ATCGGCACCTTGGTGCCTTGG
Found at i:40323816 original size:129 final size:128
Alignment explanation
Indices: 40323652--40324767 Score: 875
Period size: 129 Copynumber: 8.8 Consensus size: 128
40323642 TGTTCCAGAC
* * *
40323652 ATGTGCGAGAGCCTCGGACACCATCGGCACCTTGGTGCCTCGGATGTGCGGGAGCCTCGGACACC
1 ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCCTCGGATGTGCGGGAGCATCGGACACC
* * * *
40323717 ATCGTCAACTTGGTGCCTTGGATGTGCGGGACCATCGGACACCACCGGCACCCTGGTGCC-CTGG
66 ATCGGCACCTTGGTGCCTTGGATGTGCGGGACCATCGGA-ACCATCGGCACCTTGGTGCCTC-GG
* ** * * *
40323781 TTGTGCGACAGCATCGGACACCATCGGTACCTTGGTGCC-CTGGATGTGCGGCAGCATCGGACGC
1 ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCCTC-GGATGTGCGGGAGCATCGGACAC
* * ** ** *
40323845 CTTCGGCACCTTAGAT-CGATGG-TGGTGCGGGACCATCGGGAATAATCGGCACCTTGGTGCGTC
65 CATCGGCACCTT-GGTGCCTTGGAT-GTGCGGGACCATC-GGAACCATCGGCACCTTGGTGCCTC
40323908 GG
127 GG
* ** *
40323910 ATGTGCGGGACCATCGGGA-AGTATCGGCACCTTGGTGCCTTC-GATGTGCGAGAGCATCGGACA
1 ATGTGCGGGAGCATC-GGACACCATCGGCACCTTGGTGCC-TCGGATGTGCGGGAGCATCGGACA
* ** * *
40323973 CCATCGGCAACTCAG-GCCGGTGG-TGGTGCGGGACCATCGGGAAGCATCGGCACCTTGGTGCCT
64 CCATCGGCACCTTGGTGCC-TTGGAT-GTGCGGGACCATC-GGAACCATCGGCACCTTGGTGCCT
40324036 CGG
126 CGG
* * * ** *
40324039 ATGTGCGAGG-CCATCGGGCACCATCGGCAACTAAG-GCCGAT-GG-TGGTGCGGGACCATCGGG
1 ATGTGCG-GGAGCATCGGACACCATCGGCACCTTGGTGCC--TCGGAT-GTGCGGGAGCATC-GG
** * * * * * **
40324100 A-AGTATCGGCACCATGGTGCCTTCGATGTGCGGGAGCATCGGACACCATCGGTAACTAAG-GCC
61 ACACCATCGGCACCTTGGTGCCTTGGATGTGCGGGACCATCGGA-ACCATCGGCACCTTGGTGCC
40324163 GAT-GG
125 --TCGG
* * * *
40324168 -TGGTGCGGGACCGTCGAGA-AGCATCGGCACCTCGGTGCCTTC-GATGTGCGGGAGCATCGG-C
1 AT-GTGCGGGAGCATCG-GACACCATCGGCACCTTGGTGCC-TCGGATGTGCGGGAGCATCGGAC
* * * ** * * *
40324229 AACTTAGGC-CGATGGTG---T---T-T--GGGACCGTCGGGAAGCATCGGCACCTTGGTGCCTA
63 ACCATCGGCACCTTGGTGCCTTGGATGTGCGGGACCATC-GGAACCATCGGCACCTTGGTGCCTC
40324284 GG
127 GG
* * * * *
40324286 ATGTGCGAGAGCATCGGACACCATCGGTAACTTAG-GCCGAT-GG-TGGTGCGGGACCATCGGGA
1 ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCC--TCGGAT-GTGCGGGAGCATC-GGA
* * * ** *
40324348 -ATCATCGGCACCTTGGTGCCTCGGATGTGCGGGACCATTGGGAAGTATCGGCACCATGGTGCCT
62 CACCATCGGCACCTTGGTGCCTTGGATGTGCGGGACCA-TCGGAACCATCGGCACCTTGGTGCC-
40324412 TC-G
125 TCGG
* * * *
40324415 ATGTGCGGGTGCCTCGGACACCATCGGCACC----T---T-GGATGTGCAGGAGCCTCGGACACC
1 ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCCTCGGATGTGCGGGAGCATCGGACACC
* *
40324472 GTCGGCACCTTGGTGCCTCGGATGTGCGGGAGCC-TCGGACACCATCGGCACCTTGGTGCC-CTG
66 ATCGGCACCTTGGTGCCTTGGATGTGCGGGA-CCATCGGA-ACCATCGGCACCTTGGTGCCTC-G
40324535 G
128 G
*
40324536 ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCC-CTGGTTGTGCGGGAGCATCGGACAC
1 ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCCTC-GGATGTGCGGGAGCATCGGACAC
* *
40324600 CATCGGCACCTTGGTGCCCTGGTTGTGCGGGAGCC-TCGGACACCATCGGCACCTTGGTGCCTCG
65 CATCGGCACCTTGGTGCCTTGGATGTGCGGGA-CCATCGGA-ACCATCGGCACCTTGGTGCCTCG
*
40324664 C
128 G
* *
40324665 ATGTGCGGGAGCCTCGGACACCATCGGCACCTTGCTGCCTCGGATGTGCGGGAGCATCGGACACC
1 ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCCTCGGATGTGCGGGAGCATCGGACACC
*
40324730 ATCGGCACCTTGGTGCCTTGGATGTGCGGGAGCATCGG
66 ATCGGCACCTTGGTGCCTTGGATGTGCGGGACCATCGG
40324768 GCTAAAAATA
Statistics
Matches: 786, Mismatches: 132, Indels: 138
0.74 0.12 0.13
Matches are distributed among these distances:
117 7 0.01
118 56 0.07
119 16 0.02
120 14 0.02
121 93 0.12
122 3 0.00
124 1 0.00
125 1 0.00
126 1 0.00
127 8 0.01
128 26 0.03
129 531 0.68
130 28 0.04
131 1 0.00
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (128 bp):
ATGTGCGGGAGCATCGGACACCATCGGCACCTTGGTGCCTCGGATGTGCGGGAGCATCGGACACC
ATCGGCACCTTGGTGCCTTGGATGTGCGGGACCATCGGAACCATCGGCACCTTGGTGCCTCGG
Found at i:40324270 original size:75 final size:76
Alignment explanation
Indices: 40324146--40324378 Score: 236
Period size: 75 Copynumber: 2.9 Consensus size: 76
40324136 CATCGGACAC
* *
40324146 CATCGGTAACTAAGGCCGATGGTGGTGCGGGACCGTCGAGAAGCATCGGCACCTCGGTGCCTTCG
1 CATCGGCAACTAAGGCCGATGGTGGTGCGGGACCGTCGAGAAGCATCGGCACCTCGGTGCCTACG
*
40324211 ATGTGCGGGAG
66 ATGTGCGAGAG
* ** * * *
40324222 CATCGGCAACTTAGGCCGATGGT-GTTTGGGACCGTCGGGAAGCATCGGCACCTTGGTGCCTAGG
1 CATCGGCAACTAAGGCCGATGGTGGTGCGGGACCGTCGAGAAGCATCGGCACCTCGGTGCCTACG
40324286 ATGTGCGAGAG
66 ATGTGCGAGAG
* * * *
40324297 CATCGGACACCATCGGTAACTTAGGCCGATGGTGGTGCGGGACCATCGGGAATCATCGGCACCTT
1 CATCGG-CA--A-C--T-A---AGGCCGATGGTGGTGCGGGACCGTCGAGAAGCATCGGCACCTC
40324362 GGTGCCT-CGGATGTGCG
56 GGTGCCTAC-GATGTGCG
40324379 GGACCATTGG
Statistics
Matches: 130, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
75 51 0.39
76 23 0.18
78 1 0.01
79 1 0.01
81 1 0.01
85 11 0.08
86 42 0.32
ACGTcount: A:0.18, C:0.25, G:0.36, T:0.20
Consensus pattern (76 bp):
CATCGGCAACTAAGGCCGATGGTGGTGCGGGACCGTCGAGAAGCATCGGCACCTCGGTGCCTACG
ATGTGCGAGAG
Found at i:40339051 original size:43 final size:43
Alignment explanation
Indices: 40338990--40340100 Score: 884
Period size: 43 Copynumber: 26.4 Consensus size: 43
40338980 TATTTTTAGC
40338990 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* *
40339033 CCGATGCTCCCGCACATCCGAGGCAGCAAGGTGCCGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * *
40339076 CCGAGGCTCCCGCACATGCGAGGCACCAAGGTGCCGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * *
40339119 CCGAGGCTCCCGCACAACCAGGGCACCAAGGTGCCGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
*
40339162 CCGATGCTCCCGCACAACC-AGGCACCAAGGTGCCGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
*
40339204 CCGATGCTCCCGCACATCCAGGGCACCAAGGTGCCGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * *
40339247 CCGAGGCTCCCGCACATCCGAGGCACCAAGGTGCCGACGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* *
40339290 CCGAGGCTCCTGCACAT--------CCAAGGTGCCGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * * * **
40339325 CCGAGGCACCCGCACATCGAAGGCACCATGGTGCCGATACT-T
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * * *
40339367 CCCAATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGAT-T
1 -CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * * * *
40339410 CCGATGGTCCCGCACCA-CCATCGGC-CTAAGTTACCGATGGTGT
1 CCGATGCTCCCGCA-CATCCA-AGGCACCAAGGTGCCGATGGTGT
* * *
40339453 CCGATGCTCTCGCACATCCTAGGCACCAAGGTGCCGATGCT-T
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * ** * * *
40339495 CCCGACGGT--C-C-CA---AA--CACCATCG-GCCTAAGTTG-
1 -CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * *
40339528 CCGATGCTCCCGCACATCGAAGGCACCGAGGTGCCGATGCT-T
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * * ** * *
40339570 CTCGACGGTCCCGCACCA-CCATCGGC-CTTAGTTACCGATGGTGT
1 C-CGATGCTCCCGCA-CATCCA-AGGCACCAAGGTGCCGATGGTGT
* * **
40339614 CCGATGCTCCCGCACATCGAAGGCACCATGGTGCCGATACT-T
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * ** * *
40339656 CCCGATGGTCCCGCACCA-CCATCGGC-CTTAGTTGCCGATGGTGC
1 -CCGATGCTCCCGCA-CATCCA-AGGCACCAAGGTGCCGATGGTGT
* * *
40339700 CCGATGGC-CTCGCACATCCGAGGCACCAAGGTGCCGATGCT-T
1 CCGAT-GCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * ** *
40339742 CCCGATGGTCCCGCACCA-CCACCGGC-CTGAGTTGCCGATGGTGT
1 -CCGATGCTCCCGCA-CATCCA-AGGCACCAAGGTGCCGATGGTGT
* * **
40339786 CCGATGCTCTCGCACATCGAAGGCACCAAGGTGCCGATACT-T
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * * **
40339828 CCCGATGGTCCCGCACATCCGACGCACCAAGGTGCCGATTAT-T
1 -CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* ** * * *
40339871 CCCGATGGT-CCGCACCA-CCATCG-ATCTAAGGTGCCGAAGGCGT
1 -CCGATGCTCCCGCA-CATCCAAGGCA-CCAAGGTGCCGATGGTGT
* * *
40339914 CCGATGCTGCCGCACATCCAGGGCACCAAGGTACCGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
** * * *
40339957 CCGATGCTGTCGCACAACCAGGGCACC--GGTGCCGGTGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* * *
40339998 CCGATGGTCCCGCACATCCAAGGCACCAAGTTGACGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* *
40340041 CCGAGGCTCCCGCACATCCGAGGCACCAAGGTGCCGATGGTGT
1 CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
* *
40340084 CCGAGGCTCTCGCACAT
1 CCGATGCTCCCGCACAT
40340101 GTCTGGAACA
Statistics
Matches: 852, Mismatches: 159, Indels: 114
0.76 0.14 0.10
Matches are distributed among these distances:
32 6 0.01
33 6 0.01
34 7 0.01
35 33 0.04
36 3 0.00
39 4 0.00
40 1 0.00
41 41 0.05
42 128 0.15
43 603 0.71
44 20 0.02
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (43 bp):
CCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT
Found at i:40339235 original size:128 final size:128
Alignment explanation
Indices: 40338989--40340100 Score: 876
Period size: 128 Copynumber: 8.8 Consensus size: 128
40338979 TTATTTTTAG
*
40338989 CCCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCGA
1 CCCGATGGTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCC-A
* * *
40339054 GGCAGCAAGGTGCCGATGGTGTCCGAGGCTCCCGCACATGC-GAGGCACCAAGGTGCCGATGGTG
65 GGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCAG-GGCACCAAGGTGCCGATGGT-
40339118 T
128 T
* * *
40339119 -CCGA-GGCTCCCGCACAACCAGGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACAACCA
1 CCCGATGG-TCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCA
40339182 GGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCAGGGCACCAAGGTGCCGATGGTGT
65 GGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCAGGGCACCAAGGTGCCGATGGT-T
* * * *
40339247 -CCGA-GGCTCCCGCACATCCGAGGCACCAAGGTGCCGACGGTGTCCGAGGCTCCTGCACAT---
1 CCCGATGG-TCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCA
* * * * * **
40339307 ----CCAAGGTGCCGATGGTGTCCGAGGCACCCGCACATCGAAGGCACCATGGTGCCGATACTT
65 GGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCAGGGCACCAAGGTGCCGATGGTT
* * * *
40339367 CCCAATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGAT-TCCGATGGTCCCGCACCA-CCA
1 CCCGATGGTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCA-CATCCA
* * * * *
40339430 TCGGC-CTAAGTTACCGATGGTGTCCGATGCTCTCGCACATCCTA-GGCACCAAGGTGCCGATGC
65 --GGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCC-AGGGCACCAAGGTGCCGATGG
40339493 TT
127 TT
* ** * * * *
40339495 CCCGACGGT--C-C-CA---AA--CACCATCG-GCCTAAGTTG-CCGATGCTCCCGCACATCGAA
1 CCCGATGGTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATC-CA
* * * * * ** * *
40339549 GGCACCGAGGTGCCGATGCT-TCTCGACGGTCCCGCACCA-CCATCGGC-CTTAGTTACCGATGG
65 GGCACCAAGGTGCCGATGGTGTC-CGATGCTCCCGCA-CATCCA-GGGCACCAAGGTGCCGATGG
40339611 TGT
127 T-T
* * * ** *
40339614 -CCGATGCTCCCGCACATCGAAGGCACCATGGTGCCGATACT-TCCCGATGGTCCCGCACCA-CC
1 CCCGATGGTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGT-CCGATGCTCCCGCA-CATCC
** * * *
40339676 ATCGGC-CTTAGTTGCCGATGGTGCCCGATGGC-CTCGCACATCC-GAGGCACCAAGGTGCCGAT
64 A--GGCACCAAGGTGCCGATGGTGTCCGAT-GCTCCCGCACATCCAG-GGCACCAAGGTGCCGAT
*
40339738 GCTT
125 GGTT
* ** * *
40339742 CCCGATGGTCCCGCACCA-CCACCGGC-CTGAGTTGCCGATGGTGTCCGATGCTCTCGCACATCG
1 CCCGATGGTCCCGCA-CATCCA-AGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATC-
* ** * * *
40339805 AAGGCACCAAGGTGCCGATACT-TCCCGATGGTCCCGCACATCC-GACGCACCAAGGTGCCGATT
63 CAGGCACCAAGGTGCCGATGGTGT-CCGATGCTCCCGCACATCCAG-GGCACCAAGGTGCCGATG
*
40339868 ATT
126 GTT
** * * * *
40339871 CCCGATGGT-CCGCACCA-CCATCG-ATCTAAGGTGCCGAAGGCGTCCGATGCTGCCGCACATCC
1 CCCGATGGTCCCGCA-CATCCAAGGCA-CCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCC
* ** * *
40339933 AGGGCACCAAGGTACCGATGGTGTCCGATGCTGTCGCACAACCAGGGCACC--GGTGCCGGTGGT
64 A-GGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCAGGGCACCAAGGTGCCGATGGT
40339996 GT
128 -T
* * *
40339998 -CCGATGGTCCCGCACATCCAAGGCACCAAGTTGACGATGGTGTCCGAGGCTCCCGCACATCCGA
1 CCCGATGGTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCC-A
* *
40340062 GGCACCAAGGTGCCGATGGTGTCCGAGGCTCTCGCACAT
65 GGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACAT
40340101 GTCTGGAACA
Statistics
Matches: 782, Mismatches: 138, Indels: 127
0.75 0.13 0.12
Matches are distributed among these distances:
117 8 0.01
118 60 0.08
119 13 0.02
120 14 0.02
121 91 0.12
122 4 0.01
124 2 0.00
125 3 0.00
126 20 0.03
127 84 0.11
128 269 0.34
129 200 0.26
130 14 0.02
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (128 bp):
CCCGATGGTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCAG
GCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCAGGGCACCAAGGTGCCGATGGTT
Found at i:40339318 original size:35 final size:35
Alignment explanation
Indices: 40339272--40339347 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
40339262 ATCCGAGGCA
* *
40339272 CCAAGGTGCCGACGGTGTCCGAGGCTCCTGCACAT
1 CCAAGGTGCCGACGGTGTCCGAGGCACCCGCACAT
*
40339307 CCAAGGTGCCGATGGTGTCCGAGGCACCCGCACAT
1 CCAAGGTGCCGACGGTGTCCGAGGCACCCGCACAT
*
40339342 CGAAGG
1 CCAAGG
40339348 CACCATGGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.14
Consensus pattern (35 bp):
CCAAGGTGCCGACGGTGTCCGAGGCACCCGCACAT
Found at i:40339383 original size:78 final size:78
Alignment explanation
Indices: 40339229--40339386 Score: 205
Period size: 78 Copynumber: 2.0 Consensus size: 78
40339219 ATCCAGGGCA
* ** *
40339229 CCAAGGTGCCGATGGTGTCCGAGGCTCCCGCACATCCGAGGCACCAAGGTGCCGACGGTGTCCGA
1 CCAAGGTGCCGATGGTGTCCGAGGCACCCGCACATCCGAGGCACCAAGGTGCCGACACTGTCCAA
*
40339294 GGCTCCTGCACAT
66 GGCTCCCGCACAT
* *
40339307 CCAAGGTGCCGATGGTGTCCGAGGCACCCGCACAT-CGAAGGCACCATGGTGCCGATACT-TCCC
1 CCAAGGTGCCGATGGTGTCCGAGGCACCCGCACATCCG-AGGCACCAAGGTGCCGACACTGT-CC
40339370 AATGG-TCCCGCACAT
64 AA-GGCTCCCGCACAT
40339385 CC
1 CC
40339387 GAGGCACCAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
77 3 0.04
78 65 0.93
79 2 0.03
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.16
Consensus pattern (78 bp):
CCAAGGTGCCGATGGTGTCCGAGGCACCCGCACATCCGAGGCACCAAGGTGCCGACACTGTCCAA
GGCTCCCGCACAT
Found at i:40339866 original size:172 final size:168
Alignment explanation
Indices: 40338989--40340079 Score: 738
Period size: 171 Copynumber: 6.5 Consensus size: 168
40338979 TTATTTTTAG
* * * * *
40338989 CCCGATGCTCCCGCACATCCAAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCCGA
1 CCCGATGGTCCCGCACATCC-ACGCACCAAGTTGCCGATGGTGCCCGATG-GCCCGCACATCCGA
* * * * * *
40339054 GGCAGCAAGGTGCCGATGGTGT-CCGA-GGCTCCCGCA-CATGCGA-GGCACCAAGGTGCCGATG
64 GGCACCAAGGTGCCGATGCT-TCCCGATGG-TCCCGCACCA--CCACGGC-CTAAGTTACCGATG
* * * * * **
40339115 GTGTCCGAGGCTCCCGCACAACCAGGGCACCAAGGTGCCGATGGTGT
124 GTGTCCGATGCTCTCGCACATCGAAGGCACC-AGGTGCCGATACT-T
* * * * * *
40339162 -CCGATGCTCCCGCACAACCAGGCACCAAGGTGCCGATGGTGTCCGATGCTCCCGCACATCC-AG
1 CCCGATGGTCCCGCACATCCACGCACCAAGTTGCCGATGGTGCCCGATG-GCCCGCACATCCGA-
* * * * *
40339225 GGCACCAAGGTGCCGATGGTGT-CCGA-GGCTCCCGCA-CATCCGA-GGCACCAAGGTGCCGACG
64 GGCACCAAGGTGCCGATGCT-TCCCGATGG-TCCCGCACCA-CC-ACGGC-CTAAGTTACCGATG
* **
40339286 GTGTCCGAGGCTC-CTGCACATC-----CA--AGGTGCCGATGGTGT
124 GTGTCCGATGCTCTC-GCACATCGAAGGCACCAGGTGCCGATACT-T
* * * * * ** * *
40339325 -CCGA-GGCACCCGCACATCGAAGGCACCATGGTGCCGATACTTCCCAATGGTCCCGCACATCCG
1 CCCGATGG-TCCCGCACATC-CACGCACCAAGTTGCCGATGGTGCCCGATGG-CCCGCACATCCG
*
40339388 AGGCACCAAGGTGCCGATGATT-CCGATGGTCCCGCACCACCATCGGCCTAAGTTACCGATGGTG
63 AGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGCACCACCA-CGGCCTAAGTTACCGATGGTG
** *
40339452 TCCGATGCTCTCGCACATCCTAGGCACCAAGGTGCCGATGCTT
127 TCCGATGCTCTCGCACATCGAAGGCACC-AGGTGCCGATACTT
* ** *
40339495 CCCGACGGTCCCAAACA-CCATCGGC-CTAAGTTGCCGA---TG--C--T--CCCGCACAT-CGA
1 CCCGATGGTCCCGCACATCCA-C-GCACCAAGTTGCCGATGGTGCCCGATGGCCCGCACATCCG-
* * * *
40339548 AGGCACCGAGGTGCCGATGCTTCTCGACGGTCCCGCACCACCATCGGCCTTAGTTACCGATGGTG
63 AGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGCACCACCA-CGGCCTAAGTTACCGATGGTG
*
40339613 TCCGATGCTCCCGCACATCGAAGGCACCATGGTGCCGATACTT
127 TCCGATGCTCTCGCACATCGAAGGCACCA-GGTGCCGATACTT
**
40339656 CCCGATGGTCCCGCACCA-CCATCGGC-CTTAGTTGCCGATGGTGCCCGATGGCCTCGCACATCC
1 CCCGATGGTCCCGCA-CATCCA-C-GCACCAAGTTGCCGATGGTGCCCGATGGCC-CGCACATCC
* *
40339719 GAGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGCACCACCACCGGCCTGAGTTGCCGATGGT
62 GAGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGCACCACCA-CGGCCTAAGTTACCGATGGT
40339784 GTCCGATGCTCTCGCACATCGAAGGCACCAAGGTGCCGATACTT
126 GTCCGATGCTCTCGCACATCGAAGGCACC-AGGTGCCGATACTT
* ** * *
40339828 CCCGATGGTCCCGCACATCCGACGCACCAAGGTGCCGATTATTCCCGATGGTCCGCACCA-CC-A
