Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008880.1 Hibiscus syriacus cultivar Beakdansim tig00112124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 568240
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 2 of 3
Found at i:228974 original size:41 final size:40
Alignment explanation
Indices: 228921--229003 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 40
228911 TATTAAAATA
* *
228921 ATTTTAAATAATTTAATAAGAT-ATTTATTTTAAATAATTT
1 ATTTTAAATAATTT-ATAAAATAATTTACTTTAAATAATTT
228961 ATTTTAAAATAATTTATAAAATAATTTACTTTAAATAATTT
1 ATTTT-AAATAATTTATAAAATAATTTACTTTAAATAATTT
229002 AT
1 AT
229004 AAAATATGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
40 11 0.28
41 28 0.72
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (40 bp):
ATTTTAAATAATTTATAAAATAATTTACTTTAAATAATTT
Found at i:228980 original size:26 final size:25
Alignment explanation
Indices: 228908--229006 Score: 91
Period size: 26 Copynumber: 3.9 Consensus size: 25
228898 AAATATAGTT
228908 ATTTA-TTAAAATAATTT-TAAATA
1 ATTTATTTAAAATAATTTATAAATA
* *
228931 ATTTA-ATAAGAT-ATTTATTTTAAATA
1 ATTTATTTAAAATAATTTA---TAAATA
228957 ATTTATTTTAAAATAATTTATAAAATA
1 ATTTA-TTTAAAATAATTTAT-AAATA
228984 ATTTACTTT-AAATAATTTATAAA
1 ATTTA-TTTAAAATAATTTATAAA
229007 ATATGGATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
22 4 0.06
23 10 0.16
25 3 0.05
26 23 0.37
27 13 0.21
28 5 0.08
29 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (25 bp):
ATTTATTTAAAATAATTTATAAATA
Found at i:229007 original size:26 final size:27
Alignment explanation
Indices: 228952--229009 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 27
228942 TATTTATTTT
*
228952 AAATAATTTATTTTAAAATAATTTATA
1 AAATAATTTACTTTAAAATAATTTATA
228979 AAATAATTTACTTT-AAATAATTTATA
1 AAATAATTTACTTTAAAATAATTTATA
229005 AAATA
1 AAATA
229010 TGGATTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 17 0.57
27 13 0.43
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATAATTTACTTTAAAATAATTTATA
Found at i:229030 original size:22 final size:23
Alignment explanation
Indices: 228998--229045 Score: 89
Period size: 22 Copynumber: 2.1 Consensus size: 23
228988 ACTTTAAATA
228998 ATTTATAAAATATGGATTGATTT
1 ATTTATAAAATATGGATTGATTT
229021 ATTT-TAAAATATGGATTGATTT
1 ATTTATAAAATATGGATTGATTT
229043 ATT
1 ATT
229046 ATTGTAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (23 bp):
ATTTATAAAATATGGATTGATTT
Found at i:229111 original size:20 final size:21
Alignment explanation
Indices: 229086--229128 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
229076 TAATTATTAG
*
229086 TATGGATTGA-TTATTTTAAA
1 TATGGATTAATTTATTTTAAA
229106 TATGGATTAATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
229127 TA
1 TA
229129 ATTTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (21 bp):
TATGGATTAATTTATTTTAAA
Found at i:229200 original size:30 final size:31
Alignment explanation
Indices: 229152--229209 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
229142 GTTGTATGGG
* *
229152 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
229183 ATTATTT-AATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
229210 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:229248 original size:16 final size:16
Alignment explanation
Indices: 229227--229269 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
229217 GTTTAAAAAA
229227 TCAGTTTATTTATATT
1 TCAGTTTATTTATATT
229243 TCAGTTTATTTATATT
1 TCAGTTTATTTATATT
* *
229259 TTAGTTCATTT
1 TCAGTTTATTT
229270 TAGCAGTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (16 bp):
TCAGTTTATTTATATT
Found at i:240608 original size:59 final size:59
Alignment explanation
Indices: 240465--240661 Score: 220
Period size: 59 Copynumber: 3.3 Consensus size: 59
240455 TTTTAACAAA
**
240465 GGGTGACC-AAATAGAACCAAAATGTAACATTGAGTGCGATTTTG-AAAAAAAATAATT
1 GGGTGACCAAAATAGAACCAAAATGTAACATTGAGTATGATTTTGAAAAAAAAATAATT
* * * * * *
240522 GGGTAACCAAAATAGAATCAAATTGTAACATTGTGTTTGATTTTGAAAAAAAAATATTT
1 GGGTGACCAAAATAGAACCAAAATGTAACATTGAGTATGATTTTGAAAAAAAAATAATT
* * * * *
240581 GGGTGACCAAAACAGAAGCAAAATGTAAC-TTTACATATGATTTTGAGAAAAAAATATAGTT
1 GGGTGACCAAAATAGAACCAAAATGTAACATTGA-GTATGATTTTGA-AAAAAAA-ATAATT
*
240642 GGATGACCAAAATAGAACCA
1 GGGTGACCAAAATAGAACCA
240662 TGGGAATAAT
Statistics
Matches: 116, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
57 7 0.06
58 33 0.28
59 47 0.41
60 7 0.06
61 22 0.19
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (59 bp):
GGGTGACCAAAATAGAACCAAAATGTAACATTGAGTATGATTTTGAAAAAAAAATAATT
Found at i:243504 original size:20 final size:20
Alignment explanation
Indices: 243479--243532 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 20
243469 CAGAGTTTTA
243479 GCGGCGTTTTTAATCCTATT
1 GCGGCGTTTTTAATCCTATT
*
243499 GCGGCGTTTTTTAGTCCTATT
1 GCGGCG-TTTTTAATCCTATT
243520 GCGGCGTTTTTAA
1 GCGGCGTTTTTAA
243533 GCGCTGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.13, C:0.19, G:0.24, T:0.44
Consensus pattern (20 bp):
GCGGCGTTTTTAATCCTATT
Found at i:243723 original size:43 final size:43
Alignment explanation
Indices: 243644--243890 Score: 273
Period size: 43 Copynumber: 5.8 Consensus size: 43
243634 CAATAGGCCA
* * *
243644 AGATCTATAGCGGCG-TTTTGGAACAAACACCACAAAAGATTA
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* * * *
243686 AGATCTATAGCGGCATTTTTGGAGCAAACGCCGCAAAAGGTCG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* * * * *
243729 AGATCTATAACGGTGTTTTTGGAACAAACGTCGTAAAAGGTTG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* * * * *
243772 AGATCTATAGCGGCGTTTTTTGAACAAACACCGTAAAAG-GTC
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* * * *
243814 AGATCTATAACGGCATTTTTGAAACAAGCGCCGCAAAAGATTG
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
* *
243857 ATATCTATAGCGGCGTTTTTAGAACAAACGCCGC
1 AGATCTATAGCGGCGTTTTTGGAACAAACGCCGC
243891 TAATTACCTT
Statistics
Matches: 167, Mismatches: 36, Indels: 3
0.81 0.17 0.01
Matches are distributed among these distances:
42 47 0.28
43 120 0.72
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (43 bp):
AGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGATTG
Found at i:243863 original size:85 final size:85
Alignment explanation
Indices: 243626--243890 Score: 298
Period size: 85 Copynumber: 3.1 Consensus size: 85
243616 TGAAAACAAA
* * * * * * * * *
243626 AAACGCCGCAATAGGCCAAGATCTATAGCGGCGTTTTGGAACAAACACCACAAAAGATTAAGATC
1 AAACACCGCAAAAGGTCGAGATCTATAACGGCTTTTTGGAACAAACGCCGCAAAAGATTGAGATC
* * *
243691 TATAGCGGCATTTTTGGAGC
66 TATAGCGGCGTTTTTAGAAC
* * * * *
243711 AAACGCCGCAAAAGGTCGAGATCTATAACGGTGTTTTTGGAACAAACGTCGTAAAAGGTTGAGAT
1 AAACACCGCAAAAGGTCGAGATCTATAACGG-CTTTTTGGAACAAACGCCGCAAAAGATTGAGAT
*
243776 CTATAGCGGCGTTTTTTGAAC
65 CTATAGCGGCGTTTTTAGAAC
* * * *
243797 AAACACCGTAAAAGGTC-AGATCTATAACGGCATTTTTGAAACAAGCGCCGCAAAAGATTGATAT
1 AAACACCGCAAAAGGTCGAGATCTATAACGGC-TTTTTGGAACAAACGCCGCAAAAGATTGAGAT
243861 CTATAGCGGCGTTTTTAGAAC
65 CTATAGCGGCGTTTTTAGAAC
*
243882 AAACGCCGC
1 AAACACCGC
243891 TAATTACCTT
Statistics
Matches: 151, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
85 93 0.62
86 58 0.38
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (85 bp):
AAACACCGCAAAAGGTCGAGATCTATAACGGCTTTTTGGAACAAACGCCGCAAAAGATTGAGATC
TATAGCGGCGTTTTTAGAAC
Found at i:243863 original size:128 final size:128
Alignment explanation
Indices: 243644--243886 Score: 335
Period size: 128 Copynumber: 1.9 Consensus size: 128
243634 CAATAGGCCA
* * *
243644 AGATCTATAGCGGCGTTTTGGAACAAACACCACAAAAGATTAAGATCTATAGCGGCATTTTTGGA
1 AGATCTATAGCGGCGTTTTGGAACAAACACCACAAAAGAGTAAGATCTATAACGGCATTTTTGAA
* * * *
243709 GCAAACGCCGCAAAAGGTCGAGATCTATAACGGTGTTTTTGGAACAAACGTCGTAAAAGGTTG
66 ACAAACGCCGCAAAAGATCGAGATCTATAACGGCGTTTTTAGAACAAACGTCGTAAAAGGTTG
* ** *
243772 AGATCTATAGCGGCGTTTTTTGAACAAACACCGTAAAAG-GTCAGATCTATAACGGCATTTTTGA
1 AGATCTATAGCGGCG-TTTTGGAACAAACACCACAAAAGAGTAAGATCTATAACGGCATTTTTGA
* * * *
243836 AACAAGCGCCGCAAAAGATTGATATCTATAGCGGCGTTTTTAGAACAAACG
65 AACAAACGCCGCAAAAGATCGAGATCTATAACGGCGTTTTTAGAACAAACG
243887 CCGCTAATTA
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
128 79 0.80
129 20 0.20
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (128 bp):
AGATCTATAGCGGCGTTTTGGAACAAACACCACAAAAGAGTAAGATCTATAACGGCATTTTTGAA
ACAAACGCCGCAAAAGATCGAGATCTATAACGGCGTTTTTAGAACAAACGTCGTAAAAGGTTG
Found at i:247252 original size:45 final size:45
Alignment explanation
Indices: 247188--247277 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
247178 TATACAGTGC
*
247188 ATACTATATTAAGAGTAACTAAGACT-ATATAAAAAGACAGAAAGG
1 ATACTACATTAAGAGTAACTAAGACTGA-ATAAAAAGACAGAAAGG
*
247233 ATACTACATTAAGAGTAACTAAGACTGAATAGAAAGACAGAAAGG
1 ATACTACATTAAGAGTAACTAAGACTGAATAAAAAGACAGAAAGG
247278 TAACCTCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 41 0.98
46 1 0.02
ACGTcount: A:0.52, C:0.10, G:0.18, T:0.20
Consensus pattern (45 bp):
ATACTACATTAAGAGTAACTAAGACTGAATAAAAAGACAGAAAGG
Found at i:253733 original size:10 final size:9
Alignment explanation
Indices: 253720--253779 Score: 52
Period size: 10 Copynumber: 6.3 Consensus size: 9
253710 AATAAATGTT
253720 AAATGAAAAA
1 AAAT-AAAAA
253730 AAATGAAAAA
1 AAAT-AAAAA
253740 ATAATAAAAA
1 A-AATAAAAA
253750 CAAA-AAAAA
1 -AAATAAAAA
253759 AAA-AAAAA
1 AAATAAAAA
*
253767 ACATAATAAA
1 AAATAA-AAA
253777 AAA
1 AAA
253780 GAACTATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 10 0.23
9 7 0.16
10 23 0.52
11 4 0.09
ACGTcount: A:0.83, C:0.03, G:0.03, T:0.10
Consensus pattern (9 bp):
AAATAAAAA
Found at i:253756 original size:18 final size:18
Alignment explanation
Indices: 253735--253779 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
253725 AAAAAAAATG
* *
253735 AAAAAATAATAAAAACAA
1 AAAAAAAAAAAAAAACAA
253753 AAAAAAAAAAAAAAACATA
1 AAAAAAAAAAAAAAACA-A
253772 ATAAAAAA
1 A-AAAAAA
253780 GAACTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 15 0.65
19 2 0.09
20 6 0.26
ACGTcount: A:0.87, C:0.04, G:0.00, T:0.09
Consensus pattern (18 bp):
AAAAAAAAAAAAAAACAA
Found at i:253789 original size:2 final size:2
Alignment explanation
Indices: 253784--253818 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
253774 AAAAAAGAAC
*
253784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
253819 CAAAGGGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:253929 original size:29 final size:28
Alignment explanation
Indices: 253857--253932 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
253847 AATAAAAAAT
* *
253857 AAAAAT-AAAAGAAGTAAAAAC-AACTAA
1 AAAAATAAAAAGAAAT-AATACTAACTAA
253884 AAAAATAAAAAGAAATAATACTAACTAA
1 AAAAATAAAAAGAAATAATACTAACTAA
*
253912 AAATAATGATAAA-AAATAATA
1 AAA-AAT-AAAAAGAAATAATA
253933 AAGTGAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 10 0.24
28 17 0.40
29 11 0.26
30 4 0.10
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (28 bp):
AAAAATAAAAAGAAATAATACTAACTAA
Found at i:256310 original size:43 final size:43
Alignment explanation
Indices: 256249--256771 Score: 214
Period size: 43 Copynumber: 11.4 Consensus size: 43
256239 ACCAGCGGTC
256249 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGT
1 CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGT
* * * ** *
256292 CCTTCGTTGTGAAATTGAAATTAG-GAAATTGTTTGTTGACAACCAACGGT
1 CCTTCGTTGTGAAGTTGAACTT-GCG---TTGTCTG--GA-GTCCAA-TGT
*
256342 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGT
1 -CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGT
* * * * ** **
256386 CCTTCGTTGTGAAGTTGAAATTGGGAAATGTTTGTGACAACCAGCGGT
1 CCTTCGTTGTGAAGTTGAACTTGCG--TTGTCTG-GA-GTCCA-ATGT
* * *
256434 CCATTCATCGTGAAGTTGAACTTGCG-TGTCTGGAGTCCAATAT
1 CC-TTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGT
* * * ** **
256477 CCTTCGTTGTGAAGTTGAAATTGGGAATTGTTTGTTGACAACCAGCGGT
1 CCTTCGTTGTGAAGTTGAACTTGCG--TTGTCTG--GA-GTCCA-ATGT
** *
256526 CCCTTCGTCATGAAG-TG-ACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGT
* * * * ** **
256568 CCTTCGCTGTGAAGTTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGT
