Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008241.1 Hibiscus syriacus cultivar Beakdansim tig00110889_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: 1355325
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:187608 original size:23 final size:23
Alignment explanation
Indices: 187582--187627 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
187572 AATGCAAATT
187582 AATGAATCTATGAAATCTTTAAC
1 AATGAATCTATGAAATCTTTAAC
187605 AATGAATCTATGAAATCTTTAAC
1 AATGAATCTATGAAATCTTTAAC
187628 GTGATTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (23 bp):
AATGAATCTATGAAATCTTTAAC
Found at i:190582 original size:29 final size:27
Alignment explanation
Indices: 190531--190607 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 27
190521 AAATATATAA
*
190531 AAAGTAAAATAATATAAAAT-AAAGGGGAAG
1 AAAG-AAAAAAATA-AAAATAAAAGGGG--G
190561 AAAGAAAAAAATAAAAAGTAAAAGGGGG
1 AAAGAAAAAAATAAAAA-TAAAAGGGGG
*
190589 AAATAAATAAAATAAAAAT
1 AAAGAAA-AAAATAAAAAT
190608 GGAATAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 12 0.29
29 19 0.45
30 11 0.26
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (27 bp):
AAAGAAAAAAATAAAAATAAAAGGGGG
Found at i:192478 original size:105 final size:105
Alignment explanation
Indices: 192287--192948 Score: 999
Period size: 105 Copynumber: 6.3 Consensus size: 105
192277 GTATTGTTCC
* * ** * * * * * *
192287 GAGTCCAATACCCTCCACTGTGAAGTTGAAACTGGTTCTGGAACTGGGAAATCGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT-GTTTGTTGACAA
* *
192352 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
192393 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
192458 CAGCGGCCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
192497 GAGTCCAATATCCTTCGTTGTGAAGTTGAGATTGGCTCTGAAATTGATAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
192562 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** * ** *
192602 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG--GGTAAGACCTGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
192665 CAGCGGTCCCTTCAG-CGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTC-GTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
192705 GAGTCCAATGTCATTCGTTGTGAAGTTGAAATTGGCTCTGTATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
192770 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
192810 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGTATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
*
192875 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
192915 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTG
192949 ACTTTGGGTA
Statistics
Matches: 511, Mismatches: 40, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
103 91 0.18
104 102 0.20
105 276 0.54
106 42 0.08
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:203188 original size:14 final size:15
Alignment explanation
Indices: 203156--203194 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
203146 AAATGTTAGT
*
203156 AAAATAGAAATAAATA
1 AAAATA-AATTAAATA
203172 AAAATAAATTAAA-A
1 AAAATAAATTAAATA
203186 AAAATAAAT
1 AAAATAAAT
203195 GGTAAAGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 6 0.27
16 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAATAAATTAAATA
Found at i:204635 original size:2 final size:2
Alignment explanation
Indices: 204630--204676 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
204620 ATACTGTATC
204630 TA TA TA TA TA T- TA TA TA TA TA TA TA TA -A TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
204669 TA TA TA TA
1 TA TA TA TA
204677 ATTACATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:211063 original size:221 final size:219
Alignment explanation
Indices: 210682--211121 Score: 846
Period size: 221 Copynumber: 2.0 Consensus size: 219
210672 AAGAAGAATT
210682 ACAGGCTTAATACATTCAAGTTCATCATAATAAAACCAACAGGTTGGGTCTCGACAAAACTCATT
1 ACAGGCTTAATACATTCAAGTTCATCATAATAAAACCAACAGGTTGGGTCTCGACAAAACTCATT
210747 AAGCATGCGTATGAGCAACACGATTAGCATATGTATTAACATACAACACTTTCAAATCCTGTTAG
66 AAGCATGCGTATGAGCAACACGATTAGCATATGTATTAACATACAACACTTTCAAATCCTGTTAG
210812 CATTCAGCAACAAACGAACTTTGAATATATTCTGTTTATTGATCAAAGTGTGCTTCGCAACTAGG
131 CATTCAGCAACAAACGAACTTTGAATATATTCTGTTTATTGATCAAAGTGTGCTTCGCAACTAGG
210877 AATGGTCAAGTTATTTAAGTCTGA
196 AATGGTCAAGTTATTTAAGTCTGA
210901 ACAGGCTTAATACATTCAAGTTCATCATAATAAAACCAACAAGGTTTGGGTCTCGACAAAACTCA
1 ACAGGCTTAATACATTCAAGTTCATCATAATAAAACCAAC-AGG-TTGGGTCTCGACAAAACTCA
210966 TTAAGCATGCGTATGAGCAACACGATTAGCATATGTATTAA-ATACAACACTTTCAAATCCTTGT
64 TTAAGCATGCGTATGAGCAACACGATTAGCATATGTATTAACATACAACACTTTCAAATCC-TGT
211030 TAGCATTCAGCAACAAACGAACTTTGAATATATTCTGTTTATTGATCAAAGTGTGCTTCGCAACT
128 TAGCATTCAGCAACAAACGAACTTTGAATATATTCTGTTTATTGATCAAAGTGTGCTTCGCAACT
211095 AGGAATGGTCAAGTTATTTAAGTCTGA
193 AGGAATGGTCAAGTTATTTAAGTCTGA
211122 CTAGTTTTTA
Statistics
Matches: 218, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
219 40 0.18
220 22 0.10
221 156 0.72
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (219 bp):
ACAGGCTTAATACATTCAAGTTCATCATAATAAAACCAACAGGTTGGGTCTCGACAAAACTCATT
AAGCATGCGTATGAGCAACACGATTAGCATATGTATTAACATACAACACTTTCAAATCCTGTTAG
CATTCAGCAACAAACGAACTTTGAATATATTCTGTTTATTGATCAAAGTGTGCTTCGCAACTAGG
AATGGTCAAGTTATTTAAGTCTGA
Found at i:213935 original size:72 final size:71
Alignment explanation
Indices: 213759--213993 Score: 329
Period size: 72 Copynumber: 3.3 Consensus size: 71
213749 CAAGCCCCAG
213759 ATGATTGTGCCAGCCATCATGATCACC-TGGACCATGGACATAAACATGAACATG--C-TAGTCA
1 ATGATTGTGCCA-CCATCATGATCACCAT-GACCATGGACATAAACATGAACATGCTCATAGTCA
213820 TGACAACC
64 TGACAACC
* * * * *
213828 ATGATTCTGCCATCATCATGGTCACCATGACCATGGACATGAACGTGAACATGCTCATAGTCATG
1 ATGATTGTGCCACCATCATGATCACCATGACCATGGACATAAACATGAACATGCTCATAGTCATG
213893 ACAACC
66 ACAACC
*
213899 ATGATTGTGCCCACCATCATGATCACCATGACCATGGACATAAACATGATCATGCTCATAGTCAT
1 ATGATTGTG-CCACCATCATGATCACCATGACCATGGACATAAACATGAACATGCTCATAGTCAT
*
213964 GACCACC
65 GACAACC
213971 -TGA-TGTGCCCACCATCATGATCA
1 ATGATTGTG-CCACCATCATGATCA
213994 AGGCCTGCAC
Statistics
Matches: 149, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
68 35 0.23
69 12 0.08
70 21 0.14
71 25 0.17
72 56 0.38
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (71 bp):
ATGATTGTGCCACCATCATGATCACCATGACCATGGACATAAACATGAACATGCTCATAGTCATG
ACAACC
Found at i:220154 original size:13 final size:13
Alignment explanation
Indices: 220136--220163 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
220126 CGCATATGAT
220136 ATTAATGATATTA
1 ATTAATGATATTA
220149 ATTAATGATATTA
1 ATTAATGATATTA
220162 AT
1 AT
220164 GACTGCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATGATATTA
Found at i:221050 original size:21 final size:21
Alignment explanation
Indices: 221021--221075 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
221011 ATTCTGACTA
221021 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
221042 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
221063 TCGCAATGCGATT
1 TCGCATTGCGATT
221076 ACGTAAATTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:221090 original size:20 final size:20
Alignment explanation
Indices: 221060--221128 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
221050 CGATTTTCCT
*
221060 AATTCGCAATGCGATTACGTA
1 AATT-GCAATGCGAATACGTA
221081 AATTGCAATGCGAATACGTA
1 AATTGCAATGCGAATACGTA
*
221101 AATCGCAATGCGAAT-CTGTA
1 AATTGCAATGCGAATAC-GTA
*
221121 AATCGCAA
1 AATTGCAA
221129 CGAGATTCTG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
19 1 0.02
20 40 0.89
21 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (20 bp):
AATTGCAATGCGAATACGTA
Found at i:221138 original size:20 final size:20
Alignment explanation
Indices: 221098--221138 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
221088 ATGCGAATAC
* *
221098 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGAGAATCT
*
221118 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
221138 G
1 G
221139 ACTATCGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:221587 original size:20 final size:20
Alignment explanation
Indices: 221562--221735 Score: 190
Period size: 20 Copynumber: 8.6 Consensus size: 20
221552 CTTTAAAAAT
221562 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
221582 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
221602 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * * *
221623 AGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
221643 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
221663 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
221683 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
221703 TGTCGTTGCGATTTTACGGATA
1 CG-CGTTGCGA-TTTACGGATA
*
221725 CTCGTTGCGAT
1 CGCGTTGCGAT
221736 AGTCAGAATC
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
20 78 0.61
21 50 0.39
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:221756 original size:82 final size:81
Alignment explanation
Indices: 221564--221796 Score: 208
Period size: 81 Copynumber: 2.9 Consensus size: 81
221554 TTAAAAATCG
* * * * * ** ** *
221564 CGTTGCGATTTACGGATACGCGTTGCGATTT-TACGTATTGTCGTTGCGATTTACGGATAAGCAT
1 CGTTGCGATGTACAGATACGCGTTGCGATTTATAGGTA-CG-CGTTGCGATTTTCATATTCGCGT
* *
221628 TGCGA-TTTACGTATTCT
64 TGCGATTTTACGGATACT
* * *