1 CCCGATGGTCCCGCACATCC-ACGCACCAAGTTGCCGATGGTGCCCGATGGCCCGCA-CATCCGA
* * * * * * * * *
40339891 -TCGATCTAAGGTGCCGAAGGCGT-CCGATGCTGCCGCA-CATCCAGGGCACCAAGGTACCGATG
64 GGC-A-CCAAGGTGCCG-ATGCTTCCCGATGGTCCCGCACCA-CCACGGC-CTAAGTTACCGATG
* * * * * **
40339953 GTGTCCGATGCTGTCGCACAACCAGGGCACC-GGTGCCGGTGGTGT
124 GTGTCCGATGCTCTCGCACATCGAAGGCACCAGGTGCCGATACT-T
* * *
40339998 -CCGATGGTCCCGCACATCCAAGGCACCAAGTTGACGATGGTGTCCGA-GGCTCCCGCACATCCG
1 CCCGATGGTCCCGCACATCC-ACGCACCAAGTTGCCGATGGTGCCCGATGG--CCCGCACATCCG
40340061 AGGCACCAAGGTGCCGATG
63 AGGCACCAAGGTGCCGATG
40340080 GTGTCCGAGG
Statistics
Matches: 773, Mismatches: 90, Indels: 114
0.79 0.09 0.12
Matches are distributed among these distances:
159 2 0.00
160 30 0.04
161 88 0.11
162 23 0.03
163 72 0.09
164 61 0.08
165 4 0.01
166 2 0.00
167 2 0.00
168 4 0.01
169 55 0.07
170 39 0.05
171 216 0.28
172 171 0.22
173 4 0.01
ACGTcount: A:0.20, C:0.35, G:0.28, T:0.17
Consensus pattern (168 bp):
CCCGATGGTCCCGCACATCCACGCACCAAGTTGCCGATGGTGCCCGATGGCCCGCACATCCGAGG
CACCAAGGTGCCGATGCTTCCCGATGGTCCCGCACCACCACGGCCTAAGTTACCGATGGTGTCCG
ATGCTCTCGCACATCGAAGGCACCAGGTGCCGATACTT
Found at i:40340803 original size:43 final size:43
Alignment explanation
Indices: 40340745--40341972 Score: 440
Period size: 43 Copynumber: 29.0 Consensus size: 43
40340735 GGCCCGACGG
* *
40340745 TGTCCC-ATGCTCCCGCACATGCAAGGCACCTAGGTCCCGATGC
1 TGTCCCGATGCTCCCGCACAT-CAAGGCACCAAGGTGCCGATGC
* * * * * *
40340788 T-TCCCGATGGTCCCGCACCACCATCGGC-CAAAGTTGCCGATGG
1 TGTCCCGATGCTCCCGCA-CATCA-AGGCACCAAGGTGCCGATGC
* * *
40340831 TGT-CCGATGCTCCCGCACATTCGAGGCACCTAGGTGCCGATGG
1 TGTCCCGATGCTCCCGCACA-TCAAGGCACCAAGGTGCCGATGC
40340874 TGT-CCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATGC
1 TGTCCCGATGCTCCCGCACATC-AAGGCACCAAGGTGCCGATGC
* * * *
40340917 T-TCCCGATGGTCCCGCACCACCATCGGCCTTATTGCCGATGGTGTCCGATGC
1 TGTCCCGATGCTCCCGCA-CATCA-AGG-C--A---CC-AAGGTG-CCGATGC
* * * * ** * * *
40340969 T-TCCCGATGGTCTCGCACCACCATCGGC-CTGAGTTACCGATGG
1 TGTCCCGATGCTCCCGCA-CATCA-AGGCACCAAGGTGCCGATGC
* *
40341012 TGT-TCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATAC
1 TGTCCCGATGCTCCCGCACATC-AAGGCACCAAGGTGCCGATGC
* *
40341055 T-TCCCGATGGT-CCGC-CATCGAGGCA-C----TG-CGATGC
1 TGTCCCGATGCTCCCGCACATCAAGGCACCAAGGTGCCGATGC
* * ** ** * *
40341089 T-TCCCGATGGTCCCGCACCACCATCGC-CTTAGTTGCCGATGG
1 TGTCCCGATGCTCCCGCA-CATCAAGGCACCAAGGTGCCGATGC
* * *
40341131 TGT-CCGATGCTCCCGCACATCGAGGCACCAGGGTGCCGATAC
1 TGTCCCGATGCTCCCGCACATCAAGGCACCAAGGTGCCGATGC
* * * *** * ** *
40341173 T-TCCCGATGGT-CCGCACCACCATCGGC-CTTTGTTATCGATGG
1 TGTCCCGATGCTCCCGCA-CATCA-AGGCACCAAGGTGCCGATGC
* *
40341215 TG-CCCGATGCTCTCGCACATCCGAGGCACCAAGGTGCCGATGC
1 TGTCCCGATGCTCCCGCACAT-CAAGGCACCAAGGTGCCGATGC
* * * * ** * *
40341258 T-TCCCGATGGTTCCGCACCACCATCGGC-CTTAGTTGCCGATGG
1 TGTCCCGATGCTCCCGCA-CATCA-AGGCACCAAGGTGCCGATGC
*
40341301 TGT-TCGATGCTCCCG-ACATCGAA-GCACCAAGG-G-C-A---
1 TGTCCCGATGCTCCCGCACATC-AAGGCACCAAGGTGCCGATGC
* * * *
40341336 TATCCCGATGGTCCCGCACATC-CGAGCACC-AGGTGCTGATGC
1 TGTCCCGATGCTCCCGCACATCAAG-GCACCAAGGTGCCGATGC
* * * ** * *
40341378 T-TCCCGATGGTCCCGCACCACCATCGGC-CTTAGTTGCCGATGG
1 TGTCCCGATGCTCCCGCA-CATCA-AGGCACCAAGGTGCCGATGC
*
40341421 TGT-CCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATAC
1 TGTCCCGATGCTCCCGCACATC-AAGGCACCAAGGTGCCGATGC
* * *
40341464 T-TCCCGATGGTCCCGCACATCGAGGCACCAAGGTGCCGATGG
1 TGTCCCGATGCTCCCGCACATCAAGGCACCAAGGTGCCGATGC
* * * * ** *
40341506 T-TCCCGATGGTCGCGCACCACCATCGGC-CTGA-GTAGCCGATGG
1 TGTCCCGATGCTCCCGCA-CATCA-AGGCACCAAGGT-GCCGATGC
** *
40341549 TGT-CCGATGCTCTTGCACATCCTAGGCACCAAGGTGCCGATGC
1 TGTCCCGATGCTCCCGCACAT-CAAGGCACCAAGGTGCCGATGC
* * * * *** * ** *
40341592 T-T-CCGACGGTCCCGCACCACCATCGGC-CTTTGTTATCGATGG
1 TGTCCCGATGCTCCCGCA-CATCA-AGGCACCAAGGTGCCGATGC
* *
40341634 TG-CCCGATGCTCTCGCACATCGAGGCACCAAGGTGCCGATGC
1 TGTCCCGATGCTCCCGCACATCAAGGCACCAAGGTGCCGATGC
* * * ** * *
40341676 TTTCCCGATGGTCCCACCACCATC--GGC-CTTAGTTGCCGATGG
1 TGTCCCGATGCTCCC-GCA-CATCAAGGCACCAAGGTGCCGATGC
* *
40341718 TGT-TCGAT-CTCCCGCACATCGAAGGCACCAAGGTGCCGATAC
1 TGTCCCGATGCTCCCGCACATC-AAGGCACCAAGGTGCCGATGC
* * *
40341760 T-TCCCGATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGG
1 TGTCCCGATGCTCCCGCACAT-CAAGGCACCAAGGTGCCGATGC
* * * * ** *
40341803 T-TCCCGATGGTCGCGCACCACCATCGGC-CTGA-GTAGCCGATGG
1 TGTCCCGATGCTCCCGCA-CATCA-AGGCACCAAGGT-GCCGATGC
** *
40341846 TGT-CCGATGCTCTTGCACATCCTAGGCACCAAGGTGCCGATGC
1 TGTCCCGATGCTCCCGCACAT-CAAGGCACCAAGGTGCCGATGC
* * * * ** * *
40341889 T-TCCCGACGGTCCCGCACCACCATCGGC-CTGAGTTGCCGATGG
1 TGTCCCGATGCTCCCGCA-CATCA-AGGCACCAAGGTGCCGATGC
*
40341932 TGT-TCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGAT
1 TGTCCCGATGCTCCCGCACATC-AAGGCACCAAGGTGCCGAT
40341973 ACCTCCGATG
Statistics
Matches: 863, Mismatches: 223, Indels: 198
0.67 0.17 0.15
Matches are distributed among these distances:
34 16 0.02
35 8 0.01
36 13 0.02
37 16 0.02
38 5 0.01
39 5 0.01
40 12 0.01
41 50 0.06
42 213 0.25
43 431 0.50
44 46 0.05
45 6 0.01
47 1 0.00
50 2 0.00
51 6 0.01
52 33 0.04
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (43 bp):
TGTCCCGATGCTCCCGCACATCAAGGCACCAAGGTGCCGATGC
Found at i:40340912 original size:86 final size:83
Alignment explanation
Indices: 40340822--40341820 Score: 500
Period size: 85 Copynumber: 11.8 Consensus size: 83
40340812 CGGCCAAAGT
* * *
40340822 TGCCGATGGTGTCCGATGCTCCCGCACATTCGAGGCACCTAGGTGCCGATGGTGTCCGATGCTCC
1 TGCCGATGCT-TCCGATGGTCCCGCACA--CCAGGCACCTAGGTGCCGATGGTGTCCGATGCTCC
40340887 CGCACATCGAAGGCACCAAGG
63 CGCACATCGAAGGCACCAAGG
* *
40340908 TGCCGATGCTTCCCGATGGTCCCGCACCACCATCGGC-CTTA-TTGCCGATGGTGTCCGATGCTT
1 TGCCGATGCTT-CCGATGGTCCCGCA-CACCA--GGCACCTAGGTGCCGATGGTGTCCGATGC-T
* * *
40340971 CCCG-ATGGTC-TCGCA-CCACCATCGG
61 CCCGCA----CATCGAAGGCACCA-AGG
* * * * * **
40340996 CCTGAGTTACCGATGGTGTTCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACT-TCCC
1 --T--G---CCGATGCT-TCCGATGGTCCCGCACA-C-CAGGCACCTAGGTGCCGATGGTGT-CC
*
40341060 GATGGT-CCGC-CATCG-AGGCA-C----
55 GATGCTCCCGCACATCGAAGGCACCAAGG
* * *
40341081 TG-CGATGCTTCCCGATGGTCCCGCACCACCATCGC-CTTAGTTGCCGATGGTGTCCGATGCTCC
1 TGCCGATGCTT-CCGATGGTCCCGCA-CACCA-GGCACCTAGGTGCCGATGGTGTCCGATGCTCC
*
40341144 CGCACATCG-AGGCACCAGGG
63 CGCACATCGAAGGCACCAAGG
* * * * ** *
40341164 TGCCGATACTTCCCGATGGT-CCGCACCACCATCGGC-CTTTGTTATCGATGGTGCCCGATGCTC
1 TGCCGATGCTT-CCGATGGTCCCGCA-CACCA--GGCACCTAGGTGCCGATGGTGTCCGATGCTC
*
40341227 TCGCACATCCG-AGGCACCAAGG
62 CCGCACAT-CGAAGGCACCAAGG
* * * *
40341249 TGCCGATGCTTCCCGATGGTTCCGCACCACCATCGGC-CTTAGTTGCCGATGGTGTTCGATGCTC
1 TGCCGATGCTT-CCGATGGTCCCGCA-CACCA--GGCACCTAGGTGCCGATGGTGTCCGATGCTC
40341313 CCG-ACATCGAA-GCACCAAGG
62 CCGCACATCGAAGGCACCAAGG
* * * * *
40341333 -G-C-AT-ATCCCGATGGTCCCGCACATCC-GAGCACC-AGGTGCTGATGCT-TCCCGATGGTCC
1 TGCCGATGCTTCCGATGGTCCCGCACA-CCAG-GCACCTAGGTGCCGATGGTGT-CCGATGCTCC
* * ** *
40341391 CGCACCA-CCATCGGC-CTTAGT
63 CGCA-CATCGA-AGGCACCAAGG
* * * * ** *
40341412 TGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACT-TCCCGATGGTC
1 TGCCGATGCT-TCCGATGGTCCCGCACA-C-CAGGCACCTAGGTGCCGATGGTGT-CCGATGCTC
40341476 CCGCACATCG-AGGCACCAAGG
62 CCGCACATCGAAGGCACCAAGG
* *
40341497 TGCCGATGGTTCCCGATGGTCGCGCACCACCATCGG--CCT-GAGTAGCCGATGGTGTCCGATGC
1 TGCCGATGCTT-CCGATGGTCCCGCA-CACCA--GGCACCTAG-GT-GCCGATGGTGTCCGATGC
** **
40341559 TCTTGCACATCCTAGGCACCAAGG
60 TCCCGCACATCGAAGGCACCAAGG
* * * * ** * *
40341583 TGCCGATGCTTCCGACGGTCCCGCACCACCATCGGC-CTTTGTTATCGATGGTGCCCGATGCTCT
1 TGCCGATGCTTCCGATGGTCCCGCA-CACCA--GGCACCTAGGTGCCGATGGTGTCCGATGCTCC
40341647 CGCACATCG-AGGCACCAAGG
63 CGCACATCGAAGGCACCAAGG
* * * *
40341667 TGCCGATGCTTTCCCGATGGTCCCAC-CACCATCGGC-CTTAGTTGCCGATGGTGTTCGAT-CTC
1 TGCCGATGC-TT-CCGATGGTCCCGCACACCA--GGCACCTAGGTGCCGATGGTGTCCGATGCTC
40341729 CCGCACATCGAAGGCACCAAGG
62 CCGCACATCGAAGGCACCAAGG
* * *
40341751 TGCCGATACTTCCCGATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGGT-TCCCGATGGTC
1 TGCCGATGCTT-CCGATGGTCCCGCACA-CC-AGGCACCTAGGTGCCGATGGTGT-CCGATGCTC
*
40341815 GCGCAC
62 CCGCAC
40341821 CACCATCGGC
Statistics
Matches: 727, Mismatches: 107, Indels: 158
0.73 0.11 0.16
Matches are distributed among these distances:
76 22 0.03
77 48 0.07
78 18 0.02
79 21 0.03
80 4 0.01
81 4 0.01
82 3 0.00
83 44 0.06
84 158 0.22
85 182 0.25
86 147 0.20
87 11 0.02
88 6 0.01
89 1 0.00
90 4 0.01
91 5 0.01
92 1 0.00
94 8 0.01
95 24 0.03
96 16 0.02
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.21
Consensus pattern (83 bp):
TGCCGATGCTTCCGATGGTCCCGCACACCAGGCACCTAGGTGCCGATGGTGTCCGATGCTCCCGC
ACATCGAAGGCACCAAGG
Found at i:40340969 original size:52 final size:53
Alignment explanation
Indices: 40340906--40341026 Score: 185
Period size: 52 Copynumber: 2.3 Consensus size: 53
40340896 AAGGCACCAA
* *
40340906 GGTG-CCGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTTA-TTGCCGAT
1 GGTGTCCGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTGAGTTACCGAT
*
40340957 GGTGTCCGATGCTTCCCGATGGTCTCGCACCACCATCGGCCTGAGTTACCGAT
1 GGTGTCCGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTGAGTTACCGAT
*
40341010 GGTGTTCGATGC-TCCCG
1 GGTGTCCGATGCTTCCCG
40341027 CACATCGAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 4 0.06
52 42 0.66
53 18 0.28
ACGTcount: A:0.13, C:0.35, G:0.27, T:0.25
Consensus pattern (53 bp):
GGTGTCCGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTGAGTTACCGAT
Found at i:40341182 original size:84 final size:85
Alignment explanation
Indices: 40341083--40341777 Score: 689
Period size: 84 Copynumber: 8.3 Consensus size: 85
40341073 CGAGGCACTG
40341083 CGATGCTTCCCGATGGTCCCGCACCACCATC-GCCTTAGTTGCCGATGGTGTCCGATGCTCCCGC
1 CGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGC
*
40341147 ACATCGAGGCACCAGGGTGC
66 ACATCGAGGCACCAAGGTGC
* * ** * *
40341167 CGATACTTCCCGATGGT-CCGCACCACCATCGGCCTTTGTTATCGATGGTGCCCGATGCTCTCGC
1 CGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGC
40341231 ACATCCGAGGCACCAAGGTGC
66 ACAT-CGAGGCACCAAGGTGC
* *
40341252 CGATGCTTCCCGATGGTTCCGCACCACCATCGGCCTTAGTTGCCGATGGTGTTCGATGCTCCCG-
1 CGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGC
*
40341316 ACATCGAAGCACCAAGG-G-
66 ACATCGAGGCACCAAGGTGC
* * * * * * *
40341334 C-AT--ATCCCGATGGTCCCGCA-CATC--CGAGCAC-CAGGTGCTGATGCT-TCCCGATGGTCC
1 CGATGCTTCCCGATGGTCCCGCACCACCATCG-GC-CTTAGTTGCCGATGGTGT-CCGATGCTCC
* ** *
40341391 CGCACCA-CCATCGGC-CTTAGTTGC
63 CGCA-CATCGA--GGCACCAAGGTGC
* * * * ** * ** *
40341415 CGATGGTGT-CCGATGCTCCCGCA-CATCGA-AGGCACCAAGGTGCCGATACT-TCCCGATGGTC
1 CGATGCT-TCCCGATGGTCCCGCACCA-CCATCGGC-CTTAGTTGCCGATGGTGT-CCGATGCTC
40341476 CCGCACATCGAGGCACCAAGGTGC
62 CCGCACATCGAGGCACCAAGGTGC
* * * * **
40341500 CGATGGTTCCCGATGGTCGCGCACCACCATCGGCCTGAGTAGCCGATGGTGTCCGATGCTCTTGC
1 CGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGC
*
40341565 ACATCCTAGGCACCAAGGTGC
66 ACAT-CGAGGCACCAAGGTGC
* * ** * *
40341586 CGATGCTT-CCGACGGTCCCGCACCACCATCGGCCTTTGTTATCGATGGTGCCCGATGCTCTCGC
1 CGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGC
40341650 ACATCGAGGCACCAAGGTGC
66 ACATCGAGGCACCAAGGTGC
*
40341670 CGATGCTTTCCCGATGGT-CC-CACCACCATCGGCCTTAGTTGCCGATGGTGTTCGAT-CTCCCG
1 CGATGC-TTCCCGATGGTCCCGCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCG
40341732 CACATCGAAGGCACCAAGGTGC
65 CACATCG-AGGCACCAAGGTGC
*
40341754 CGATACTTCCCGATGGTCCCGCAC
1 CGATGCTTCCCGATGGTCCCGCAC
40341778 ATCCGAGGCA
Statistics
Matches: 506, Mismatches: 74, Indels: 61
0.79 0.12 0.10
Matches are distributed among these distances:
76 3 0.01
77 22 0.04
78 7 0.01
79 20 0.04
80 3 0.01
81 3 0.01
82 3 0.01
83 37 0.07
84 152 0.30
85 151 0.30
86 105 0.21
ACGTcount: A:0.18, C:0.35, G:0.26, T:0.21
Consensus pattern (85 bp):
CGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGC
ACATCGAGGCACCAAGGTGC
Found at i:40341184 original size:118 final size:120
Alignment explanation
Indices: 40340963--40341187 Score: 391
Period size: 119 Copynumber: 1.9 Consensus size: 120
40340953 CGATGGTGTC
* *
40340963 CGATGCTTCCCGATGGTCTCGCACCACCATCGGCCTGAGTTACCGATGGTGTTCGATGCTCCCGC
1 CGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTGAGTTACCGATGGTGTCCGATGCTCCCGC
40341028 ACATCGAAGGCACCAAGGTGCCGATACTTCCCGATGGTCCGCCATCGAGGCACTG
66 ACATCGAAGGCACCAAGGTGCCGATACTTCCCGATGGTCCGCCATCGAGGCACTG
* *
40341083 CGATGCTTCCCGATGGTCCCGCACCACCATC-GCCTTAGTTGCCGATGGTGTCCGATGCTCCCGC
1 CGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTGAGTTACCGATGGTGTCCGATGCTCCCGC
*
40341147 ACATCG-AGGCACCAGGGTGCCGATACTTCCCGATGGTCCGC
66 ACATCGAAGGCACCAAGGTGCCGATACTTCCCGATGGTCCGC
40341188 ACCACCATCG
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
118 34 0.34
119 36 0.36
120 30 0.30
ACGTcount: A:0.17, C:0.36, G:0.27, T:0.21
Consensus pattern (120 bp):
CGATGCTTCCCGATGGTCCCGCACCACCATCGGCCTGAGTTACCGATGGTGTCCGATGCTCCCGC
ACATCGAAGGCACCAAGGTGCCGATACTTCCCGATGGTCCGCCATCGAGGCACTG
Found at i:40341567 original size:128 final size:128
Alignment explanation
Indices: 40341217--40341992 Score: 592
Period size: 128 Copynumber: 6.1 Consensus size: 128
40341207 ATCGATGGTG
* *
40341217 CCCGATGCTCTCGCACATCCGAGGCACCAAGGTGCCGATGCTTCCCGATGGTTCCGCACCACCAT
1 CCCGATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGCTTCCCGATGG-TCCGCACCACCAT
*
40341282 CGGCCTTAGTTGCCGATGGTGTTCGATGCTCCCG-ACATCGAA-GCACCAAGG-G-C-ATA--T
65 CGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACTT
*
40341339 CCCGATGGTCCCGCACATCCGA-GCACC-AGGTGCTGATGCTTCCCGATGGTCCCGCACCACCAT
1 CCCGATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGCTTCCCGATGGT-CCGCACCACCAT
40341402 CGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACTT
65 CGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACTT
*
40341466 CCCGATGGTCCCGCACAT-CGAGGCACCAAGGTGCCGATGGTTCCCGATGGTCGCGCACCACCAT
1 CCCGATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGCTTCCCGATGGTC-CGCACCACCAT
* * ** ** *
40341530 CGGCCTGAGTAGCCGATGGTGTCCGATGCTCTTGCACATCCTAGGCACCAAGGTGCCGATGCTT
65 CGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACTT
* *** * ** * * *
40341594 -CCGACGGTCCCGCACCA-CC-ATCGGC-CTTTGTTATCGATGGTGCCCGATGCTCTCGCA-CAT
1 CCCGATGGTCCCGCA-CATCCGA--GGCACCAAGGTGCCGATGCTTCCCGATGGTC-CGCACCA-
* ** * * * * * ** *
40341654 CGA--GGCACCAAGGTGCCGATGCTTTCCCGATGGTCCCACCACCATC---GGC-CTTAGTTGCC
61 CCATCGGC-CTTAGTTGCCGATGGTGT-CCGATGCTCCC-GCA-CATCGAAGGCACCAAGGTGCC
**
40341713 GATGGTGT
122 GATACT-T
* * *
40341721 -TCGAT-CTCCCGCACAT-CGAAGGCACCAAGGTGCCGATACTTCCCGATGGTCCCGCA-CATCC
1 CCCGATGGTCCCGCACATCCG-AGGCACCAAGGTGCCGATGCTTCCCGATGGT-CCGCACCA-CC
** * * * * * **
40341782 GA--GGCACCAAGGTGCCGATGGT-TCCCGATGGTCGCGCACCA-CCATCGGC-CTGA-GTAGCC
63 -ATCGGC-CTTAGTTGCCGATGGTGT-CCGATGCTCCCGCA-CATCGA-AGGCACCAAGGT-GCC
**
40341841 GATGGTGT
122 GATACT-T
* ** * *
40341849 -CCGATGCTCTTGCACATCCTAGGCACCAAGGTGCCGATGCTTCCCGACGGTCCCGCACCACCAT
1 CCCGATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGCTTCCCGATGGT-CCGCACCACCAT
* * *
40341913 CGGCCTGAGTTGCCGATGGTGTTCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACCT
65 CGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACTT
40341977 -CCGATGGTCCCGCACA
1 CCCGATGGTCCCGCACA
40341993 ATCCATCGGC
Statistics
Matches: 534, Mismatches: 79, Indels: 76
0.78 0.11 0.11
Matches are distributed among these distances:
119 1 0.00
120 66 0.12
121 13 0.02
122 29 0.05
123 1 0.00
124 2 0.00
125 14 0.03
126 61 0.11
127 83 0.16
128 166 0.31
129 85 0.16
130 13 0.02
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (128 bp):
CCCGATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGCTTCCCGATGGTCCGCACCACCATC
GGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACTT
Found at i:40341789 original size:297 final size:299
Alignment explanation
Indices: 40340738--40342024 Score: 1178
Period size: 297 Copynumber: 4.3 Consensus size: 299
40340728 TTTTTTTGGC
* * * *
40340738 CCGACGGTGTCCC-ATGCTCCCGCACATGCAAGGCACCTAGGTCCCGATGCTTCCCGATGGTCCC
1 CCGATGGTG-CCCGATGCTCCCGCACAT-CGAGGCACCAAGGTGCCGATGCTTCCCGATGGTCCC
** *
40340802 GCACCACCATCGGCCAAAGTTGCCGATGGTGTCCGATGCTCCCGCACATTCG-AGGCACCTAGGT
64 GCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACA-TCGAAGGCACCAAGGT