1 CCTTCGTTGTGAAGTTGAACTTGCG---TTGTCTG--GA-GTCCA-ATGT
* * *
256618 CCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATAT
1 -CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGT
* * * * * **
256662 CATTCGCTGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACC-ATCGT
1 CCTTCGTTGTGAAGTTGAACTTGCG---TTGTCTG--GA-GTCCAAT-GT
* *
256711 CCCTTCGTGGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-ATAT
1 -CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGT
*
256754 CC-TCGCTGTGAAGTTGAA
1 CCTTCGTTGTGAAGTTGAA
256772 ATTGGGAAAT
Statistics
Matches: 343, Mismatches: 95, Indels: 86
0.65 0.18 0.16
Matches are distributed among these distances:
41 25 0.07
42 24 0.07
43 74 0.22
44 13 0.04
45 21 0.06
46 35 0.10
47 11 0.03
48 32 0.09
49 32 0.09
50 36 0.10
51 40 0.12
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGT
Found at i:256333 original size:94 final size:94
Alignment explanation
Indices: 256223--257174 Score: 1303
Period size: 94 Copynumber: 10.0 Consensus size: 94
256213 TAGAACTGGA
* *
256223 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * *
256288 ATGTCCTTCGTTGTGAAATTGAAATTAGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
*
256317 AAATTGTTTGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
256382 ATGTCCTTCGTTGTGAAGTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
* *
256411 AAA-TGTTTG-TGACAACCAGCGGTCCATTCATCGTGAAGTTGAACTTGCG-TGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
256473 ATATCCTTCGTTGTGAAGTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
*
256502 -AATTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAG-TG-ACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
256564 ATATCCTTCGCTGTGAAGTTGAAATTGAG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
*
256593 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
256658 ATATCATTCGCTGTGAAGTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
* *
256687 AAATTGTTTGTTGACAACCATC-GTCCCTTCGTGGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
256750 ATATCC-TCGCTGTGAAGTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
* * *
256778 AAATTGTTTGTTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGAGTTGTCTGGAGTCT
1 AAATTGTTTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
256843 AATATCCTTCACTGTGAAGTTGAAATTGGG
65 AATATCCTTCGCTGTGAAGTTGAAATTGGG
* * *
256873 AAATTGATTGTTGACAACCAGCGGTCCCTTCATTGTGAAGTTGAACTTAG-GTTGTCTGGAGTCC
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT-GCGTTGTCTGGAGTCC
*
256937 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
65 AATATCCTTCGCTGTGAAGTTGAAATT-G----G-----G
* *
256977 AGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTC
1 A-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
257042 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
64 CAATATCCTTCGCTGTGAAGTTGAAATT-G----G-----G
*
257083 AGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 A-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * *
257148 CAATGTTCTTCGCTGCGAAGTTGAAAT
64 CAATATCCTTCGCTGTGAAGTTGAAAT
257175 AGACTTTGAA
Statistics
Matches: 789, Mismatches: 45, Indels: 36
0.91 0.05 0.04
Matches are distributed among these distances:
90 9 0.01
91 121 0.15
92 117 0.15
93 84 0.11
94 239 0.30
95 32 0.04
99 1 0.00
104 2 0.00
105 3 0.00
106 181 0.23
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGCTGTGAAGTTGAAATTGGG
Found at i:256820 original size:186 final size:188
Alignment explanation
Indices: 256223--257174 Score: 1287
Period size: 186 Copynumber: 5.0 Consensus size: 188
256213 TAGAACTGGA
* * *
256223 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
* * * *
256288 ATGTCCTTCGTTGTGAAATTGAAATTAGGAAATTGTTTGTTGACAACCAACGGTCCCTTCGTCGT
66 ATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
* *
256353 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGG
131 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGG
* * *
256411 AAA-TGTTTG-TGACAACCAGCGGTCCATTCATCGTGAAGTTGAACTTGC-GTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
*
256473 ATATCCTTCGTTGTGAAGTTGAAATTGGG-AATTGTTTGTTGACAACCAGCGGTCCCTTCGTCAT
66 ATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
*
256537 GAAG-TG-ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAG
131 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGG
256593 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
* * * *
256658 ATATCATTCGCTGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCATC-GTCCCTTCGTGGT
66 ATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
256722 GAAGTTGAACTTGCGTTGTCTGGAGTCC-ATATCC-TCGCTGTGAAGTTGAAATTGGG
131 GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGG
*
256778 AAATTGTTTGTTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTG-AGTTGTCTGGAGTC
1 AAATTGTTTG-TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCA-TTGTCTGGAGTC
* ** * * *
256842 TAATATCCTTCACTGTGAAGTTGAAATTGGGAAATTGATTGTTGACAACCAGCGGTCCCTTCATT
64 CAATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTC
*
256907 GTGAAGTTGAACTTAG-GTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
129 GTGAAGTTGAACTT-GCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT-G----G
256971 AAATTG
188 -----G
* * *
256977 AGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTC
1 A-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTC
*
257042 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGC
64 CAATATCCTTCGTTGTGAAGTTGAAATT-G----G-----GA-AA-TTGTTTGTTGACAACCAGC
* * *
257107 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGTTCTTCGCTGCGAAGTTGA
117 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGA
257172 AAT
182 AAT
257175 AGACTTTGAA
Statistics
Matches: 680, Mismatches: 46, Indels: 52
0.87 0.06 0.07
Matches are distributed among these distances:
182 50 0.07
183 8 0.01
184 74 0.11
185 126 0.19
186 162 0.24
187 62 0.09
188 10 0.01
189 18 0.03
190 1 0.00
194 1 0.00
199 2 0.00
200 76 0.11
201 7 0.01
205 1 0.00
210 2 0.00
211 3 0.00
212 77 0.11
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (188 bp):
AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGT
GAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGG
Found at i:257048 original size:106 final size:106
Alignment explanation
Indices: 256863--257174 Score: 509
Period size: 106 Copynumber: 2.9 Consensus size: 106
256853 ACTGTGAAGT
* * * * * *
256863 TGAAATTGGGAAATTGATTGTTGACAACCAGCGGTCCCTTCATTGTGAAGTTGAACTTAG-GTTG
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT-GCGTTG
256927 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
256969 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
257034 ATGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
257075 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * *
257140 CTGGAGTCCAATGTTCTTCGCTGCGAAGTTGAAAT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
257175 AGACTTTGAA
Statistics
Matches: 193, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
105 1 0.01
106 192 0.99
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (106 bp):
TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:258934 original size:183 final size:186
Alignment explanation
Indices: 258585--258953 Score: 717
Period size: 183 Copynumber: 2.0 Consensus size: 186
258575 TAAACAGATT
258585 CACTTACTCGACTATTCCATATGTGAAGATCATTATCATCACTGAACGTCTTAAATAAAAAGTAT
1 CACTTACTCGACTATTCCATATGTGAAGATCATTATCATCACTGAACGTCTTAAATAAAAAGTAT
258650 AATAATGTCATATGCAAAAGGATTCCCCATGTTGTCCGCACCTTATGAAAGGAAAATGTTATATT
66 AATAATGTCATATGCAAAAGGATTCCCCATGTTGTCCGCACCTTATGAAAGGAAAATGTTATATT
258715 GGTTAATTACAAGAGCAGGGTACGGTGTTTGAGTGTATATTCTGGGTAAAGTCAAA
131 GGTTAATTACAAGAGCAGGGTACGGTGTTTGAGTGTATATTCTGGGTAAAGTCAAA
258771 CACTTACTCGACTATTCCATATGTGAAGATCATTATCATCACTGAACGTCTTAAATAAAAAGTAT
1 CACTTACTCGACTATTCCATATGTGAAGATCATTATCATCACTGAACGTCTTAAATAAAAAGTAT
258836 AATAATGTCATA-GCAAAAGGA-T-CCCATGTTGTCCGCACCTTATGAAAGGAAAATGTTATATT
66 AATAATGTCATATGCAAAAGGATTCCCCATGTTGTCCGCACCTTATGAAAGGAAAATGTTATATT
258898 GGTTAATTACAAGAGCAGGGTACGGTGTTTGAGTGTATATTCTGGGTAAAGTCAAA
131 GGTTAATTACAAGAGCAGGGTACGGTGTTTGAGTGTATATTCTGGGTAAAGTCAAA
258954 TTCCTTGTTT
Statistics
Matches: 183, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
183 96 0.52
184 1 0.01
185 9 0.05
186 77 0.42
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (186 bp):
CACTTACTCGACTATTCCATATGTGAAGATCATTATCATCACTGAACGTCTTAAATAAAAAGTAT
AATAATGTCATATGCAAAAGGATTCCCCATGTTGTCCGCACCTTATGAAAGGAAAATGTTATATT
GGTTAATTACAAGAGCAGGGTACGGTGTTTGAGTGTATATTCTGGGTAAAGTCAAA
Found at i:261233 original size:20 final size:21
Alignment explanation
Indices: 261195--261236 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
261185 AATAAATGTT
**
261195 AAATGAATAAAAATGAAAAAA
1 AAATGAATAAAAAACAAAAAA
261216 AAAT-AATAAAAAACAAAAAA
1 AAATGAATAAAAAACAAAAAA
261236 A
1 A
261237 CAAAAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (21 bp):
AAATGAATAAAAAACAAAAAA
Found at i:261395 original size:29 final size:28
Alignment explanation
Indices: 261323--261398 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
261313 AATAAAAAAT
* *
261323 AAAAAT-AAAAGAAGTAAAAAC-AACTAA
1 AAAAATAAAAAGAAAT-AATACTAACTAA
261350 AAAAATAAAAAGAAATAATACTAACTAA
1 AAAAATAAAAAGAAATAATACTAACTAA
*
261378 AAATAATGATAAA-AAATAATA
1 AAA-AAT-AAAAAGAAATAATA
261399 AAGTGAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 10 0.24
28 17 0.40
29 11 0.26
30 4 0.10
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (28 bp):
AAAAATAAAAAGAAATAATACTAACTAA
Found at i:262831 original size:13 final size:13
Alignment explanation
Indices: 262813--262844 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
262803 AAATAATACT
262813 TATATAATATATA
1 TATATAATATATA
262826 TATATAATATATA
1 TATATAATATATA
*
262839 AATATA
1 TATATA
262845 TATGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATAATATATA
Found at i:263153 original size:22 final size:23
Alignment explanation
Indices: 263115--263157 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
263105 CGAATTTATG
263115 AATTTTGTGATAATTTTTATTGT
1 AATTTTGTGATAATTTTTATTGT
*
263138 AATTTT-TGATATTTTTTATT
1 AATTTTGTGATAATTTTTATT
263158 TATTAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (23 bp):
AATTTTGTGATAATTTTTATTGT
Found at i:275023 original size:21 final size:21
Alignment explanation
Indices: 274982--275024 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
274972 CTTTAATTTC
*
274982 AAAATTAGAATTGAAGATTCA
1 AAAATTAGAAGTGAAGATTCA
* *
275003 AAAATTAGAAGTGGAGGTTCA
1 AAAATTAGAAGTGAAGATTCA
275024 A
1 A
275025 CAACAACAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.21, T:0.26
Consensus pattern (21 bp):
AAAATTAGAAGTGAAGATTCA
Found at i:277832 original size:19 final size:19
Alignment explanation
Indices: 277808--277856 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
277798 CATTTTAATG
277808 GGTGCATCGATGCACTCCC
1 GGTGCATCGATGCACTCCC
277827 GGTGCATCGATGCACTCCC
1 GGTGCATCGATGCACTCCC
*
277846 TGTGCATCGAT
1 GGTGCATCGAT
277857 ACACACTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.16, C:0.33, G:0.27, T:0.24
Consensus pattern (19 bp):
GGTGCATCGATGCACTCCC
Found at i:281675 original size:21 final size:22
Alignment explanation
Indices: 281651--281694 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
281641 GAATATTCTA
* *
281651 AGAAGGAAGGAAGAGA-ATTTC
1 AGAAGAAAGAAAGAGAGATTTC
281672 AGAAGAAAGAAAGAGAGATTTC
1 AGAAGAAAGAAAGAGAGATTTC
281694 A
1 A
281695 AATGAAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.52, C:0.05, G:0.30, T:0.14
Consensus pattern (22 bp):
AGAAGAAAGAAAGAGAGATTTC
Found at i:292047 original size:316 final size:317
Alignment explanation
Indices: 291471--292062 Score: 1037
Period size: 316 Copynumber: 1.9 Consensus size: 317
291461 GTGTCACGTC
*
291471 ACCCATAGTGATGATGTGGTATGTGCCATATCATCAACTAAGCACATGTAAAAATGCCACATGAA
1 ACCCATAGTGATGATGTGGTACGTGCCATATCATCAACTAAGCACATGTAAAAATGCCACATG-A
* * * *
291536 CAACATGTTTTGACTGTTAGTTGACTAACGGTTTTCTTTCAACAAGAGGTATTTGTTATGAGCCT