221645 CGTTGCGATTTACAGATACGCGTTGCGATTTA-CGGATACGCGTTGCGATTTTACGTATT-GTCG
1 CGTTGCGATGTACAGATACGCGTTGCGATTTATAGG-TACGCGTTGCGATTTT-CATATTCG-CG
221708 TTGCGATTTTACGGATACT
63 TTGCGATTTTACGGATACT
* *
221727 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGTTCGCGTTGCGATTTTCATATTCGCGT
1 CGTTGCGAT-GTACAGATA-CGCGTTGCGATTTATAGGTACGCGTTGCGATTTTCATATTCGCGT
221790 TGCGATT
64 TGCGATT
221797 CTGGAAAATC
Statistics
Matches: 128, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
80 12 0.09
81 59 0.46
82 55 0.43
83 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (81 bp):
CGTTGCGATGTACAGATACGCGTTGCGATTTATAGGTACGCGTTGCGATTTTCATATTCGCGTTG
CGATTTTACGGATACT
Found at i:221767 original size:20 final size:20
Alignment explanation
Indices: 221744--221796 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
221734 ATAGTCAGAA
*
221744 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
221764 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
221784 TCGCGTTGCGATT
1 TCGCGTTGCGATT
221797 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:221788 original size:40 final size:41
Alignment explanation
Indices: 221562--221796 Score: 144
Period size: 40 Copynumber: 5.8 Consensus size: 41
221552 CTTTAAAAAT
* * * *
221562 CGCGTTGCGATTTACGGATACGCGTTGCGATTT-TACG-TA
1 CGCGTTGCGATTTTCAGATTCGCGTTGCGATTTATAGGATA
* * * ** * * * *
221601 TTGTCGTTGCGATTTACGGATAAGCATTGCGATTTA-CGTATT
1 -CG-CGTTGCGATTTTCAGATTCGCGTTGCGATTTATAGGATA
* * * *
221643 CTCGTTGCGATTTACAGATACGCGTTGCGATTTA-CGGATA
1 CGCGTTGCGATTTTCAGATTCGCGTTGCGATTTATAGGATA
221683 CGCGTTGCGATTTT-ACGTATT-GTCGTTGCGATTT-TACGGATA
1 CGCGTTGCGATTTTCA-G-ATTCG-CGTTGCGATTTATA-GGATA
* ** * * *
221725 CTCGTTGCGATAGTCAGAATCGCGTTGCGATTTATATG-TT
1 CGCGTTGCGATTTTCAGATTCGCGTTGCGATTTATAGGATA
*
221765 CGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGCGTTGCGATTTTCAGATTCGCGTTGCGATT
221797 CTGGAAAATC
Statistics
Matches: 155, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
39 1 0.01
40 76 0.49
41 56 0.36
42 21 0.14
43 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (41 bp):
CGCGTTGCGATTTTCAGATTCGCGTTGCGATTTATAGGATA
Found at i:230033 original size:24 final size:24
Alignment explanation
Indices: 229993--230041 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
229983 TTTTTTATAT
*
229993 ATAATAATATTACATATTTAATTA
1 ATAATAATATTACATATTAAATTA
* *
230017 ATAATAATTTTATATATTAAATTA
1 ATAATAATATTACATATTAAATTA
230041 A
1 A
230042 ACTAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
ATAATAATATTACATATTAAATTA
Found at i:234676 original size:21 final size:22
Alignment explanation
Indices: 234650--234694 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
234640 CCATTCCTAA
234650 TCCAAGCAAATATT-TTTCTTT
1 TCCAAGCAAATATTATTTCTTT
* * *
234671 TCCAAGTAACTCTTATTTCTTT
1 TCCAAGCAAATATTATTTCTTT
234693 TC
1 TC
234695 TTTCTTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.49
Consensus pattern (22 bp):
TCCAAGCAAATATTATTTCTTT
Found at i:237648 original size:21 final size:21
Alignment explanation
Indices: 237624--237663 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
237614 TTTATTTTAT
237624 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
237645 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
237664 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:237711 original size:33 final size:33
Alignment explanation
Indices: 237658--237756 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
237648 TTTGTTTCAA
237658 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
237690 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
237723 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
237756 T
1 T
237757 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:237785 original size:13 final size:13
Alignment explanation
Indices: 237742--237796 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
237732 TTGGAAGTAT
237742 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
237755 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
237769 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
237782 TTAAGTATTTGAA
1 TTAAGTATTTCAA
237795 TT
1 TT
237797 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:238231 original size:17 final size:18
Alignment explanation
Indices: 238211--238244 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
238201 GTTTTTTTAT
238211 AACCG-GTTTTTTAAAAA
1 AACCGAGTTTTTTAAAAA
*
238228 AACCGATTTTTTTAAAA
1 AACCGAGTTTTTTAAAA
238245 CCGAAACCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (18 bp):
AACCGAGTTTTTTAAAAA
Found at i:238244 original size:15 final size:15
Alignment explanation
Indices: 238192--238248 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
238182 ATCTGGAATA
* *
238192 TTAAAATCGGTTTTT
1 TTAAAACCGATTTTT
* *
238207 TTATAACCGGTTTTT
1 TTAAAACCGATTTTT
*
238222 TAAAAAAACCGATTTTT
1 T--TAAAACCGATTTTT
238239 TTAAAACCGA
1 TTAAAACCGA
238249 AACCGGTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 22 0.65
17 12 0.35
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (15 bp):
TTAAAACCGATTTTT
Found at i:238364 original size:15 final size:17
Alignment explanation
Indices: 238338--238369 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
238328 TTCTATGGGA
238338 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
238354 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
238370 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:238702 original size:15 final size:15
Alignment explanation
Indices: 238684--238713 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
238674 TATATCATTG
238684 CGAAGAATATAAAAA
1 CGAAGAATATAAAAA
*
238699 CGAAGCATATAAAAA
1 CGAAGAATATAAAAA
238714 TTTGTGGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.10, G:0.13, T:0.13
Consensus pattern (15 bp):
CGAAGAATATAAAAA
Found at i:245788 original size:27 final size:27
Alignment explanation
Indices: 245749--245816 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
245739 TTGTAGGAAT
245749 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
*
245774 TATAGATATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
245801 TATAGAGATATGATTT
1 TATAGAGATATGATTT
245817 TGTAAATAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
25 6 0.15
27 33 0.85
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.43
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:249553 original size:27 final size:27
Alignment explanation
Indices: 249517--249608 Score: 166
Period size: 27 Copynumber: 3.4 Consensus size: 27
249507 TAGGAATTAT
249517 AGAGATGATTTGTTACCATTCCTATAG
1 AGAGATGATTTGTTACCATTCCTATAG
* *
249544 ATATATGATTTGTTACCATTCCTATAG
1 AGAGATGATTTGTTACCATTCCTATAG
249571 AGAGATGATTTGTTACCATTCCTATAG
1 AGAGATGATTTGTTACCATTCCTATAG
249598 AGAGATGATTT
1 AGAGATGATTT
249609 TGTAAAGAGA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (27 bp):
AGAGATGATTTGTTACCATTCCTATAG
Found at i:249847 original size:20 final size:20
Alignment explanation
Indices: 249822--249914 Score: 109
Period size: 20 Copynumber: 4.7 Consensus size: 20
249812 TTTTCCTAAT
249822 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
249842 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
** *
249862 TCGCAACACGAAT-C-TGACTA
1 TCGCAATGCGAATACGT-A-AA
249882 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
249902 TCGCAACGCGAAT
1 TCGCAATGCGAAT
249915 CTGACTATCG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 55 0.92
21 2 0.03
22 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:249885 original size:40 final size:40
Alignment explanation
Indices: 249841--249932 Score: 166
Period size: 40 Copynumber: 2.3 Consensus size: 40
249831 GAATACGTAA
*
249841 ATCGCAATGCGAATATGTAAATCGCAACACGAATCTGACT
1 ATCGCAATGCGAATACGTAAATCGCAACACGAATCTGACT
*
249881 ATCGCAATGCGAATACGTAAATCGCAACGCGAATCTGACT
1 ATCGCAATGCGAATACGTAAATCGCAACACGAATCTGACT
249921 ATCGCAATGCGA
1 ATCGCAATGCGA
249933 TTTACATAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.21
Consensus pattern (40 bp):
ATCGCAATGCGAATACGTAAATCGCAACACGAATCTGACT
Found at i:249924 original size:20 final size:20
Alignment explanation
Indices: 249861--249932 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
249851 GAATATGTAA
*
249861 ATCGCAACACGAATCTGACT
1 ATCGCAACGCGAATCTGACT
* *
249881 ATCGCAATGCGAATAC-GTA-A
1 ATCGCAACGCGAAT-CTG-ACT
249901 ATCGCAACGCGAATCTGACT
1 ATCGCAACGCGAATCTGACT
*
249921 ATCGCAATGCGA
1 ATCGCAACGCGA
249933 TTTACATAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 2 0.05
20 38 0.90
21 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAATCTGACT
Found at i:250136 original size:22 final size:22
Alignment explanation
Indices: 250111--250176 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
250101 GGCGACATCC
250111 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
250133 GTCCCCATCTCCAACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* * *
250155 GTCTCCATCTCTGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
250177 TTCACGGTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:250539 original size:20 final size:20
Alignment explanation
Indices: 250514--250562 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
250504 GCGATTCTGT
*
250514 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATTCG
**
250534 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCAAATTCG
*
250554 TGTTGCGAT
1 CGTTGCGAT
250563 TTTCATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAATCAAATTCG
Found at i:250594 original size:21 final size:20
Alignment explanation
Indices: 250530--250606 Score: 100
Period size: 20 Copynumber: 3.8 Consensus size: 20
250520 GATAGTCAAA
* **
250530 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
250550 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
250570 TTCGTGTAGCGATTTTCATTT
1 TTCGTGTTGCGATTTTCA-TT
*
250591 TTCGTGTTGCAATTTT
1 TTCGTGTTGCGATTTT
250607 AAGTTTCAGA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
20 34 0.68
21 16 0.32
ACGTcount: A:0.14, C:0.16, G:0.19, T:0.51
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:252416 original size:11 final size:11
Alignment explanation
Indices: 252396--252430 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
252386 AAGTTAGTAT
252396 TTGT-TTTTGG
1 TTGTCTTTTGG
252406 TTGTCTTTTGG
1 TTGTCTTTTGG
252417 TTGTCTTTTGG
1 TTGTCTTTTGG
252428 TTG
1 TTG
252431 AAGTAATGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.00, C:0.06, G:0.29, T:0.66
Consensus pattern (11 bp):
TTGTCTTTTGG
Found at i:252504 original size:20 final size:20
Alignment explanation
Indices: 252479--252530 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
252469 AGAATAGTTT
*
252479 ACTATCGCAATGCAAAAATG
1 ACTATCGCAACGCAAAAATG
*
252499 ACTATCGCAACGCGAAAATG
1 ACTATCGCAACGCAAAAATG
252519 ACTATCGCAACG
1 ACTATCGCAACG
252531 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.17
Consensus pattern (20 bp):
ACTATCGCAACGCAAAAATG
Found at i:252641 original size:23 final size:23
Alignment explanation
Indices: 252614--252659 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
252604 TAACTATCGC
* *
252614 AACGAAAGAATTGCAATGTGAAA
1 AACGAAAGAATCGCAATGCGAAA
252637 AACGAAAGAATCGCAATGCGAAA
1 AACGAAAGAATCGCAATGCGAAA
252660 TGAAAATCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.13, G:0.22, T:0.13
Consensus pattern (23 bp):
AACGAAAGAATCGCAATGCGAAA
Found at i:252710 original size:20 final size:20
Alignment explanation
Indices: 252685--252756 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 20
252675 GATTCTCTCG
*
252685 TTGCGATAGTCAAATTCGTA
1 TTGCGATAGTCAAATTCGCA
252705 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
252725 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
*
252745 TTGAGATAGTCA
1 TTGCGATAGTCA
252757 TTTTTGCGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:252757 original size:20 final size:20
Alignment explanation
Indices: 252709--252767 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
252699 TTCGTATTGC
** * *
252709 GATAGTCAAATTCGCATTGC
1 GATAGTCATTTTCGCGTTGA
252729 GATAGTCATTTTCGCGTTGA
1 GATAGTCATTTTCGCGTTGA
*
252749 GATAGTCATTTTTGCGTTG
1 GATAGTCATTTTCGCGTTG
252768 CGATTTTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (20 bp):
GATAGTCATTTTCGCGTTGA
Found at i:252769 original size:40 final size:40
Alignment explanation
Indices: 252683--252771 Score: 97
Period size: 40 Copynumber: 2.2 Consensus size: 40
252673 GCGATTCTCT
* *
252683 CGTTGCGATAGTCAAATTCGTATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCGCATTGAGATAGTCAAATTCG
* ** * ** *
252723 CATTGCGATAGTCATTTTCGCGTTGAGATAGTCATTTTTG
1 CGTTGCGATAGTCAAATTCGCATTGAGATAGTCAAATTCG
252763 CGTTGCGAT
1 CGTTGCGAT
252772 TTTAAGTTTC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (40 bp):
CGTTGCGATAGTCAAATTCGCATTGAGATAGTCAAATTCG
Found at i:253346 original size:21 final size:20
Alignment explanation
Indices: 253255--253359 Score: 68
Period size: 21 Copynumber: 5.0 Consensus size: 20
253245 AACTCACGTG
253255 TCATCGTTCAAGAGG-CCTCC
1 TCATCGTTCAAGAGGCCCT-C
* *
253275 CCTATCGTTCAAGAGGTCCCTA
1 TC-ATCGTTCAAGAGG-CCCTC
** *
253297 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAG-GCCCTC
* * *
253318 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCC-CTC
*
253339 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGG-CCCTC
253360 CCAACATTCT
Statistics
Matches: 62, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
20 3 0.05
21 53 0.85
22 3 0.05
23 3 0.05
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:253352 original size:42 final size:42
Alignment explanation
Indices: 253253--253362 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
253243 CCAACTCACG
* * *
253253 TGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGTCCC
1 TGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGTCCC
* **
253295 TATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGG-CCAC
1 TGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGTCC-C
*
253337 TGTCATCGTTGAAGAGGT-CCCTCCCA
1 TGTCATCGTTCAAGA-GTCCCCTCCCA
253363 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
41 4 0.07
42 49 0.89
43 2 0.04
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (42 bp):
TGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGTCCC
Found at i:254923 original size:14 final size:14
Alignment explanation
Indices: 254904--254957 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
254894 AGAAATGACT
254904 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
254918 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
254937 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
254951 ATCGCAA
1 ATCGCAA
254958 TACGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:254934 original size:33 final size:33
Alignment explanation
Indices: 254884--254979 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
254874 AAAACAGACT
* **
254884 ATCGCAACGCAGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
254918 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
254951 ATCGCAATACGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
254980 CGAAACTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:255057 original size:33 final size:33
Alignment explanation
Indices: 254994--255078 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
254984 ACTAAATTCG
*
254994 CGTTGCGATTTTCATTTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
*
255028 CGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
**
255061 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
255079 CGTGTTGCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 33 0.70
34 14 0.30
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:255105 original size:20 final size:20
Alignment explanation
Indices: 255061--255128 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
255051 GTGATTCTCT
255061 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
255081 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
255101 CGTT--G-T-G--ATTTCCG
1 CGTTGCGATAGTCATTTCCG
255115 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
255129 AATGAATGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 16
0.68 0.04 0.29
Matches are distributed among these distances:
13 2 0.05
14 8 0.21
16 2 0.05
17 2 0.05
18 2 0.05
20 20 0.53
21 2 0.05
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:257151 original size:14 final size:14
Alignment explanation
Indices: 257132--257158 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
257122 TCCCGTGGTA
257132 TTTTCTTTGGGGAC
1 TTTTCTTTGGGGAC
257146 TTTTCTTTGGGGA
1 TTTTCTTTGGGGA
257159 TTTCTTCTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.30, T:0.52
Consensus pattern (14 bp):
TTTTCTTTGGGGAC
Found at i:257389 original size:24 final size:24
Alignment explanation
Indices: 257355--257408 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
257345 CTGAAAAATC
257355 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
257379 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
257403 ATCAAA
1 ATCAAA
257409 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:258264 original size:20 final size:20
Alignment explanation
Indices: 258239--258305 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
258229 AAATTCAGTA
258239 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
*
258259 TTGCGATAGTCAAAATCTCG
1 TTGCGATAGTCAGAATCTCG
* *
258279 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
258299 TTGCGAT
1 TTGCGAT
258306 TTACGTATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:258315 original size:20 final size:20
Alignment explanation
Indices: 258292--258384 Score: 168
Period size: 20 Copynumber: 4.7 Consensus size: 20
258282 CGATAGTCAG
*
258292 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
258312 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
258332 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
258352 ATTCGCATTCCGATTTACGT
1 ATTCGCATTGCGATTTACGT
258372 ATTCGCATTGCGA
1 ATTCGCATTGCGA
258385 ATTAGGAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:258405 original size:21 final size:21
Alignment explanation
Indices: 258381--258426 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
258371 TATTCGCATT
*
258381 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCACAAC
* *
258402 GCGAATTTGGAAAATCACAAT
1 GCGAATTAGGAAAATCACAAC
258423 GCGA
1 GCGA
258427 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCACAAC
Found at i:260301 original size:15 final size:15
Alignment explanation
Indices: 260273--260303 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