** * * *
40340866 GCCGATGGTGT-CCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATGCTTCCCGATGGTCC
128 GCCGATACT-TCCCGATGGTCCCGCACATCG-AGGCACCAAGGTGCCGATGGTTCCCGATGGTCG
* *
40340930 CGCACCACCATCGGCCTTA-TTGCCGATGGTGTCCGATGCTTCCCGATGGTCTCGCACCA-CCAT
191 CGCACCACCATCGGCCTGAGTAGCCGATGGTGTCCGATGC-T--C-----T-T-GCA-CATCC-T
* ** * * * * * * * * ** * *
40340993 CGGC-CTGAGTTACCGATGGTGT-TCGATGCTCCCGCA-CATCGA-AGGCACCAAGGTG
244 AGGCACCAAGGTGCCGATGCT-TCCCGACGGTCCCGCACCA-CCATCGGC-CTGAGTTA
** * *
40341048 CCGATACTTCCCGATGGT-CCGC-CATCGAGGCA-C----TG-CGATGCTTCCCGATGGTCCCGC
1 CCGATGGTGCCCGATGCTCCCGCACATCGAGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGC
*
40341105 ACCACCATC-GCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCG-AGGCACCAGGGTGCC
66 ACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGCC
* *** * ** * * *
40341168 GATACTTCCCGATGGT-CCGCACCA-CCATCGGC-CTTTGTTATCGATGGTGCCCGATGCTCTCG
131 GATACTTCCCGATGGTCCCGCA-CATCGA--GGCACCAAGGTGCCGATGGTTCCCGATGGTCGCG
** * * * *
40341230 CA-CATCCGA--GGCACCAAGGT-GCCGATGCT-TCCCGATGGT-TCCGCACCA-CCATCGGC-C
193 CACCA-CC-ATCGGC-CTGA-GTAGCCGATGGTGT-CCGATGCTCT-TGCA-CATCC-TAGGCAC
** * * * * * * *
40341287 TTAGTTGCCGATGGTGT-TCGATGCTCCCG----A-CATC-G---AAG-CA
250 CAAGGTGCCGATGCT-TCCCGACGGTCCCGCACCACCATCGGCCTGAGTTA
* * * * *
40341327 CCAAGGGCATATCCCGATGGTCCCGCACATCCGA-GCACC-AGGTGCTGATGCTTCCCGATGGTC
1 CCGATGG--T-GCCCGATGCTCCCGCACAT-CGAGGCACCAAGGTGCCGATGCTTCCCGATGGTC
40341390 CCGCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGG
62 CCGCACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGG
40341455 TGCCGATACTTCCCGATGGTCCCGCACATCGAGGCACCAAGGTGCCGATGGTTCCCGATGGTCGC
127 TGCCGATACTTCCCGATGGTCCCGCACATCGAGGCACCAAGGTGCCGATGGTTCCCGATGGTCGC
40341520 GCACCACCATCGGCCTGAGTAGCCGATGGTGTCCGATGCTCTTGCACATCCTAGGCACCAAGGTG
192 GCACCACCATCGGCCTGAGTAGCCGATGGTGTCCGATGCTCTTGCACATCCTAGGCACCAAGGTG
**
40341585 CCGATGCTT-CCGACGGTCCCGCACCACCATCGGCCTTTGTTA
257 CCGATGCTTCCCGACGGTCCCGCACCACCATCGGCCTGAGTTA
* *
40341627 TCGATGGTGCCCGATGCTCTCGCACATCGAGGCACCAAGGTGCCGATGCTTTCCCGATGGT-CC-
1 CCGATGGTGCCCGATGCTCCCGCACATCGAGGCACCAAGGTGCCGATGC-TTCCCGATGGTCCCG
*
40341690 CACCACCATCGGCCTTAGTTGCCGATGGTGTTCGAT-CTCCCGCACATCGAAGGCACCAAGGTGC
65 CACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGC
40341754 CGATACTTCCCGATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGGTTCCCGATGGTCGCGC
130 CGATACTTCCCGATGGTCCCGCACAT-CGAGGCACCAAGGTGCCGATGGTTCCCGATGGTCGCGC
40341819 ACCACCATCGGCCTGAGTAGCCGATGGTGTCCGATGCTCTTGCACATCCTAGGCACCAAGGTGCC
194 ACCACCATCGGCCTGAGTAGCCGATGGTGTCCGATGCTCTTGCACATCCTAGGCACCAAGGTGCC
*
40341884 GATGCTTCCCGACGGTCCCGCACCACCATCGGCCTGAGTTG
259 GATGCTTCCCGACGGTCCCGCACCACCATCGGCCTGAGTTA
** * *
40341925 CCGATGGTGTTCGATGCTCCCGCACATCGAAGGCACCAAGGTGCCGATACCT-CCGATGGTCCCG
1 CCGATGGTGCCCGATGCTCCCGCACATCG-AGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCG
* * *
40341989 CACAATCCATCGGCC-AAGTTGTCGATGGTGTCCGAT
65 CACCA-CCATCGGCCTTAGTTGCCGATGGTGTCCGAT
40342025 TGTGTCCGAT
Statistics
Matches: 833, Mismatches: 89, Indels: 121
0.80 0.09 0.12
Matches are distributed among these distances:
279 3 0.00
280 3 0.00
281 1 0.00
282 10 0.01
283 4 0.00
284 8 0.01
285 4 0.00
286 1 0.00
288 2 0.00
289 72 0.09
290 63 0.08
291 91 0.11
292 14 0.02
294 1 0.00
295 4 0.00
296 58 0.07
297 180 0.22
298 107 0.13
299 100 0.12
300 49 0.06
301 31 0.04
302 1 0.00
306 1 0.00
307 6 0.01
308 3 0.00
309 7 0.01
310 9 0.01
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (299 bp):
CCGATGGTGCCCGATGCTCCCGCACATCGAGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGC
ACCACCATCGGCCTTAGTTGCCGATGGTGTCCGATGCTCCCGCACATCGAAGGCACCAAGGTGCC
GATACTTCCCGATGGTCCCGCACATCGAGGCACCAAGGTGCCGATGGTTCCCGATGGTCGCGCAC
CACCATCGGCCTGAGTAGCCGATGGTGTCCGATGCTCTTGCACATCCTAGGCACCAAGGTGCCGA
TGCTTCCCGACGGTCCCGCACCACCATCGGCCTGAGTTA
Found at i:40341854 original size:86 final size:86
Alignment explanation
Indices: 40341763--40342024 Score: 359
Period size: 86 Copynumber: 3.1 Consensus size: 86
40341753 CCGATACTTC
* * *
40341763 CCGATGGTCCCGCACATCCGAGGCACCAAGGTGCCGATGGTTCCCGATGGTCGCGCACCACCATC
1 CCGATGCTCCCGCACATCCGAGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGCACCACCATC
*
40341828 GGCCTGAGTAGCCGATGGTGT
66 GGCCTGAGTTGCCGATGGTGT
** * *
40341849 CCGATGCTCTTGCACATCCTAGGCACCAAGGTGCCGATGCTTCCCGACGGTCCCGCACCACCATC
1 CCGATGCTCCCGCACATCCGAGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGCACCACCATC
40341914 GGCCTGAGTTGCCGATGGTGT
66 GGCCTGAGTTGCCGATGGTGT
* * * *
40341935 TCGATGCTCCCGCACAT-CGAAGGCACCAAGGTGCCGATACCT-CCGATGGTCCCGCACAATCCA
1 CCGATGCTCCCGCACATCCG-AGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGCACCA-CCA
* *
40341998 TCGGCC-AAGTTGTCGATGGTGT
64 TCGGCCTGAGTTGCCGATGGTGT
40342020 CCGAT
1 CCGAT
40342025 TGTGTCCGAT
Statistics
Matches: 155, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
85 34 0.22
86 121 0.78
ACGTcount: A:0.18, C:0.34, G:0.28, T:0.19
Consensus pattern (86 bp):
CCGATGCTCCCGCACATCCGAGGCACCAAGGTGCCGATGCTTCCCGATGGTCCCGCACCACCATC
GGCCTGAGTTGCCGATGGTGT
Found at i:40342324 original size:3 final size:3
Alignment explanation
Indices: 40342316--40342340 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
40342306 CAATCAAATT
40342316 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
40342341 TTTGCTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:40358035 original size:38 final size:36
Alignment explanation
Indices: 40357993--40358492 Score: 140
Period size: 31 Copynumber: 14.4 Consensus size: 36
40357983 CCAATCCGCT
40357993 TGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGATA-C-AGTCTTTATCTC
* * * **
40358031 TGAAATTGAAGTA-AG-AGCA-AC-GTCATCCTCT-
1 TGAAATTGAAGTAGAGTTGGATACAGTCTTTATCTC
40358062 TGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGAT-ACA-GTCTTTATCTC
* * * ***
40358100 TGAAATTGAAGTA-AG-AGCA-AC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTTGGATACAGTCTTTATCTC
*
40358131 TGAAATTGAAGTAGAG-TGGATAATACGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGAT-ACA-GTCTTTATCTC
* ***
40358168 TGAAATTGAAGT-GAG--GGCA-AC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTTGG-ATACAGTCTTTATCTC
* * * ***
40358199 TGAAATTGAAGTA-AG-AGCA-AC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTTGGATACAGTCTTTATCTC
* *
40358230 TGAAATTGAAGTAGAG-TGGATAATACGTCTTTACCTC
1 TGAAATTGAAGTAGAGTTGGAT-ACA-GTCTTTATCTC
* * * ***
40358267 TGAAATTGAAGTA-AG-AGCA-AC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTTGGATACAGTCTTTATCTC
*
40358298 TGAAATTGAAGTAGAG-TGGATAATACGTCTTTATCTC
1 TGAAATTGAAGTAGAGTTGGAT-ACA-GTCTTTATCTC
* ***
40358335 TGAAATTGAAGT-GAG--GGCA-AC-GTCATCCCCT-
1 TGAAATTGAAGTAGAGTTGG-ATACAGTCTTTATCTC
* * *
40358366 TGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTC
1 TGAAATTGAAGTAGAGTTGGATA-C-AGTCTTTATCTC
* * *** *
40358404 CGAAAATGAAGTAAGAGCAAGAT-CA-T-TTCCCATCCTC
1 TGAAATTGAAGT-AGAGTTGGATACAGTCTT--TAT-CTC
40358441 TTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAGAGTTGGATA-C-AGTCTTTATCTC
*
40358480 CGAAATTGAAGTA
1 TGAAATTGAAGTA
40358493 AGAGCAACGT
Statistics
Matches: 343, Mismatches: 72, Indels: 94
0.67 0.14 0.18
Matches are distributed among these distances:
31 91 0.27
32 49 0.14
33 3 0.01
34 14 0.04
35 9 0.03
36 38 0.11
37 64 0.19
38 58 0.17
39 11 0.03
40 3 0.01
41 1 0.00
42 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (36 bp):
TGAAATTGAAGTAGAGTTGGATACAGTCTTTATCTC
Found at i:40358188 original size:68 final size:69
Alignment explanation
Indices: 40357986--40358211 Score: 375
Period size: 69 Copynumber: 3.3 Consensus size: 69
40357976 ATCAATGCCA
* *
40357986 ATCCGCTTGAAATTGAAGTAGAGTTGGAT-ATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 ATCCCCTTGAAATTGAAGTAGAGTTGGATAAT-ACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
40358050 ACGTC
65 ACGTC
* *
40358055 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCCCTTGAAATTGAAGTAGAGTTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
40358120 CGTC
66 CGTC
* *
40358124 ATCCCCTTGAAATTGAAGTAGAG-TGGATAATACGTCTTTATCTCTGAAATTGAAGTGAGGGCAA
1 ATCCCCTTGAAATTGAAGTAGAGTTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
40358188 CGTC
66 CGTC
40358192 ATCCCCTTGAAATTGAAGTA
1 ATCCCCTTGAAATTGAAGTA
40358212 AGAGCAACGT
Statistics
Matches: 149, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
68 62 0.42
69 86 0.58
70 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (69 bp):
ATCCCCTTGAAATTGAAGTAGAGTTGGATAATACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
CGTC
Found at i:40358216 original size:99 final size:99
Alignment explanation
Indices: 40358100--40358310 Score: 395
Period size: 99 Copynumber: 2.1 Consensus size: 99
40358090 TCTTTATCTC
*
40358100 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCTTTAT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCTTTAC
* *
40358165 CTCTGAAATTGAAGTGAGGGCAACGTCATCCCCT
66 CTCTGAAATTGAAGTAAGAGCAACGTCATCCCCT
40358199 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCTTTAC
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCTTTAC
40358264 CTCTGAAATTGAAGTAAGAGCAACGTCATCCCCT
66 CTCTGAAATTGAAGTAAGAGCAACGTCATCCCCT
40358298 TGAAATTGAAGTA
1 TGAAATTGAAGTA
40358311 GAGTGGATAA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 109 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (99 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCTTTAC
CTCTGAAATTGAAGTAAGAGCAACGTCATCCCCT
Found at i:40358271 original size:68 final size:69
Alignment explanation
Indices: 40358199--40358564 Score: 400
Period size: 68 Copynumber: 5.1 Consensus size: 69
40358189 GTCATCCCCT
*
40358199 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAAT-ACGTCTTT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGCTGGAT-ATCAAGTCTTT
*
40358262 ACCTC
65 ATCTC
*
40358267 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAAT-ACGTCTTT
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGCTGGAT-ATCAAGTCTTT
40358330 ATCTC
65 ATCTC
* * * *
40358335 TGAAATTGAAGTGAGGGCAACGTCATCCCCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTA
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTA
40358400 TCTC
66 TCTC
* * *
40358404 CGAAAATGAAGTAAGAGCAA-GATCATTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATATCA
1 TGAAATTGAAGTAAGAGCAACG-TCA--T--C--CC-CTTGAAATTGAAGTAGAGCTGGATATCA
40358468 AGTCTTTATCTC
58 AGTCTTTATCTC
* * ** *
40358480 CGAAATTGAAGTAAGAGCAACGTCATTTCCTATCCGTTCAAAATTGAAGTAGAATTGGGTATCAA
1 TGAAATTGAAGTAAGAGCAACGTCA--TCC---CC-TT-GAAATTGAAGTAGAGCTGGATATCAA
40358545 GTCTTTATCTC
59 GTCTTTATCTC
*
40358556 CGAAATTGA
1 TGAAATTGA
40358565 GCAAGACAAA
Statistics
Matches: 265, Mismatches: 17, Indels: 24
0.87 0.06 0.08
Matches are distributed among these distances:
68 114 0.43
69 35 0.13
71 1 0.00
72 1 0.00
73 1 0.00
74 2 0.01
75 5 0.02
76 105 0.40
77 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (69 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTA
TCTC
Found at i:40358308 original size:167 final size:168
Alignment explanation
Indices: 40358031--40358379 Score: 664
Period size: 167 Copynumber: 2.1 Consensus size: 168
40358021 TCTTTATCTC
*
40358031 TGAAATTGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTA
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTA
*
40358096 TCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCT
66 CCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCT
40358161 TTATCTCTGAAATTGAAGTGAGGGCAACGTCATCCCCT
131 TTATCTCTGAAATTGAAGTGAGGGCAACGTCATCCCCT
*
40358199 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAG-TGGATAATACGTCTTTA
1 TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTA
40358263 CCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCT
66 CCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCT
40358328 TTATCTCTGAAATTGAAGTGAGGGCAACGTCATCCCCT
131 TTATCTCTGAAATTGAAGTGAGGGCAACGTCATCCCCT
40358366 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
40358380 AGCTGGATAT
Statistics
Matches: 178, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
167 132 0.74
168 46 0.26
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (168 bp):
TGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTA
CCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAATACGTCT
TTATCTCTGAAATTGAAGTGAGGGCAACGTCATCCCCT
Found at i:40358484 original size:76 final size:76
Alignment explanation
Indices: 40358358--40358560 Score: 284
Period size: 76 Copynumber: 2.7 Consensus size: 76
40358348 AGGGCAACGT
* * * *
40358358 CATCCCCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTATCTCCGAAAATGAAGTAAGAGCA
1 CATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCCGAAAATGAAGTAAGAGCA
40358423 A-GATCATTTCC
66 ACG-TCATTTCC
*
40358434 CATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCCGAAATTGAAGTAAGAGCA
1 CATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCCGAAAATGAAGTAAGAGCA
40358499 ACGTCATTTCC
66 ACGTCATTTCC
* ** * *
40358510 TATCCGT-TCAAAATTGAAGTAGAATTGGGTATCAAGTCTTTATCTCCGAAA
1 CATCC-TCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCCGAAA
40358561 TTGAGCAAGA
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
76 113 0.98
77 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (76 bp):
CATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCCGAAAATGAAGTAAGAGCA
ACGTCATTTCC
Found at i:40358858 original size:31 final size:29
Alignment explanation
Indices: 40358803--40358873 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
40358793 AATGTTTGAA
*
40358803 TTAATTTTAAATTCATTTTTAAATTTATC
1 TTAAATTTAAATTCATTTTTAAATTTATC
* *
40358832 TTAAATTTAAATTTACTTATTTAAATTTATT
1 TTAAATTTAAATTCA-TT-TTTAAATTTATC
40358863 TTAAATTTAAA
1 TTAAATTTAAA
40358874 CTTAATTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAAATTTAAATTCATTTTTAAATTTATC
Found at i:40358870 original size:11 final size:11
Alignment explanation
Indices: 40358801--40358871 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
40358791 TTAATGTTTG
*
40358801 AATTAATTTTA
1 AATTTATTTTA
*
40358812 AATTCATTTTTA
1 AATTTA-TTTTA
*
40358824 AATTTATCTTA
1 AATTTATTTTA
*
40358835 AATTTAAATTT-
1 AATTT-ATTTTA
*
40358846 -ACTTA-TTTA
1 AATTTATTTTA
40358855 AATTTATTTTA
1 AATTTATTTTA
40358866 AATTTA
1 AATTTA
40358872 AACTTAATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 7 0.15
11 24 0.50
12 13 0.27
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
AATTTATTTTA
Found at i:40358882 original size:17 final size:17
Alignment explanation
Indices: 40358850--40358884 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
40358840 AAATTTACTT
* *
40358850 ATTTAAATTTATTTTAA
1 ATTTAAACTTAATTTAA
40358867 ATTTAAACTTAATTTAA
1 ATTTAAACTTAATTTAA
40358884 A
1 A
40358885 ATAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAACTTAATTTAA
Found at i:40360698 original size:161 final size:163
Alignment explanation
Indices: 40360522--40360834 Score: 540
Period size: 163 Copynumber: 1.9 Consensus size: 163
40360512 TCTTTTCAAT
*
40360522 TTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACGTGTCA-TTTTTAGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACATGTCATTTTTTAGATTATTTATGCA
*
40360586 TTTAG-CCCTTTTTATTTTTAATATGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACA
66 TTTAGTCCCTTTTTATTTTTAATATGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACA
40360650 AAATTGGCCCAAGAATTTTTCATGGTTTATAAA
131 AAATTGGCCCAAGAATTTTTCATGGTTTATAAA
* *
40360683 TTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACATGTCATTTTTTAGATTATTTATGCA
* * * *
40360748 TTTAGTCCTTTTTTATTTTTAATTTGTTTTAATTTAATCTCCAAATCAACTTTTATTAAATTACG
66 TTTAGTCCCTTTTTATTTTTAATATGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACA
40360813 AAATTGGCCCAAGAATTTTTCA
131 AAATTGGCCCAAGAATTTTTCA
40360835 AGATTTACAA
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
161 43 0.30
162 23 0.16
163 76 0.54
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (163 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGGGGCTGCCACATGTCATTTTTTAGATTATTTATGCA
TTTAGTCCCTTTTTATTTTTAATATGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACA
AAATTGGCCCAAGAATTTTTCATGGTTTATAAA