65 -AACATGTTTTGACCGTTAGTTGACTAACGGTTCTCTTTCAACAAGAGATATTTGTTATGAACCT
*
291601 TGGTGTAGTATCTAGTCGCAAGTCTAGACGTAAAATAATTTTTGCTCTGACCTATGGTTAATCAA
129 TGGTATAGTATCTAGTCGCAAGTCTAGACGTAAAATAATTTTTGCTCTGACCTATGGTTAATCAA
*
291666 AGAAGTAAATTCGTCCTTGACAGAACCCCTTTGTGAATAATGTTTTCTAATAGAGTGATTGCTTA
194 AGAAGTAAATTCGTCCTTGACAGAACCCCTTTGTGAATAATGTGTTCTAATAGAGTGATTGCTTA
291731 TTTTCTTTATTTAATATTAGCAGCCTTTAATAGGCCTTTAGTGACAAAAGAATAATCCT
259 TTTTCTTTATTTAATATTAGCAGCCTTTAATAGGCCTTTAGTGACAAAAGAATAATCCT
*
291790 ACCCATAGTGATGATGTGGTACGTGCCATATCATCAATTAAGCACATGTAAAAATGCCACATG-A
1 ACCCATAGTGATGATGTGGTACGTGCCATATCATCAACTAAGCACATGTAAAAATGCCACATGAA
291854 ACATGTTTTGACCGTTAGTTGACTAACGGTTCTCTTTCAAC-AGAAGATATTTGTTATGAACCTT
66 ACATGTTTTGACCGTTAGTTGACTAACGGTTCTCTTTCAACAAG-AGATATTTGTTATGAACCTT
*
291918 GGTATAAG-ATCTAGTCGCAAGTCTAGACGTAAAATAATTTTTGCTCTGACGTATGGTTAATCAA
130 GGTAT-AGTATCTAGTCGCAAGTCTAGACGTAAAATAATTTTTGCTCTGACCTATGGTTAATCAA
*
291982 AGAAGTAAATTCGTCCTTGACAGAACCCTTTTGTGAATAATGTGTTCTAATAGAGTGATTGCTTA
194 AGAAGTAAATTCGTCCTTGACAGAACCCCTTTGTGAATAATGTGTTCTAATAGAGTGATTGCTTA
292047 TTTTCTTTATTTAATA
259 TTTTCTTTATTTAATA
292063 ATCCTGATGA
Statistics
Matches: 261, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
315 2 0.01
316 196 0.75
317 2 0.01
319 61 0.23
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (317 bp):
ACCCATAGTGATGATGTGGTACGTGCCATATCATCAACTAAGCACATGTAAAAATGCCACATGAA
ACATGTTTTGACCGTTAGTTGACTAACGGTTCTCTTTCAACAAGAGATATTTGTTATGAACCTTG
GTATAGTATCTAGTCGCAAGTCTAGACGTAAAATAATTTTTGCTCTGACCTATGGTTAATCAAAG
AAGTAAATTCGTCCTTGACAGAACCCCTTTGTGAATAATGTGTTCTAATAGAGTGATTGCTTATT
TTCTTTATTTAATATTAGCAGCCTTTAATAGGCCTTTAGTGACAAAAGAATAATCCT
Found at i:300980 original size:18 final size:18
Alignment explanation
Indices: 300957--300991 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
300947 AAATTTTTAG
*
300957 ATCTTCCACCTCATCATT
1 ATCTTCCACATCATCATT
*
300975 ATCTTCCTCATCATCAT
1 ATCTTCCACATCATCAT
300992 AATTTGGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (18 bp):
ATCTTCCACATCATCATT
Found at i:314874 original size:927 final size:922
Alignment explanation
Indices: 313078--314928 Score: 3000
Period size: 927 Copynumber: 2.0 Consensus size: 922
313068 CTAGACAGCA
* *
313078 GTTCCCGGTTGAACCGGCCGATCCGGTTCGATTTTCAAAACACTGGTTTTATCTCTTAATTTAGA
1 GTTCCCGGTTGAACCGACCGATCCGGTCCGATTTTCAAAACACTGGTTTTATCTCTTAATTTAGA
313143 ATAGCTGGTCCATAGTATGTTTATTTTTACTTTATTGATTTGGTGTGTTGAGTACGCTAGTTTTT
66 ATAGCTGGTCCATAGTATGTTTATTTTTACTTTATTGATTTGGTGTGTTGAGTACGCTAGTTTTT
* * * *
313208 TCTTCTTCTGTTTTTTATGTTGTTGATTGGAGTGTAAACGAGTCGAGTTGAGCTCGAGTATTGTT
131 TCTTCTTCTGTTTTTTATGTTGTTGATAGGAGTGTAAACGAGCCGAGTCGAGCTCGAGTATTGCT
* * *
313273 GAGCTCGAATCGACTCAAAAATTCTAAAATGGAGCTCTACTAGATTCGAAAACTCGCGAGCTTAA
196 GAGCTCGAATCGACTCAAAAACTCTAAAATGGAGCTCGACTAGATTCAAAAACTCGCGAGCTTAA
313338 ATTTTTGCAAGCTCGACTCAAACTCGAAATCCTGAATTAAAGCTCGTGAGCAACTCGAAAAGGCT
261 ATTTTTGCAAGCTCGACTCAAACTCGAAATCCTGAATTAAAGCTCGTGAGCAACTCGAAAAGGCT
313403 CGAAATGAAAAAAAAATCTTAAACTTAATTCGAGTGAAACCTCAAACTCGAACATAAACCTTAAA
326 CGAAATGAAAAAAAAATCTTAAACTTAATTCGAGTGAAACCTCAAACTCGAACATAAACCTTAAA
*
313468 TACATGAAAATCTTATTGTATTTAAAAAAATCAATACATAAATATTAATATTATTAATAACTTTT
391 TACATGAAAATCTTACTGTATTTAAAAAAATCAATACATAAATATTAATATTATTAATAACTTTT
* *
313533 TTTTAAAAAAATAAAATCTTAATATATTATATTTTTGAGCTGCTCACGAGCTTTTCGAGTCGAAT
456 TTTTAAAAAAATAAAATCTTAATATATTAAATTTTTGAGCTGCTCACGAGCTTTTCGAATCGAAT
313598 ATCGAGTAGCTCGTTTCGGCTCGTTAAGAACTAGAGTCGAGCTCGAGCTCAAGTCGAATATATTC
521 ATCGAGTAGCTCGTTTCGGCTCGTTAAGAACTAGAGTCGAGCTCGAGCTCAAGTCGAATATATTC
*
313663 GATCCGAGTATTTATCGAGCCTTGATCGAATCGATCTCGAGTAGCTCGCGATCTATCTCATCTTA
586 GATCCGAGTATTTATCGAGCCTTGATCGAATCGATCTCGAGTAGCTCGCGATCCATCTCATCTTA
* *
313728 TTTATAACCCTAATTGTTGCACAACTGTTTGGTAATAAATTTTTCGGCCTTCCATTTGTCCAAAT
651 TTTATAACCCTAATTGTTGCACAACTGTTTGGTAATAAACTTGTCGGCCTTCCATTTGTCCAAAT
* * *
313793 TAAAAAAAAATGGCATATAACCCTTCAGGTACTTTTACTTCTCTAGGGAGGAATATACACTTATA
716 TAAAAAAAAATGGCATATAACCCTTCAAGTAATTTTACTTCTCT-----GGAATATACAATTATA
* * *
313858 TGTTAGGTGGAAGTTAAAATTTTGAATTTTTAGGGGTGAACTTAAATTTAAAAAAGATAAAAAAT
776 TATTAGGTGGAACTTAAAATTTTGAATTTTTAGGGGTGAACTTAAATTTAAAAAAGACAAAAAAT
313923 AGATTTTTAATAAAAAATATATATAAAAAAATTAAAATACATAATAATTTTAAAAATTTTGGAGG
841 AGATTTTTAATAAAAAATATATATAAAAAAATTAAAATACATAATAATTTTAAAAATTTTGGAGG
313988 AGAATTGTCCGACCGCG
906 AGAATTGTCCGACCGCG
* *
314005 GTTCCCGGTTGAACCGACCGGTCCGGTCCGATTTTTAAAACACTGGTTTTATCTCTTAATTTAGA
1 GTTCCCGGTTGAACCGACCGATCCGGTCCGATTTTCAAAACACTGGTTTTATCTCTTAATTTAGA
*
314070 ATAGCTGGTCCATAGTATGTTTATTTTTACTTTATTGATTTGGTGTGTTGAGTATGCTAGTTTTT
66 ATAGCTGGTCCATAGTATGTTTATTTTTACTTTATTGATTTGGTGTGTTGAGTACGCTAGTTTTT
*
314135 TCTTCTTCTGTTTTTTATGTTGTTGATAGGAGTGTAAACGAGCCGAGTCGAGTTCGAGTATTGCT
131 TCTTCTTCTGTTTTTTATGTTGTTGATAGGAGTGTAAACGAGCCGAGTCGAGCTCGAGTATTGCT
* * * *
314200 GAGCTCGACTCGACTCGAAAACTCTGAAATGGAGCTCGACTCGATTCAAAAACTCGCGAGCTTAA
196 GAGCTCGAATCGACTCAAAAACTCTAAAATGGAGCTCGACTAGATTCAAAAACTCGCGAGCTTAA
* *
314265 ATTTTT-CAAGCTCGACTCGAACTCGAAATCCTGAATTAAAGCTCGTGAGCAGCTCGAAAAGGCT
261 ATTTTTGCAAGCTCGACTCAAACTCGAAATCCTGAATTAAAGCTCGTGAGCAACTCGAAAAGGCT
* **
314329 CGAAATGAAAAAAAAATTCTTAAACTTAATTCGATTGAAGTCTCAAACTCGAACATAAACCTTAA
326 CGAAATGAAAAAAAAA-TCTTAAACTTAATTCGAGTGAAACCTCAAACTCGAACATAAACCTTAA
* *
314394 ATACATGAAAGTCTTACTGTATTTAAAAAAAATCAATACATAGATATTAATATTATTAATAA-TT
390 ATACATGAAAATCTTACTGTATTT-AAAAAAATCAATACATAAATATTAATATTATTAATAACTT
*** *
314458 TATTTTTTTTAAAATAAAATCTTAATATATTAAATTTTTGAGTTGCTCACGAGCTTTTCGAATCG
454 T-TTTTTAAAAAAATAAAATCTTAATATATTAAATTTTTGAGCTGCTCACGAGCTTTTCGAATCG
** *
314523 AATATCGAGTAGCTCGTTTCGGCTCGTTAAGAACTAGAGTCGAGCTCGAGCTCGGGTCGAATCTA
518 AATATCGAGTAGCTCGTTTCGGCTCGTTAAGAACTAGAGTCGAGCTCGAGCTCAAGTCGAATATA
*
314588 TTCGATCTGAGTATTTATCGAGCCTTGATCGAGCTTTGATCGAGTCGATCTCGAGTAGCTCGCGA
583 TTCGATCCGAGTATTTATCGAGCCTTGAT----C---GA---A-TCGATCTCGAGTAGCTCGCGA
* * *
314653 TCCGTCTCATTTTATTTATAA-CCTAGTTGTTGCACAACTGTTTGGTAATAAACTTGTCGGCCTT
637 TCCATCTCATCTTATTTATAACCCTAATTGTTGCACAACTGTTTGGTAATAAACTTGTCGGCCTT
314717 CCATTTGTCCAAATT-AAAAAAAATGGCATATAACCCTTCAAGTAATTTTAC-T-TCT-GAATAT
702 CCATTTGTCCAAATTAAAAAAAAATGGCATATAACCCTTCAAGTAATTTTACTTCTCTGGAATAT
* *
314778 ACAATTATATATTAGGTGGAACTTAAATTTTTGAATTTTTAGGGGTGATCTTAAATTTAAAAAAG
767 ACAATTATATATTAGGTGGAACTTAAAATTTTGAATTTTTAGGGGTGAACTTAAATTTAAAAAAG
* * *
314843 ACGAAAAATAGATTTTTAAT-AAAAA-ATATATAAAAAATTTATAATACATAATAATTTTAAAAA
832 ACAAAAAATAGATTTTTAATAAAAAATATATATAAAAAAATTAAAATACATAATAATTTTAAAAA
314906 TTTTGGAGGAGAATTGTCCGACC
897 TTTTGGAGGAGAATTGTCCGACC
314929 CGTCCCTCTA
Statistics
Matches: 858, Mismatches: 52, Indels: 28
0.91 0.06 0.03
Matches are distributed among these distances:
926 72 0.08
927 378 0.44
928 188 0.22
929 84 0.10
932 1 0.00
935 5 0.01
936 1 0.00
937 34 0.04
938 56 0.07
939 39 0.05
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (922 bp):
GTTCCCGGTTGAACCGACCGATCCGGTCCGATTTTCAAAACACTGGTTTTATCTCTTAATTTAGA
ATAGCTGGTCCATAGTATGTTTATTTTTACTTTATTGATTTGGTGTGTTGAGTACGCTAGTTTTT
TCTTCTTCTGTTTTTTATGTTGTTGATAGGAGTGTAAACGAGCCGAGTCGAGCTCGAGTATTGCT
GAGCTCGAATCGACTCAAAAACTCTAAAATGGAGCTCGACTAGATTCAAAAACTCGCGAGCTTAA
ATTTTTGCAAGCTCGACTCAAACTCGAAATCCTGAATTAAAGCTCGTGAGCAACTCGAAAAGGCT
CGAAATGAAAAAAAAATCTTAAACTTAATTCGAGTGAAACCTCAAACTCGAACATAAACCTTAAA
TACATGAAAATCTTACTGTATTTAAAAAAATCAATACATAAATATTAATATTATTAATAACTTTT
TTTTAAAAAAATAAAATCTTAATATATTAAATTTTTGAGCTGCTCACGAGCTTTTCGAATCGAAT
ATCGAGTAGCTCGTTTCGGCTCGTTAAGAACTAGAGTCGAGCTCGAGCTCAAGTCGAATATATTC
GATCCGAGTATTTATCGAGCCTTGATCGAATCGATCTCGAGTAGCTCGCGATCCATCTCATCTTA
TTTATAACCCTAATTGTTGCACAACTGTTTGGTAATAAACTTGTCGGCCTTCCATTTGTCCAAAT
TAAAAAAAAATGGCATATAACCCTTCAAGTAATTTTACTTCTCTGGAATATACAATTATATATTA
GGTGGAACTTAAAATTTTGAATTTTTAGGGGTGAACTTAAATTTAAAAAAGACAAAAAATAGATT
TTTAATAAAAAATATATATAAAAAAATTAAAATACATAATAATTTTAAAAATTTTGGAGGAGAAT
TGTCCGACCGCG
Found at i:316366 original size:30 final size:31
Alignment explanation
Indices: 316298--316371 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 31
316288 GAATTCAAGA
* *
316298 GTCAAATTGATATTTTATCTATAGTTTAAAG
1 GTCAAATTAATATTTTATCTAAAGTTTAAAG
* * *
316329 GT-TAATTAATATTTTATGTAAAGTTT-AGG
1 GTCAAATTAATATTTTATCTAAAGTTTAAAG
*
316358 GTCAAATTAGTATT
1 GTCAAATTAATATT
316372 ATGTCTGAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 4 0.11
30 29 0.83
31 2 0.06
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (31 bp):
GTCAAATTAATATTTTATCTAAAGTTTAAAG
Found at i:320785 original size:21 final size:21
Alignment explanation
Indices: 320757--320812 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
320747 TAGTGAGTTT
**
320757 GAGATCGATCATTTTGGCTAA
1 GAGATCGATCATTTTGGAAAA
* * *
320778 GGGATCGATCCTTTTTGAAAA
1 GAGATCGATCATTTTGGAAAA
320799 GAGATCGATCATTT
1 GAGATCGATCATTT
320813 CCCAAAAGGG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (21 bp):
GAGATCGATCATTTTGGAAAA
Found at i:326956 original size:23 final size:24
Alignment explanation
Indices: 326912--326974 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
326902 ATATCAGTTT
* * *
326912 AAATTTATAATTAAAATTATTTCA
1 AAATTTATAATTTATATAATTTCA
*
326936 AAATTTA-AATTTATATAATTTTA
1 AAATTTATAATTTATATAATTTCA
*
326959 TAA-TTATAATTTATAT
1 AAATTTATAATTTATAT
326975 TAAATTTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 3 0.09
23 23 0.70
24 7 0.21
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
AAATTTATAATTTATATAATTTCA
Found at i:327489 original size:5 final size:5
Alignment explanation
Indices: 327481--327506 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
327471 TTTTATTATT
327481 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
327507 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:332577 original size:45 final size:47
Alignment explanation
Indices: 332481--332576 Score: 135
Period size: 45 Copynumber: 2.1 Consensus size: 47
332471 TTTATTTTTG
* *
332481 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGTTTA
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGTATA
* *
332528 TTTTTCGAA-CAA-GCATGCGAATTAGATATCATGCAGTTAGG-ATA
1 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGTATA
332572 TTTTT
1 TTTTT
332577 TGTGAATAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
44 7 0.16
45 27 0.60
46 2 0.04
47 9 0.20
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (47 bp):
TTTTTCGAATAAATGCATGCGAACTAGATATCATGCAGTTAGGTATA
Found at i:336176 original size:18 final size:18
Alignment explanation
Indices: 336133--336169 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
336123 TAGGAAAAAT
336133 GATTGAAATGGCGGTTAA
1 GATTGAAATGGCGGTTAA
336151 GATTGAAATGGCGGTTAA
1 GATTGAAATGGCGGTTAA
336169 G
1 G
336170 TGTGAAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.35, T:0.27
Consensus pattern (18 bp):
GATTGAAATGGCGGTTAA
Found at i:342280 original size:11 final size:11
Alignment explanation
Indices: 342260--342296 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
342250 AATGAAAAAG
342260 AAAA-AATGAA
1 AAAATAATGAA
342270 AAAATAATGAAA
1 AAAATAATG-AA
342282 AAAATAAT-AA
1 AAAATAATGAA
342292 AAAAT
1 AAAAT
342297 GAAAAGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.44
11 4 0.16
12 10 0.40
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (11 bp):
AAAATAATGAA
Found at i:342282 original size:9 final size:9
Alignment explanation
Indices: 342260--342401 Score: 75
Period size: 9 Copynumber: 15.4 Consensus size: 9
342250 AATGAAAAAG
342260 AAAAAATGAA
1 AAAAAATG-A
342270 AAAATAATGA
1 AAAA-AATGA
*
342280 AAAAAATAA
1 AAAAAATGA
342289 TAAAAAATGA
1 -AAAAAATGA
*
342299 AAAGAA-GA
1 AAAAAATGA
342307 AAAAGAA-GAA
1 AAAA-AATG-A
342317 AGGAAAAATGA
1 A--AAAAATGA
*
342328 GAAAAATGA
1 AAAAAATGA
*
342337 AAAATGATG-
1 AAAA-AATGA
342346 AAAAAATGA
1 AAAAAATGA
342355 AAAGAAA--A
1 AAA-AAATGA
342363 AAAAAAT--
1 AAAAAATGA
342370 AAAAAATG-
1 AAAAAATGA
**
342378 GGAAAATGGA
1 AAAAAAT-GA
342388 AGAAAAATGA
1 A-AAAAATGA
342398 AAAA
1 AAAA
342402 GAAAAAGAAG
Statistics
Matches: 105, Mismatches: 12, Indels: 31
0.71 0.08 0.21