260263 CGATTTTTTT
*
260273 AAAAAACCGGTTATA
1 AAAAAACCGATTATA
260288 AAAAAACCGATTATA
1 AAAAAACCGATTATA
260303 A
1 A
260304 TATTATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.13, G:0.10, T:0.19
Consensus pattern (15 bp):
AAAAAACCGATTATA
Found at i:260381 original size:32 final size:32
Alignment explanation
Indices: 260345--260421 Score: 127
Period size: 33 Copynumber: 2.4 Consensus size: 32
260335 ACAAAGTTTA
*
260345 CGATAATTGAAATACTTAAATACTTCCAAGTT
1 CGATAATTGAAATACTTAAAAACTTCCAAGTT
*
260377 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGAT-AATTGAAATACTTAAAAACTTCCAAGTT
260410 CGATAATTGAAA
1 CGATAATTGAAA
260422 CAAAGTTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 11 0.27
33 30 0.73
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (32 bp):
CGATAATTGAAATACTTAAAAACTTCCAAGTT
Found at i:260435 original size:21 final size:21
Alignment explanation
Indices: 260410--260451 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
260400 CTTCCAAGTT
*
260410 CGATAATTGAAACAAAGTTTA
1 CGATAATTAAAACAAAGTTTA
*
260431 CGATAATTAAAATAAAGTTTA
1 CGATAATTAAAACAAAGTTTA
260452 AAAATAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (21 bp):
CGATAATTAAAACAAAGTTTA
Found at i:262759 original size:12 final size:12
Alignment explanation
Indices: 262742--262781 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
262732 TTCGGATAAA
262742 AACCGGTTTTTT
1 AACCGGTTTTTT
262754 AACCGGTTTTTTT
1 AACCGG-TTTTTT
262767 CAAACCGGTTTTTT
1 --AACCGGTTTTTT
262781 A
1 A
262782 TCTGGTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.28
13 6 0.24
14 6 0.24
15 6 0.24
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (12 bp):
AACCGGTTTTTT
Found at i:262772 original size:15 final size:14
Alignment explanation
Indices: 262741--262780 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
262731 TTTCGGATAA
262741 AAACCGG-TTTTTT
1 AAACCGGTTTTTTT
262754 -AACCGGTTTTTTT
1 AAACCGGTTTTTTT
262767 CAAACCGGTTTTTT
1 -AAACCGGTTTTTT
262781 ATCTGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
15 12 0.50
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (14 bp):
AAACCGGTTTTTTT
Found at i:264337 original size:29 final size:28
Alignment explanation
Indices: 264288--264345 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
264278 ACTAAATATA
* *
264288 AAATTAAACTTTAATATTATAATTGAAG
1 AAATTAAACTTTAATAATATAATCGAAG
*
264316 AAATTAAAAGTTTAATAATATAATCGAAG
1 AAATT-AAACTTTAATAATATAATCGAAG
264345 A
1 A
264346 TGACTTTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (28 bp):
AAATTAAACTTTAATAATATAATCGAAG
Found at i:273993 original size:22 final size:22
Alignment explanation
Indices: 273963--274024 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
273953 GTGAAATTTA
*
273963 TCCCAAAGGACCTATGTATATG
1 TCCCGAAGGACCTATGTATATG
* *
273985 TCTCGAAGGACCTCTGTATATG
1 TCCCGAAGGACCTATGTATATG
274007 TCCCGAAGGACCTATGTA
1 TCCCGAAGGACCTATGTA
274025 ACCCTCGACT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (22 bp):
TCCCGAAGGACCTATGTATATG
Found at i:275572 original size:20 final size:21
Alignment explanation
Indices: 275544--275591 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
275534 AGAGTAGTAC
275544 CGATACTCTAG-GTTGGGTAT
1 CGATACTCTAGTGTTGGGTAT
*
275564 CGATGCTCTAGTGTTGGGTAT
1 CGATACTCTAGTGTTGGGTAT
275585 CGATACT
1 CGATACT
275592 GGACAGAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (21 bp):
CGATACTCTAGTGTTGGGTAT
Found at i:276112 original size:17 final size:17
Alignment explanation
Indices: 276073--276124 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
276063 TGAAAAAAGG
* *
276073 AAAATATATTAATATAAT
1 AAAATAGATAAATA-AAT
276091 AAAAATA-ATAAAATAAAT
1 -AAAATAGAT-AAATAAAT
276109 AAAATAGATAAATAAA
1 AAAATAGATAAATAAA
276125 GATAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 13 0.43
18 7 0.23
19 10 0.33
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAAATAGATAAATAAAT
Found at i:276114 original size:23 final size:23
Alignment explanation
Indices: 276083--276136 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
276073 AAAATATATT
*
276083 AATATAATAAAAATAATAAA-ATA
1 AATAAAATAAAAA-AATAAAGATA
* *
276106 AATAAAATAGATAAATAAAGATA
1 AATAAAATAAAAAAATAAAGATA
276129 AATAAAAT
1 AATAAAAT
276137 CTAGTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (23 bp):
AATAAAATAAAAAAATAAAGATA
Found at i:277345 original size:23 final size:24
Alignment explanation
Indices: 277301--277345 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
277291 AATAATAATA
*
277301 ATAATATAAAATATTTCCAAAATT
1 ATAATATAAAATATTTCAAAAATT
* *
277325 ATAATAT-ATATATTTTAAAAA
1 ATAATATAAAATATTTCAAAAA
277346 ATATTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATATAAAATATTTCAAAAATT
Found at i:277436 original size:37 final size:35
Alignment explanation
Indices: 277324--277675 Score: 311
Period size: 37 Copynumber: 9.6 Consensus size: 35
277314 TTTCCAAAAT
* *
277324 TATAATATATATATTTTAAAAAATATTTT-AAAACTA
1 TATATTATATATATTTT-AAAAATGTTTTCAAAAC-A
* *
277360 TATATTATATATGTTTT-AAAAGGTTTTCAAAACAA
1 TATATTATATATATTTTAAAAATGTTTTCAAAAC-A
*
277395 TATATTATATATGTTTTTGAAAAAATGTTTTCAAAACTA
1 TATATTATATAT-ATTTT--AAAAATGTTTTCAAAAC-A
*
277434 TATATTATATA-AGTTTTTAAAAATGTTTTCAAAACTT
1 TATATTATATATA--TTTTAAAAATGTTTTCAAAAC-A
**
277471 TATATTATATA-AGTTTTCCAAATGTTTTCAAAAACTA
1 TATATTATATATA-TTTTAAAAATGTTTTC-AAAAC-A
*
277508 TATATTATATATATTTTCAAAATGTTTTCAAAAACTA
1 TATATTATATATATTTTAAAAATGTTTTC-AAAAC-A
*
277545 TATATTATATATATTTTCAAAATGTTTTCAAAAACTA
1 TATATTATATATATTTTAAAAATGTTTTC-AAAAC-A
* ** *
277582 TATATTATATATATTTT-CAAATCATTTGAAAACTA
1 TATATTATATATATTTTAAAAATGTTTTCAAAAC-A
* * *
277617 TATAATATATATATTTTTGAAAATCATTTTCAAAAC-
1 TATATTATATATA-TTTTAAAAAT-GTTTTCAAAACA
*
277653 TATAATATATATATTTTTAAAAA
1 TATATTATATATA-TTTTAAAAA
277676 ACCAAATTTT
Statistics
Matches: 279, Mismatches: 25, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
34 8 0.03
35 37 0.13
36 66 0.24
37 128 0.46
38 9 0.03
39 31 0.11
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (35 bp):
TATATTATATATATTTTAAAAATGTTTTCAAAACA
Found at i:277443 original size:74 final size:71
Alignment explanation
Indices: 277307--277674 Score: 381
Period size: 74 Copynumber: 5.1 Consensus size: 71
277297 AATAATAATA
* * * *
277307 TAAAATATTTCCAAAA-T-TATAATATATATATTTTAAAAAATATTTT-AAAACTATATATTATA
1 TAAAATGTTTTCAAAACTATATATTATATATATTTT-AAAAATGTTTTCAAAACTATATATTATA
*
277369 TATGTTT
65 TATATTT
* * *
277376 TAAAAGGTTTTCAAAACAATATATTATATATGTTTTTGAAAAAATGTTTTCAAAACTATATATTA
1 TAAAATGTTTTCAAAACTATATATTATATAT-ATTTT--AAAAATGTTTTCAAAACTATATATTA
277441 TATA-AGTTTT
63 TATATA--TTT
* **
277451 TAAAAATGTTTTCAAAACTTTATATTATATA-AGTTTTCCAAATGTTTTCAAAAACTATATATTA
1 T-AAAATGTTTTCAAAACTATATATTATATATA-TTTTAAAAATGTTTTC-AAAACTATATATTA
277515 TATATATTT
63 TATATATTT
*
277524 TCAAAATGTTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATATTA
1 T-AAAATGTTTTC-AAAACTATATATTATATATATTTTAAAAATGTTTTC-AAAACTATATATTA
277589 TATATATTT
63 TATATATTT
* ** * * * *
277598 TCAAATCATTTGAAAACTATATAATATATATATTTTTGAAAATCATTTTCAAAACTATA-A-TAT
1 TAAAATGTTTTCAAAACTATATATTATATATA-TTTTAAAAAT-GTTTTCAAAACTATATATTAT
277661 ATATATTTT
64 ATATA-TTT
277670 TAAAA
1 TAAAA
277675 AACCAAATTT
Statistics
Matches: 258, Mismatches: 25, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
69 13 0.05
71 19 0.07
72 31 0.12
73 61 0.24
74 98 0.38
75 10 0.04
76 26 0.10
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (71 bp):
TAAAATGTTTTCAAAACTATATATTATATATATTTTAAAAATGTTTTCAAAACTATATATTATAT
ATATTT
Found at i:277456 original size:111 final size:107
Alignment explanation
Indices: 277308--277675 Score: 406
Period size: 110 Copynumber: 3.4 Consensus size: 107
277298 ATAATAATAT
* * * * *
277308 AAAATATTTCCAAAA-T-TATAATATATATATTTTAAAAAATATTTT-AAAACTATATATTATAT
1 AAAATGTTTTCAAAACTATATATTATATA-ATTTTTAAAAATGTTTTCAAAACTATATATTATAT
* * *
277370 ATGTTTTAAAAGGTTTTCAAAACAATATATTATATATGTTTTTG
65 ATGTTTTCAAATGTTTTCAAAACTATATATTATATAT-TTTTTG
*
277414 AAAAAATGTTTTCAAAACTATATATTATATAAGTTTTTAAAAATGTTTTCAAAACTTTATATTAT
1 --AAAATGTTTTCAAAACTATATATTATATAA-TTTTTAAAAATGTTTTCAAAACTATATATTAT
* * *
277479 ATAAGTTTTCCAAATGTTTTCAAAAACTATATATTATATATATTTTC
63 ATATGTTTT-CAAATGTTTTC-AAAACTATATATTATATATTTTTTG
*
277526 AAAATGTTTTCAAAAACTATATATTATAT-ATATTTTCAAAATGTTTTCAAAAACTATATATTAT
1 AAAATGTTTTC-AAAACTATATATTATATAAT-TTTTAAAAATGTTTTC-AAAACTATATATTAT
* ** * *
277590 ATATATTTTCAAATCATTTGAAAACTATATAATATATATATTTTTG
63 ATATGTTTTCAAATGTTTTCAAAACTATATATTATATAT-TTTTTG
*
277636 AAAATCATTTTCAAAACTATA-A-TATATATATTTTTAAAAA
1 AAAAT-GTTTTCAAAACTATATATTATATA-ATTTTTAAAAA
277676 ACCAAATTTT
Statistics
Matches: 223, Mismatches: 24, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
108 18 0.08
109 30 0.13
110 79 0.35
111 65 0.29
112 13 0.06
113 18 0.08
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (107 bp):
AAAATGTTTTCAAAACTATATATTATATAATTTTTAAAAATGTTTTCAAAACTATATATTATATA
TGTTTTCAAATGTTTTCAAAACTATATATTATATATTTTTTG
Found at i:284629 original size:20 final size:21
Alignment explanation
Indices: 284604--284656 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
284594 TGATTACAGT
*
284604 GGTATCGATACTCTAG-GTTG
1 GGTATCGATACTCTAGTGATG
*
284624 GGTATCGATATTCTAGTGATG