Found at i:40361026 original size:30 final size:29
Alignment explanation
Indices: 40360992--40361389 Score: 164
Period size: 30 Copynumber: 13.5 Consensus size: 29
40360982 AAAACTTCTG
*
40360992 AAAATTATCATTTTACCCCCCGAATCTTTT
1 AAAATTACCATTTTA-CCCCCGAATCTTTT
* * ****
40361022 AAAATT-CCATTTTTAACCCCGATTTCACCG
1 AAAATTACCA-TTTTACCCCCGA-ATCTTTT
40361052 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTTT
* * * * **
40361081 AAAATT-CCATTTTTAACCTCGATTTCATCG
1 AAAATTACCA-TTTTACCCCCGA-ATCTTTT
* **
40361111 AAAATTACCATTTTACCCTCGAATCTTCC
1 AAAATTACCATTTTACCCCCGAATCTTTT
* * ****
40361140 AAAATT-CCATTTTTAACCCCGACTTCACCAA
1 AAAATTACCA-TTTTACCCCCGA-ATC-TTTT
* *
40361171 AAAATTACCATTTTACCCCTGTATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTTT
* * * * ****
40361200 AAAATT-CCATTTTTAACACTGATTTCACCG
1 AAAATTACCA-TTTTACCCCCGA-ATCTTTT
* *
40361230 AAAATTACCATTTTACCCCTGTATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTTT
** * ****
40361259 AAAATT-CCATTTTTAATCCCGATTTCACCG
1 AAAATTACCA-TTTTACCCCCGA-ATCTTTT
40361289 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTTT
* * * ****
40361318 AAAATT-CCATTTTAACCCTGATTTCACCA
1 AAAATTACCATTTTACCCCCGA-ATCTTTT
* *
40361347 AAAATCACCATTTTACCCCCGAA-CTTTCC
1 AAAATTACCATTTTACCCCCGAATCTTT-T
40361376 AAAATT-CCATTTTA
1 AAAATTACCATTTTA
40361390 ACCCTGATTT
Statistics
Matches: 263, Mismatches: 86, Indels: 40
0.68 0.22 0.10
Matches are distributed among these distances:
28 34 0.13
29 97 0.37
30 102 0.39
31 27 0.10
32 3 0.01
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATCTTTT
Found at i:40361033 original size:59 final size:59
Alignment explanation
Indices: 40360991--40361392 Score: 464
Period size: 59 Copynumber: 6.8 Consensus size: 59
40360981 CAAAACTTCT
* *
40360991 GAAAATTATCATTTTACCCCCCGAATCTTTTAAAATTCCATTTTTAACC-CCGATTTCACC
1 GAAAATTACCATTTTA-CCCCCGAATCTTTTAAAATTCCATTTTTAACCTCCGACTTC-CC
* *
40361051 GAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCT-CGATTTCATC
1 GAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCCGACTTC-CC
* **
40361110 GAAAATTACCATTTTACCCTCGAATCTTCCAAAATTCCATTTTTAACC-CCGACTTCACC
1 GAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCCGACTTC-CC
* * * *
40361169 AAAAAATTACCATTTTACCCCTGTATCTTTTAAAATTCCATTTTTAACACT--GATTTCACC
1 -GAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAC-CTCCGACTTC-CC
* * * *
40361229 GAAAATTACCATTTTACCCCTGTATCTTTTAAAATTCCATTTTTAATC-CCGATTTCACC
1 GAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCCGACTTC-CC
* *
40361288 GAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTAACC-CTGATTTCACC
1 GAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCCGACTTC-CC
* * *
40361346 AAAAATCACCATTTTACCCCCGAA-CTTTCCAAAATTCCA-TTTTAACC
1 GAAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACC
40361393 CTGATTTTAC
Statistics
Matches: 311, Mismatches: 23, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
57 4 0.01
58 57 0.18
59 185 0.59
60 64 0.21
61 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (59 bp):
GAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCCGACTTCCC
Found at i:40361184 original size:119 final size:118
Alignment explanation
Indices: 40360991--40361425 Score: 603
Period size: 119 Copynumber: 3.7 Consensus size: 118
40360981 CAAAACTTCT
* **
40360991 GAAAATTATCATTTTACCCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCGAAAA
1 GAAAATTACCATTTTA-CCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGATTTCACCGAAAA
*
40361056 TTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCATC
65 TTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCACC
* * *
40361110 GAAAATTACCATTTTACCCTCGAATCTTCCAAAATTCCATTTTTAACCCCGACTTCACCAAAAAA
1 GAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGATTTCACC-GAAAA
* *
40361175 TTACCATTTTACCCCTGTATCTTTTAAAATTCCATTTTTAACACT-GATTTCACC
65 TTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAAC-CTCGATTTCACC
* * ** *
40361229 GAAAATTACCATTTTACCCCTGTATCTTTTAAAATTCCATTTTTAATCCCGATTTCACCGAAAAT
1 GAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGATTTCACCGAAAAT
40361294 TACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTAACC-CTGATTTCACC
66 TACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTC-GATTTCACC
* * * *
40361346 AAAAATCACCATTTTACCCCCGAA-CTTTCCAAAATTCCA-TTTTAACCCTGATTTTACC-AAAA
1 GAAAATTACCATTTTACCCCCGAATC-TTCCAAAATTCCATTTTTAACCCCGATTTCACCGAAAA
* *
40361408 TTACTATTTTGCCCCCGA
65 TTACCATTTTACCCCCGA
40361426 GTATCCAAAA
Statistics
Matches: 281, Mismatches: 30, Indels: 14
0.86 0.09 0.04
Matches are distributed among these distances:
115 20 0.07
116 18 0.06
117 47 0.17
118 75 0.27
119 119 0.42
120 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.37
Consensus pattern (118 bp):
GAAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGATTTCACCGAAAAT
TACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCACC
Found at i:40361293 original size:178 final size:175
Alignment explanation
Indices: 40360992--40361425 Score: 622
Period size: 178 Copynumber: 2.5 Consensus size: 175
40360982 AAAACTTCTG
* *
40360992 AAAATTATCATTTTACCCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCGAAAAT
1 AAAATTACCATTTTA-CCCCCG-ATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCGAAAAT
*
40361057 TACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCATCGAAAATTACCAT
64 TACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCACCGAAAATTACCAT
*
40361122 TTTACCCTCGAATCTTCCAAAATTCCATTTTTAACCCCGACTTCACCAA
129 TTTACCCCCGAATCTTCCAAAATTCCA-TTTTAACCCCGACTTCACC-A
* *
40361171 AAAATTACCATTTTACCCCTGTATCTTTTAAAATTCCATTTTTAACACTGATTTCACCGAAAATT
1 AAAATTACCATTTTACCCCCG-ATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCGAAAATT
* *
40361236 ACCATTTTACCCCTGTATCTTTTAAAATTCCATTTTTAATCC-CGATTTCACCGAAAATTACCAT
65 ACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAA-CCTCGATTTCACCGAAAATTACCAT
** * *
40361300 TTTACCCCCGAATCTTTTAAAATTCCATTTTAACCCTGATTTCACCA
129 TTTACCCCCGAATCTTCCAAAATTCCATTTTAACCCCGACTTCACCA
* * * *
40361347 AAAATCACCATTTTACCCCCGAACTTTCCAAAATTCCA-TTTTAACCCTGATTTTACC-AAAATT
1 AAAATTACCATTTTACCCCCGATCTTT-TAAAATTCCATTTTTAACCCTGATTTCACCGAAAATT
* *
40361410 ACTATTTTGCCCCCGA
65 ACCATTTTACCCCCGA
40361426 GTATCCAAAA
Statistics
Matches: 230, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
174 18 0.08
175 22 0.10
176 29 0.13
177 17 0.07
178 128 0.56
179 16 0.07
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.37
Consensus pattern (175 bp):
AAAATTACCATTTTACCCCCGATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCGAAAATTA
CCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCACCGAAAATTACCATTT
TACCCCCGAATCTTCCAAAATTCCATTTTAACCCCGACTTCACCA
Found at i:40362686 original size:29 final size:29
Alignment explanation
Indices: 40362654--40362719 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
40362644 TTAAAAATAA
* **
40362654 AAAAAAATTATATAGACTTATAGAAGTTT
1 AAAAAAATTATAAAGACTTATAGAAAATT
** *
40362683 AAAAATTTTATAAATACTTATAGAAAATT
1 AAAAAAATTATAAAGACTTATAGAAAATT
40362712 AAAAAAAT
1 AAAAAAAT
40362720 ATCATAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAAAAATTATAAAGACTTATAGAAAATT
Found at i:40370604 original size:12 final size:12
Alignment explanation
Indices: 40370584--40370631 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
40370574 TTTATTTCAT
40370584 ATAATTAAAAAA
1 ATAATTAAAAAA
*
40370596 ATTATTAAAAATA
1 ATAATTAAAAA-A
*
40370609 ATAAATAAAAAA
1 ATAATTAAAAAA
40370621 TATAATTAAAA
1 -ATAATTAAAA
40370632 TATTCAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAATTAAAAAA
Found at i:40372013 original size:19 final size:21
Alignment explanation
Indices: 40371968--40372017 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
40371958 AATCTTTAAA
*
40371968 AATTATCATAAAATTCAAATAC
1 AATTAT-AAAAAATTCAAATAC
*
40371990 AATTATAAAAAATT-AACTAC
1 AATTATAAAAAATTCAAATAC
40372010 -ATTATAAA
1 AATTATAAA
40372018 TATATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 7 0.27
22 6 0.23
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (21 bp):
AATTATAAAAAATTCAAATAC
Found at i:40372088 original size:10 final size:10
Alignment explanation
Indices: 40372075--40372146 Score: 67
Period size: 10 Copynumber: 7.3 Consensus size: 10
40372065 AAAAAATAAT
40372075 AAAATTATTA
1 AAAATTATTA
40372085 AAAATTATTA
1 AAAATTATTA
* *
40372095 GAAATTGTTA
1 AAAATTATTA
* * *
40372105 AATATTGTAAA
1 AAAATTAT-TA
40372116 AAAATTA-TA
1 AAAATTATTA
40372125 AAAATTATTA
1 AAAATTATTA
*
40372135 GAAATTA-TA
1 AAAATTATTA
40372144 AAA
1 AAA
40372147 GACAATGATT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
9 12 0.24
10 32 0.64
11 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:40372261 original size:21 final size:21
Alignment explanation
Indices: 40372237--40372278 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
40372227 TTTGAGTAAA
*
40372237 TTTTATATTTTATATAGTTTTT
1 TTTTATATTTT-TATAATTTTT
*
40372259 TTTTGTATTTTTATAATTTT
1 TTTTATATTTTTATAATTTT
40372279 AGATTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTATATTTTTATAATTTTT
Found at i:40372305 original size:27 final size:26
Alignment explanation
Indices: 40372259--40372332 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
40372249 TATAGTTTTT
* *
40372259 TTTTGTATTTTT-ATAATTTTAGATTA
1 TTTTCTATTTTTAATAATTTTA-ATGA
40372285 -TTTCTATTTTTAAATAATTTTAATGA
1 TTTTCTATTTTT-AATAATTTTAATGA
* *
40372311 TTTTGTATTTTTTAAGAATTTT
1 TTTTCTA-TTTTTAATAATTTT
40372333 GTATTTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 10 0.25
26 3 0.08
27 22 0.55
28 5 0.12
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (26 bp):
TTTTCTATTTTTAATAATTTTAATGA
Found at i:40377453 original size:23 final size:23
Alignment explanation
Indices: 40377422--40377466 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
40377412 ATATGTAATA
40377422 TATACATA-TTTTTACTATTTTAT
1 TATACATATTTTTTA-TATTTTAT
*
40377445 TATATATATTTTTTATATTTTA
1 TATACATATTTTTTATATTTTA
40377467 GAAAATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
TATACATATTTTTTATATTTTAT
Found at i:40378299 original size:29 final size:29
Alignment explanation
Indices: 40378244--40378446 Score: 187
Period size: 29 Copynumber: 6.9 Consensus size: 29
40378234 CCTAGAAGAT
*
40378244 CCTCAAACTTTCAAAAAATCTCATTTTTGA
1 CCTCAAACTTTCAAAAATTC-CATTTTTGA
*
40378274 CCTCGAACTTTCAAAAATTCCATTTTTGA
1 CCTCAAACTTTCAAAAATTCCATTTTTGA
* * *
40378303 CCCCAAACTTCCAAAAATTCCATTTTTGCC
1 CCTCAAACTTTCAAAAATTCCATTTTTG-A
* * * *
40378333 CCCCAAACTTCCAAATATTCCATTTTTGT
1 CCTCAAACTTTCAAAAATTCCATTTTTGA
* *
40378362 CCTCAAAC-TCCTAAAAAATCCATTTTT-A
1 CCTCAAACTTTC-AAAAATTCCATTTTTGA
* *
40378390 CCCCGAATCTTTTC-AAAATTCCATTTTTGA
1 CCTC-AAAC-TTTCAAAAATTCCATTTTTGA
* * *
40378420 CCTCAAATTTTTCCAAAATTACATTTT
1 CCTCAAA-CTTTCAAAAATTCCATTTT
40378447 CGCCCCATAG
Statistics
Matches: 145, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
28 6 0.04
29 76 0.52
30 61 0.42
31 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (29 bp):
CCTCAAACTTTCAAAAATTCCATTTTTGA
Found at i:40378342 original size:59 final size:59
Alignment explanation
Indices: 40378244--40378426 Score: 203
Period size: 59 Copynumber: 3.1 Consensus size: 59
40378234 CCTAGAAGAT
* * * *
40378244 CCTCAAACTTTCAAAAAATCTCATTTTTG-ACCTCGAACTTTCAAAAATTCCATTTTTGA
1 CCTCAAACTTCCAAAAAATC-CATTTTTGCCCCCCAAACTTTCAAAAATTCCATTTTTGA
* * * * *
40378303 CCCCAAACTTCCAAAAATTCCATTTTTGCCCCCCAAACTTCCAAATATTCCATTTTTGT
1 CCTCAAACTTCCAAAAAATCCATTTTTGCCCCCCAAACTTTCAAAAATTCCATTTTTGA
* * *
40378362 CCTCAAAC-TCCTAAAAAATCCATTTTT-ACCCCGAATCTTTTC-AAAATTCCATTTTTGA
1 CCTCAAACTTCC-AAAAAATCCATTTTTGCCCCCCAAAC-TTTCAAAAATTCCATTTTTGA
40378420 CCTCAAA
1 CCTCAAA
40378427 TTTTTCCAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
58 39 0.38
59 65 0.62
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
CCTCAAACTTCCAAAAAATCCATTTTTGCCCCCCAAACTTTCAAAAATTCCATTTTTGA
Found at i:40378694 original size:86 final size:86
Alignment explanation
Indices: 40378513--40378764 Score: 253
Period size: 86 Copynumber: 2.9 Consensus size: 86
40378503 TTTGTCCCTA
* * ** * ** * * * **
40378513 AATGTCTAAATATTACATTTTTGCTCTCGAGTGTCCAAAAATTATTATTTTTTCCCCCGGATGTC
1 AATGTCCAAAAATTACATTTTCACCCTCGAGTGTCCAAAAATTACCA-TTTTGCCCTC-AACATC
40378578 CAAAAATTACATTTTCACCCCCG
64 CAAAAATTACATTTTCACCCCCG
* * *
40378601 AGTGTCCAAAAATTACTATTTT-ACCCTCG-GATGTCCCAAAATTA-CATTTTTGCCCTCGAGCA
1 AATGTCCAAAAATTAC-ATTTTCACCCTCGAG-TGTCCAAAAATTACCA-TTTTGCCCTC-AACA
*
40378663 TCC-AAAATTACCATTTT-ACCCTCG
62 TCCAAAAATTA-CATTTTCACCCCCG
*
40378687 AATGTCCAAAAATTACATTTTCTCCCTCGAGTGTCCAAAAATTACCATTTTGCCCTCAACATCCA
1 AATGTCCAAAAATTACATTTTCACCCTCGAGTGTCCAAAAATTACCATTTTGCCCTCAACATCCA
40378752 AAAATTACATTTT
66 AAAATTACATTTT
40378765 TTACTTCATT
Statistics
Matches: 139, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
85 17 0.12
86 63 0.45
87 24 0.17
88 30 0.22
89 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (86 bp):
AATGTCCAAAAATTACATTTTCACCCTCGAGTGTCCAAAAATTACCATTTTGCCCTCAACATCCA
AAAATTACATTTTCACCCCCG
Found at i:40378699 original size:57 final size:57
Alignment explanation
Indices: 40378459--40378765 Score: 307
Period size: 58 Copynumber: 5.3 Consensus size: 57
40378449 CCCCATAGCA
* * * * *
40378459 TCCAAAAATTACATTTTCATTCC-CGAGCGTCCAAAAATTATCATTTTGTCCCT-AAATG
1 TCCAAAAATTACATTTT--TCCCTCGAGTGTCCAAAAATTACCATTTT-ACCCTCGAATG
* * * ** * * *
40378517 TCTAAATATTACATTTTTGCTCTCGAGTGTCCAAAAATTATTATTTTTTCCCCCGGATG
1 TCCAAAAATTACATTTTT-CCCTCGAGTGTCCAAAAATTACCA-TTTTACCCTCGAATG
* * * *
40378576 TCCAAAAATTACATTTTCACCCCCGAGTGTCCAAAAATTACTATTTTACCCTCGGATG
1 TCCAAAAATTACATTTT-TCCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAATG
* **
40378634 TCCCAAAATTACATTTTTGCCCTCGAGCATCC-AAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTACATTTTT-CCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAATG
* **
40378691 TCCAAAAATTACATTTTCTCCCTCGAGTGTCCAAAAATTACCATTTTGCCCTC-AACA
1 TCCAAAAATTACATTTT-TCCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAATG
40378748 TCCAAAAATTACATTTTT
1 TCCAAAAATTACATTTTT
40378766 TACTTCATTT
Statistics
Matches: 211, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
56 2 0.01
57 70 0.33
58 96 0.45
59 43 0.20
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (57 bp):
TCCAAAAATTACATTTTTCCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAATG
Found at i:40378752 original size:28 final size:28
Alignment explanation
Indices: 40378459--40378764 Score: 224
Period size: 29 Copynumber: 10.6 Consensus size: 28
40378449 CCCCATAGCA
* **
40378459 TCCAAAAATTACATTTTCATTCC-CGAGCG
1 TCCAAAAATTACATTTT-A-CCCTCGAATG
* *
40378488 TCCAAAAATTATCATTTTGTCCCT-AAATG
1 TCCAAAAATTA-CATTTT-ACCCTCGAATG
* * * * *
40378517 TCTAAATATTACATTTTTGCTCTCGAGTG
1 TCCAAAAATTACA-TTTTACCCTCGAATG
* * * *
40378546 TCCAAAAATTATTATTTTTTCCCCCGGATG
1 TCCAAAAATTA-CA-TTTTACCCTCGAATG
* *
40378576 TCCAAAAATTACATTTTCACCCCCGAGTG
1 TCCAAAAATTACATTTT-ACCCTCGAATG
*
40378605 TCCAAAAATTACTATTTTACCCTCGGATG
1 TCCAAAAATTAC-ATTTTACCCTCGAATG
* * ***
40378634 TCCCAAAATTACATTTTTGCCCTCGAGCA
1 TCCAAAAATTACA-TTTTACCCTCGAATG
40378663 TCC-AAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTA-CATTTTACCCTCGAATG
* *
40378691 TCCAAAAATTACATTTTCTCCCTCGAGTG
1 TCCAAAAATTACATTTT-ACCCTCGAATG
* **
40378720 TCCAAAAATTACCATTTTGCCCTC-AACA
1 TCCAAAAATTA-CATTTTACCCTCGAATG
40378748 TCCAAAAATTACATTTT
1 TCCAAAAATTACATTTT
40378765 TTACTTCATT
Statistics
Matches: 222, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
27 6 0.03
28 49 0.22
29 127 0.57
30 40 0.18
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (28 bp):
TCCAAAAATTACATTTTACCCTCGAATG
Found at i:40378766 original size:29 final size:29
Alignment explanation
Indices: 40378257--40378765 Score: 172
Period size: 29 Copynumber: 17.5 Consensus size: 29
40378247 CAAACTTTCA
* * *
40378257 AAAAATCT-CATTTTTGACCTCGAACTTTC
1 AAAAAT-TACATTTTTGCCCTCGAACATCC
* * *
40378286 AAAAATTCCATTTTTGACCC-CAAACTTCC
1 AAAAATTACATTTTTG-CCCTCGAACATCC
* * * *
40378315 AAAAATTCCATTTTTGCCCCCCAAACTTCC
1 AAAAATTACATTTTTG-CCCTCGAACATCC
* * * *