Matches are distributed among these distances:
7 10 0.10
8 17 0.16
9 34 0.32
10 28 0.27
11 12 0.11
12 4 0.04
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (9 bp):
AAAAAATGA
Found at i:342285 original size:12 final size:12
Alignment explanation
Indices: 342250--342295 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 12
342240 AAGAAATAAA
*
342250 AATGAAAAAGAAAA
1 AATG-AAAA-AAAT
342264 AATG-AAAAAAT
1 AATGAAAAAAAT
342275 AATGAAAAAAAT
1 AATGAAAAAAAT
342287 AAT-AAAAAA
1 AATGAAAAAA
342296 TGAAAAGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 13 0.43
12 13 0.43
14 4 0.13
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (12 bp):
AATGAAAAAAAT
Found at i:342357 original size:75 final size:70
Alignment explanation
Indices: 342237--342450 Score: 175
Period size: 75 Copynumber: 2.9 Consensus size: 70
342227 ATTTCGCTTG
* *
342237 AAGAAGAAATAAAAATGAAAAAGAAAAAATGAAAAAATAATGAAAAAAATAATAAAAAATGAAAA
1 AAGAAGAAAGAAAAATGAAAAAGAAAAAATGAAAAAATAATGAAAAAAA-AA-AAAAAATAAAAA
342302 GAAGAAA
64 GAAGAAA
* *
342309 AAGAAGAAAGGAAAAATGAGAAAA-ATGAAAAATGATGAAAA-AATGAAAAGAAAAAAAAAATAA
1 AAGAAGAAA-GAAAAATGA-AAAAGA--AAAAATGA-AAAAATAATGAAAAAAAAAAAAAAATAA
* **
342372 AAA-ATGGGA
61 AAAGAAGAAA
* * * *
342381 AA-ATGGAAGAAAAATGAAAAAGAAAAAGAAGAAAGAGAAAAATGAAAAATAAATAAAATAAAAT
1 AAGAAGAAAGAAAAATGAAAAAGAAAAA-ATGAAA-A-AATAATG-AAAA-AAA-AAAA-AAAAT
342445 AAAAAG
59 AAAAAG
342451 GGGTTCAAGA
Statistics
Matches: 115, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
68 5 0.04
69 8 0.07
70 12 0.10
71 8 0.07
72 18 0.16
73 22 0.19
74 10 0.09
75 28 0.24
76 4 0.03
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (70 bp):
AAGAAGAAAGAAAAATGAAAAAGAAAAAATGAAAAAATAATGAAAAAAAAAAAAAAATAAAAAGA
AGAAA
Found at i:342401 original size:8 final size:8
Alignment explanation
Indices: 342247--342429 Score: 83
Period size: 7 Copynumber: 23.5 Consensus size: 8
342237 AAGAAGAAAT
342247 AAAAATG-
1 AAAAATGA
342254 AAAAA-GA
1 AAAAATGA
342261 AAAAATGA
1 AAAAATGA
342269 AAAAAT-A
1 AAAAATGA
342276 ATGAAAA--A
1 A--AAAATGA
*
342284 AATAAT-A
1 AAAAATGA
342291 AAAAATGA
1 AAAAATGA
342299 AAAGAA-G-
1 AAA-AATGA
342306 AAAAA-GA
1 AAAAATGA
* *
342313 AGAAA-GG
1 AAAAATGA
342320 AAAAATGA
1 AAAAATGA
342328 GAAAAATGA
1 -AAAAATGA
342337 AAAATGATGA
1 AAAA--ATGA
342347 AAAAATGA
1 AAAAATGA
**
342355 AAAGAAAAA
1 AAA-AATGA
342364 AAAAAT-A
1 AAAAATGA
*
342371 AAAAATGG
1 AAAAATGA
*
342379 GAAAATGGAA
1 AAAAAT-G-A
342389 GAAAAATG-
1 -AAAAATGA
342397 AAAAA-G-
1 AAAAATGA
342403 AAAAA-GA
1 AAAAATGA
*
342410 AGAAA-GA
1 AAAAATGA
342417 GAAAAATGA
1 -AAAAATGA
342426 AAAA
1 AAAA
342430 TAAATAAAAT
Statistics
Matches: 141, Mismatches: 15, Indels: 39
0.72 0.08 0.20
Matches are distributed among these distances:
6 14 0.10
7 48 0.34
8 42 0.30
9 23 0.16
10 9 0.06
11 5 0.04
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (8 bp):
AAAAATGA
Found at i:342439 original size:44 final size:43
Alignment explanation
Indices: 342247--342443 Score: 157
Period size: 44 Copynumber: 4.6 Consensus size: 43
342237 AAGAAGAAAT
* *
342247 AAAAATGAAAAA-G-AAAAAATGAAAAA-ATAATG-AAAA-A-
1 AAAAATGAAAAATGAAAAAAATGAAAAAGAAAAAGAAAAAGAG
* * *
342284 AATAATAAAAAATGAAAAGAA-GAAAAAGAAGAAAGGAAAAATGAG
1 AAAAATGAAAAATGAAAAAAATGAAAAAGAA-AAA-GAAAAA-GAG
*
342329 AAAAATGAAAAATGATGAAAAAATG-AAAAGAAAAA-AAAAATA-
1 AAAAATGAAAAATGA--AAAAAATGAAAAAGAAAAAGAAAAAGAG
*
342371 AAAAATGGGAAAATGGAAGAAAAATGAAAAAGAAAAAGAAGAAAGAG
1 AAAAAT-GAAAAAT-GAA-AAAAATGAAAAAGAAAAAGAA-AAAGAG
342418 AAAAATGAAAAAT-AAATAAAAT-AAAA
1 AAAAATGAAAAATGAAA-AAAATGAAAA
342444 TAAAAAGGGG
Statistics
Matches: 128, Mismatches: 12, Indels: 34
0.74 0.07 0.20
Matches are distributed among these distances:
37 10 0.08
38 7 0.05
39 6 0.05
40 2 0.02
41 1 0.01
42 11 0.09
43 19 0.15
44 25 0.20
45 15 0.12
46 13 0.10
47 18 0.14
48 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (43 bp):
AAAAATGAAAAATGAAAAAAATGAAAAAGAAAAAGAAAAAGAG
Found at i:342502 original size:43 final size:42
Alignment explanation
Indices: 342447--342527 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
342437 AATAAAATAA
* *
342447 AAAGGGGTTCAAGATGAAAACCCGAAAAGGGCGTCTTGGAAC
1 AAAGGAGTTCAAGATGAAAACCCGAAAAGGGCGACTTGGAAC
* *
342489 AAAGGAGTCTCAAGTTGAAAACCCGCAAAGGGCGACTTG
1 AAAGGAGT-TCAAGATGAAAACCCGAAAAGGGCGACTTG
342528 AGTTTTGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 7 0.21
43 27 0.79
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.15
Consensus pattern (42 bp):
AAAGGAGTTCAAGATGAAAACCCGAAAAGGGCGACTTGGAAC
Found at i:344164 original size:217 final size:220
Alignment explanation
Indices: 343777--344258 Score: 591
Period size: 217 Copynumber: 2.2 Consensus size: 220
343767 GATTGAGTCA
* * *
343777 TATACTCTCTGAAGGAATAGGGAG-TGAACAAGTTCGTTGAAGATTATTCGAGTTCTATACTCTC
1 TATACTCTCTGAAGGAATAGGGAGCAG-ACACGTTTGTTGAAGATTATTCGAGTTCTATACTCTC
* * * *
343841 TGAAGGAATAGAGAACGGGCCCGTTTTATGAAGATTATTCGAGTTCTATACTCTCTGAAGGAATA
65 TGAAGGAATAGAGAACGCGACCGTTTTATGAAGATCATTCGAGTTCTATACTCCCTGAAGGAATA
* * * *
343906 GAGAGGGGACCCATTTGTTGAAGATTGTTCGAGTTTTATACTCTCTGAAGGAATAGAGAGCGGAC
130 GAGAGGGGACCCATTTATTGAAGATTGTTCGAGTCTTATACTCCCTGAAGGAATAGAGAGCAGAC
* *
343971 CCGTTT-TATGAAGATTGTTCGAGTTC
195 ACGTTTGT-TAAAGATTGTTCGAGTTC
* * * *
343997 TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGTTGAAGATTGTTCGATTTCTATACTCTCT
1 TATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTATTCGAGTTCTATACTCTCT
* *
344062 -AATGAATAGAG-A-GCGACCGTTTTATGAAGATCGTTCGAGTTCTATACTCCCTGAATGG-ATA
66 GAAGGAATAGAGAACGCGACCGTTTTATGAAGATCATTCGAGTTCTATACTCCCTGAA-GGAATA
* * * * * * *
344123 GGGAGTGGACCCGTTTATTGAAGATTGTTTGAGTCTTATACTCCCTGAATGAATAGGGATCAGAC
130 GAGAGGGGACCCATTTATTGAAGATTGTTCGAGTCTTATACTCCCTGAAGGAATAGAGAGCAGAC
* *
344188 ACGTTTGTTAAAGATTGTTTGAGTTT
195 ACGTTTGTTAAAGATTGTTCGAGTTC
* * * *
344214 TATACTCCCTGAAAGAATAGGGAACAGACTCGTTAT-TTGAAGATT
1 TATACTCTCTGAAGGAATAGGGAGCAGACACGTT-TGTTGAAGATT
344259 TTTCAAGTAT
Statistics
Matches: 225, Mismatches: 33, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
217 153 0.68
218 5 0.02
219 10 0.04
220 56 0.25
221 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (220 bp):
TATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTATTCGAGTTCTATACTCTCT
GAAGGAATAGAGAACGCGACCGTTTTATGAAGATCATTCGAGTTCTATACTCCCTGAAGGAATAG
AGAGGGGACCCATTTATTGAAGATTGTTCGAGTCTTATACTCCCTGAAGGAATAGAGAGCAGACA
CGTTTGTTAAAGATTGTTCGAGTTC
Found at i:344234 original size:55 final size:55
Alignment explanation
Indices: 343777--344258 Score: 498
Period size: 55 Copynumber: 8.8 Consensus size: 55
343767 GATTGAGTCA
* * ** * *
343777 TATACTCTCTGAAGGAATAGGGAG-TGAACAAGTTCGTTGAAGATTATTCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGCAG-ACCCGTTTGTTGAAGATTGTTCGAGTTC
* * * *
343832 TATACTCTCTGAAGGAATAGAGAACGGGCCCGTTT-TATGAAGATTATTCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGT-TGAAGATTGTTCGAGTTC
** * *
343887 TATACTCTCTGAAGGAATAGAGAGGGGACCCATTTGTTGAAGATTGTTCGAGTTT
1 TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGTTGAAGATTGTTCGAGTTC
*
343942 TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGT-TGAAGATTGTTCGAGTTC
*
343997 TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGTTGAAGATTGTTCGATTTC
1 TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGTTGAAGATTGTTCGAGTTC
* *
344052 TATACTCTCT-AATGAATAGAGAGC-GA-CCGTTT-TATGAAGATCGTTCGAGTTC
1 TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGT-TGAAGATTGTTCGAGTTC
* * ** * *
344104 TATACTCCCTGAATGG-ATAGGGAGTGGACCCGTTTATTGAAGATTGTTTGAG-TC
1 TATACTCTCTGAA-GGAATAGAGAGCAGACCCGTTTGTTGAAGATTGTTCGAGTTC
* * * * * * * *
344158 TTATACTCCCTGAATGAATAGGGATCAGACACGTTTGTTAAAGATTGTTTGAGTTT
1 -TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGTTGAAGATTGTTCGAGTTC
* * * * *
344214 TATACTCCCTGAAAGAATAGGGAACAGACTCGTTAT-TTGAAGATT
1 TATACTCTCTGAAGGAATAGAGAGCAGACCCGTT-TGTTGAAGATT
344259 TTTCAAGTAT
Statistics
Matches: 373, Mismatches: 39, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.00
52 31 0.08
53 11 0.03
54 21 0.06
55 303 0.81
56 6 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (55 bp):
TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGTTGAAGATTGTTCGAGTTC
Found at i:344234 original size:110 final size:111
Alignment explanation
Indices: 343777--344236 Score: 560
Period size: 110 Copynumber: 4.2 Consensus size: 111
343767 GATTGAGTCA
* ** * *
343777 TATACTCTCTGAAGGAATAGGGAGTGAACAAGTTCGTTGAAGATTATTCGAG-TTCTATACTCTC
1 TATACTCTCTGAAGGAATAGGGAGTGGACCCGTTTGTTGAAGATTGTTCGAGTTTCTATACTCTC
* * *
343841 TGAAGGAATAGAGAACGGGCCCGTTTTATGAAGATTATTCGAGTTC
66 TGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTC
* * *
343887 TATACTCTCTGAAGGAATAGAGAGGGGACCCATTTGTTGAAGATTGTTCGAGTTT-TATACTCTC
1 TATACTCTCTGAAGGAATAGGGAGTGGACCCGTTTGTTGAAGATTGTTCGAGTTTCTATACTCTC
343951 TGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTC
66 TGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTC
* **
343997 TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGTTGAAGATTGTTCGA-TTTCTATACTCTC
1 TATACTCTCTGAAGGAATAGGGAGTGGACCCGTTTGTTGAAGATTGTTCGAGTTTCTATACTCTC
* *
344061 T-AATGAATAGAGAGC-GA-CCGTTTTATGAAGATCGTTCGAGTTC
66 TGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTC
* * * * *
344104 TATACTCCCTGAATGG-ATAGGGAGTGGACCCGTTTATTGAAGATTGTTTGAGTCT-TATACTCC
1 TATACTCTCTGAA-GGAATAGGGAGTGGACCCGTTTGTTGAAGATTGTTCGAGTTTCTATACTCT
* * * * * * * *
344167 CTGAATGAATAGGGATCAGACACGTTTGT-TAAAGATTGTTTGAGTTT
65 CTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTCGAGTTC
* *
344214 TATACTCCCTGAAAGAATAGGGA
1 TATACTCTCTGAAGGAATAGGGA
344237 ACAGACTCGT
Statistics
Matches: 309, Mismatches: 32, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
107 76 0.25
108 18 0.06
109 19 0.06
110 193 0.62
111 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (111 bp):
TATACTCTCTGAAGGAATAGGGAGTGGACCCGTTTGTTGAAGATTGTTCGAGTTTCTATACTCTC
TGAAGGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTC
Found at i:349811 original size:19 final size:19
Alignment explanation
Indices: 349778--349814 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
349768 TCTTTAGTAG
349778 ATGTTCAAAATTATTTCTC
1 ATGTTCAAAATTATTTCTC
349797 ATGTGTCAAAA-TATTTCT
1 ATGT-TCAAAATTATTTCT
349815 TTCAAGCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (19 bp):
ATGTTCAAAATTATTTCTC
Found at i:352469 original size:19 final size:17
Alignment explanation
Indices: 352432--352470 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
352422 AAAAAATCGA
*
352432 AAATGCCAAAAGCAGAT
1 AAATGCCAAAAGCAAAT
352449 AAATGCCACAAAGACAAAT
1 AAATGCCA-AAAG-CAAAT
352468 AAA
1 AAA
352471 CATGTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 4 0.21
19 7 0.37
ACGTcount: A:0.59, C:0.18, G:0.13, T:0.10
Consensus pattern (17 bp):
AAATGCCAAAAGCAAAT
Found at i:362483 original size:63 final size:62
Alignment explanation
Indices: 362274--362492 Score: 214
Period size: 63 Copynumber: 3.5 Consensus size: 62
362264 TGTTTGAATG
** * * *
362274 TGCATCGATGCATTGGTAGTGCATCGATGCCTCT-TTTAAAAAG-AACATCGAATGCCTTTGA
1 TGCATCGATGCA-AAGTAGTGCATCGATGCATCTCTTTAAAAAGAAACATCGAATGCATTTAA
* * * *
362335 TGCATCGATGCATAGCTAATGCATCGATGCATC-CTTTTAAAATA-ATAACATCGAATGCAATCA
1 TGCATCGATGCAAAG-TAGTGCATCGATGCATCTC-TTTAAAA-AGA-AACATCGAATGCATTTA
362398 A
62 A
* * * *
362399 TGCATCGATGCTAAGGAGTGCATCGATGCATCTCATTAATAAGGAAACA-CGAATGCATTTAA
1 TGCATCGATGCAAAGTAGTGCATCGATGCATCTCTTTAA-AAAGAAACATCGAATGCATTTAA
*
362461 TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TGCATCGATGCA-AAGTAGTGCATCGATGCAT
362493 ACTTTCATTA
Statistics
Matches: 130, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
60 2 0.02
61 27 0.21
62 28 0.22
63 42 0.32
64 31 0.24
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (62 bp):
TGCATCGATGCAAAGTAGTGCATCGATGCATCTCTTTAAAAAGAAACATCGAATGCATTTAA
Found at i:366765 original size:31 final size:31
Alignment explanation
Indices: 366396--366749 Score: 520
Period size: 31 Copynumber: 11.5 Consensus size: 31
366386 AGGGTCGAGG
366396 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