1 GGTATCGATACTCTAGTGATG
284645 GGTATCGATACT
1 GGTATCGATACT
284657 GGACTAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (21 bp):
GGTATCGATACTCTAGTGATG
Found at i:291044 original size:19 final size:20
Alignment explanation
Indices: 291020--291067 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
291010 AATGATTTTC
* * *
291020 TTTTGAAAGCTAAAAT-AGA
1 TTTTGAAAACCAAAATGAAA
291039 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
291059 TTTTGAAAA
1 TTTTGAAAA
291068 AGGATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:292416 original size:20 final size:20
Alignment explanation
Indices: 292377--292446 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
292367 CACAAAATTT
* *
292377 TATGAATAATATCG-TACTG
1 TATGAATAGTACCGATACTG
292396 TATGAATAGTACCGATACTG
1 TATGAATAGTACCGATACTG
*
292416 TATGAATAGTACTGATACTG
1 TATGAATAGTACCGATACTG
* *
292436 TGTGAACAGTA
1 TATGAATAGTA
292447 GTATCAATAC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 12 0.27
20 33 0.73
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
TATGAATAGTACCGATACTG
Found at i:292464 original size:21 final size:21
Alignment explanation
Indices: 292438--292488 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
292428 TGATACTGTG
292438 TGAACAGTAGTATCAATACCA
1 TGAACAGTAGTATCAATACCA
* *
292459 TGAACAGTAGTATCGATACTA
1 TGAACAGTAGTATCAATACCA
*
292480 TGATCAGTA
1 TGAACAGTA
292489 CTGATGCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (21 bp):
TGAACAGTAGTATCAATACCA
Found at i:292567 original size:21 final size:21
Alignment explanation
Indices: 292541--292591 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
292531 GCTACAATAG
292541 TATCGATACCATGAACAGTAA
1 TATCGATACCATGAACAGTAA
* * *
292562 TATCGATACCGTGAATAGTAG
1 TATCGATACCATGAACAGTAA
292583 TATCGATAC
1 TATCGATAC
292592 TATCAAGCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (21 bp):
TATCGATACCATGAACAGTAA
Found at i:300878 original size:19 final size:21
Alignment explanation
Indices: 300838--300880 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
300828 TTATAAATTT
300838 TATAATTTTCAATAATTTAAA
1 TATAATTTTCAATAATTTAAA
*
300859 TATATTTTTCAAT-A-TTAAA
1 TATAATTTTCAATAATTTAAA
300878 TAT
1 TAT
300881 TTGTACATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
TATAATTTTCAATAATTTAAA
Found at i:303294 original size:119 final size:119
Alignment explanation
Indices: 303083--303321 Score: 478
Period size: 119 Copynumber: 2.0 Consensus size: 119
303073 CTAGAATTGG
303083 ATCATAATTCCATCACTCACTAAAGTACAAAAATGACCTCTCAAGAGGGATGGTTTTCGTCGTAC
1 ATCATAATTCCATCACTCACTAAAGTACAAAAATGACCTCTCAAGAGGGATGGTTTTCGTCGTAC
303148 CAGAAGTTCTTGACTCAAATTAACATCTAAAAATACACACCTTATTTGAATACT
66 CAGAAGTTCTTGACTCAAATTAACATCTAAAAATACACACCTTATTTGAATACT
303202 ATCATAATTCCATCACTCACTAAAGTACAAAAATGACCTCTCAAGAGGGATGGTTTTCGTCGTAC
1 ATCATAATTCCATCACTCACTAAAGTACAAAAATGACCTCTCAAGAGGGATGGTTTTCGTCGTAC
303267 CAGAAGTTCTTGACTCAAATTAACATCTAAAAATACACACCTTATTTGAATACT
66 CAGAAGTTCTTGACTCAAATTAACATCTAAAAATACACACCTTATTTGAATACT
303321 A
1 A
303322 AGAATTTTGT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 120 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (119 bp):
ATCATAATTCCATCACTCACTAAAGTACAAAAATGACCTCTCAAGAGGGATGGTTTTCGTCGTAC
CAGAAGTTCTTGACTCAAATTAACATCTAAAAATACACACCTTATTTGAATACT
Found at i:311035 original size:117 final size:123
Alignment explanation
Indices: 310799--311040 Score: 399
Period size: 117 Copynumber: 2.0 Consensus size: 123
310789 ATTATTATTT
310799 TTTAGTATTACATAATATTATATTGTGTAAATGTTATAGTGTTTTTATAATAAAATCATGACATA
1 TTTAGTATTACATAATATTATATTGTGTAAATGTTATAGTG-TTTTATAATAAAATCATGACATA
*
310864 GGTTAAATATAATATTAGAAAAATTATATATATATTTATAAGTAATATAAAGTTAAAAA
65 GGTTAAATATAATATTAGAAAAATTATATATATATTTAAAAGTAATATAAAGTTAAAAA
*
310923 TTTAGTATTACAT-ATATT-TATTGTGTAAATGTTATAGTG-TTTAT-A-AATATCATGACATAG
1 TTTAGTATTACATAATATTATATTGTGTAAATGTTATAGTGTTTTATAATAAAATCATGACATAG
310983 GTTAAATATAATATTTAGAAAAA-T-TATATATATTTAAAAGTAATATAAAGTTAAAAA
66 GTTAAATATAATA-TTAGAAAAATTATATATATATTTAAAAGTAATATAAAGTTAAAAA
311040 T
1 T
311041 AAATTTAAAA
Statistics
Matches: 115, Mismatches: 2, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
117 33 0.29
118 28 0.24
119 10 0.09
120 5 0.04
122 21 0.18
123 5 0.04
124 13 0.11
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.42
Consensus pattern (123 bp):
TTTAGTATTACATAATATTATATTGTGTAAATGTTATAGTGTTTTATAATAAAATCATGACATAG
GTTAAATATAATATTAGAAAAATTATATATATATTTAAAAGTAATATAAAGTTAAAAA
Found at i:311417 original size:23 final size:24
Alignment explanation
Indices: 311387--311435 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
311377 AGATTATTGA
311387 ATATCTCTT-TCTTTTCTAATAAT
1 ATATCTCTTATCTTTTCTAATAAT
311410 ATATCTCTTATCTTTTCTAATAAT
1 ATATCTCTTATCTTTTCTAATAAT
311434 AT
1 AT
311436 TCGGATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATCTCTTATCTTTTCTAATAAT
Found at i:319114 original size:7 final size:7
Alignment explanation
Indices: 319098--319138 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
319088 TCATTATTTA
319098 CATT-TT
1 CATTCTT
319104 CATTCTT
1 CATTCTT
319111 CATTCTT
1 CATTCTT
319118 CATTCTT
1 CATTCTT
**
319125 TGTTCTT
1 CATTCTT
319132 CATTCTT
1 CATTCTT
319139 TACATTCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 4 0.13
7 26 0.87
ACGTcount: A:0.12, C:0.24, G:0.02, T:0.61
Consensus pattern (7 bp):
CATTCTT
Found at i:322711 original size:28 final size:27
Alignment explanation
Indices: 322663--322771 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
322653 GTACTATGCT
* ** *
322663 TGAAAAAAAAGAGAATGAATGAAAACA
1 TGAAAAAAAAAAGAAAAAATGAAAAAA
322690 TGAAAAAAAAAATGAAAAAATGAAAAAA
1 TGAAAAAAAAAA-GAAAAAATGAAAAAA
* *
322718 T-TAAAAAAAAAGAAAAAAAGGAAAAAA
1 TGAAAAAAAAAAG-AAAAAATGAAAAAA
322745 TGAAAAAATGAAAAGAAAAAA-GAAAAA
1 TGAAAAAA--AAAAGAAAAAATGAAAAA
322772 GGAGGGTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
26 1 0.01
27 34 0.49
28 24 0.34
29 6 0.09
30 5 0.07
ACGTcount: A:0.76, C:0.01, G:0.14, T:0.09
Consensus pattern (27 bp):
TGAAAAAAAAAAGAAAAAATGAAAAAA
Found at i:322734 original size:27 final size:28
Alignment explanation
Indices: 322665--322771 Score: 114
Period size: 28 Copynumber: 3.9 Consensus size: 28
322655 ACTATGCTTG
** *
322665 AAAAAAAAGAGAATGAATGAAAACATGA
1 AAAAAAAAGAGAAAAAATGAAAAAATGA
*
322693 AAAAAAAA-ATGAAAAAATGAAAAAATTA
1 AAAAAAAAGA-GAAAAAATGAAAAAATGA
*
322721 AAAAAAAAGA-AAAAAAGGAAAAAATGA
1 AAAAAAAAGAGAAAAAATGAAAAAATGA
322748 AAAAATGAAA-AGAAAAAA-GAAAAA
1 AAAAA--AAAGAGAAAAAATGAAAAA
322772 GGAGGGTTCG
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
27 21 0.31
28 37 0.54
29 10 0.15
ACGTcount: A:0.78, C:0.01, G:0.13, T:0.08
Consensus pattern (28 bp):
AAAAAAAAGAGAAAAAATGAAAAAATGA
Found at i:322742 original size:35 final size:37
Alignment explanation
Indices: 322695--322771 Score: 122
Period size: 35 Copynumber: 2.1 Consensus size: 37
322685 AAACATGAAA
* *
322695 AAAAAAATGAAAAAATGAAAAAAT-TAAA-AAAAAAG
1 AAAAAAAGGAAAAAATGAAAAAATGAAAAGAAAAAAG
322730 AAAAAAAGGAAAAAATGAAAAAATGAAAAGAAAAAAG
1 AAAAAAAGGAAAAAATGAAAAAATGAAAAGAAAAAAG
322767 AAAAA
1 AAAAA
322772 GGAGGGTTCG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 23 0.61
36 3 0.08
37 12 0.32
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (37 bp):
AAAAAAAGGAAAAAATGAAAAAATGAAAAGAAAAAAG
Found at i:324271 original size:105 final size:105
Alignment explanation
Indices: 323681--324268 Score: 1059
Period size: 105 Copynumber: 5.6 Consensus size: 105
323671 TCAACAACAA
* *
323681 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
323746 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
*
323786 TCAAATCCACCGCAGAAGGAGGTGAACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
323851 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
323891 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
323956 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* *
323996 TCAAATCCACCACAGAAGGAGGTGACCCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
324061 CCTAAAGGAGAAGGTTCATAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
*
324101 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCAT
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
*
324166 CTTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
66 CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
* * * *
324206 TCAAATTCACCCCAGAAGGAGGTGAATCGACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
1 TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
324269 ATCCGAAAAA
Statistics
Matches: 466, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 466 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (105 bp):
TCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGT
CCTAAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTT
Found at i:334586 original size:23 final size:23
Alignment explanation
Indices: 334533--334594 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
334523 TCCGTCCTTC
* *
334533 TTCTAGAA-TTGCTGACTGGACC
1 TTCTAGAAGTTGCTGACTGAACA
* * *
334555 TTATGGAAGTTGCTGATTGAACA
1 TTCTAGAAGTTGCTGACTGAACA
*
334578 TTCTAGAAGCTGCTGAC
1 TTCTAGAAGTTGCTGAC
334595 AAACTACCAT
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (23 bp):
TTCTAGAAGTTGCTGACTGAACA
Found at i:337872 original size:10 final size:10