40378345 AAATATTCCATTTTTGTCCTCAAAC-TCC
1 AAAAATTACATTTTTGCCCTCGAACATCC
* * * * *
40378373 TAAAAAATCCATTTTTACCC-CGAATCTTTTC
1 -AAAAATTACATTTTTGCCCTCGAA-C-ATCC
* * * **
40378404 -AAAATTCCATTTTTGACCTCAAATTTTTCC
1 AAAAATTACATTTTTGCCCTCGAA--CATCC
*
40378434 -AAAATTACATTTTCGCCC-C-ATAGCATCC
1 AAAAATTACATTTTTGCCCTCGA-A-CATCC
* * *
40378462 AAAAATTACATTTTCAT-TCC-CGAGCGTCC
1 AAAAATTACATTTT--TGCCCTCGAACATCC
* ** *
40378491 AAAAATTATCA-TTTTGTCCCT-AAATGTCT
1 AAAAATTA-CATTTTTG-CCCTCGAACATCC
* * ***
40378520 AAATATTACATTTTTGCTCTCGAGTGTCC
1 AAAAATTACATTTTTGCCCTCGAACATCC
* * * * **
40378549 AAAAATTATTATTTTTTCCCCCGGATGTCC
1 AAAAATTA-CATTTTTGCCCTCGAACATCC
** * ***
40378579 AAAAATTACATTTTCACCCCCGAGTGTCC
1 AAAAATTACATTTTTGCCCTCGAACATCC
* * **
40378608 AAAAATTAC-TATTTTACCCTCGGATGTCC
1 AAAAATTACAT-TTTTGCCCTCGAACATCC
* *
40378637 CAAAATTACATTTTTGCCCTCGAGCATCC
1 AAAAATTACATTTTTGCCCTCGAACATCC
* **
40378666 -AAAATTACCA-TTTTACCCTCGAATGTCC
1 AAAAATTA-CATTTTTGCCCTCGAACATCC
***
40378694 AAAAATTACATTTTCT-CCCTCGAGTGTCC
1 AAAAATTACATTTT-TGCCCTCGAACATCC
40378723 AAAAATTACCA-TTTTGCCCTC-AACATCC
1 AAAAATTA-CATTTTTGCCCTCGAACATCC
40378751 AAAAATTACATTTTT
1 AAAAATTACATTTTT
40378766 TACTTCATTT
Statistics
Matches: 381, Mismatches: 69, Indels: 61
0.75 0.14 0.12
Matches are distributed among these distances:
27 3 0.01
28 57 0.15
29 238 0.62
30 79 0.21
31 4 0.01
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTTGCCCTCGAACATCC
Found at i:40381553 original size:19 final size:19
Alignment explanation
Indices: 40381531--40381571 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
40381521 TTTAAATTTA
40381531 TTAATTGTATAAAGCAATT
1 TTAATTGTATAAAGCAATT
*
40381550 TTAATTGTATAAAGCATTT
1 TTAATTGTATAAAGCAATT
40381569 TTA
1 TTA
40381572 GTAAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (19 bp):
TTAATTGTATAAAGCAATT
Found at i:40383114 original size:29 final size:30
Alignment explanation
Indices: 40383074--40383169 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
40383064 ACCCGGGGGC
40383074 AAAATGGTAATTTTGGAGAAATCGAGGTTA
1 AAAATGGTAATTTTGGAGAAATCGAGGTTA
** *** * *
40383104 AAAATGG-AATTTTAAAGGTTTCGGGGGT-
1 AAAATGGTAATTTTGGAGAAATCGAGGTTA
*
40383132 AAAATGGTAAATTTTGGTGAAATCGAGGTTA
1 AAAATGGT-AATTTTGGAGAAATCGAGGTTA
40383163 AAAATGG
1 AAAATGG
40383170 GATTTAGGAA
Statistics
Matches: 48, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
28 7 0.15
29 14 0.29
30 20 0.42
31 7 0.15
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (30 bp):
AAAATGGTAATTTTGGAGAAATCGAGGTTA
Found at i:40383210 original size:30 final size:30
Alignment explanation
Indices: 40383191--40383539 Score: 509
Period size: 30 Copynumber: 11.6 Consensus size: 30
40383181 TTTTTTAGGA
* *
40383191 TCAAAATGTAGTTTTGGAAAAGTTTTGAGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
40383221 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
*
40383251 TCAAAATATAATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* *
40383281 TCAAAATGTGATTTAGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* *
40383311 TCAAAATATAATTTTAGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
** *
40383341 TTTAAATGTGATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
*
40383371 TCAAAATATAATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
*
40383401 TTAAAATGTAATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* *
40383431 TCAAAATGTGATTTTGAAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* * *
40383461 TCAAAATATAATTTTGTAAAAGTTTTAGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* *
40383491 TTAAAATGTAATTTTGGAAAAGTTTGGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
*
40383521 TCAAAATATAATTTCTGGA
1 TCAAAATGTAATTT-TGGA
40383540 TTCTTTGGGG
Statistics
Matches: 283, Mismatches: 35, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
30 279 0.99
31 4 0.01
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
TCAAAATGTAATTTTGGAAAAGTTTTGGGG
Found at i:40383781 original size:162 final size:162
Alignment explanation
Indices: 40383608--40383942 Score: 519
Period size: 162 Copynumber: 2.1 Consensus size: 162
40383598 AGGCATCCAG
* * * ** *
40383608 CAGTCAAAGGATTAAGTTGTAAATCTTGAAAAATTCTTGGGGTAATTTCGTAATTAAATGCAAA-
1 CAGTCAAAGGATTAAGTTATAAACCATGAAAAATTCTTGGACTAATTTCGTAATTAAAT-AAAAG
* *
40383672 TTGATTTGGGGATTAAATTAAAATATATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAA
65 TTGATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAA
* *
40383737 AAATGACACGTGGCAGCCCCTGGTGCTGCCAAA
130 AAAAGACACGTGGCAGCCCCTGGTGCAGCCAAA
*
40383770 CAGTCAAAGGATTAATTTATAAACCATGAAAAATTCTTGGACTAATTTCGTAATTAAATAAAAGT
1 CAGTCAAAGGATTAAGTTATAAACCATGAAAAATTCTTGGACTAATTTCGTAATTAAATAAAAGT
*
40383835 TGATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAATGACTAAATGCATAAATAATCCAAAA
66 TGATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAA
* *
40383900 AAAGACATGTGGCAGCCCCTGGTGCAGTCAAA
131 AAAGACACGTGGCAGCCCCTGGTGCAGCCAAA
*
40383932 TAGTCAAAGGA
1 CAGTCAAAGGA
40383943 CTAAATTGAA
Statistics
Matches: 157, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 3 0.02
162 154 0.98
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (162 bp):
CAGTCAAAGGATTAAGTTATAAACCATGAAAAATTCTTGGACTAATTTCGTAATTAAATAAAAGT
TGATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAA
AAAGACACGTGGCAGCCCCTGGTGCAGCCAAA
Found at i:40384012 original size:162 final size:160
Alignment explanation
Indices: 40383681--40384029 Score: 359
Period size: 162 Copynumber: 2.2 Consensus size: 160
40383671 ATTGATTTGG
* * *
40383681 GGATTAAATTAAAATATATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAATGACAC
1 GGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGACAC
* * * ** **
40383746 GTGGCAGCCCCTGGTGCTGCCAAACAGTCAAAGGATTAATTTATAAACCATGAAAAATTCTTGGA
66 GTGGCAGCCCCTGGTGCAGCCAAACAGTCAAAGGATAAATTGATAAAAAATGAAAAATTCAAGGA
* * * ** **
40383811 CTAATTTCGTAATTAAATAAAAGTTGATTT
131 CAAATTGCATAATTAAATAAAAGCAGAAAT
*
40383841 GGGGATTAAATTAAAACAAATTAAAAATAAAAATGACTAAATGCATAAATAATCCAAAAAAAGAC
1 --GGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGAC
* * * *
40383906 ATGTGGCAGCCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGA-AAAGAAAT-TAAAATTAC
64 ACGTGGCAGCCCCTGGTGCAGCCAAACAGTCAAAGGA-TAAATTGATAAA-AAATGAAAAATT-C
40383969 AAGGTA-AAATTGCAAATAATTAAA-AAAATGCAGAAAT
126 AAGG-ACAAATTGC--ATAATTAAATAAAA-GCAGAAAT
* *
40384006 -GATTAAATTGAAGCAAA-TAAAAAT
1 GGATTAAATTAAAACAAATTAAAAAT
40384030 GCGGAAGGAC
Statistics
Matches: 156, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
161 7 0.04
162 116 0.74
163 16 0.10
164 5 0.03
165 12 0.08
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (160 bp):
GGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGACAC
GTGGCAGCCCCTGGTGCAGCCAAACAGTCAAAGGATAAATTGATAAAAAATGAAAAATTCAAGGA
CAAATTGCATAATTAAATAAAAGCAGAAAT
Found at i:40384453 original size:15 final size:16
Alignment explanation
Indices: 40384433--40384462 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
40384423 ACTCAAAAAA
40384433 CAGATCTGG-ATTTTC
1 CAGATCTGGAATTTTC
40384448 CAGATCTGGAATTTT
1 CAGATCTGGAATTTT
40384463 TTAAAACACT
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:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (16 bp):
CAGATCTGGAATTTTC
Found at i:40385327 original size:18 final size:15
Alignment explanation
Indices: 40385294--40385324 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
40385284 ATGGTGGATG
40385294 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
40385309 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
40385324 G
1 G
40385325 CAGCATGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:40385471 original size:6 final size:6
Alignment explanation
Indices: 40385447--40385555 Score: 82
Period size: 6 Copynumber: 18.0 Consensus size: 6
40385437 ACATTGGACT
* * **
40385447 TTTAAA TTTTTAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA
1 TTTAAA -TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA
* * *
40385498 TTCAAA -TTAAA TTTAAATA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
40385546 --TAAA TTTAAA
1 TTTAAA TTTAAA
40385556 ATCAATTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 48 0.58
7 19 0.23
8 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:40385519 original size:25 final size:25
Alignment explanation
Indices: 40385491--40385540 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
40385481 TTTTATTTAA
* *
40385491 ATTTAAATTCAAATTAAATTTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
*
40385516 ATTTAAATTTAAAATAAATCTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
40385541 TTAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAAATTCAAAATAAATCTAAAT
Found at i:40385519 original size:31 final size:31
Alignment explanation
Indices: 40385484--40385547 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
40385474 TTTTAATTTT
*
40385484 TATTTAAATTTAAATTCAAAT-TAAATTTAAA
1 TATTTAAATTTAAAAT-AAATCTAAATTTAAA
40385515 TATTTAAATTTAAAATAAATCTAAATTTAAA
1 TATTTAAATTTAAAATAAATCTAAATTTAAA
40385546 TA
1 TA
40385548 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTTAAATTTAAAATAAATCTAAATTTAAA
Found at i:40385534 original size:42 final size:43
Alignment explanation
Indices: 40385462--40385555 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 43
40385452 ATTTTTAATG
* * ** *
40385462 TTAAATTT-AATATTTTAATTTTTATTTAAATTTAAATTCAAA
1 TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
*
40385504 TTAAATTTAAATA-TTTAAATTTAAAATAAATCTAAATTTAAA
1 TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
40385546 -TAAATTTAAA
1 TTAAATTTAAA
40385556 ATCAATTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 10 0.22
42 31 0.69
43 4 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (43 bp):
TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
Found at i:40385557 original size:17 final size:16
Alignment explanation
Indices: 40385485--40385555 Score: 85
Period size: 17 Copynumber: 4.4 Consensus size: 16
40385475 TTTAATTTTT
40385485 ATTTAAATTTAAATTCAA
1 ATTTAAATTTAAA-T-AA
40385503 A-TTAAATTTAAAT--
1 ATTTAAATTTAAATAA
40385516 ATTTAAATTTAAAATAA
1 ATTTAAATTT-AAATAA
*
40385533 ATCTAAATTTAAATAA
1 ATTTAAATTTAAATAA
40385549 ATTTAAA
1 ATTTAAA
40385556 ATCAATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
13 1 0.02
14 8 0.17
15 4 0.09
16 13 0.28
17 20 0.43
18 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:40385980 original size:68 final size:68
Alignment explanation
Indices: 40385782--40386477 Score: 966
Period size: 68 Copynumber: 10.1 Consensus size: 68
40385772 GCCTGCTATT
** * * *
40385782 TGAC-TTGTCTCTTACTTCAATTTCAGAGGGGCAAAGGCTTGTTATCCAGCTTTACTTCAATTTC
1 TGACGTTG-CTCTTACTTCAATTTCAGAGATG--AAGACGTGTTATCCA-CTCTACTTCAATTTC
**
40385846 -AGGAAAA
62 AAGG-GGA
* * * * * *
40385853 TGATC-TTGCTCTTATTTCCACAATCTCAAAGATAAAGATGTGTTATCCACTCTACTTCAATTCC
1 TGA-CGTTGCTCTTACTT---CAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTC
*
40385917 GAGGGGA
62 AAGGGGA
* *
40385924 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACATGTTATCCACTTTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40385989 GGA
66 GGA
*
40385992 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTTTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40386057 GGA
66 GGA
* *
40386060 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAAACATGTTATCCACTCTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40386125 GTGA
66 G-GA
* * *
40386129 AGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACGTATTATCCACTCTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40386194 GGA
66 GGA
* * *
40386197 TGACGTTGCTCTTACTTCAATTTCAGGGATGAAGACATGTTATCCACTCTACTTCAATTTCCAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40386262 GGA
66 GGA
* *
40386265 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAAACATGTTATCCACTCTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40386330 GGA
66 GGA
* *
40386333 TGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACGTATTATCCACTCTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40386398 GTGA
66 G-GA
* * * *
40386402 AGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACGTATTATCCACTCTACTTCATTTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
*
40386467 GTA
66 GGA
40386470 TGACGTTG
1 TGACGTTG
40386478 AGATCTGCAA
Statistics
Matches: 569, Mismatches: 48, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
68 372 0.65
69 129 0.23
70 1 0.00
71 39 0.07
72 19 0.03
74 9 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (68 bp):
TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
GGA
Found at i:40386154 original size:205 final size:204
Alignment explanation
Indices: 40385893--40386477 Score: 1008
Period size: 205 Copynumber: 2.9 Consensus size: 204
40385883 GATAAAGATG
* * *
40385893 TGTTATCCACTCTACTTCAATTCCGAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAG
* * *
40385958 ACATGTTATCCACTTTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATG
66 ACGTATTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATG
*
40386023 AAGACGTGTTATCCACTTTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAG
131 AAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAG
40386088 ATGAAAACA
196 ATGAAAACA
*
40386097 TGTTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAGAGATCAA
1 TGTTATCCACTCTACTTCAATTTCAAGGG-GATGACGTTGCTCTTACTTCAATTTCAGAGATCAA
*
40386162 GACGTATTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGGGAT
65 GACGTATTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
* *
40386227 GAAGACATGTTATCCACTCTACTTCAATTTCCAGGGGATGACGTTGCTCTTACTTCAATTTCAGA
130 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGA
40386292 GATGAAAACA
195 GATGAAAACA
40386302 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAG
*
40386367 ACGTATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAGAGAT
66 ACGTATTATCCACTCTACTTCAATTTCAAGGG-GATGACGTTGCTCTTACTTCAATTTCAGAGAT
* * * *
40386432 CAAGACGTATTATCCACTCTACTTCATTTTCAAGGGTATGACGTTG
130 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
40386478 AGATCTGCAA
Statistics
Matches: 359, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
204 94 0.26
205 265 0.74
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (204 bp):
TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAG
ACGTATTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATG
AAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAG
ATGAAAACA
Found at i:40386382 original size:273 final size:273
Alignment explanation
Indices: 40385895--40386477 Score: 1040
Period size: 273 Copynumber: 2.1 Consensus size: 273
40385885 TAAAGATGTG
* *
40385895 TTATCCACTCTACTTCAATTCCGAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
1 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
*
40385960 ATGTTATCCACTTTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
66 ATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
* * *
40386025 GACGTGTTATCCACTTTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
131 AACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
* *
40386090 GAAAACATGTTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
196 CAAAACATATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
40386155 AGATCAAGACGTA
261 AGATCAAGACGTA
*
40386168 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGGGATGAAGAC
1 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
*
40386233 ATGTTATCCACTCTACTTCAATTTCCAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
66 ATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
40386298 AACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
131 AACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
* *
40386363 CAAGACGTATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
196 CAAAACATATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
40386428 AGATCAAGACGTA
261 AGATCAAGACGTA
* *
40386441 TTATCCACTCTACTTCATTTTCAAGGGTATGACGTTG
1 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
40386478 AGATCTGCAA
Statistics
Matches: 296, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