366427 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
366458 -ATTACCTATATTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
366488 GTTTACCCTATGTTCTTCGGGACATATGGACT
1 GTTTA-CCTATGTTCTTCGGGACATATGGACT
*
366520 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
366551 GTTTTACCTATGTTCTTCGGGA-ATATGGACT
1 G-TTTACCTATGTTCTTCGGGACATATGGACT
* * *
366582 GATTACCTAGGTTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
366613 GATTACCTAGGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
366644 GTTTACCTATTTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
366675 GTTTACC--T-TTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
366703 GATTACCTAGGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
366734 GATTACCTAGGTTCTT
1 GTTTACCTATGTTCTT
366750 TGGAATCTAT
Statistics
Matches: 298, Mismatches: 18, Indels: 14
0.90 0.05 0.04
Matches are distributed among these distances:
28 26 0.09
29 1 0.00
30 43 0.14
31 179 0.60
32 49 0.16
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:372278 original size:20 final size:19
Alignment explanation
Indices: 372255--372320 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 19
372245 ACAGGTTCCA
372255 AAATCGCAACGCGAATAGGT
1 AAATCGCAACGCGAATA-GT
*
372275 AAATCGCAA--CG-ATAAT
1 AAATCGCAACGCGAATAGT
372291 AAATCGCAACGCGAATATGT
1 AAATCGCAACGCGAATA-GT
372311 AAATCGCAAC
1 AAATCGCAAC
372321 ACAGAAGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 10 0.25
17 3 0.08
18 4 0.10
19 3 0.08
20 20 0.50
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (19 bp):
AAATCGCAACGCGAATAGT
Found at i:372307 original size:16 final size:16
Alignment explanation
Indices: 372255--372307 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
372245 ACAGGTTCCA
372255 AAATCGCAACGCGAATAGGT
1 AAATCGCAACGCG-A-A--T
**
372275 AAATCGCAACGATAAT
1 AAATCGCAACGCGAAT
372291 AAATCGCAACGCGAAT
1 AAATCGCAACGCGAAT
372307 A
1 A
372308 TGTAAATCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 16 0.55
18 1 0.03
19 1 0.03
20 11 0.38
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (16 bp):
AAATCGCAACGCGAAT
Found at i:372375 original size:20 final size:20
Alignment explanation
Indices: 372352--372440 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 20
372342 CGGAATTTTA
* *
372352 AATTCGCGACGCTAATTACT
1 AATTCGCGACGCGAATTTCT
* *
372372 AATTCGCGATGCGATTTTCT
1 AATTCGCGACGCGAATTTCT
* *
372392 AATTCGCGATGCGATTTTCT
1 AATTCGCGACGCGAATTTCT
* *
372412 AATTCGCGACGCTAATTCCT
1 AATTCGCGACGCGAATTTCT
372432 AATTCGCGA
1 AATTCGCGA
372441 TTCGCAACGC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (20 bp):
AATTCGCGACGCGAATTTCT
Found at i:372482 original size:20 final size:19
Alignment explanation
Indices: 372459--372586 Score: 148
Period size: 20 Copynumber: 6.4 Consensus size: 19
372449 GCGATTTTGT
*
372459 AATTCAGAATTAGCGTCGCA
1 AATT-AGAATTAGCGTCGCG
*
372479 AATTAGGAATTATCGTCGCG
1 AATTA-GAATTAGCGTCGCG
*
372499 AACTAGAAATTAGCGTCGCG
1 AATTAG-AATTAGCGTCGCG
372519 AATTAGGAATTAGCGTCGCG
1 AATTA-GAATTAGCGTCGCG
* * *
372539 AATTAGAAAATCGCGTCACG
1 AATTAG-AATTAGCGTCGCG
372559 AATTAGGAATTAGCGTCGCG
1 AATTA-GAATTAGCGTCGCG
372579 AATTAGAA
1 AATTAGAA
372587 AATCGCATTG
Statistics
Matches: 92, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.07
20 84 0.91
21 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (19 bp):
AATTAGAATTAGCGTCGCG
Found at i:372523 original size:40 final size:40
Alignment explanation
Indices: 372466--372711 Score: 213
Period size: 40 Copynumber: 5.9 Consensus size: 40
372456 TGTAATTCAG
* * *
372466 AATTAGCGTCGCAAATTAGGAATTATCGTCGCGAACTAGA
1 AATTAGCGTCGCGAATTAGGAATTAGCGTCGCGAATTAGA
372506 AATTAGCGTCGCGAATTAGGAATTAGCGTCGCGAATTAGA
1 AATTAGCGTCGCGAATTAGGAATTAGCGTCGCGAATTAGA
* * *
372546 AAATCGCGTCACGAATTAGGAATTAGCGTCGCGAATTAGA
1 AATTAGCGTCGCGAATTAGGAATTAGCGTCGCGAATTAGA
* * * * * * * * * *
372586 AAATCGCATTGCGAATTTGGAAAATCGCATTGCGAATTTGGAA
1 AATTAGCGTCGCGAATTAGG-AATTAGCGTCGCGAA-TTAG-A
* * *
372629 AATCGCATTGCGAATCGCGAATTAGGAATTAGCATCGCGAATTAGG
1 AAT----TAGCG--TCGCGAATTAGGAATTAGCGTCGCGAATTAGA
* * *
372675 AATTAGCGTCGCAAATTCGGAATTCGCGTCGCGAATT
1 AATTAGCGTCGCGAATTAGGAATTAGCGTCGCGAATT
372712 TGGAAAATCG
Statistics
Matches: 167, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
40 115 0.69
41 11 0.07
42 7 0.04
43 3 0.02
46 3 0.02
47 6 0.04
48 12 0.07
49 10 0.06
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (40 bp):
AATTAGCGTCGCGAATTAGGAATTAGCGTCGCGAATTAGA
Found at i:372537 original size:60 final size:60
Alignment explanation
Indices: 372465--372584 Score: 168
Period size: 60 Copynumber: 2.0 Consensus size: 60
372455 TTGTAATTCA
* * * *
372465 GAATTAGCGTCGCAAATTAGGAATTATCGTCGCGAACTAGAAATTAGCGTCGCGAATTAG
1 GAATTAGCGTCGCAAATTAGAAAATAGCGTCACGAACTAGAAATTAGCGTCGCGAATTAG
* * * *
372525 GAATTAGCGTCGCGAATTAGAAAATCGCGTCACGAATTAGGAATTAGCGTCGCGAATTAG
1 GAATTAGCGTCGCAAATTAGAAAATAGCGTCACGAACTAGAAATTAGCGTCGCGAATTAG
372585 AAAATCGCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (60 bp):
GAATTAGCGTCGCAAATTAGAAAATAGCGTCACGAACTAGAAATTAGCGTCGCGAATTAG
Found at i:372599 original size:20 final size:20
Alignment explanation
Indices: 372536--372643 Score: 108
Period size: 21 Copynumber: 5.3 Consensus size: 20
372526 AATTAGCGTC
* *
372536 GCGAATTAGAAAATCGCGTC
1 GCGAATTAGAAAATCGCATT
* * * * * *
372556 ACGAATTAGGAATTAGCGTC
1 GCGAATTAGAAAATCGCATT
372576 GCGAATTAGAAAATCGCATT
1 GCGAATTAGAAAATCGCATT
*
372596 GCGAATTTGGAAAATCGCATT
1 GCGAA-TTAGAAAATCGCATT
*
372617 GCGAATTTGGAAAATCGCATT
1 GCGAA-TTAGAAAATCGCATT
372638 GCGAAT
1 GCGAAT
372644 CGCGAATTAG
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
20 36 0.47
21 40 0.53
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (20 bp):
GCGAATTAGAAAATCGCATT
Found at i:372600 original size:60 final size:61
Alignment explanation
Indices: 372492--372613 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 61
372482 TAGGAATTAT
* * * *
372492 CGTCGCGAACTAGAAATTAGCGTCGCGAATTAGGAATTAGCGTCGCGAA-TTAGAAAATCG
1 CGTCACGAACTAGAAATTAGCGTCGCGAATTAGAAAATAGCATCGCGAATTTAGAAAATCG
* * * * *
372552 CGTCACGAATTAGGAATTAGCGTCGCGAATTAGAAAATCGCATTGCGAATTTGGAAAATCG
1 CGTCACGAACTAGAAATTAGCGTCGCGAATTAGAAAATAGCATCGCGAATTTAGAAAATCG
372613 C
1 C
372614 ATTGCGAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
60 41 0.79
61 11 0.21
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (61 bp):
CGTCACGAACTAGAAATTAGCGTCGCGAATTAGAAAATAGCATCGCGAATTTAGAAAATCG
Found at i:372610 original size:21 final size:21
Alignment explanation
Indices: 372576--372643 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
372566 AATTAGCGTC
*
372576 GCGAA-TTAGAAAATCGCATT
1 GCGAATTTGGAAAATCGCATT
372596 GCGAATTTGGAAAATCGCATT
1 GCGAATTTGGAAAATCGCATT
372617 GCGAATTTGGAAAATCGCATT
1 GCGAATTTGGAAAATCGCATT
372638 GCGAAT
1 GCGAAT
372644 CGCGAATTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
20 5 0.11
21 41 0.89
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCATT
Found at i:372667 original size:20 final size:20
Alignment explanation
Indices: 372642--372716 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
372632 CGCATTGCGA
372642 ATCGCGAATTAGGAATTAGC
1 ATCGCGAATTAGGAATTAGC
372662 ATCGCGAATTAGGAATTAGC
1 ATCGCGAATTAGGAATTAGC
* * * *
372682 GTCGCAAATTCGGAATTCGC
1 ATCGCGAATTAGGAATTAGC
* *
372702 GTCGCGAATTTGGAA
1 ATCGCGAATTAGGAA
372717 AATCGCGTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (20 bp):
ATCGCGAATTAGGAATTAGC
Found at i:372669 original size:129 final size:129
Alignment explanation
Indices: 372514--372754 Score: 340
Period size: 129 Copynumber: 1.9 Consensus size: 129
372504 GAAATTAGCG
* * *
372514 TCGCGAATTAGGAATTAGCGTCGCGAATTAGAAAATCGCGTCACGAATTAGGAATTAGCGTCGCG
1 TCGCGAATTAGGAATTAGCATCGCGAATTAGAAAATAGCGTCACAAATTAGGAATTAGCGTCGCG
*
372579 AA-TTAGAAAATCGCATTGCGAATTTGGAAAATCGCATTGCGAATTTGGAAAATCGCATTGCGAA
66 AATTTAGAAAATCGCATTGCGAAATTGG-AAATCGCATTGCGAATTTGGAAAATCGCATTGCGAA
* * * * *
372643 TCGCGAATTAGGAATTAGCATCGCGAATTAGGAATTAGCGTCGCAAATTCGGAATTCGCGTCGCG
1 TCGCGAATTAGGAATTAGCATCGCGAATTAGAAAATAGCGTCACAAATTAGGAATTAGCGTCGCG
* * ** *
372708 AATTTGGAAAATCGCGTTGCGAAATTGGAGTTCGCGTTGCGAATTTG
66 AATTTAGAAAATCGCATTGCGAAATTGGAAATCGCATTGCGAATTTG
372755 AAATTTGTGT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
129 75 0.77
130 22 0.23
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (129 bp):
TCGCGAATTAGGAATTAGCATCGCGAATTAGAAAATAGCGTCACAAATTAGGAATTAGCGTCGCG
AATTTAGAAAATCGCATTGCGAAATTGGAAATCGCATTGCGAATTTGGAAAATCGCATTGCGAA
Found at i:372670 original size:109 final size:109
Alignment explanation
Indices: 372534--372736 Score: 289
Period size: 109 Copynumber: 1.9 Consensus size: 109
372524 GGAATTAGCG
* * * *
372534 TCGCGAATTAGAAAATCGCGTCACGAATTAGGAATTAGCGTCGCGAATTAGAAAATCGCATTGCG
1 TCGCGAATTAGAAAATAGCATCACGAATTAGGAATTAGCGTCGCAAATTAGAAAATCGCATCGCG
*
372599 AATTTGGAAAATCGCATTGCGAATTTGGAAAATCGCATTGCGAA
66 AATTTGGAAAATCGCATTGCGAAATTGGAAAATCGCATTGCGAA
* * * * * * *
372643 TCGCGAATTAGGAATTAGCATCGCGAATTAGGAATTAGCGTCGCAAATTCGGAATTCGCGTCGCG
1 TCGCGAATTAGAAAATAGCATCACGAATTAGGAATTAGCGTCGCAAATTAGAAAATCGCATCGCG
*
372708 AATTTGGAAAATCGCGTTGCGAAATTGGA
66 AATTTGGAAAATCGCATTGCGAAATTGGA
372737 GTTCGCGTTG
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
109 81 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (109 bp):
TCGCGAATTAGAAAATAGCATCACGAATTAGGAATTAGCGTCGCAAATTAGAAAATCGCATCGCG
AATTTGGAAAATCGCATTGCGAAATTGGAAAATCGCATTGCGAA
Found at i:372744 original size:20 final size:20
Alignment explanation
Indices: 372668--372750 Score: 78
Period size: 20 Copynumber: 4.0 Consensus size: 20
372658 TAGCATCGCG
* *
372668 AATTAGGAATTAGCGTCGC-A
1 AATT-GGAATTCGCGTTGCGA
*
372688 AATTCGGAATTCGCGTCGCGA
1 AATT-GGAATTCGCGTTGCGA
* *
372709 ATTTGGAAAATCGCGTTGCGA
1 AATTGG-AATTCGCGTTGCGA
*
372730 AATTGGAGTTCGCGTTGCGA
1 AATTGGAATTCGCGTTGCGA
372750 A
1 A
372751 TTTGAAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 32 0.60
21 21 0.40
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (20 bp):
AATTGGAATTCGCGTTGCGA
Found at i:372801 original size:20 final size:20
Alignment explanation
Indices: 372776--372815 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
372766 GTTCCTAATG
*
372776 CGCGACGCTAATTTCGAATT
1 CGCGACGCTAATTCCGAATT
372796 CGCGACGCTAATTCCGAATT
1 CGCGACGCTAATTCCGAATT
372816 ACAAAATCGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (20 bp):
CGCGACGCTAATTCCGAATT
Found at i:372869 original size:20 final size:20
Alignment explanation
Indices: 372834--373030 Score: 137
Period size: 20 Copynumber: 9.6 Consensus size: 20
372824 GCGTTGCGAA
* *
372834 TCGCGAATTCGAAATTAGCG
1 TCGCGAATTAGGAATTAGCG
*
372854 TCGTGAATTAGGAATTAGCG
1 TCGCGAATTAGGAATTAGCG
* * *
372874 TCGCAAATTTGGAATTA-AG
1 TCGCGAATTAGGAATTAGCG
* *
372893 TCGCGAATTAGAAAATCGTGTTGCG
1 TCGCGAATTAG-GAA---T-TAGCG
*
372918 AATTGCGAATTAGGAATTAGCG
1 --TCGCGAATTAGGAATTAGCG
* * *
372940 TCGCGAATTCGAAATTGGCG
1 TCGCGAATTAGGAATTAGCG
*
372960 TCGCGTATTAGGAATTAGCG
1 TCGCGAATTAGGAATTAGCG
* * * *
372980 TCGCAAATTAGAAAATCGCG
1 TCGCGAATTAGGAATTAGCG
* *
373000 TTGCGATTTTA-GAATTAGCG
1 TCGCGA-ATTAGGAATTAGCG
373020 TCGCGAATTAG
1 TCGCGAATTAG
373031 AAAATCGTGT
Statistics
Matches: 131, Mismatches: 36, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
19 13 0.10
20 95 0.73
21 3 0.02
22 4 0.03
23 2 0.02
24 1 0.01
25 1 0.01
26 2 0.02
27 10 0.08
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (20 bp):
TCGCGAATTAGGAATTAGCG
Found at i:372916 original size:86 final size:87
Alignment explanation
Indices: 372810--373005 Score: 259
Period size: 86 Copynumber: 2.3 Consensus size: 87
372800 ACGCTAATTC
* * * *
372810 CGAATTACAAAATCGCGTTGCGAATCGCGAATTCGAAATTAGCGTCGTGAATTAGGAATTAGCGT
1 CGAATTAGAAAATCGCGTTGCGAATCGCGAATTAGAAATTAGCGTCGCGAATTAGAAATTAGCGT
*
372875 CGCAAATTTGGAATTA-AGTCG
66 CGCAAATTAGGAATTAGAGTCG
* * * * *
372896 CGAATTAGAAAATCGTGTTGCGAATTGCGAATTAGGAATTAGCGTCGCGAATTCGAAATTGGCGT
1 CGAATTAGAAAATCGCGTTGCGAATCGCGAATTAGAAATTAGCGTCGCGAATTAGAAATTAGCGT