Alignment explanation
Indices: 337847--337882 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
337837 CACATGTATT
*
337847 TATAATAACA
1 TATAATAATA
337857 -ATAATAATA
1 TATAATAATA
337866 TATAATAATA
1 TATAATAATA
337876 TATAATA
1 TATAATA
337883 TATGTATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
TATAATAATA
Found at i:339949 original size:45 final size:45
Alignment explanation
Indices: 339900--339996 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 45
339890 TTAAATAACA
* ** * *
339900 TTCAAGCCGCCATTTGTGGGTTTTCAACTTGAGA-CCTTATTTGGT
1 TTCAAGACGCCATTTACGGATTTTCAACTTGA-ACCCTCATTTGGT
* * *
339945 TTCAAGATGCCCTTTACGGATTTTCATCTTGAACCCTCATTTGGT
1 TTCAAGACGCCATTTACGGATTTTCAACTTGAACCCTCATTTGGT
339990 TTCAAGA
1 TTCAAGA
339997 TAAAATGATG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.39
Consensus pattern (45 bp):
TTCAAGACGCCATTTACGGATTTTCAACTTGAACCCTCATTTGGT
Found at i:341597 original size:5 final size:5
Alignment explanation
Indices: 341587--341612 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
341577 ACTTAAATTT
341587 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
341613 CATGAGAAAA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:341843 original size:2 final size:2
Alignment explanation
Indices: 341836--341900 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
341826 AAGGATAATC
341836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
341878 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
341901 CTGGGACTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:343859 original size:43 final size:44
Alignment explanation
Indices: 343787--343876 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 44
343777 CATGTTTAAG
*
343787 AGTTATGGTCACTTTCATATAACGATGTTCCTTCTCGTTGAGGA
1 AGTTATGGTCACTTTCATATAACGATGTTCATTCTCGTTGAGGA
* *
343831 AGTT-TGGTCATTTTCATATGAC-ACTGTTCATTCTCGTTGAGGA
1 AGTTATGGTCACTTTCATATAACGA-TGTTCATTCTCGTTGAGGA
343874 AGT
1 AGT
343877 CTAGTAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 1 0.02
43 37 0.88
44 4 0.10
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (44 bp):
AGTTATGGTCACTTTCATATAACGATGTTCATTCTCGTTGAGGA
Found at i:344377 original size:61 final size:61
Alignment explanation
Indices: 344270--344471 Score: 287
Period size: 61 Copynumber: 3.3 Consensus size: 61
344260 ATTCGGCATA
* * * *
344270 GTTCATTCTTGGTGAGGAAAACTAGTCGTTCTTGAAAGATTGTGAATCTGAAGATAACGTT
1 GTTCCTTCTTGCTGAGGAAAACTAGTCGTTCTTGAAGGATTGTGAATCTGAAGATAATGTT
* *
344331 GTTCCTTCTTGCTGAGCAAAACTAGTCGTTCTTGAAGGATTATGAATCTGAAGATAATGTT
1 GTTCCTTCTTGCTGAGGAAAACTAGTCGTTCTTGAAGGATTGTGAATCTGAAGATAATGTT
** * ** *
344392 GTTCCTTCTTGCTGAGGAAGTCTAATTATTCTTGAAGGATTGTGAATCTGAAGACAATGTT
1 GTTCCTTCTTGCTGAGGAAAACTAGTCGTTCTTGAAGGATTGTGAATCTGAAGATAATGTT
*
344453 GTTCCTTCTTGTTGAGGAA
1 GTTCCTTCTTGCTGAGGAA
344472 TTCTAATTGT
Statistics
Matches: 126, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 126 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (61 bp):
GTTCCTTCTTGCTGAGGAAAACTAGTCGTTCTTGAAGGATTGTGAATCTGAAGATAATGTT
Found at i:357626 original size:20 final size:19
Alignment explanation
Indices: 357592--357644 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
357582 GAATGAATAG
357592 AATGTAATG-AAAAAGGTAA
1 AATGTAATGCAAAAA-GTAA
*
357611 AATGCAATGCAAAAAGTAA
1 AATGTAATGCAAAAAGTAA
357630 AATGTAGATGCAAAA
1 AATGTA-ATGCAAAA
357645 TGCAAGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.57, C:0.06, G:0.19, T:0.19
Consensus pattern (19 bp):
AATGTAATGCAAAAAGTAA
Found at i:363155 original size:6 final size:6
Alignment explanation
Indices: 363146--363853 Score: 1227
Period size: 6 Copynumber: 119.8 Consensus size: 6
363136 AATAATAATA
363146 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363194 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363242 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363290 TAT-TG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363337 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363385 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363433 TATATG TATATG TA-ATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363480 TATATG TATATG TATATG TATATG TATATG TATATG TATATG --TATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363526 TATATG TATATG TATA-G TATATG TATATG TATATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG --TATATG TATATG TATATG
363575 TATATG TATATG --TATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363621 --TATG TATATG TATATG TATA-- TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363665 TATATG --TATG TATATG TATATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG --TATATG TATATG TATATG TATATG TATATG
363713 TATATG TATATG TATATG TATATG TATATG TATATGTG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATA--TG TATATG TATATG
363763 TATATG TAT-TG TATATG TATATG TATATG TATA-- TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
363808 TATATG --TATG TATATG TATATG TATATG TATATG TTATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATATG -TATATG TATAT
363854 ACATGACATA
Statistics
Matches: 677, Mismatches: 0, Indels: 50
0.93 0.00 0.07
Matches are distributed among these distances:
4 28 0.04
5 20 0.03
6 605 0.89
7 6 0.01
8 18 0.03
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:363867 original size:6 final size:6
Alignment explanation
Indices: 363850--364347 Score: 755
Period size: 6 Copynumber: 83.8 Consensus size: 6
363840 TGTTATATGT
* * * * *
363850 ATATAC AT-GAC ATAGAC ATATAGAC ATAGAC ATATAC ATAGAC ATAGAC
1 ATATAC ATATAC ATATAC ATAT--AC ATATAC ATATAC ATATAC ATATAC
* * * * * * *
363899 ATAGAC ATAGAC ATAGAC ATAGAC ATATGAC ATAGAC ATAGAC ATAGAC
1 ATATAC ATATAC ATATAC ATATAC ATAT-AC ATATAC ATATAC ATATAC
* *
363948 -TAGAC ATAGAC --ATAC ATATAC ATATAC ATATAC ATATAC ATATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC --ATATAC
363995 ATATAC ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
364041 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
364089 --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
364135 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
364183 ATATAC ATATAC --ATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
364229 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
364277 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
364325 ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATA
364348 TATTATTATT
Statistics
Matches: 469, Mismatches: 8, Indels: 30
0.93 0.02 0.06
Matches are distributed among these distances:
4 15 0.03
5 9 0.02
6 429 0.91
7 5 0.01
8 11 0.02
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (6 bp):
ATATAC
Found at i:366072 original size:6 final size:6
Alignment explanation
Indices: 366061--366791 Score: 1264
Period size: 6 Copynumber: 123.7 Consensus size: 6
366051 ACTCTCATAA
366061 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366109 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366157 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366205 GTATAT G--TAT GTATAT GTATGTAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTA--TAT GTATAT GTATAT GTATAT GTATAT
366253 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TATAT GTATAT
366303 G--TAT GTATAT GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366347 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366395 GTATAT GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366441 GTATAT GTATAT GTATAT GTATAT G--TAT GT-TAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366486 GTATAT G--TAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366532 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT G--TAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366578 GTATAT GTATAT GTATAT GTATAT GTATA- -T-TAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366623 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATGGTAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTA---TAT GTATAT
*
366674 GTATAT GTATAT GTATAT GTATAT GTATAT GTTTAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366722 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
366770 GTATAT GTATAT GTATAT GTAT
1 GTATAT GTATAT GTATAT GTAT
366792 CCTCTAGTTC
Statistics
Matches: 699, Mismatches: 2, Indels: 48
0.93 0.00 0.06
Matches are distributed among these distances:
3 2 0.00
4 29 0.04
5 6 0.01
6 644 0.92
8 12 0.02
9 6 0.01
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:367216 original size:6 final size:6
Alignment explanation
Indices: 367205--368575 Score: 2459
Period size: 6 Copynumber: 231.7 Consensus size: 6
367195 TGCAATAAAA
367205 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367253 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367301 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* * *
367349 ACATAT ACATAT AC--AT ACATAT ACATAG ACATAG ACATAG ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367395 ACATAT AGACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT --ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367445 ACATAT ACATAT ACATAT ACACATAT ACATAT ACATAT ACATAT AC--AT
1 ACATAT ACATAT ACATAT --ACATAT ACATAT ACATAT ACATAT ACATAT