273 296 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (273 bp):
TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
ATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
AACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
CAAAACATATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
AGATCAAGACGTA
Found at i:40401547 original size:29 final size:31
Alignment explanation
Indices: 40401507--40401728 Score: 124
Period size: 30 Copynumber: 7.5 Consensus size: 31
40401497 CCGGGGAGGC
*
40401507 AAAATGGTAATTTT-GGTGTAATCGGGGTTA
1 AAAATGGTAATTTTAGGTGAAATCGGGGTTA
*** * *
40401537 AAAATGG-AATTTTAAAAG-ATTCGGGGGT-
1 AAAATGGTAATTTTAGGTGAAATCGGGGTTA
* * * **
40401565 AAAATGGCAATCTTCGGTGAAATTAGGGTTA
1 AAAATGGTAATTTTAGGTGAAATCGGGGTTA
** ** *
40401596 AAAATGG-AATTTTAGAAG-CTTCGGGGGT-
1 AAAATGGTAATTTTAGGTGAAATCGGGGTTA
* * *
40401624 AAAATGGTAATTTTCGGTAAAATCGAGGTTA
1 AAAATGGTAATTTTAGGTGAAATCGGGGTTA
** ** *
40401655 AAAATGG-AATTTTAGAAG-CTTCGGGGGT-
1 AAAATGGTAATTTTAGGTGAAATCGGGGTTA
* *
40401683 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGGTAATTTTAGGTGAAATCGGGGTTA
*
40401714 AAAACGG-AATTTTAG
1 AAAATGGTAATTTTAG
40401729 TAGCTTCGGG
Statistics
Matches: 134, Mismatches: 48, Indels: 20
0.66 0.24 0.10
Matches are distributed among these distances:
28 21 0.16
29 46 0.34
30 47 0.35
31 20 0.15
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (31 bp):
AAAATGGTAATTTTAGGTGAAATCGGGGTTA
Found at i:40401599 original size:59 final size:59
Alignment explanation
Indices: 40401507--40401755 Score: 351
Period size: 59 Copynumber: 4.2 Consensus size: 59
40401497 CCGGGGAGGC
* * * *
40401507 AAAATGGTAATTTT-GGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGT
* * *
40401565 AAAATGGCAATCTTCGGTGAAAT-TAGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGA-GGTTAAAAATGGAATTTTAGAAGCTTCGGGGGT
*
40401624 AAAATGGTAATTTTCGGTAAAATCGAGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGT
* * *
40401683 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAACGGAATTTTAGTAGCTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGT
*
40401742 CAAAAT-ATAATTTT
1 -AAAATGGTAATTTT
40401756 GGAAAAGTTT
Statistics
Matches: 171, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
58 12 0.07
59 153 0.89
60 6 0.04
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGT
Found at i:40401773 original size:30 final size:30
Alignment explanation
Indices: 40401737--40401845 Score: 191
Period size: 30 Copynumber: 3.6 Consensus size: 30
40401727 AGTAGCTTCG
40401737 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
40401767 GGGGTCAAAATATAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
* *
40401797 GGAGTCAAAATGTAATTTTGGAAAAGTTTT
1 GGGGTCAAAATATAATTTTGGAAAAGTTTT
*
40401827 GGGGTCGAAATATAATTTT
1 GGGGTCAAAATATAATTTT
40401846 TAGACAATTT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.37
Consensus pattern (30 bp):
GGGGTCAAAATATAATTTTGGAAAAGTTTT
Found at i:40402116 original size:161 final size:161
Alignment explanation
Indices: 40401948--40402256 Score: 444
Period size: 161 Copynumber: 1.9 Consensus size: 161
40401938 GAAAACTTTG
* * * *
40401948 AAAAAATT-TTGGACCAATTTTGTAATT-AACTAAGAGTTAATTTAAGGACTAAATTAAAATAAA
1 AAAAAATTATTGGACCAATTTCGTAATTAAAATAA-AGCTAATTT-AGGACTAAATTAAAACAAA
* * **
40402011 TTAAAAATAGAAGGGACTAAATGCAGAAATAAGCCAA-AAATTGACACGTGGCAACCTCTGGTGC
64 TTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAATAAA-TGACACGTGGCAACCTCTGGCAC
40402075 AGTCAAACAGTCAAAGGACTAGTTTATAAACCTT
128 AGTCAAACAGTCAAAGGACTAGTTTATAAACCTT
* * * *
40402109 AAAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGCTGATTTGGGATTAAATTAAAACAAATT
1 AAAAAATTATTGGACCAATTTCGTAATTAAAATAAAGCTAATTTAGGACTAAATTAAAACAAATT
* *
40402174 AAAAATAAAAAGGACTAAATGCAGAAATAATCCAATACATGACACGTGGCAACCTCTGGCACAGT
66 AAAAATAAAAAGGACTAAATGCAGAAATAAGCCAATAAATGACACGTGGCAACCTCTGGCACAGT
40402239 CAAACAGTCAAAGGACTA
131 CAAACAGTCAAAGGACTA
40402257 AATTATAATC
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
161 100 0.76
162 26 0.20
163 5 0.04
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.25
Consensus pattern (161 bp):
AAAAAATTATTGGACCAATTTCGTAATTAAAATAAAGCTAATTTAGGACTAAATTAAAACAAATT
AAAAATAAAAAGGACTAAATGCAGAAATAAGCCAATAAATGACACGTGGCAACCTCTGGCACAGT
CAAACAGTCAAAGGACTAGTTTATAAACCTT
Found at i:40402340 original size:161 final size:157
Alignment explanation
Indices: 40401991--40402340 Score: 384
Period size: 161 Copynumber: 2.2 Consensus size: 157
40401981 GAGTTAATTT
* * *
40401991 AAGGACTAAATTAAAATAAATTAAAAATAGAAGGGACTAAATGCAGAAATAAGCCAAAAATTGAC
1 AAGGACTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAAAAATTGAC
** ** **
40402056 ACGTGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTAGTTTATAAACCTTAAAAAATTATTG
66 ACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTT-AAAAATTACAG
* * *
40402121 GGCCAATTTCGTAATTAAAATAAAGCTG
130 GGCAAATTTCATAATTAAAATAAAGCAG
* * * *
40402149 ATTTGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAATACA-
1 A---AGGACTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAA-AAAT
*
40402213 TGACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAATCCAATT-AAAAT
62 TGACACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACC--TTAAAAAT
*
40402277 TACAGGGCAAATTTACAAATAATTAAAA-AGATGCAAG
125 TACAGGGCAAATTT-C--ATAATTAAAATA-AAGC-AG
* *
40402314 AAGGACTAAATTGAAGCAAA-TAAAAAT
1 AAGGACTAAATTAAAACAAATTAAAAAT
40402341 GCGGAAGGAT
Statistics
Matches: 159, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
158 1 0.01
161 123 0.77
162 18 0.11
163 3 0.02
164 12 0.08
165 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (157 bp):
AAGGACTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAAGCCAAAAATTGAC
ACGTGGCAACCTCTGGCACAGTCAAACAGTCAAAGGACTAAATTATAAACCTTAAAAATTACAGG
GCAAATTTCATAATTAAAATAAAGCAG
Found at i:40404356 original size:16 final size:16
Alignment explanation
Indices: 40404335--40404366 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
40404325 ATCAAAATAA
40404335 TAATGAATTATTAATT
1 TAATGAATTATTAATT
*
40404351 TAATGATTTATTAATT
1 TAATGAATTATTAATT
40404367 AATAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
TAATGAATTATTAATT
Found at i:40405186 original size:12 final size:12
Alignment explanation
Indices: 40405166--40405213 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
40405156 TTTATTTCAT
40405166 ATAATTAAAAAA
1 ATAATTAAAAAA
*
40405178 ATTATTAAAAATA
1 ATAATTAAAAA-A
*
40405191 ATAAATAAAAAA
1 ATAATTAAAAAA
40405203 TATAATTAAAA
1 -ATAATTAAAA
40405214 TATTCAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAATTAAAAAA
Found at i:40406595 original size:19 final size:21
Alignment explanation
Indices: 40406550--40406599 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
40406540 AATCTTTAAA
*
40406550 AATTATCATAAAATTCAAATAC
1 AATTAT-AAAAAATTCAAATAC
*
40406572 AATTATAAAAAATT-AACTAC
1 AATTATAAAAAATTCAAATAC
40406592 -ATTATAAA
1 AATTATAAA
40406600 TATATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 5 0.19
21 7 0.27
22 6 0.23
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (21 bp):
AATTATAAAAAATTCAAATAC
Found at i:40406670 original size:10 final size:10
Alignment explanation
Indices: 40406657--40406728 Score: 67
Period size: 10 Copynumber: 7.3 Consensus size: 10
40406647 AAAAAATAAT
40406657 AAAATTATTA
1 AAAATTATTA
40406667 AAAATTATTA
1 AAAATTATTA
* *
40406677 GAAATTGTTA
1 AAAATTATTA
* * *
40406687 AATATTGTAAA
1 AAAATTAT-TA
40406698 AAAATTA-TA
1 AAAATTATTA
40406707 AAAATTATTA
1 AAAATTATTA
*
40406717 GAAATTA-TA
1 AAAATTATTA
40406726 AAA
1 AAA
40406729 GACAATGATT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
9 12 0.24
10 32 0.64
11 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:40406843 original size:21 final size:21
Alignment explanation
Indices: 40406819--40406860 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
40406809 TTTGAGTAAA
*
40406819 TTTTATATTTTATATAGTTTTT
1 TTTTATATTTT-TATAATTTTT
*
40406841 TTTTGTATTTTTATAATTTT
1 TTTTATATTTTTATAATTTT
40406861 AGATTATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTATATTTTTATAATTTTT
Found at i:40406887 original size:27 final size:26
Alignment explanation
Indices: 40406841--40406914 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
40406831 TATAGTTTTT
* *
40406841 TTTTGTATTTTT-ATAATTTTAGATTA
1 TTTTCTATTTTTAATAATTTTA-ATGA
40406867 -TTTCTATTTTTAAATAATTTTAATGA
1 TTTTCTATTTTT-AATAATTTTAATGA
* *
40406893 TTTTGTATTTTTTAAGAATTTT
1 TTTTCTA-TTTTTAATAATTTT
40406915 GTATTTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 10 0.25
26 3 0.08
27 22 0.55
28 5 0.12
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (26 bp):
TTTTCTATTTTTAATAATTTTAATGA
Found at i:40412034 original size:23 final size:22
Alignment explanation
Indices: 40412003--40412046 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
40411993 ATATGTAATA
40412003 TATACATATTTTTACTATTTTAT
1 TATACATATTTTTA-TATTTTAT
*
40412026 TATATATATTTTTATATTTTA
1 TATACATATTTTTATATTTTA
40412047 GAAAATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
TATACATATTTTTATATTTTAT
Found at i:40412880 original size:29 final size:29
Alignment explanation
Indices: 40412825--40413027 Score: 187
Period size: 29 Copynumber: 6.9 Consensus size: 29
40412815 CCTAGAAGAT
*
40412825 CCTCAAACTTTCAAAAAATCTCATTTTTGA
1 CCTCAAACTTTCAAAAATTC-CATTTTTGA
*
40412855 CCTCGAACTTTCAAAAATTCCATTTTTGA
1 CCTCAAACTTTCAAAAATTCCATTTTTGA
* * *
40412884 CCCCAAACTTCCAAAAATTCCATTTTTGCC
1 CCTCAAACTTTCAAAAATTCCATTTTTG-A
* * * *
40412914 CCCCAAACTTCCAAATATTCCATTTTTGT
1 CCTCAAACTTTCAAAAATTCCATTTTTGA
* *
40412943 CCTCAAAC-TCCTAAAAAATCCATTTTT-A
1 CCTCAAACTTTC-AAAAATTCCATTTTTGA
* *
40412971 CCCCGAATCTTTTC-AAAATTCCATTTTTGA
1 CCTC-AAAC-TTTCAAAAATTCCATTTTTGA
* * *
40413001 CCTCAAATTTTTCCAAAATTACATTTT
1 CCTCAAA-CTTTCAAAAATTCCATTTT
40413028 CGCCCCATAG
Statistics
Matches: 145, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
28 6 0.04
29 76 0.52
30 61 0.42
31 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (29 bp):
CCTCAAACTTTCAAAAATTCCATTTTTGA
Found at i:40412923 original size:59 final size:59
Alignment explanation
Indices: 40412825--40413007 Score: 203
Period size: 59 Copynumber: 3.1 Consensus size: 59
40412815 CCTAGAAGAT
* * * *
40412825 CCTCAAACTTTCAAAAAATCTCATTTTTG-ACCTCGAACTTTCAAAAATTCCATTTTTGA
1 CCTCAAACTTCCAAAAAATC-CATTTTTGCCCCCCAAACTTTCAAAAATTCCATTTTTGA
* * * * *
40412884 CCCCAAACTTCCAAAAATTCCATTTTTGCCCCCCAAACTTCCAAATATTCCATTTTTGT
1 CCTCAAACTTCCAAAAAATCCATTTTTGCCCCCCAAACTTTCAAAAATTCCATTTTTGA
* * *
40412943 CCTCAAAC-TCCTAAAAAATCCATTTTT-ACCCCGAATCTTTTC-AAAATTCCATTTTTGA
1 CCTCAAACTTCC-AAAAAATCCATTTTTGCCCCCCAAAC-TTTCAAAAATTCCATTTTTGA
40413001 CCTCAAA
1 CCTCAAA
40413008 TTTTTCCAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
58 39 0.38
59 65 0.62
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
CCTCAAACTTCCAAAAAATCCATTTTTGCCCCCCAAACTTTCAAAAATTCCATTTTTGA
Found at i:40413275 original size:86 final size:86
Alignment explanation
Indices: 40413094--40413345 Score: 253
Period size: 86 Copynumber: 2.9 Consensus size: 86
40413084 TTTGTCCCTA
* * ** * ** * * * **
40413094 AATGTCTAAATATTACATTTTTGCTCTCGAGTGTCCAAAAATTATTATTTTTTCCCCCGGATGTC
1 AATGTCCAAAAATTACATTTTCACCCTCGAGTGTCCAAAAATTACCA-TTTTGCCCTC-AACATC
40413159 CAAAAATTACATTTTCACCCCCG
64 CAAAAATTACATTTTCACCCCCG
* * *
40413182 AGTGTCCAAAAATTACTATTTT-ACCCTCG-GATGTCCCAAAATTA-CATTTTTGCCCTCGAGCA
1 AATGTCCAAAAATTAC-ATTTTCACCCTCGAG-TGTCCAAAAATTACCA-TTTTGCCCTC-AACA
*
40413244 TCC-AAAATTACCATTTT-ACCCTCG
62 TCCAAAAATTA-CATTTTCACCCCCG
*
40413268 AATGTCCAAAAATTACATTTTCTCCCTCGAGTGTCCAAAAATTACCATTTTGCCCTCAACATCCA
1 AATGTCCAAAAATTACATTTTCACCCTCGAGTGTCCAAAAATTACCATTTTGCCCTCAACATCCA
40413333 AAAATTACATTTT
66 AAAATTACATTTT
40413346 TTACTTCATT
Statistics
Matches: 139, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
85 17 0.12
86 63 0.45
87 24 0.17
88 30 0.22
89 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (86 bp):
AATGTCCAAAAATTACATTTTCACCCTCGAGTGTCCAAAAATTACCATTTTGCCCTCAACATCCA
AAAATTACATTTTCACCCCCG
Found at i:40413280 original size:57 final size:57
Alignment explanation
Indices: 40413040--40413346 Score: 307
Period size: 58 Copynumber: 5.3 Consensus size: 57
40413030 CCCCATAGCA
* * * * *
40413040 TCCAAAAATTACATTTTCATTCC-CGAGCGTCCAAAAATTATCATTTTGTCCCT-AAATG
1 TCCAAAAATTACATTTT--TCCCTCGAGTGTCCAAAAATTACCATTTT-ACCCTCGAATG
* * * ** * * *
40413098 TCTAAATATTACATTTTTGCTCTCGAGTGTCCAAAAATTATTATTTTTTCCCCCGGATG
1 TCCAAAAATTACATTTTT-CCCTCGAGTGTCCAAAAATTACCA-TTTTACCCTCGAATG
* * * *
40413157 TCCAAAAATTACATTTTCACCCCCGAGTGTCCAAAAATTACTATTTTACCCTCGGATG
1 TCCAAAAATTACATTTT-TCCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAATG
* **
40413215 TCCCAAAATTACATTTTTGCCCTCGAGCATCC-AAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTACATTTTT-CCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAATG
* **
40413272 TCCAAAAATTACATTTTCTCCCTCGAGTGTCCAAAAATTACCATTTTGCCCTC-AACA
1 TCCAAAAATTACATTTT-TCCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAATG
40413329 TCCAAAAATTACATTTTT
1 TCCAAAAATTACATTTTT
40413347 TACTTCATTT
Statistics
Matches: 211, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
56 2 0.01
57 70 0.33
58 96 0.45
59 43 0.20
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (57 bp):
TCCAAAAATTACATTTTTCCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAATG
Found at i:40413333 original size:28 final size:28
Alignment explanation
Indices: 40413040--40413345 Score: 224
Period size: 29 Copynumber: 10.6 Consensus size: 28
40413030 CCCCATAGCA
* **
40413040 TCCAAAAATTACATTTTCATTCC-CGAGCG
1 TCCAAAAATTACATTTT-A-CCCTCGAATG
* *
40413069 TCCAAAAATTATCATTTTGTCCCT-AAATG
1 TCCAAAAATTA-CATTTT-ACCCTCGAATG
* * * * *
40413098 TCTAAATATTACATTTTTGCTCTCGAGTG
1 TCCAAAAATTACA-TTTTACCCTCGAATG
* * * *
40413127 TCCAAAAATTATTATTTTTTCCCCCGGATG
1 TCCAAAAATTA-CA-TTTTACCCTCGAATG
* *
40413157 TCCAAAAATTACATTTTCACCCCCGAGTG
1 TCCAAAAATTACATTTT-ACCCTCGAATG
*
40413186 TCCAAAAATTACTATTTTACCCTCGGATG
1 TCCAAAAATTAC-ATTTTACCCTCGAATG
* * ***
40413215 TCCCAAAATTACATTTTTGCCCTCGAGCA
1 TCCAAAAATTACA-TTTTACCCTCGAATG
40413244 TCC-AAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTA-CATTTTACCCTCGAATG
* *
40413272 TCCAAAAATTACATTTTCTCCCTCGAGTG
1 TCCAAAAATTACATTTT-ACCCTCGAATG
* **
40413301 TCCAAAAATTACCATTTTGCCCTC-AACA
1 TCCAAAAATTA-CATTTTACCCTCGAATG
40413329 TCCAAAAATTACATTTT
1 TCCAAAAATTACATTTT
40413346 TTACTTCATT
Statistics
Matches: 222, Mismatches: 43, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
27 6 0.03
28 49 0.22
29 127 0.57
30 40 0.18
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (28 bp):
TCCAAAAATTACATTTTACCCTCGAATG
Found at i:40413347 original size:29 final size:29
Alignment explanation
Indices: 40412838--40413346 Score: 172
Period size: 29 Copynumber: 17.5 Consensus size: 29
40412828 CAAACTTTCA
* * *
40412838 AAAAATCT-CATTTTTGACCTCGAACTTTC
1 AAAAAT-TACATTTTTGCCCTCGAACATCC
* * *
40412867 AAAAATTCCATTTTTGACCC-CAAACTTCC
1 AAAAATTACATTTTTG-CCCTCGAACATCC
* * * *
40412896 AAAAATTCCATTTTTGCCCCCCAAACTTCC
1 AAAAATTACATTTTTG-CCCTCGAACATCC
* * * *
40412926 AAATATTCCATTTTTGTCCTCAAAC-TCC
1 AAAAATTACATTTTTGCCCTCGAACATCC
* * * * *
40412954 TAAAAAATCCATTTTTACCC-CGAATCTTTTC
1 -AAAAATTACATTTTTGCCCTCGAA-C-ATCC
* * * **
40412985 -AAAATTCCATTTTTGACCTCAAATTTTTCC
1 AAAAATTACATTTTTGCCCTCGAA--CATCC
*
40413015 -AAAATTACATTTTCGCCC-C-ATAGCATCC
1 AAAAATTACATTTTTGCCCTCGA-A-CATCC
* * *
40413043 AAAAATTACATTTTCAT-TCC-CGAGCGTCC
1 AAAAATTACATTTT--TGCCCTCGAACATCC
* ** *
40413072 AAAAATTATCA-TTTTGTCCCT-AAATGTCT
1 AAAAATTA-CATTTTTG-CCCTCGAACATCC
* * ***
40413101 AAATATTACATTTTTGCTCTCGAGTGTCC
1 AAAAATTACATTTTTGCCCTCGAACATCC
* * * * **
40413130 AAAAATTATTATTTTTTCCCCCGGATGTCC
1 AAAAATTA-CATTTTTGCCCTCGAACATCC
** * ***
40413160 AAAAATTACATTTTCACCCCCGAGTGTCC
1 AAAAATTACATTTTTGCCCTCGAACATCC
* * **
40413189 AAAAATTAC-TATTTTACCCTCGGATGTCC
1 AAAAATTACAT-TTTTGCCCTCGAACATCC
* *
40413218 CAAAATTACATTTTTGCCCTCGAGCATCC
1 AAAAATTACATTTTTGCCCTCGAACATCC
* **
40413247 -AAAATTACCA-TTTTACCCTCGAATGTCC
1 AAAAATTA-CATTTTTGCCCTCGAACATCC