** *
372961 CGCGTATTAGGAATTAGCGTCG
66 CGCAAATTAGGAATTAGAGTCG
*
372983 CAAATTAGAAAATCGCGTTGCGA
1 CGAATTAGAAAATCGCGTTGCGA
373006 TTTTAGAATT
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 69 0.73
87 25 0.27
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (87 bp):
CGAATTAGAAAATCGCGTTGCGAATCGCGAATTAGAAATTAGCGTCGCGAATTAGAAATTAGCGT
CGCAAATTAGGAATTAGAGTCG
Found at i:373043 original size:40 final size:40
Alignment explanation
Indices: 372920--373043 Score: 160
Period size: 40 Copynumber: 3.1 Consensus size: 40
372910 GTGTTGCGAA
* * * *
372920 TTGCGAATTAGGAATTAGCGTCGCGAATTCGAAATTGGCG
1 TTGCGTATTAGGAATTAGCGTCGCGAATTAGAAAATCGCG
* *
372960 TCGCGTATTAGGAATTAGCGTCGCAAATTAGAAAATCGCG
1 TTGCGTATTAGGAATTAGCGTCGCGAATTAGAAAATCGCG
* *
373000 TTGCGATTTTA-GAATTAGCGTCGCGAATTAGAAAATCGTG
1 TTGCG-TATTAGGAATTAGCGTCGCGAATTAGAAAATCGCG
373040 TTGC
1 TTGC
373044 AAATTTCACA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 69 0.95
41 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (40 bp):
TTGCGTATTAGGAATTAGCGTCGCGAATTAGAAAATCGCG
Found at i:373067 original size:40 final size:40
Alignment explanation
Indices: 372972--373055 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
372962 GCGTATTAGG
* * * *
372972 AATTAGCGTCGCAAATTAGAAAATCGCGTTGCGATTTTAG
1 AATTAGCGTCGCGAATTAGAAAATCGCGTTGCAATTTCAC
*
373012 AATTAGCGTCGCGAATTAGAAAATCGTGTTGCAAATTTCAC
1 AATTAGCGTCGCGAATTAGAAAATCGCGTTGC-AATTTCAC
373053 AAT
1 AAT
373056 CGCGTTGCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
40 30 0.79
41 8 0.21
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (40 bp):
AATTAGCGTCGCGAATTAGAAAATCGCGTTGCAATTTCAC
Found at i:373095 original size:20 final size:20
Alignment explanation
Indices: 373070--373118 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
373060 TTGCGAATCA
*
373070 CGAATTAGGAATTAGCGTTG
1 CGAATTAGGAAATAGCGTTG
* *
373090 CGAATTCGGAAATCGCGTTG
1 CGAATTAGGAAATAGCGTTG
373110 CGAAATTAG
1 CG-AATTAG
373119 AGTTCGCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (20 bp):
CGAATTAGGAAATAGCGTTG
Found at i:373190 original size:20 final size:20
Alignment explanation
Indices: 373167--373233 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
373157 TAACTTCTGT
*
373167 GTTGCAATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
**
373187 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTCGC
* * *
373207 ATTGTGATTTACCTATTCGC
1 GTTGCGATTTACATATTCGC
373227 GTTGCGA
1 GTTGCGA
373234 AATTGGAAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:375290 original size:21 final size:22
Alignment explanation
Indices: 375248--375298 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
375238 AAAATTTATC
*
375248 AAAA-TTTTAAATCTTAT-TTT
1 AAAATTTTTAAATCATATGTTT
* *
375268 TAAATTTTTAGATCATATGTTT
1 AAAATTTTTAAATCATATGTTT
375290 AAAATTTTT
1 AAAATTTTT
375299 TAGTCTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 3 0.12
21 11 0.44
22 11 0.44
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (22 bp):
AAAATTTTTAAATCATATGTTT
Found at i:379773 original size:18 final size:17
Alignment explanation
Indices: 379718--379781 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
379708 TATTTTTATA
*
379718 ATTT-AATTAATTATTT
1 ATTTAAATTATTTATTT
*
379734 ATTTGAAATAATATTA-TT
1 ATTT-AAATTAT-TTATTT
379752 -TTTAAATTATTTATTT
1 ATTTAAATTATTTATTT
379768 AATTTAAATTATTT
1 -ATTTAAATTATTT
379782 TAAACTTAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.08
16 12 0.31
17 3 0.08
18 18 0.46
19 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTAAATTATTTATTT
Found at i:381305 original size:17 final size:17
Alignment explanation
Indices: 381273--381319 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
381263 AGGATTTAGA
381273 AATAATGAAGTAAATAAAT-
1 AATAA-GAA-TAAAT-AATG
381292 AATAAGAATAAATAATG
1 AATAAGAATAAATAATG
*
381309 AATAAAAATAA
1 AATAAGAATAA
381320 TAGAAAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 15 0.58
18 3 0.12
19 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (17 bp):
AATAAGAATAAATAATG
Found at i:381320 original size:13 final size:14
Alignment explanation
Indices: 381272--381333 Score: 58
Period size: 13 Copynumber: 4.4 Consensus size: 14
381262 GAGGATTTAG
381272 AAATAATGAAGTAAAT
1 AAATAATGAA-T-AAT
*
381288 AAATAAT-AAGAAT
1 AAATAATGAATAAT
381301 AAATAATGAATAA-
1 AAATAATGAATAAT
*
381314 AAATAATAGAA-AGT
1 AAATAAT-GAATAAT
381328 AAATAA
1 AAATAA
381334 AGTAAATAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 18 0.45
14 13 0.32
15 2 0.05
16 7 0.17
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (14 bp):
AAATAATGAATAAT
Found at i:390806 original size:26 final size:26
Alignment explanation
Indices: 390770--390820 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
390760 CCATGATTCC
390770 TACCTTAGCTTGTATGTTAATGTTCA
1 TACCTTAGCTTGTATGTTAATGTTCA
390796 TACCTTAGCTTGTATGTTAATGTTC
1 TACCTTAGCTTGTATGTTAATGTTC
390821 CTATATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.47
Consensus pattern (26 bp):
TACCTTAGCTTGTATGTTAATGTTCA
Found at i:397687 original size:21 final size:20
Alignment explanation
Indices: 397663--397704 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
397653 GTCATGCAAC
*
397663 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
397684 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
397704 T
1 T
397705 TGTAAGTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:402316 original size:20 final size:20
Alignment explanation
Indices: 402291--402329 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
402281 CAAGTGGGAG
402291 ATTATTAGTTGTCATGCAAA
1 ATTATTAGTTGTCATGCAAA
402311 ATTATTAGTTGTCATGCAA
1 ATTATTAGTTGTCATGCAA
402330 CTAATAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (20 bp):
ATTATTAGTTGTCATGCAAA
Found at i:402355 original size:21 final size:20
Alignment explanation
Indices: 402331--402372 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
402321 GTCATGCAAC
*
402331 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
402352 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
402372 T
1 T
402373 TGTAAGTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:410013 original size:29 final size:29
Alignment explanation
Indices: 409917--410010 Score: 152
Period size: 30 Copynumber: 3.2 Consensus size: 29
409907 TGGGATGGTT
409917 TTGAAGCTAAATGGATTAGGGTATTTATAG
1 TTGAAGCTAAATGG-TTAGGGTATTTATAG
409947 TTGAAGCTAAATGAGTTAGGGTATTTATAG
1 TTGAAGCTAAATG-GTTAGGGTATTTATAG
* *
409977 TTGAATCTAAATGGTTAGGGTATTTATAA
1 TTGAAGCTAAATGGTTAGGGTATTTATAG
410006 TTGAA
1 TTGAA
410011 TCTTAAGAAC
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
29 20 0.33
30 40 0.66
31 1 0.02
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.38
Consensus pattern (29 bp):
TTGAAGCTAAATGGTTAGGGTATTTATAG
Found at i:410126 original size:29 final size:30
Alignment explanation
Indices: 410082--410142 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
410072 GCCAAAGAAG
*
410082 CTAAATGAGTTAGGGTATTTATAGTTGAAT
1 CTAAATGAGTTAGGGTATTTATAATTGAAT
*
410112 CTAAATG-TTTAGGGTATTTATAATTGAAT
1 CTAAATGAGTTAGGGTATTTATAATTGAAT
410141 CT
1 CT
410143 TAAGAACTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.43
Consensus pattern (30 bp):
CTAAATGAGTTAGGGTATTTATAATTGAAT
Found at i:410179 original size:129 final size:129
Alignment explanation
Indices: 409949--410206 Score: 498
Period size: 129 Copynumber: 2.0 Consensus size: 129
409939 ATTTATAGTT
409949 GAAGCTAAATGAGTTAGGGTATTTATAGTTGAATCTAAATGGTTAGGGTATTTATAATTGAATCT
1 GAAGCTAAATGAGTTAGGGTATTTATAGTTGAATCTAAATGGTTAGGGTATTTATAATTGAATCT
410014 TAAGAACTAATCTTATAAATATCCTAAAATCCAAGGACTAATTTTTCAATTTTCCCATGCCAAA
66 TAAGAACTAATCTTATAAATATCCTAAAATCCAAGGACTAATTTTTCAATTTTCCCATGCCAAA
*
410078 GAAGCTAAATGAGTTAGGGTATTTATAGTTGAATCTAAATGTTTAGGGTATTTATAATTGAATCT
1 GAAGCTAAATGAGTTAGGGTATTTATAGTTGAATCTAAATGGTTAGGGTATTTATAATTGAATCT
*
410143 TAAGAACTAATCTTATAAATATCCTAAAATCCAAGGACTAATTTTTCAATTTTCCCGTGCCAAA
66 TAAGAACTAATCTTATAAATATCCTAAAATCCAAGGACTAATTTTTCAATTTTCCCATGCCAAA
410207 AGTCATAAAA
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 127 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (129 bp):
GAAGCTAAATGAGTTAGGGTATTTATAGTTGAATCTAAATGGTTAGGGTATTTATAATTGAATCT
TAAGAACTAATCTTATAAATATCCTAAAATCCAAGGACTAATTTTTCAATTTTCCCATGCCAAA
Found at i:413333 original size:29 final size:30
Alignment explanation
Indices: 413271--413337 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 30
413261 TGGGATGGTT
*
413271 TTGAAGCTAAATGAGTTAGGGTATTTATAT
1 TTGAAGCTAAATGAGTTAGGGTATTTATAG
*
413301 TTGAAGCTAAATGGGTTA-GGTATTTATAG
1 TTGAAGCTAAATGAGTTAGGGTATTTATAG
413330 TTGAAGCT
1 TTGAAGCT
413338 TAAAGACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.39
Consensus pattern (30 bp):
TTGAAGCTAAATGAGTTAGGGTATTTATAG
Found at i:418180 original size:18 final size:20
Alignment explanation
Indices: 418140--418177 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
418130 TACTGTAGGG
418140 GCAGTATCGATACTCTCCCCA
1 GCAGTATCGATAC-CTCCCCA
418161 GCAGTATCGATA-CTCCC
1 GCAGTATCGATACCTCCC
418178 AGCTAGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.24, C:0.37, G:0.16, T:0.24
Consensus pattern (20 bp):
GCAGTATCGATACCTCCCCA
Found at i:418232 original size:20 final size:20
Alignment explanation
Indices: 418207--418244 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
418197 TCGTACCAAA
* *
418207 TCATCCAGTATTGATACTGT
1 TCATCCAATACTGATACTGT
418227 TCATCCAATACTGATACT
1 TCATCCAATACTGATACT
418245 CGAACACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (20 bp):
TCATCCAATACTGATACTGT
Found at i:424833 original size:16 final size:16
Alignment explanation
Indices: 424814--424846 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
424804 TACCTTATAA
424814 CCCTAATCCTTATTAT
1 CCCTAATCCTTATTAT
*
424830 CCCTAATCTTTATTAT
1 CCCTAATCCTTATTAT
424846 C
1 C
424847 TATTTATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (16 bp):
CCCTAATCCTTATTAT
Found at i:430573 original size:25 final size:25
Alignment explanation
Indices: 430531--430579 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
430521 AGATCTCAAC
**
430531 ACTGTGATACTTGTCAATCATTCAG
1 ACTGTGATACTTCACAATCATTCAG
*
430556 ACTGTGATACTTCACAATTATTCA
1 ACTGTGATACTTCACAATCATTCA
430580 CTTCTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (25 bp):
ACTGTGATACTTCACAATCATTCAG
Found at i:433431 original size:29 final size:30
Alignment explanation
Indices: 433390--433455 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
433380 AGTGAACCGG
433390 CGGTTCAAACCGG-TTT-TGCCGTTTTCAAC
1 CGGTTCAAACCGGATTTAT-CCGTTTTCAAC
** * *
433419 CGGTTCACCCCGGATTTATCGGTTTTCAGC
1 CGGTTCAAACCGGATTTATCCGTTTTCAAC
433449 CGGTTCA
1 CGGTTCA
433456 TGTCAGACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 11 0.35
30 19 0.61
31 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.23, T:0.33
Consensus pattern (30 bp):
CGGTTCAAACCGGATTTATCCGTTTTCAAC
Found at i:436080 original size:24 final size:24
Alignment explanation
Indices: 436053--436157 Score: 182
Period size: 24 Copynumber: 4.5 Consensus size: 24
436043 GCATGGGTAG
436053 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATGTTAAAGAA
436077 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATGTTAAAGAA
436101 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATGTTAAAGAA
436125 TGCATCGATGCAC-TG-T--AGAA
1 TGCATCGATGCACATGTTAAAGAA
436145 TGCATCGATGCAC
1 TGCATCGATGCAC
436158 TTCAAGGGGA
Statistics
Matches: 81, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
20 17 0.21
22 1 0.01
23 2 0.02
24 61 0.75
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (24 bp):
TGCATCGATGCACATGTTAAAGAA
Found at i:437478 original size:63 final size:68
Alignment explanation
Indices: 437403--437533 Score: 227
Period size: 67 Copynumber: 2.0 Consensus size: 68
437393 GATCGATTTG
437403 GTTATTTTTGGTCAATTTATGT-AAT-AA-AGCTTTA-TTTAATGAAAGTTTTAAATTTTCTTTG