367493 ACATAT ACATAT ACATAT AC--AT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367539 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367587 ACATAT ACATAT AC--AT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367633 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT AC--AT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367679 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367727 --ATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367773 ACATAT ACATAT ACATAT ACATAT AC--AT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
*
367819 ACATAG ACATAT ACATAT ACATAT ACATAT AC--AT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367865 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367913 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
367961 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
* *
368009 ATACAT ACATAT ACATAT ACATA- ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368056 ACATAT ACATATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT AC--ATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368106 ACATAT ACATAT ACATAT ACATAT ACATAT --ATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368152 ACATAT AC--AT ACATAT AC--AT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368196 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368244 ACATAT ACATAT ACATAT AC--AT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368290 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368338 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368386 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368434 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368482 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
368530 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACAT
368576 GAGAATCTAT
Statistics
Matches: 1326, Mismatches: 8, Indels: 62
0.95 0.01 0.04
Matches are distributed among these distances:
4 48 0.04
5 5 0.00
6 1255 0.95
8 18 0.01
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:372264 original size:20 final size:19
Alignment explanation
Indices: 372216--372268 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
372206 GAATGAATAT
372216 AATGTAATGCAAAAGGTAA
1 AATGTAATGCAAAAGGTAA
*
372235 AATGCAATGCGAAAA-GTAA
1 AATGTAATGC-AAAAGGTAA
372254 AATGTAGATGCAAAA
1 AATGTA-ATGCAAAA
372269 TGCAAGGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.53, C:0.08, G:0.21, T:0.19
Consensus pattern (19 bp):
AATGTAATGCAAAAGGTAA
Found at i:377343 original size:2 final size:2
Alignment explanation
Indices: 377333--377520 Score: 62
Period size: 2 Copynumber: 96.0 Consensus size: 2
377323 ATTTAAAAAA
* *
377333 AT AT A- AT AT AT AT A- AT AT A- AGT TT AT AT AT AA ACT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT
* * *
377374 AT AA ACT AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT -T AT A-
1 AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
* * *
377413 AGT -T AT AT AT AT AA AT -T AT GT TT AT AT GA- ACT AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT
* * * * * *
377453 AA ACT AT AT AT GT AA ACT AT AT AT GT AT AA ACT AT A- AT TT AT
1 AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT
377495 AT -T A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
377521 TATTCAAAGT
Statistics
Matches: 135, Mismatches: 27, Indels: 48
0.64 0.13 0.23
Matches are distributed among these distances:
1 14 0.10
2 113 0.84
3 8 0.06
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:377372 original size:13 final size:13
Alignment explanation
Indices: 377356--377520 Score: 101
Period size: 13 Copynumber: 12.5 Consensus size: 13
377346 AATATAAGTT
377356 TATATATAAACTA
1 TATATATAAACTA
377369 TATATATAAACTA
1 TATATATAAACTA
* *
377382 TAT-T-TATATTA
1 TATATATAAACTA
*
377393 TAAACTATATAA-T-
1 TATA-TATA-AACTA
**
377406 TAT-TATAAGTTA
1 TATATATAAACTA
*
377418 TATATATAAATTA
1 TATATATAAACTA
* *
377431 TGTTTATATGAACTA
1 --TATATATAAACTA
377446 TATATATAAACTA
1 TATATATAAACTA
*
377459 TATATGTAAACTA
1 TATATATAAACTA
377472 TATATGTATAAACTA
1 TATA--TATAAACTA
*
377487 TAATTTATATTAA-TA
1 T-A--TATATAAACTA
*
377502 TATATATATA-TA
1 TATATATAAACTA
377514 TATATAT
1 TATATAT
377521 TATTCAAAGT
Statistics
Matches: 121, Mismatches: 17, Indels: 29
0.72 0.10 0.17
Matches are distributed among these distances:
10 1 0.01
11 12 0.10
12 19 0.16
13 54 0.45
14 4 0.03
15 23 0.19
16 6 0.05
18 2 0.02
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:377502 original size:28 final size:30
Alignment explanation
Indices: 377356--377523 Score: 111
Period size: 28 Copynumber: 5.7 Consensus size: 30
377346 AATATAAGTT
* * * *
377356 TATATATAAACTATATATATAAACTATA-TT
1 TATATATAAACTATATATTTATATTA-ACTA
* *
377386 TATATTATAAACTATATAATTAT-TATAAGTTA
1 TATA-TATAAACTATATATTTATAT-TAA-CTA
* *
377418 TATATATAAA-T-TATGTTTATATGAACTA
1 TATATATAAACTATATATTTATATTAACTA
* * *
377446 TATATATAAACTATATATGTAAACT-A-TA
1 TATATATAAACTATATATTTATATTAACTA
*
377474 TATGTATAAACTATA-ATTTATATTAA-TA
1 TATATATAAACTATATATTTATATTAACTA
*
377502 TATATATATA-TATATATATTAT
1 TATATATAAACTATATAT-TTAT
377524 TCAAAGTGAG
Statistics
Matches: 108, Mismatches: 20, Indels: 21
0.72 0.13 0.14
Matches are distributed among these distances:
27 10 0.09
28 41 0.38
29 15 0.14
30 14 0.13
31 23 0.21
32 5 0.05
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (30 bp):
TATATATAAACTATATATTTATATTAACTA
Found at i:377505 original size:10 final size:11
Alignment explanation
Indices: 377332--377519 Score: 61
Period size: 13 Copynumber: 16.1 Consensus size: 11
377322 AATTTAAAAA
377332 AATATA-ATAT
1 AATATATATAT
377342 -ATATA-ATAT
1 AATATATATAT
*
377351 AAGTTTATATAT
1 AA-TATATATAT
377363 AAACTATATATAT
1 -AA-TATATATAT
377376 AAACTATATTTATAT
1 -AA-TATA--TATAT
* *
377391 TATAAACTATAT
1 AATATA-TATAT
377403 AAT-TAT-TAT
1 AATATATATAT
377412 AAGTTATATATAT
1 AA--TATATATAT
*
377425 AAATTATGTTTATAT
1 -AA-TA--TATATAT
377440 GAACTATATATAT
1 -AA-TATATATAT
*
377453 AAACTATATATGT
1 -AA-TATATATAT
377466 AA-ACTATATAT
1 AATA-TATATAT
* *
377477 -GTATAAACTAT
1 AATATATA-TAT
*
377488 AATTTATAT-T
1 AATATATATAT
377498 AATATATATAT
1 AATATATATAT
377509 -ATATATATAT
1 AATATATATAT
377519 A
1 A
377520 TTATTCAAAG
Statistics
Matches: 138, Mismatches: 21, Indels: 37
0.70 0.11 0.19
Matches are distributed among these distances:
9 14 0.10
10 25 0.18
11 17 0.12
12 20 0.14
13 44 0.32
14 3 0.02
15 15 0.11
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (11 bp):
AATATATATAT
Found at i:377831 original size:2 final size:2
Alignment explanation
Indices: 377824--377971 Score: 73
Period size: 2 Copynumber: 76.0 Consensus size: 2
377814 TTTAATTTTC
* * *
377824 TA TA TA TA TA TA TA TA TA TG TA TA TA TG TA TA TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
377867 AA CTA TA TA GTT TA TA AA T- TA TA AA T- TA TA T- TA -A TA TA GTA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * *
377908 TA TA TA TG TA TG TA TA -A CTA -A TA TA -A GTA -A TC TA TA AA T-
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA
377947 TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
377972 GAAACATTTG
Statistics
Matches: 108, Mismatches: 22, Indels: 32
0.67 0.14 0.20
Matches are distributed among these distances:
1 10 0.09
2 91 0.84
3 7 0.06
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:378238 original size:49 final size:49
Alignment explanation
Indices: 378135--378238 Score: 111
Period size: 49 Copynumber: 2.1 Consensus size: 49
378125 TATAGTATAT
* ** * **
378135 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAAAAATACTATGC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAAACACTAAAC
* *
378184 ATAAACTATATAAAGT-AATAAAGTATATAGTTTTATAGAAACCCTAAAC
1 ATAAACTATATAAAGTAAATAAAGTATATAG-TTTATAAAAACACTAAAC
*
378233 CTAAAC
1 ATAAAC
378239 CCTAAACTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
48 11 0.24
49 34 0.76
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAAACACTAAAC
Found at i:378242 original size:7 final size:7
Alignment explanation
Indices: 378222--378285 Score: 58
Period size: 7 Copynumber: 9.3 Consensus size: 7
378212 AGTTTTATAG
378222 AAACCCT
1 AAACCCT
378229 AAA-CCT
1 AAACCCT
378235 AAACCCT
1 AAACCCT
**
378242 AAACTTT
1 AAACCCT
**
378249 AAACCAA
1 AAACCCT
**
378256 AAATACT
1 AAACCCT
378263 AAACCCT
1 AAACCCT
378270 AAACCCT
1 AAACCCT
*
378277 AAACTCT
1 AAACCCT
378284 AA
1 AA
378286 TGTAAATAGA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
6 6 0.14
7 38 0.86
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:378474 original size:23 final size:24
Alignment explanation
Indices: 378447--378496 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
378437 ATTATTTTTC
378447 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
*
378470 TTTATATAAATTAAATTATATTAA
1 TTTATATAAATTAAACTATATTAA
378494 TTT
1 TTT
378497 TCCTTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:378644 original size:30 final size:31
Alignment explanation
Indices: 378608--378673 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
378598 ATCATAATAA
378608 ATATTTTATT-ATCACATTTAAAAAGTAATC
1 ATATTTTATTAATCACATTTAAAAAGTAATC
* *
378638 ATATTTTTTTAATTACATTTAAAAAGTAATC
1 ATATTTTATTAATCACATTTAAAAAGTAATC
378669 ATATT
1 ATATT
378674 AATTTTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTTATTAATCACATTTAAAAAGTAATC