***
40413275 AAAAATTACATTTTCT-CCCTCGAGTGTCC
1 AAAAATTACATTTT-TGCCCTCGAACATCC
40413304 AAAAATTACCA-TTTTGCCCTC-AACATCC
1 AAAAATTA-CATTTTTGCCCTCGAACATCC
40413332 AAAAATTACATTTTT
1 AAAAATTACATTTTT
40413347 TACTTCATTT
Statistics
Matches: 381, Mismatches: 69, Indels: 61
0.75 0.14 0.12
Matches are distributed among these distances:
27 3 0.01
28 57 0.15
29 238 0.62
30 79 0.21
31 4 0.01
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTTGCCCTCGAACATCC
Found at i:40416134 original size:19 final size:19
Alignment explanation
Indices: 40416112--40416152 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
40416102 TTTAAATTTA
40416112 TTAATTGTATAAAGCAATT
1 TTAATTGTATAAAGCAATT
*
40416131 TTAATTGTATAAAGCATTT
1 TTAATTGTATAAAGCAATT
40416150 TTA
1 TTA
40416153 GTAAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (19 bp):
TTAATTGTATAAAGCAATT
Found at i:40417695 original size:29 final size:30
Alignment explanation
Indices: 40417655--40417750 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
40417645 ACCCGGGGGC
40417655 AAAATGGTAATTTTGGAGAAATCGAGGTTA
1 AAAATGGTAATTTTGGAGAAATCGAGGTTA
** *** * *
40417685 AAAATGG-AATTTTAAAGGTTTCGGGGGT-
1 AAAATGGTAATTTTGGAGAAATCGAGGTTA
*
40417713 AAAATGGTAAATTTTGGTGAAATCGAGGTTA
1 AAAATGGT-AATTTTGGAGAAATCGAGGTTA
40417744 AAAATGG
1 AAAATGG
40417751 GATTTAGGAA
Statistics
Matches: 48, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
28 7 0.15
29 14 0.29
30 20 0.42
31 7 0.15
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (30 bp):
AAAATGGTAATTTTGGAGAAATCGAGGTTA
Found at i:40417791 original size:30 final size:30
Alignment explanation
Indices: 40417772--40418120 Score: 509
Period size: 30 Copynumber: 11.6 Consensus size: 30
40417762 TTTTTTAGGA
* *
40417772 TCAAAATGTAGTTTTGGAAAAGTTTTGAGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
40417802 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
*
40417832 TCAAAATATAATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* *
40417862 TCAAAATGTGATTTAGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* *
40417892 TCAAAATATAATTTTAGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
** *
40417922 TTTAAATGTGATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
*
40417952 TCAAAATATAATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
*
40417982 TTAAAATGTAATTTTGGAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* *
40418012 TCAAAATGTGATTTTGAAAAAGTTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* * *
40418042 TCAAAATATAATTTTGTAAAAGTTTTAGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
* *
40418072 TTAAAATGTAATTTTGGAAAAGTTTGGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTTGGGG
*
40418102 TCAAAATATAATTTCTGGA
1 TCAAAATGTAATTT-TGGA
40418121 TTCTTTGGGG
Statistics
Matches: 283, Mismatches: 35, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
30 279 0.99
31 4 0.01
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
TCAAAATGTAATTTTGGAAAAGTTTTGGGG
Found at i:40418362 original size:162 final size:162
Alignment explanation
Indices: 40418189--40418523 Score: 519
Period size: 162 Copynumber: 2.1 Consensus size: 162
40418179 AGGCATCCAG
* * * ** *
40418189 CAGTCAAAGGATTAAGTTGTAAATCTTGAAAAATTCTTGGGGTAATTTCGTAATTAAATGCAAA-
1 CAGTCAAAGGATTAAGTTATAAACCATGAAAAATTCTTGGACTAATTTCGTAATTAAAT-AAAAG
* *
40418253 TTGATTTGGGGATTAAATTAAAATATATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAA
65 TTGATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAA
* *
40418318 AAATGACACGTGGCAGCCCCTGGTGCTGCCAAA
130 AAAAGACACGTGGCAGCCCCTGGTGCAGCCAAA
*
40418351 CAGTCAAAGGATTAATTTATAAACCATGAAAAATTCTTGGACTAATTTCGTAATTAAATAAAAGT
1 CAGTCAAAGGATTAAGTTATAAACCATGAAAAATTCTTGGACTAATTTCGTAATTAAATAAAAGT
*
40418416 TGATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAATGACTAAATGCATAAATAATCCAAAA
66 TGATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAA
* *
40418481 AAAGACATGTGGCAGCCCCTGGTGCAGTCAAA
131 AAAGACACGTGGCAGCCCCTGGTGCAGCCAAA
*
40418513 TAGTCAAAGGA
1 CAGTCAAAGGA
40418524 CTAAATTGAA
Statistics
Matches: 157, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 3 0.02
162 154 0.98
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (162 bp):
CAGTCAAAGGATTAAGTTATAAACCATGAAAAATTCTTGGACTAATTTCGTAATTAAATAAAAGT
TGATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAA
AAAGACACGTGGCAGCCCCTGGTGCAGCCAAA
Found at i:40418593 original size:162 final size:160
Alignment explanation
Indices: 40418262--40418610 Score: 359
Period size: 162 Copynumber: 2.2 Consensus size: 160
40418252 ATTGATTTGG
* * *
40418262 GGATTAAATTAAAATATATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAATGACAC
1 GGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGACAC
* * * ** **
40418327 GTGGCAGCCCCTGGTGCTGCCAAACAGTCAAAGGATTAATTTATAAACCATGAAAAATTCTTGGA
66 GTGGCAGCCCCTGGTGCAGCCAAACAGTCAAAGGATAAATTGATAAAAAATGAAAAATTCAAGGA
* * * ** **
40418392 CTAATTTCGTAATTAAATAAAAGTTGATTT
131 CAAATTGCATAATTAAATAAAAGCAGAAAT
*
40418422 GGGGATTAAATTAAAACAAATTAAAAATAAAAATGACTAAATGCATAAATAATCCAAAAAAAGAC
1 --GGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGAC
* * * *
40418487 ATGTGGCAGCCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGA-AAAGAAAT-TAAAATTAC
64 ACGTGGCAGCCCCTGGTGCAGCCAAACAGTCAAAGGA-TAAATTGATAAA-AAATGAAAAATT-C
40418550 AAGGTA-AAATTGCAAATAATTAAA-AAAATGCAGAAAT
126 AAGG-ACAAATTGC--ATAATTAAATAAAA-GCAGAAAT
* *
40418587 -GATTAAATTGAAGCAAA-TAAAAAT
1 GGATTAAATTAAAACAAATTAAAAAT
40418611 GCGGAAGGAC
Statistics
Matches: 156, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
161 7 0.04
162 116 0.74
163 16 0.10
164 5 0.03
165 12 0.08
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (160 bp):
GGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGACAC
GTGGCAGCCCCTGGTGCAGCCAAACAGTCAAAGGATAAATTGATAAAAAATGAAAAATTCAAGGA
CAAATTGCATAATTAAATAAAAGCAGAAAT
Found at i:40419034 original size:15 final size:16
Alignment explanation
Indices: 40419014--40419043 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
40419004 ACTCAAAAAA
40419014 CAGATCTGG-ATTTTC
1 CAGATCTGGAATTTTC
40419029 CAGATCTGGAATTTT
1 CAGATCTGGAATTTT
40419044 TTAAAACACT
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:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (16 bp):
CAGATCTGGAATTTTC
Found at i:40419908 original size:18 final size:15
Alignment explanation
Indices: 40419875--40419905 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
40419865 ATGGTGGATG
40419875 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
40419890 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
40419905 G
1 G
40419906 CAGCATGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:40420052 original size:6 final size:6
Alignment explanation
Indices: 40420028--40420136 Score: 82
Period size: 6 Copynumber: 18.0 Consensus size: 6
40420018 ACATTGGACT
* * **
40420028 TTTAAA TTTTTAA TGTTAAA TTTAATA TTTTAA TTTTTA TTTAAA TTTAAA
1 TTTAAA -TTTAAA T-TTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA
* * *
40420079 TTCAAA -TTAAA TTTAAATA TTTAAA TTTAAA -ATAAA TCTAAA TTTAAA
1 TTTAAA TTTAAA TTT-AA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
40420127 --TAAA TTTAAA
1 TTTAAA TTTAAA
40420137 ATCAATTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 48 0.58
7 19 0.23
8 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:40420100 original size:25 final size:25
Alignment explanation
Indices: 40420072--40420121 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
40420062 TTTTATTTAA
* *
40420072 ATTTAAATTCAAATTAAATTTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
*
40420097 ATTTAAATTTAAAATAAATCTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
40420122 TTAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAAATTCAAAATAAATCTAAAT
Found at i:40420100 original size:31 final size:31
Alignment explanation
Indices: 40420065--40420128 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
40420055 TTTTAATTTT
*
40420065 TATTTAAATTTAAATTCAAAT-TAAATTTAAA
1 TATTTAAATTTAAAAT-AAATCTAAATTTAAA
40420096 TATTTAAATTTAAAATAAATCTAAATTTAAA
1 TATTTAAATTTAAAATAAATCTAAATTTAAA
40420127 TA
1 TA
40420129 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTTAAATTTAAAATAAATCTAAATTTAAA
Found at i:40420115 original size:42 final size:43
Alignment explanation
Indices: 40420043--40420136 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 43
40420033 ATTTTTAATG
* * ** *
40420043 TTAAATTT-AATATTTTAATTTTTATTTAAATTTAAATTCAAA
1 TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
*
40420085 TTAAATTTAAATA-TTTAAATTTAAAATAAATCTAAATTTAAA
1 TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
40420127 -TAAATTTAAA
1 TTAAATTTAAA
40420137 ATCAATTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
41 10 0.22
42 31 0.69
43 4 0.09
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (43 bp):
TTAAATTTAAATATTTTAAATTTAAAATAAATCTAAATTCAAA
Found at i:40420138 original size:17 final size:16
Alignment explanation
Indices: 40420066--40420136 Score: 85
Period size: 17 Copynumber: 4.4 Consensus size: 16
40420056 TTTAATTTTT
40420066 ATTTAAATTTAAATTCAA
1 ATTTAAATTTAAA-T-AA
40420084 A-TTAAATTTAAAT--
1 ATTTAAATTTAAATAA
40420097 ATTTAAATTTAAAATAA
1 ATTTAAATTT-AAATAA
*
40420114 ATCTAAATTTAAATAA
1 ATTTAAATTTAAATAA
40420130 ATTTAAA
1 ATTTAAA
40420137 ATCAATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
13 1 0.02
14 8 0.17
15 4 0.09
16 13 0.28
17 20 0.43
18 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:40420561 original size:68 final size:68
Alignment explanation
Indices: 40420363--40421058 Score: 966
Period size: 68 Copynumber: 10.1 Consensus size: 68
40420353 GCCTGCTATT
** * * *
40420363 TGAC-TTGTCTCTTACTTCAATTTCAGAGGGGCAAAGGCTTGTTATCCAGCTTTACTTCAATTTC
1 TGACGTTG-CTCTTACTTCAATTTCAGAGATG--AAGACGTGTTATCCA-CTCTACTTCAATTTC
**
40420427 -AGGAAAA
62 AAGG-GGA
* * * * * *
40420434 TGATC-TTGCTCTTATTTCCACAATCTCAAAGATAAAGATGTGTTATCCACTCTACTTCAATTCC
1 TGA-CGTTGCTCTTACTT---CAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTC
*
40420498 GAGGGGA
62 AAGGGGA
* *
40420505 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACATGTTATCCACTTTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40420570 GGA
66 GGA
*
40420573 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTTTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40420638 GGA
66 GGA
* *
40420641 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAAACATGTTATCCACTCTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40420706 GTGA
66 G-GA
* * *
40420710 AGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACGTATTATCCACTCTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40420775 GGA
66 GGA
* * *
40420778 TGACGTTGCTCTTACTTCAATTTCAGGGATGAAGACATGTTATCCACTCTACTTCAATTTCCAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40420843 GGA
66 GGA
* *
40420846 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAAACATGTTATCCACTCTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40420911 GGA
66 GGA
* *
40420914 TGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACGTATTATCCACTCTACTTCAATTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
40420979 GTGA
66 G-GA
* * * *
40420983 AGACGTTGCTCTTACTTCAATTTCAGAGATCAAGACGTATTATCCACTCTACTTCATTTTCAAGG
1 TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
*
40421048 GTA
66 GGA
40421051 TGACGTTG
1 TGACGTTG
40421059 AGATCTGCAA
Statistics
Matches: 569, Mismatches: 48, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
68 372 0.65
69 129 0.23
70 1 0.00
71 39 0.07
72 19 0.03
74 9 0.02
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (68 bp):
TGACGTTGCTCTTACTTCAATTTCAGAGATGAAGACGTGTTATCCACTCTACTTCAATTTCAAGG
GGA
Found at i:40420735 original size:205 final size:204
Alignment explanation
Indices: 40420474--40421058 Score: 1008
Period size: 205 Copynumber: 2.9 Consensus size: 204
40420464 GATAAAGATG
* * *
40420474 TGTTATCCACTCTACTTCAATTCCGAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAG
* * *
40420539 ACATGTTATCCACTTTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATG
66 ACGTATTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATG
*
40420604 AAGACGTGTTATCCACTTTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAG
131 AAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAG
40420669 ATGAAAACA
196 ATGAAAACA
*
40420678 TGTTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAGAGATCAA
1 TGTTATCCACTCTACTTCAATTTCAAGGG-GATGACGTTGCTCTTACTTCAATTTCAGAGATCAA
*
40420743 GACGTATTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGGGAT
65 GACGTATTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
* *
40420808 GAAGACATGTTATCCACTCTACTTCAATTTCCAGGGGATGACGTTGCTCTTACTTCAATTTCAGA
130 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGA
40420873 GATGAAAACA
195 GATGAAAACA
40420883 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAG
1 TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAG
*
40420948 ACGTATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAGAGAT
66 ACGTATTATCCACTCTACTTCAATTTCAAGGG-GATGACGTTGCTCTTACTTCAATTTCAGAGAT
* * * *
40421013 CAAGACGTATTATCCACTCTACTTCATTTTCAAGGGTATGACGTTG
130 GAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
40421059 AGATCTGCAA
Statistics
Matches: 359, Mismatches: 20, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
204 94 0.26
205 265 0.74
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (204 bp):
TGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATCAAG
ACGTATTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATG
AAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAG
ATGAAAACA
Found at i:40420963 original size:273 final size:273
Alignment explanation
Indices: 40420476--40421058 Score: 1040
Period size: 273 Copynumber: 2.1 Consensus size: 273
40420466 TAAAGATGTG
* *
40420476 TTATCCACTCTACTTCAATTCCGAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
1 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
*
40420541 ATGTTATCCACTTTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
66 ATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
* * *
40420606 GACGTGTTATCCACTTTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
131 AACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
* *
40420671 GAAAACATGTTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
196 CAAAACATATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
40420736 AGATCAAGACGTA
261 AGATCAAGACGTA
*
40420749 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGGGATGAAGAC
1 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
*
40420814 ATGTTATCCACTCTACTTCAATTTCCAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
66 ATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
40420879 AACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
131 AACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
* *
40420944 CAAGACGTATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
196 CAAAACATATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
40421009 AGATCAAGACGTA
261 AGATCAAGACGTA
* *
40421022 TTATCCACTCTACTTCATTTTCAAGGGTATGACGTTG
1 TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTG
40421059 AGATCTGCAA
Statistics
Matches: 296, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
273 296 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (273 bp):
TTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAGAC
ATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAA
AACATGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGAT
CAAAACATATTATCCACTCTACTTCAATTTCAAGGGTGAAGACGTTGCTCTTACTTCAATTTCAG
AGATCAAGACGTA
Found at i:40433005 original size:29 final size:30
Alignment explanation
Indices: 40432965--40433060 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
40432955 ACCCGGGGGC
40432965 AAAATGGTAATTTTGGAGAAATCGAGGTTA
1 AAAATGGTAATTTTGGAGAAATCGAGGTTA
** *** *
40432995 AAAATGG-AATTTTAAAGGTTTCGAGGGT-
1 AAAATGGTAATTTTGGAGAAATCGAGGTTA
* *
40433023 AAAATGGTAAATTTTGGTGAAATCGGGGTTA
1 AAAATGGT-AATTTTGGAGAAATCGAGGTTA
40433054 AAAATGG
1 AAAATGG