1 GTTATTTTTGGTCAATTTATGTAAATAAACAGCTTTATTTTAATGAAAGTTTTAAATTTTCTTTG
437464 AAT
66 AAT
437467 GTTA-TTTTGGTCAATTTATGTAAATAAACAGCTTTATTTTAATGAAAGTTTTAAATTTTCTTTG
1 GTTATTTTTGGTCAATTTATGTAAATAAACAGCTTTATTTTAATGAAAGTTTTAAATTTTCTTTG
437531 AAT
66 AAT
437534 TTTGTCAAGA
Statistics
Matches: 63, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
63 17 0.27
64 7 0.11
65 2 0.03
66 7 0.11
67 30 0.48
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.50
Consensus pattern (68 bp):
GTTATTTTTGGTCAATTTATGTAAATAAACAGCTTTATTTTAATGAAAGTTTTAAATTTTCTTTG
AAT
Found at i:441932 original size:31 final size:33
Alignment explanation
Indices: 441889--441958 Score: 117
Period size: 31 Copynumber: 2.2 Consensus size: 33
441879 GGTCTAGTAC
*
441889 AGGAGTGCTGGTAGAGTAGA-T-TCCGTCGGTT
1 AGGAATGCTGGTAGAGTAGATTCTCCGTCGGTT
441920 AGGAATGCTGGTAGAGTAGATTCTCCGTCGGTT
1 AGGAATGCTGGTAGAGTAGATTCTCCGTCGGTT
441953 AGGAAT
1 AGGAAT
441959 TCATCAAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 19 0.53
32 1 0.03
33 16 0.44
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.29
Consensus pattern (33 bp):
AGGAATGCTGGTAGAGTAGATTCTCCGTCGGTT
Found at i:444785 original size:16 final size:17
Alignment explanation
Indices: 444752--444788 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
444742 CCTCCTAAAC
444752 ATTTTAAATTTTTATAT
1 ATTTTAAATTTTTATAT
444769 ATTTTAAATTTTT-TAT
1 ATTTTAAATTTTTATAT
444785 ATTT
1 ATTT
444789 CCGTTCGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTAAATTTTTATAT
Found at i:445993 original size:20 final size:19
Alignment explanation
Indices: 445970--446015 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
445960 CATGATAATA
*
445970 TTAATTTTGATACGTAAATT
1 TTAATTTTGAT-CATAAATT
* *
445990 TTAATATTGATCATTAATT
1 TTAATTTTGATCATAAATT
446009 TTAATTT
1 TTAATTT
446016 CAATGCTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (19 bp):
TTAATTTTGATCATAAATT
Found at i:446508 original size:20 final size:19
Alignment explanation
Indices: 446448--446514 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
446438 GAATATTAAG
*
446448 TTAAAATTAAGAATCAAAA
1 TTAAAATTAACAATCAAAA
*
446467 TTAAAATTAACAATCAATA
1 TTAAAATTAACAATCAAAA
446486 TTAAAACTT-ACATATCAAAA
1 TTAAAA-TTAACA-ATCAAAA
*
446506 TTAATATTA
1 TTAAAATTA
446515 TCATAATTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 28 0.68
20 13 0.32
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (19 bp):
TTAAAATTAACAATCAAAA
Found at i:446865 original size:215 final size:217
Alignment explanation
Indices: 446613--447044 Score: 834
Period size: 215 Copynumber: 2.0 Consensus size: 217
446603 GAAATTAATG
446613 CTAATAAAAATAATGAATAAAATAAATTAGTAATAATATTGTTAATTAAAATCAAAGAGTAAATT
1 CTAATAAAAATAATGAATAAAATAAATTAGTAATAATATTGTTAATTAAAATCAAAGAGTAAATT
446678 CAAAATTAATTA-CAAAATAAAAATAAAGTACAAATTATAGAAGATTTTAAAATCTAGAAGTGTA
66 CAAAATTAATTATCAAAATAAAAATAAAGTACAAATTATAGAAGA-TTTAAAATCTAGAAGTGTA
446742 AAATA-AAACAGGGGAAAGTGAGAGGGTTTTCATGCAATATTACCATTTAAATTAAAACAAAAGT
130 AAATATAAACAGGGGAAAGTGAGAGGGTTTTCATGCAATATTACCATTTAAATTAAAACAAAAGT
446806 ATAGGGGTA-TGTAATTTAGCCA
195 ATAGGGGTATTGTAATTTAGCCA
446828 CTAATAAAAATAATGAATAAAATAAATTAGTAATAATATTGTTAATTAAAATCAAAGAGTAAATT
1 CTAATAAAAATAATGAATAAAATAAATTAGTAATAATATTGTTAATTAAAATCAAAGAGTAAATT
446893 CAAAATTAATTATCAAAATAAAAATAAAGTACAAATTATAGAAGATTTAAAATCTAGAAGTGTAA
66 CAAAATTAATTATCAAAATAAAAATAAAGTACAAATTATAGAAGATTTAAAATCTAGAAGTGTAA
446958 AATATAAACAGGGGAAAGTGAGAGGGTTTTCATGCAATATTACCATTTAAATTAAAACAAAAGTA
131 AATATAAACAGGGGAAAGTGAGAGGGTTTTCATGCAATATTACCATTTAAATTAAAACAAAAGTA
447023 TAGGGGTATTGTAATTTAGCCA
196 TAGGGGTATTGTAATTTAGCCA
447045 TGTCTATCAA
Statistics
Matches: 214, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
215 101 0.47
216 100 0.47
217 13 0.06
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.29
Consensus pattern (217 bp):
CTAATAAAAATAATGAATAAAATAAATTAGTAATAATATTGTTAATTAAAATCAAAGAGTAAATT
CAAAATTAATTATCAAAATAAAAATAAAGTACAAATTATAGAAGATTTAAAATCTAGAAGTGTAA
AATATAAACAGGGGAAAGTGAGAGGGTTTTCATGCAATATTACCATTTAAATTAAAACAAAAGTA
TAGGGGTATTGTAATTTAGCCA
Found at i:448210 original size:45 final size:44
Alignment explanation
Indices: 448146--448248 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 44
448136 TGCACCAAGT
* *
448146 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCTGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAATA-CCAGA
*
448191 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAATATCAGA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAATACCAGA
448235 GTGCATCGATGCAT
1 GTGCATCGATGCAT
448249 GGAGAATGCA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.31
45 33 0.61
46 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTGAAATACCAGA
Found at i:448274 original size:17 final size:19
Alignment explanation
Indices: 448236--448282 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
448226 AATATCAGAG
448236 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
448255 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
448272 TGCATTCGATG
1 TGCA-TCGATG
448283 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:448523 original size:20 final size:21
Alignment explanation
Indices: 448500--448539 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
448490 GAATCGAATA
448500 TAAAAT-TGTAAAA-TCATTTT
1 TAAAATCT-TAAAATTCATTTT
448520 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
448540 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTT
Found at i:449187 original size:21 final size:21
Alignment explanation
Indices: 449163--449206 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
449153 GAGGAGGAGG
*
449163 AGGAGGAGCACGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
* *
449184 AGGAGCAGCTCGTGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
449205 AG
1 AG
449207 CTCCCGGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.36, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:456001 original size:64 final size:64
Alignment explanation
Indices: 455948--456111 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
455938 CGGTGCACCA
*
455948 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
456012 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * * *
456077 AGAATGCATCGGTGCATGGAATGCATTTGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
456112 CAATTAATTC
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 32 0.38
65 53 0.62
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:456353 original size:20 final size:21
Alignment explanation
Indices: 456330--456369 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
456320 GAATCGAATA
456330 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
456350 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
456370 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:460343 original size:19 final size:19
Alignment explanation
Indices: 460319--460357 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
460309 AGCACCATAG
460319 GTCTCACTCTGATGTTGCA
1 GTCTCACTCTGATGTTGCA
460338 GTCTCACTCTGATGTTGCA
1 GTCTCACTCTGATGTTGCA
460357 G
1 G
460358 GCTCCTCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (19 bp):
GTCTCACTCTGATGTTGCA
Found at i:460772 original size:17 final size:17
Alignment explanation
Indices: 460747--460795 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
460737 TAAATACTAC
460747 ATTAGATATTTTATCAA
1 ATTAGATATTTTATCAA
* *
460764 ATTATATATATTAT--A
1 ATTAGATATTTTATCAA
460779 A-TAGATATTTTATCAA
1 ATTAGATATTTTATCAA
460795 A
1 A
460796 AAATATTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 10 0.38
15 2 0.08
16 2 0.08
17 12 0.46
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (17 bp):
ATTAGATATTTTATCAA
Found at i:463080 original size:16 final size:16
Alignment explanation
Indices: 463061--463092 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
463051 GGCTTTGTTA
463061 GTGCTGAGGAAGAGAG
1 GTGCTGAGGAAGAGAG
463077 GTGCTGAGGAAGAGAG
1 GTGCTGAGGAAGAGAG
463093 ATACTGTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.50, T:0.12
Consensus pattern (16 bp):
GTGCTGAGGAAGAGAG
Found at i:471320 original size:20 final size:20
Alignment explanation
Indices: 471297--471339 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
471287 AATCCACCAC
*
471297 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
471317 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
471337 ATG
1 ATG
471340 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:476272 original size:20 final size:20
Alignment explanation
Indices: 476249--476291 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
476239 AATCCACCAC
*
476249 ATGCAACTATATGCTCCTAA
1 ATGCAACTAAATGCTCCTAA
* *
476269 ATGCATCTAAATGGTCCTAA
1 ATGCAACTAAATGCTCCTAA
476289 ATG
1 ATG
476292 GGCTCTTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (20 bp):
ATGCAACTAAATGCTCCTAA
Found at i:480100 original size:32 final size:33
Alignment explanation
Indices: 480032--480100 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 33
480022 ACCTGACCCG
* *
480032 AATATCACACTTAAAAAAACCAGACTCGACCCA
1 AATATCACACTTAAAAAAACCAGACTCGAACAA
*
480065 AATATCACACTT-AAAAAACCCGAC-CGGAACAA
1 AATATCACACTTAAAAAAACCAGACTC-GAACAA
480097 AATA
1 AATA
480101 AAGTTTCATC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 1 0.03
32 19 0.59
33 12 0.38
ACGTcount: A:0.51, C:0.28, G:0.07, T:0.14
Consensus pattern (33 bp):
AATATCACACTTAAAAAAACCAGACTCGAACAA
Found at i:480431 original size:211 final size:206
Alignment explanation
Indices: 480082--480480 Score: 595
Period size: 211 Copynumber: 1.9 Consensus size: 206
480072 CACTTAAAAA
* * *
480082 ACCCGACCGGAACAAAATAAAGTTTCATCTGACCCGACCCGAATATATGAATTAGAAATTCGAAC
1 ACCCGACCCGAACAAAATAAAGTTTCA-CT-A-CCGACCCAAATATATGAATTAGAAATCCGAAC
*
480147 CGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAATAGTGACTTAATCCGACCCGACCCA
63 CGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAGAGTGACTTAATCCGACCCGACCCA
* *
480212 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAGCCCGAACCCGACCCGAATATC
128 AATTATATATATTTTCGAGTCGGTCCGA-TTTTTT-ACCCTAAACCCGAACCCGACCCGAATATC
480277 TCACTTAAAAAACCTG
191 TCACTTAAAAAACCTG
480293 ACCCGACCCGAACAAAATAAAGTTTCA-T-CCGACCCAAATATATGAATTAGAAATCCAACCCGA
1 ACCCGACCCGAACAAAATAAAGTTTCACTACCGACCCAAATATATGAATTAGAAAT-----CCGA
* *
480356 CCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAGAGTGACTTAATCCGATCCGACC
61 ACCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAGAGTGACTTAATCCGACCCGACC
** *
480421 TGAATTATATATATTTTCGAGTCGGTCTGATTTTTTACCCTAAACCCGAACCCGACCCGA
126 CAAATTATATATATTTTCGAGTCGGTCCGATTTTTTACCCTAAACCCGAACCCGACCCGA
480481 CCCGAATATA
Statistics
Matches: 172, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
206 25 0.15
209 24 0.14
210 6 0.03
211 117 0.68
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (206 bp):
ACCCGACCCGAACAAAATAAAGTTTCACTACCGACCCAAATATATGAATTAGAAATCCGAACCGA
CCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAGAGTGACTTAATCCGACCCGACCCAAAT
TATATATATTTTCGAGTCGGTCCGATTTTTTACCCTAAACCCGAACCCGACCCGAATATCTCACT
TAAAAAACCTG
Found at i:480550 original size:211 final size:211
Alignment explanation
Indices: 480146--480531 Score: 519
Period size: 211 Copynumber: 1.8 Consensus size: 211
480136 GAAATTCGAA
*
480146 CCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAATAGTGACTTAATCCGACCCGACCC
1 CCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAGAGTGACTTAATCCGACCCGACCC
* *
480211 AAATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAGCCCGAACCCGACCCGAATAT
66 AAATTATATATATTTTCGAGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGAATAT
* * * ***** *
480276 CTCACTTAAAAAACCTGACCCGACCCGAACAAAATAAAGTTTCATCCGACCCAAATATATGAATT
131 ATCAATTAAAAAACCCGACCCGACCCGAACAAAATAAAAAAAAATCCGACCCAAACATATGAATT
480341 AGAAATCCAACCCGAC
196 AGAAATCCAACCCGAC
* *
480357 CCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAGAGTGACTTAATCCGATCCGACCT
1 CCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAGAGTGACTTAATCCGACCCGACCC
* *
480422 GAATTATATATATTTTCGAGTCGGTCTGA-TTTTTT-ACCCTAAACCCGAACCCGACCCGACCCG
66 AAATTATATATATTTTCGAGTCGGTCCGATTTTTTTCACCCTAAACCCG-A----ACCCGACCCG
* * * *
480485 AATATATGAATT-AGAAACCCGACCTGACCCGAA-ATAATAAAAAAAAA
126 AATATATCAATTAAAAAACCCGACCCGACCCGAACAAAATAAAAAAAAA
480532 ATTTATTCAA
Statistics
Matches: 151, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
209 11 0.07
210 7 0.05
211 88 0.58
212 8 0.05
213 18 0.12
214 19 0.13
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.25
Consensus pattern (211 bp):
CCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAAGAGTGACTTAATCCGACCCGACCC
AAATTATATATATTTTCGAGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGAATAT
ATCAATTAAAAAACCCGACCCGACCCGAACAAAATAAAAAAAAATCCGACCCAAACATATGAATT
AGAAATCCAACCCGAC
Found at i:486021 original size:60 final size:61
Alignment explanation
Indices: 485942--486080 Score: 165
Period size: 61 Copynumber: 2.3 Consensus size: 61
485932 GTTTGGAATA
* * * *
485942 AAATTAGAATGTTCAAAAAGTTTGA-GATTGATTTAGAATGA-AGGTCATAGTTTAAGGACG
1 AAATTAAAATATTCAAAAAGTTTGAGGACTAATTTAGAATGATA-GTCATAGTTTAAGGACG
* * ** *
486002 AAATTGAAATATTCAAAAAGTTTGAGGACTAATTTAGAATGATAGTTATAGTTTGGGGATG
1 AAATTAAAATATTCAAAAAGTTTGAGGACTAATTTAGAATGATAGTCATAGTTTAAGGACG
*
486063 AAATTAAAATATTTAAAA
1 AAATTAAAATATTCAAAA
486081 GTTCATAGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
60 22 0.33
61 43 0.65
62 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (61 bp):
AAATTAAAATATTCAAAAAGTTTGAGGACTAATTTAGAATGATAGTCATAGTTTAAGGACG
Found at i:491479 original size:6 final size:6
Alignment explanation
Indices: 491468--491494 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
491458 TAATTACAAA
491468 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
491495 AATTCAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:492920 original size:11 final size:11
Alignment explanation
Indices: 492900--492947 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
492890 TTGTTGTGCA
*
492900 AAAATGTTAAT
1 AAAATATTAAT
492911 AAAATATTAAT
1 AAAATATTAAT
*
492922 AAAATAATAAT
1 AAAATATTAAT
492933 AATAAT-TTATAT
1 AA-AATATTA-AT
492945 AAA
1 AAA
492948 TGTATATTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 25 0.78
12 7 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAATATTAAT
Found at i:493748 original size:106 final size:105
Alignment explanation
Indices: 493558--493925 Score: 486
Period size: 106 Copynumber: 3.5 Consensus size: 105
493548 TATTGTTTCG
* * * * * * * **
493558 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTATGGAACTGGGAAATTATTTGTTAACAGC
1 AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAGTTGTTTGTTGACAAT
* *
493623 CAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCT
66 CAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT-T
* * * * * *
493664 TGTCTAATATCTTTTGCTGTGAAGTTGAAATTGACTCTGAAACTGAGAAGTTGTTTGTTGACAAT
1 AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAGTTGTTTGTTGACAAT
*
493729 CAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTGG
66 CAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT-T
*
493770 AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAGTTGTTTGTTGAC-AT
1 AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAGTTGTTTGTTGACAAT
* *
493834 CCAGCAGCCCCTTCGTTGTGAAGTTGAGTTTGTGTTGTCTT
66 -CAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
* *
493875 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAG
1 -AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAG
493926 CCCCTTCGTC
Statistics
Matches: 228, Mismatches: 32, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
105 2 0.01
106 226 0.99
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAGTTGTTTGTTGACAAT
CAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
Found at i:495728 original size:27 final size:27
Alignment explanation
Indices: 495668--495719 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 27
495658 TTTTTCTTCA
495668 CTTTTTCCTTTGTTTTGGTTTCTCTTTG
1 CTTTTTCCTTTGTTTT-GTTTCTCTTTG
495696 CTTTTT-CTTTGTTTT-TTTCTCTTT
1 CTTTTTCCTTTGTTTTGTTTCTCTTT
495720 TTTCTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 9 0.38
27 9 0.38
28 6 0.25
ACGTcount: A:0.00, C:0.17, G:0.10, T:0.73
Consensus pattern (27 bp):
CTTTTTCCTTTGTTTTGTTTCTCTTTG
Found at i:500879 original size:43 final size:42
Alignment explanation
Indices: 500819--500903 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 42
500809 TCGAAACTCA
*
500819 CTGCTTGTGCTAGTATTGCTCTTGAATTGCGTAGGTAATATT
1 CTGCTTGTGCCAGTATTGCTCTTGAATTGCGTAGGTAATATT
*
500861 CTGCTTTGTGCCAGTATTGCTCTTGAATTGCGTAGGTGATATT
1 CTGC-TTGTGCCAGTATTGCTCTTGAATTGCGTAGGTAATATT
500904 GTTGAAAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 4 0.10
43 36 0.90
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.42
Consensus pattern (42 bp):
CTGCTTGTGCCAGTATTGCTCTTGAATTGCGTAGGTAATATT
Found at i:501418 original size:55 final size:54
Alignment explanation
Indices: 501359--501859 Score: 352
Period size: 55 Copynumber: 9.2 Consensus size: 54
501349 GTCAGGATAA
* * *
501359 ATAAGACTTGAAAAATCTTCAAATGACGAGCCTGCTCCCTATTCCTTCAG-GAAGT
1 ATAAGACTCGAAAAATCTTCAAA-AACGAGCCTGCTCTCTATTCCTTCAGAG-AGT
* * * * *
501414 ATAAGACTCGAACAATCTTCATAAAATGTGTCTGCTCTCTATTCATTCAGAGAGT
1 ATAAGACTCGAAAAATCTTCA-AAAACGAGCCTGCTCTCTATTCCTTCAGAGAGT
* * * *
501469 ATAAGACTTGAACAATCTTCAATAAAACGGGCCCGCTCTCTATTCCTTCAGAGAGT
1 ATAAGACTCGAAAAATCTTC-A-AAAACGAGCCTGCTCTCTATTCCTTCAGAGAGT
* * *
501525 AT-AGAACTCGAAAAATCTTCAATAAAC-AGGTCAGCTCTCTATTCTTTCAGAGAGT
1 ATAAG-ACTCGAAAAATCTTCAA-AAACGA-GCCTGCTCTCTATTCCTTCAGAGAGT
* * * *
501580 ATAGGACTC----AATCTTTAACAAAC-ATG-TTCGCTCCCTATTCCTTCAGAGAGT
1 ATAAGACTCGAAAAATCTTCAA-AAACGA-GCCT-GCTCTCTATTCCTTCAGAGAGT
** ** *
501631 AT-AGAACTCGAGCAATCTTCATAAAACG-GGTTCGCTCTCTATTCCTTCAGAAAGT
1 ATAAG-ACTCGAAAAATCTTCA-AAAACGAGCCT-GCTCTCTATTCCTTCAGAGAGT
* *
501686 AT-AGAACTCGAACAATCTTCAACAAACGTGTCC-GCTCTCTATTCCTTCAGAGAGT
1 ATAAG-ACTCGAAAAATCTTCAA-AAACGAG-CCTGCTCTCTATTCCTTCAGAGAGT
* * *
501741 AT-AGAACTCGAACAATCTTCATGAAACGGGTCC-GCTCTCTATTCCTTCAGAGAGT
1 ATAAG-ACTCGAAAAATCTTCA-AAAACGAG-CCTGCTCTCTATTCCTTCAGAGAGT
* * ** * *
501796 AT-AGAACTCGAACAATCTTCAACGAACTTGTCC-GCTCCCTATTCATTCAGAGAGT
1 ATAAG-ACTCGAAAAATCTTCAA-AAACGAG-CCTGCTCTCTATTCCTTCAGAGAGT
*
501851 ATAGGACTC
1 ATAAGACTC
501860 AATCTTCAAC
Statistics
Matches: 379, Mismatches: 45, Indels: 44
0.81 0.10 0.09
Matches are distributed among these distances:
50 1 0.00
51 40 0.11
54 3 0.01
55 283 0.75
56 52 0.14
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (54 bp):
ATAAGACTCGAAAAATCTTCAAAAACGAGCCTGCTCTCTATTCCTTCAGAGAGT
Found at i:501681 original size:161 final size:162
Alignment explanation
Indices: 501447--501874 Score: 521
Period size: 161 Copynumber: 2.6 Consensus size: 162
501437 AAATGTGTCT
* * *
501447 GCTCTCTATTCATTCAGAGAGTATA-AGACTTGAACAATCTTCAATAAAACGGGCCCGCTCTCTA
1 GCTCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTC-ATAAAACGGGTCCGCTCTCTA
* *
501511 TTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAG-GTCAGCTCTCTATTCTTTCAG
64 TTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAACAAAC-GTGTCAGCTCTCTATTCCTTCAG
* * * *
501575 AGAGTATAGGACT-CAATCTTTAACAAACATGTTC
128 AGAGTATAGAACTACAATCTTCAACAAACAGGTCC
* * *
501609 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAGCAATCTTCATAAAACGGGTTCGCTCTCTATT
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATT
* * *
501674 CCTTCAGAAAGTATAGAACTCGAACAATCTTCAACAAACGTGTCCGCTCTCTATTCCTTCAGAGA
66 CCTTCAGAGAGTATAGAACTCGAAAAATCTTCAACAAACGTGTCAGCTCTCTATTCCTTCAGAGA
** *
501739 GTATAGAACTCGAACAATCTTCATGAAACGGGTCC
131 GTATAGAACT---ACAATCTTCAACAAACAGGTCC
* ** *
501774 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCA-ACGAACTTGTCCGCTCCCTAT
1 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGCTCTCTAT
* *
501838 TCATTCAGAGAGTATAGGACTC----AATCTTCAACAAACG
65 TCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAACAAACG
501875 AGTTTGCTTC
Statistics
Matches: 231, Mismatches: 28, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
160 1 0.00
161 103 0.45
162 36 0.16
163 1 0.00
164 1 0.00
165 89 0.39
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (162 bp):
GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATT
CCTTCAGAGAGTATAGAACTCGAAAAATCTTCAACAAACGTGTCAGCTCTCTATTCCTTCAGAGA
GTATAGAACTACAATCTTCAACAAACAGGTCC
Found at i:501747 original size:110 final size:110
Alignment explanation
Indices: 501392--501859 Score: 594
Period size: 110 Copynumber: 4.3 Consensus size: 110
501382 TGACGAGCCT
* * *
501392 GCTCCCTATTCCTTCAG-GAAGTATA-AGACTCGAACAATCTTCATAAAATGTGTCTGCTCTCTA
1 GCTCCCTATTCCTTCAGAG-AGTATAGA-ACTCGAACAATCTTCATAAAACGGGTCAGCTCTCTA
* * * * *
501455 TTCATTCAGAGAGTATA-AGACTTGAACAATCTTCAATAAAACGGGCCC
64 TTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAA-CAAACGTGTCC
* * *
501503 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCA-ATAAACAGGTCAGCTCTCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCAGCTCTCTAT
* * * * *
501567 TCTTTCAGAGAGTATAGGACT----CAATCTTTAACAAACATGTTC
65 TCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCC
*
501609 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAGCAATCTTCATAAAACGGGTTC-GCTCTCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGG-TCAGCTCTCTAT
*
501673 TCCTTCAGAAAGTATAGAACTCGAACAATCTTCAACAAACGTGTCC
65 TCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCC
* * *
501719 GCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATGAAACGGGTCCGCTCTCTATT
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCAGCTCTCTATT
* *
501784 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAACGAACTTGTCC
66 CCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCC
* *
501829 GCTCCCTATTCATTCAGAGAGTATAGGACTC
1 GCTCCCTATTCCTTCAGAGAGTATAGAACTC
501860 AATCTTCAAC
Statistics
Matches: 313, Mismatches: 33, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
106 79 0.25
107 12 0.04
109 2 0.01
110 148 0.47
111 70 0.22
112 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (110 bp):
GCTCCCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCAGCTCTCTATT
CCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGTGTCC
Found at i:501875 original size:55 final size:52
Alignment explanation
Indices: 501425--501874 Score: 417
Period size: 55 Copynumber: 8.3 Consensus size: 52
501415 TAAGACTCGA
* * *
501425 ACAATCTTCATA-AAATGTGTCTGCTCTCTATTCATTCAGAGAGTATA-AGACTT
1 ACAATCTTCA-ACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGTATAGA-AC-T
* * *
501478 GAACAATCTTCAATAAAACGGGCCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
1 --ACAATCTTCAA-CAAACGTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
* * * * *
501533 CGAAAAATCTTCAATAAACAG-GTCAGCTCTCTATTCTTTCAGAGAGTATAGGACT
1 ---ACAATCTTCAACAAAC-GTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
* * * *
501588 -CAATCTTTAACAAACATGTTCGCTCCCTATTCCTTCAGAGAGTATAGAACT
1 ACAATCTTCAACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
* * *
501639 CGAGCAATCTTCATA-AAACGGGTTCGCTCTCTATTCCTTCAGAAAGTATAGAACT
1 --A-CAATCTTCA-ACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
501694 CGAACAATCTTCAACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
1 ---ACAATCTTCAACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
** *
501749 CGAACAATCTTCATGAAACGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
1 ---ACAATCTTCAACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
* * * * *
501804 CGAACAATCTTCAACGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACT
1 ---ACAATCTTCAACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
501859 -CAATCTTCAACAAACG
1 ACAATCTTCAACAAACG
501875 AGTTTGCTTC
Statistics
Matches: 339, Mismatches: 43, Indels: 30
0.82 0.10 0.07
Matches are distributed among these distances:
51 55 0.16
54 2 0.01
55 234 0.69
56 47 0.14
57 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (52 bp):
ACAATCTTCAACAAACGTGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACT
Done.