40433061 GATTTAGGAC
Statistics
Matches: 49, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
28 7 0.14
29 15 0.31
30 20 0.41
31 7 0.14
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (30 bp):
AAAATGGTAATTTTGGAGAAATCGAGGTTA
Found at i:40433116 original size:30 final size:30
Alignment explanation
Indices: 40433073--40433276 Score: 241
Period size: 30 Copynumber: 6.8 Consensus size: 30
40433063 TTTAGGACAT
* *
40433073 TTTTTAGGATCAAAATGTAGTTTTGGAAAAG
1 TTTTGAGG-TCAAAATGTAATTTTGGAAAAG
40433104 TTTTGAGGTCAAAATGTAATTTTGGAAAAG
1 TTTTGAGGTCAAAATGTAATTTTGGAAAAG
* *
40433134 TTTTGGGGTCAAAATATAATTTTGGAAAAG
1 TTTTGAGGTCAAAATGTAATTTTGGAAAAG
* *
40433164 TTTT-AGGGTCAAAATGTGATTTAGGAAAAG
1 TTTTGA-GGTCAAAATGTAATTTTGGAAAAG
* *
40433194 TTGT-AGGGTCAAAATATAATTTTGGAAAAG
1 TTTTGA-GGTCAAAATGTAATTTTGGAAAAG
* ** *
40433224 TTTTGGGGTTTAAATGTGATTTTGGAAAAG
1 TTTTGAGGTCAAAATGTAATTTTGGAAAAG
* *
40433254 TTTTGGGGTCAAAATATAATTTT
1 TTTTGAGGTCAAAATGTAATTTT
40433277 TGGATTGTTT
Statistics
Matches: 149, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
30 142 0.95
31 7 0.05
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (30 bp):
TTTTGAGGTCAAAATGTAATTTTGGAAAAG
Found at i:40433146 original size:60 final size:60
Alignment explanation
Indices: 40433082--40433276 Score: 293
Period size: 60 Copynumber: 3.2 Consensus size: 60
40433072 TTTTTTAGGA
* * *
40433082 TCAAAATGTAGTTTTGGAAAAGTTTTGAGGTCAAAATGTAATTTTGGAAAAGTTTTGGGG
1 TCAAAATATAATTTTGGAAAAGTTTTGAGGTCAAAATGTGATTTTGGAAAAGTTTTGGGG
* * *
40433142 TCAAAATATAATTTTGGAAAAGTTTT-AGGGTCAAAATGTGATTTAGGAAAAGTTGTAGGG
1 TCAAAATATAATTTTGGAAAAGTTTTGA-GGTCAAAATGTGATTTTGGAAAAGTTTTGGGG
* **
40433202 TCAAAATATAATTTTGGAAAAGTTTTGGGGTTTAAATGTGATTTTGGAAAAGTTTTGGGG
1 TCAAAATATAATTTTGGAAAAGTTTTGAGGTCAAAATGTGATTTTGGAAAAGTTTTGGGG
40433262 TCAAAATATAATTTT
1 TCAAAATATAATTTT
40433277 TGGATTGTTT
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
59 1 0.01
60 120 0.99
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.37
Consensus pattern (60 bp):
TCAAAATATAATTTTGGAAAAGTTTTGAGGTCAAAATGTGATTTTGGAAAAGTTTTGGGG
Found at i:40433176 original size:90 final size:90
Alignment explanation
Indices: 40433074--40433268 Score: 277
Period size: 90 Copynumber: 2.2 Consensus size: 90
40433064 TTAGGACATT
* * * *
40433074 TTTTAGGATCAAAATGT-AGTTTTGGAAAAGTT-TTGAGGTCAAAATGTAATTTTGGAAAAGTTT
1 TTTTAGGGTCAAAATGTGA-TTTAGGAAAAGTTGTAG-GGTCAAAATATAATTTTGGAAAAGTTT
40433137 TGGGGTCAAAATATAATTTTGGAAAAG
64 TGGGGTCAAAATATAATTTTGGAAAAG
40433164 TTTTAGGGTCAAAATGTGATTTAGGAAAAGTTGTAGGGTCAAAATATAATTTTGGAAAAGTTTTG
1 TTTTAGGGTCAAAATGTGATTTAGGAAAAGTTGTAGGGTCAAAATATAATTTTGGAAAAGTTTTG
** * *
40433229 GGGTTTAAATGTGATTTTGGAAAAG
66 GGGTCAAAATATAATTTTGGAAAAG
*
40433254 TTTTGGGGTCAAAAT
1 TTTTAGGGTCAAAAT
40433269 ATAATTTTTG
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
90 91 0.97
91 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (90 bp):
TTTTAGGGTCAAAATGTGATTTAGGAAAAGTTGTAGGGTCAAAATATAATTTTGGAAAAGTTTTG
GGGTCAAAATATAATTTTGGAAAAG
Found at i:40433618 original size:161 final size:162
Alignment explanation
Indices: 40433349--40433686 Score: 493
Period size: 161 Copynumber: 2.1 Consensus size: 162
40433339 AAGCATCCAG
* * * * * *
40433349 CAGTCAAAGGATTAAGTTGTAAATCTTGAAAAATTCTTGGGGCAATTTCGTAATTAAATGCAAAT
1 CAGTCAAAGGACTAAGTTATAAACCATGAAAAATTCTTGGGACAATTTCGTAATTAAATGAAAAT
* *
40433414 TAATTTGGGGATTAAATTAAAATATATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAA
66 TAATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAA
* * * *
40433479 AATGACACGTGGCAGCCCTTGGTGCTGCCAAA
131 AAAGACACGTGGCAACCCCTGGTGCAGCCAAA
*
40433511 CAGTCAAAGGACTAATTTATAAACCATGAAAAATTCTT-GGACTAATTTCGTAATTAAAT-AAAA
1 CAGTCAAAGGACTAAGTTATAAACCATGAAAAATTCTTGGGAC-AATTTCGTAATTAAATGAAAA
*
40433574 GTTGATTTGGGGATT-AATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAA
65 -TTAATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAA
*
40433638 AAAAAGACACGTGGCAACCCCTGGTGCAGTCAAA
129 AAAAAGACACGTGGCAACCCCTGGTGCAGCCAAA
*
40433672 TAGTCAAAGGACTAA
1 CAGTCAAAGGACTAA
40433687 ATTGAAAAGA
Statistics
Matches: 158, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
161 96 0.61
162 62 0.39
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (162 bp):
CAGTCAAAGGACTAAGTTATAAACCATGAAAAATTCTTGGGACAATTTCGTAATTAAATGAAAAT
TAATTTGGGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAA
AAAGACACGTGGCAACCCCTGGTGCAGCCAAA
Found at i:40433751 original size:161 final size:161
Alignment explanation
Indices: 40433422--40433951 Score: 473
Period size: 182 Copynumber: 3.2 Consensus size: 161
40433412 ATTAATTTGG
* * *
40433422 GGATTAAATTAAAATATATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAATGACAC
1 GGATTAAATTAAAACA-AATAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGACAC
* * * * * ** * **
40433487 GTGGCAGCCCTTGGTGCTGCCAAACAGTCAAAGGACT-AATTTATAAA-CCATGAAAAATT-CTT
65 GTGGCAGCCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGA-AAAGAAAT-TAAAATTACAA
* * * ****
40433549 GG-ACTAATTTC--GTAATTAAATAAAAGTTG-ATTTGG
128 GGCA-AAATTGCAAATAATTAAA-AAAA--TGCA-GAAA
40433584 GGATT-AATTAAAACAAATTAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGACAC
1 GGATTAAATTAAAACAAA-TAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGACAC
*
40433648 GTGGCAACCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAAAAGAAATTAAAATTACAAGG
65 GTGGCAGCCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAAAAGAAATTAAAATTACAAGG
40433713 CAAAATTGCAAATAATTAAAAAAATGCAGAAA
130 CAAAATTGCAAATAATTAAAAAAATGCAGAAA
* * * *
40433745 GGATTAAATTGAAGCAAATAAAAATGCGGAAGGACCAATTGCGCAAATAGACCATCAAGCAAAAA
1 GGATTAAATTAAAACAAATAAAAAT----AA--A--AA--G-G--ACTA-A--AT---GCATAAA
*
40433810 CACGATCCAAAAAAAGACACGTGGCAGCCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAA
47 TA--ATCCAAAAAAAGACACGTGGCAGCCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAA
*
40433875 AAGAAATTAAAATTACAAGGCAAAATTGTAAATAATTAAAAAAATGCAGAAA
110 AAGAAATTAAAATTACAAGGCAAAATTGCAAATAATTAAAAAAATGCAGAAA
* *
40433927 GGATTAAATTGAAGCAAATAAAAAT
1 GGATTAAATTAAAACAAATAAAAAT
40433952 GCGGAAGGAC
Statistics
Matches: 310, Mismatches: 28, Indels: 40
0.82 0.07 0.11
Matches are distributed among these distances:
160 1 0.00
161 109 0.35
162 31 0.10
163 5 0.02
164 8 0.03
165 2 0.01
167 1 0.00
169 2 0.01
171 1 0.00
172 1 0.00
174 3 0.01
175 1 0.00
177 2 0.01
180 7 0.02
182 136 0.44
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (161 bp):
GGATTAAATTAAAACAAATAAAAATAAAAAGGACTAAATGCATAAATAATCCAAAAAAAGACACG
TGGCAGCCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAAAAGAAATTAAAATTACAAGGC
AAAATTGCAAATAATTAAAAAAATGCAGAAA
Found at i:40433939 original size:182 final size:182
Alignment explanation
Indices: 40433632--40433995 Score: 701
Period size: 182 Copynumber: 2.0 Consensus size: 182
40433622 TGCATAAATA
40433632 ATCCAAAAAAAGACACGTGGCAACCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAAAAGA
1 ATCCAAAAAAAGACACGTGGCAACCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAAAAGA
40433697 AATTAAAATTACAAGGCAAAATTGCAAATAATTAAAAAAATGCAGAAAGGATTAAATTGAAGCAA
66 AATTAAAATTACAAGGCAAAATTGCAAATAATTAAAAAAATGCAGAAAGGATTAAATTGAAGCAA
40433762 ATAAAAATGCGGAAGGACCAATTGCGCAAATAGACCATCAAGCAAAAACACG
131 ATAAAAATGCGGAAGGACCAATTGCGCAAATAGACCATCAAGCAAAAACACG
*
40433814 ATCCAAAAAAAGACACGTGGCAGCCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAAAAGA
1 ATCCAAAAAAAGACACGTGGCAACCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAAAAGA
*
40433879 AATTAAAATTACAAGGCAAAATTGTAAATAATTAAAAAAATGCAGAAAGGATTAAATTGAAGCAA
66 AATTAAAATTACAAGGCAAAATTGCAAATAATTAAAAAAATGCAGAAAGGATTAAATTGAAGCAA
*
40433944 ATAAAAATGCGGAAGGACTAATTGCGCAAATAGACCATCAAGCAAAAACACG
131 ATAAAAATGCGGAAGGACCAATTGCGCAAATAGACCATCAAGCAAAAACACG
40433996 CGGATCCTAG
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 179 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.17
Consensus pattern (182 bp):
ATCCAAAAAAAGACACGTGGCAACCCCTGGTGCAGTCAAATAGTCAAAGGACTAAATTGAAAAGA
AATTAAAATTACAAGGCAAAATTGCAAATAATTAAAAAAATGCAGAAAGGATTAAATTGAAGCAA
ATAAAAATGCGGAAGGACCAATTGCGCAAATAGACCATCAAGCAAAAACACG
Found at i:40434385 original size:15 final size:16
Alignment explanation
Indices: 40434365--40434394 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
40434355 ACTCAAAAAA
40434365 CAGATCTGG-ATTTTC
1 CAGATCTGGAATTTTC
40434380 CAGATCTGGAATTTT
1 CAGATCTGGAATTTT
40434395 TTAAAACACT
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:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (16 bp):
CAGATCTGGAATTTTC
Found at i:40435257 original size:18 final size:15
Alignment explanation
Indices: 40435224--40435254 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
40435214 ATGGTGGATG
40435224 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
40435239 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
40435254 G
1 G
40435255 CAGCACGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.55, T:0.19
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:40435423 original size:6 final size:6
Alignment explanation
Indices: 40435412--40435482 Score: 69
Period size: 6 Copynumber: 12.2 Consensus size: 6
40435402 TATTTTTTTT
* *
40435412 ATTTAA ATTTAA ATTCAA A-TTAA ATTTAAA TATTTAA ATTTAA A-ATAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA -ATTTAA ATTTAA ATTTAA
*
40435460 ATCTAA ATTTAA A--TAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA A
40435483 ATCAATTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
4 4 0.07
5 8 0.15
6 34 0.63
7 4 0.07
8 4 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:40435449 original size:31 final size:31
Alignment explanation
Indices: 40435411--40435474 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
40435401 ATATTTTTTT
*
40435411 TATTTAAATTTAAATTCAAAT-TAAATTTAAA
1 TATTTAAATTTAAAAT-AAATCTAAATTTAAA
40435442 TATTTAAATTTAAAATAAATCTAAATTTAAA
1 TATTTAAATTTAAAATAAATCTAAATTTAAA
40435473 TA
1 TA
40435475 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTTAAATTTAAAATAAATCTAAATTTAAA
Found at i:40435450 original size:25 final size:25
Alignment explanation
Indices: 40435418--40435467 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
40435408 TTTTATTTAA
* *
40435418 ATTTAAATTCAAATTAAATTTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
*
40435443 ATTTAAATTTAAAATAAATCTAAAT
1 ATTTAAATTCAAAATAAATCTAAAT
40435468 TTAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTTAAATTCAAAATAAATCTAAAT
Found at i:40435484 original size:17 final size:16
Alignment explanation
Indices: 40435412--40435482 Score: 85
Period size: 17 Copynumber: 4.4 Consensus size: 16
40435402 TATTTTTTTT
40435412 ATTTAAATTTAAATTCAA
1 ATTTAAATTTAAA-T-AA
40435430 A-TTAAATTTAAAT--
1 ATTTAAATTTAAATAA
40435443 ATTTAAATTTAAAATAA
1 ATTTAAATTT-AAATAA
*
40435460 ATCTAAATTTAAATAA
1 ATTTAAATTTAAATAA
40435476 ATTTAAA
1 ATTTAAA
40435483 ATCAATTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
13 1 0.02
14 8 0.17
15 4 0.09
16 13 0.28
17 20 0.43
18 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:40436413 original size:17 final size:17
Alignment explanation
Indices: 40436393--40436438 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
40436383 TAATTTTTAT
*
40436393 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
40436410 TTTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
40436427 TTTAAATTTATT
1 TTTAAATTTATT
40436439 CCCTTAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:40439170 original size:97 final size:97
Alignment explanation
Indices: 40438985--40439178 Score: 257
Period size: 97 Copynumber: 2.0 Consensus size: 97
40438975 ACCCTTGAAA
* * * * * *
40438985 AAGGGTATTTAATTTTCTCGATTTGAAGAAAAGTCGTGTCTGGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCAATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
*
40439050 AAACCATAGATATAGAAACATTGCCTCGATTT
66 AAACCATAGATAAAGAAACATTGCCTCGATTT
*
40439082 AAGGGTATTCAATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCATAAATTTTCA
1 AAGGGTATTCAATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
* * *
40439147 AAGCTCGA-A-ATAAAGGAATATTGCCTCGATTT
66 AAAC-C-ATAGATAAAGAAACATTGCCTCGATTT
40439179 TAAATATCTT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
97 81 0.96
98 2 0.02
99 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (97 bp):
AAGGGTATTCAATTATCTCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCATAGATAAAGAAACATTGCCTCGATTT
Found at i:40439605 original size:29 final size:28
Alignment explanation
Indices: 40439558--40439955 Score: 300
Period size: 29 Copynumber: 13.6 Consensus size: 28
40439548 AAAGTGTGAT
* **
40439558 TTTTTGGAAATTCAAGGGTAAAATGGTAA
1 TTTTTGGAAGTTTGAGGGTAAAAT-GTAA
* * *
40439587 TTTTTGGATGTTTGGGGGTAAAATGGTAG
1 TTTTTGGAAGTTTGAGGGTAAAAT-GTAA
* * *
40439616 TTTTTTGATGTTCGAGGGTAAAATGGTAA
1 TTTTTGGAAGTTTGAGGGTAAAAT-GTAA
* * *
40439645 TTTTTGGAAGTTCGAGGGCAAATATGTGA
1 TTTTTGGAAGTTTGAGGGTAAA-ATGTAA
* ** *
40439674 TTTTTGAGAAGTTT-TGGGTAAAAACATGA
1 TTTTTG-GAAGTTTGAGGGT-AAAATGTAA
* *
40439703 TTTTCGAAAGTTT-ACGGGTAAAAATGTAA
1 TTTTTGGAAGTTTGA-GGGT-AAAATGTAA
* * *
40439732 GTTTTGAAAGTTTAAGGGTAAAATGTAA
1 TTTTTGGAAGTTTGAGGGTAAAATGTAA
*
40439760 TTTTTGAAAGTTT-AGGGGTAAAAATGTAA
1 TTTTTGGAAGTTTGA-GGGT-AAAATGTAA
** *
40439789 TTTTAAGAAGTTTAAGGGTCAAAATGTAA
1 TTTTTGGAAGTTTGAGGGT-AAAATGTAA
*
40439818 TTTTTGGAAAGTTTGAGGGTTAAAATATAA
1 TTTTTGG-AAGTTTGAGGG-TAAAATGTAA
*
40439848 TTTTTAGGAGGTTTGAGGGTAAAAATGTAA
1 TTTTT-GGAAGTTTGAGGGT-AAAATGTAA
* *
40439878 TTTTTGAAAAGTTCGAGGGTCAAAATGTAA
1 TTTTTG-GAAGTTTGAGGGT-AAAATGTAA
* * *
40439908 CTTTTGGAAAGTTCGAAGGTTAAAATGTAA
1 TTTTTGG-AAGTTTG-AGGGTAAAATGTAA
40439938 TTTTTGGAGAGTTT-AGGG
1 TTTTTGGA-AGTTTGAGGG
40439956 ACCTTTTGGG
Statistics
Matches: 305, Mismatches: 48, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.00
28 34 0.11
29 154 0.50
30 109 0.36
31 7 0.02
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (28 bp):
TTTTTGGAAGTTTGAGGGTAAAATGTAA
Found at i:40445993 original size:59 final size:59
Alignment explanation
Indices: 40445900--40446207 Score: 449
Period size: 59 Copynumber: 5.2 Consensus size: 59
40445890 CCGGGGAGGC
* ** * *
40445900 AAAATGGTAATTTT-GGTGTAATCGGGGTTAAAAATAGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGGGGGT
* ** * *
40445958 AAAATGGTAATCTTCGGTGAAATTAGGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGGGGGT
* * *
40446017 AAAATGGTAATTTTCGGTAAAATCAGGGTTAAAAACGAAATTTTAGAAGCTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGGGGGT
*
40446076 AAAATGGTAATTTTCGGTAAAATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGGGGGT
*
40446135 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGTAGCTTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGGGGGT
*
40446194 CAAAAT-ATAATTTT
1 -AAAATGGTAATTTT
40446208 GGAAAAGTTT
Statistics
Matches: 229, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
58 13 0.06
59 211 0.92
60 5 0.02
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (59 bp):
AAAATGGTAATTTTCGGTGAAATCGGGGTTAAAAACGGAATTTTAGAAGCTTCGGGGGT
Found at i:40446189 original size:29 final size:29
Alignment explanation
Indices: 40445983--40446191 Score: 122
Period size: 29 Copynumber: 7.1 Consensus size: 29
40445973 GGTGAAATTA
*
40445983 GGGTTAAAAATGGAATTTTAGAAGCTTCG
1 GGGTTAAAAATGGAATTTTAGTAGCTTCG
* *** *
40446012 AGGG-T-AAAATGGTAATTTTCGGTAAAATCA
1 -GGGTTAAAAATGG-AATTTT-AGTAGCTTCG
* * *
40446042 GGGTTAAAAACGAAATTTTAGAAGCTTCG
1 GGGTTAAAAATGGAATTTTAGTAGCTTCG
* * ***
40446071 GGGGT-AAAATGGTAATTTTCGGTAAAATCG
1 GGGTTAAAAATGG-AATTTT-AGTAGCTTCG
* *
40446101 GGGTTAAAAACGGAATTTTAGAAGCTTCG
1 GGGTTAAAAATGGAATTTTAGTAGCTTCG
* * **
40446130 GGGGT-AAAATGGTAATTTTCGGT-GAAATCG
1 GGGTTAAAAATGG-AATTTT-AGTAG-CTTCG
*
40446160 GGGTTAAAAACGGAATTTTAGTAGCTTCG
1 GGGTTAAAAATGGAATTTTAGTAGCTTCG
40446189 GGG
1 GGG
40446192 GTCAAAATAT
Statistics
Matches: 127, Mismatches: 40, Indels: 25
0.66 0.21 0.13
Matches are distributed among these distances:
28 18 0.14
29 48 0.38
30 44 0.35
31 17 0.13
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (29 bp):
GGGTTAAAAATGGAATTTTAGTAGCTTCG
Done.