Found at i:379364 original size:20 final size:21
Alignment explanation
Indices: 379327--379381 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
379317 AAATAATTTT
*
379327 ATATAATATGTATGTATAAACC
1 ATAT-ATATGTATATATAAACC
* *
379349 ATGTATA-GTATATATAAACT
1 ATATATATGTATATATAAACC
379369 ATATATATGTATA
1 ATATATATGTATA
379382 GTGTATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 17 0.61
21 8 0.29
22 3 0.11
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
ATATATATGTATATATAAACC
Found at i:379405 original size:17 final size:17
Alignment explanation
Indices: 379352--379407 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
379342 ATAAACCATG
379352 TATAGTATATATAAACTA
1 TATA-TATATATAAACTA
* ***
379370 TATATATGTATAGTGTA
1 TATATATATATAAACTA
*
379387 TATATATATAAAAACTA
1 TATATATATATAAACTA
379404 TATA
1 TATA
379408 AAATAAATTA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (17 bp):
TATATATATATAAACTA
Found at i:379530 original size:7 final size:7
Alignment explanation
Indices: 379480--379526 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
379470 TAATTTATAG
379480 AAACCCT
1 AAACCCT
379487 AAACCCT
1 AAACCCT
379494 AAACCCT
1 AAACCCT
379501 AAACCCT
1 AAACCCT
*
379508 AAACACT
1 AAACCCT
*
379515 AAACCAT
1 AAACCCT
379522 AAACC
1 AAACC
379527 ATAATGTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:379954 original size:16 final size:16
Alignment explanation
Indices: 379933--380003 Score: 115
Period size: 16 Copynumber: 4.4 Consensus size: 16
379923 CGGATCATTT
*
379933 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTGAAA
379949 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
379965 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
* *
379981 ACATGTCAAGTTGAAA
1 ACAGGTCAGGTTGAAA
379997 ACAGGTC
1 ACAGGTC
380004 GGGTAATGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:380508 original size:3 final size:3
Alignment explanation
Indices: 380500--380530 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
380490 CGCGGGTTTC
380500 CAA CAA CAA CAA CAA CAA CAA CAA CAA -AA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CA
380531 CTATTCCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:387850 original size:24 final size:23
Alignment explanation
Indices: 387807--387852 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
387797 AACATGTTTG
* *
387807 TGAAATATAAATGAACACTAAAA
1 TGAAATATAAACGAAAACTAAAA
387830 TGAATATATAAACGAAAACTAAA
1 TGAA-ATATAAACGAAAACTAAA
387853 CAAATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.22
Consensus pattern (23 bp):
TGAAATATAAACGAAAACTAAAA
Found at i:389618 original size:5 final size:5
Alignment explanation
Indices: 389608--390045 Score: 96
Period size: 5 Copynumber: 89.6 Consensus size: 5
389598 AATGAAATTA
* * * *
389608 ATAAT ATAAT AACTAGT ATAAT ATAAC AT-AT AAAAT -TACT -TAA- AT-AT
1 ATAAT ATAAT -A-TAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * *
389655 ATAAT AAAAT ATAAAT GTAATAT ATAAT ATAAT AT-AT TTTAT ACT-AT
1 ATAAT ATAAT AT-AAT AT-A-AT ATAAT ATAAT ATAAT ATAAT A-TAAT
* *
389702 ATAAT ACAA- AT-AT ATAAT A-AAT AT-AT AT-AT ATTAT ATAAAT ATACTAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AAT ATA--AT
* * * * *
389750 ATAAC ATAAAT ATATAT GTAAT AT-AT A-ATAT ATAAC GTAAT ATAAC
1 ATAAT AT-AAT ATA-AT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT
** * *
389796 ATGTT AT-AT ATAAT ATAAT AT--T ATAAT AT-AT ATTAT ATTAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * * ** *
389842 ATAA- AT-AT ATACT AT-AT ACATT ATAAT ATTAT A-ACAT ATGCT ATACT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT
389889 -TAA- ATAAT ACT-AT ACT-AT ATAAT ATAAGT ATAAT A-AAT AT-AT
1 ATAAT ATAAT A-TAAT A-TAAT ATAAT ATAA-T ATAAT ATAAT ATAAT
* * * * *
389931 ATAAT AT-AT ACACT CTAA- ATAAT ACTATAT ATTAT ATAA- AT-AT ATTTAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TA-AT ATAAT ATAAT ATAAT A-TAAT
* * * * *
389980 GTACTAT ATAAT AT-TT ATAAC ATAAT ATAAC ACGTTAT ATAAT ATAAT
1 ATA--AT ATAAT ATAAT ATAAT ATAAT ATAAT A--TAAT ATAAT ATAAT
* *
390028 ATTAT ATAAT ATACT ATA
1 ATAAT ATAAT ATAAT ATA
390046 TGATATACAC
Statistics
Matches: 317, Mismatches: 65, Indels: 102
0.65 0.13 0.21
Matches are distributed among these distances:
3 7 0.02
4 70 0.22
5 185 0.58
6 34 0.11
7 21 0.07
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:389666 original size:10 final size:11
Alignment explanation
Indices: 389648--389779 Score: 72
Period size: 13 Copynumber: 11.2 Consensus size: 11
389638 TAAAATTACT
389648 TAAATATATAA
1 TAAATATATAA
389659 TAAA-ATATAAA
1 TAAATATAT-AA
*
389670 TGTAATATATAA
1 T-AAATATATAA
**
389682 TATAATATATTT
1 TA-AATATATAA
*
389694 TATACTATATAA
1 TA-AATATATAA
389706 TACAAATATATAA
1 T--AAATATATAA
389719 TAAATATAT-A
1 TAAATATATAA
*
389729 TATATTATATAAA
1 TA-AATATAT-AA
*
389742 TATACTATATAACA
1 TA-AATATAT-A-A
389756 TAAATATAT-A
1 TAAATATATAA
*
389766 TGTAATATATAA
1 T-AAATATATAA
389778 TA
1 TA
389780 TATAACGTAA
Statistics
Matches: 96, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
10 9 0.09
11 28 0.29
12 24 0.25
13 31 0.32
14 4 0.04
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (11 bp):
TAAATATATAA
Found at i:389682 original size:7 final size:7
Alignment explanation
Indices: 389608--389993 Score: 134
Period size: 7 Copynumber: 55.0 Consensus size: 7
389598 AATGAAATTA
389608 ATAATAT
1 ATAATAT
389615 AATAACTAGT
1 -ATAA-TA-T
389625 ATAATAT
1 ATAATAT
389632 A-ACATAT
1 ATA-ATAT
*
389639 AAAAT-T
1 ATAATAT
389645 ACTTAA-AT
1 A--TAATAT
389653 AT-ATA-
1 ATAATAT
*
389658 ATAAAAT
1 ATAATAT
389665 ATAA-AT
1 ATAATAT
*
389671 GTAATAT
1 ATAATAT
389678 ATAATAT
1 ATAATAT
*
389685 AATATATTTT
1 -ATA-A-TAT
*
389695 ATACTAT
1 ATAATAT
*
389702 ATAATAC
1 ATAATAT
389709 A-AATAT
1 ATAATAT
*
389715 ATAATAA
1 ATAATAT
389722 ATATATAT
1 ATA-ATAT
*
389730 ATATTAT
1 ATAATAT
389737 ATAA-AT
1 ATAATAT
*
389743 ATACTAT
1 ATAATAT
*
389750 ATAACATAA
1 AT-A-ATAT
389759 ATATATAT
1 ATA-ATAT
*
389767 GTAATAT
1 ATAATAT
389774 ATAATAT
1 ATAATAT
389781 ATAACGTAAT
1 ATAA--T-AT
*
389791 ATAACAT
1 ATAATAT
* *
389798 GTTATAT
1 ATAATAT
389805 AT-A-AT
1 ATAATAT
389810 ATAATATT
1 ATAATA-T
389818 ATAATAT
1 ATAATAT
389825 AT-AT-T
1 ATAATAT
*
389830 ATATTAT
1 ATAATAT
389837 ATAATAT
1 ATAATAT
389844 A-AATAT
1 ATAATAT
*
389850 ATACTAT
1 ATAATAT
389857 ATACAT-T
1 ATA-ATAT
389864 ATAATATT
1 ATAATA-T
*
389872 ATAACAT
1 ATAATAT
**
389879 ATGCTAT
1 ATAATAT
*
389886 ACT--TAA
1 A-TAATAT
389892 ATAATACT
1 ATAATA-T
*
389900 ATACTAT
1 ATAATAT
389907 AT-A-AT
1 ATAATAT
*
389912 ATAA-GT
1 ATAATAT
*
389918 ATAATAA
1 ATAATAT
389925 AT-ATAT
1 ATAATAT
389931 ATAATAT
1 ATAATAT
*
389938 ATACACTCT
1 ATA-A-TAT
389947 A-AATA-
1 ATAATAT
*
389952 ATACTAT
1 ATAATAT
*
389959 ATATTAT
1 ATAATAT
389966 ATAA-AT
1 ATAATAT
*
389972 ATATTTAT
1 ATA-ATAT
* *
389980 GTACTAT
1 ATAATAT
389987 ATAATAT
1 ATAATAT
389994 TTATAACATA
Statistics
Matches: 282, Mismatches: 52, Indels: 89
0.67 0.12 0.21
Matches are distributed among these distances:
5 16 0.06
6 58 0.21
7 128 0.45
8 53 0.19
9 18 0.06
10 9 0.03
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:389689 original size:35 final size:35
Alignment explanation
Indices: 389608--389940 Score: 167
Period size: 35 Copynumber: 9.4 Consensus size: 35
389598 AATGAAATTA
* *
389608 ATAATATAATA-ACTAGTATAATATAACATATAAAAT
1 ATAATATAATATA-TAATATAATATAA-ATATAATAT
* * *
389644 -TACT-TAAATATATAATAAAATATAAATGTAATAT
1 ATAATAT-AATATATAATATAATATAAATATAATAT
** * *
389678 ATAATATAATATATTTTATACTATATAATACAAATAT
1 ATAATATAATATATAATATAATATA-AATA-TAATAT
* *
389715 ATAATA-AATATATATATATTATATAAATATACTAT
1 ATAATATAATATATA-ATATAATATAAATATAATAT
* * *
389750 ATAACATAA-ATAT-ATAT-GTA-ATATATAATAT
1 ATAATATAATATATAATATAATATAAATATAATAT
** * *
389781 ATAACGTAATATA-ACATGTTATATATAATATAATATT
1 ATAATATAATATATA-ATATAATATA-AATATAATA-T
*
389818 ATAATATATATTATATTATATAATATAAATAT-ATACT
1 ATAATATA-A-TATATAATATAATATAAATATAATA-T
* **
389855 AT-ATA-CAT-TATAATAT--TATAACATATGCTAT
1 ATAATATAATATATAATATAATATAA-ATATAATAT
* *
389886 ACTTAA-ATAATACTATACTATATAATATAAGTATAATAA
1 A--TAATATAATA-TATA--ATATAATATAAATATAATAT
389925 ATATATATAATATATA
1 ATA-ATATAATATATA
389941 CACTCTAAAT
Statistics
Matches: 225, Mismatches: 40, Indels: 62
0.69 0.12 0.19
Matches are distributed among these distances:
30 5 0.02
31 23 0.10
32 14 0.06
33 10 0.04
34 14 0.06
35 49 0.22
36 33 0.15
37 33 0.15
38 15 0.07
39 24 0.11
40 5 0.02
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (35 bp):
ATAATATAATATATAATATAATATAAATATAATAT
Found at i:389691 original size:2 final size:2
Alignment explanation
Indices: 389674--390080 Score: 99
Period size: 2 Copynumber: 217.5 Consensus size: 2
389664 TATAAATGTA
* * *
389674 AT AT AT A- AT AT A- AT AT AT -T TT AT ACT AT AT A- AT AC AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* *
389713 AT AT A- AT AA AT AT AT AT AT AT -T AT AT AA AT AT ACT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * * * *
389753 AC AT AA AT AT AT AT GT A- AT AT AT A- AT AT AT A- AC GT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
389791 AT A- AC AT GT -T AT AT AT A- AT AT A- AT AT -T AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
389827 AT -T AT AT -T AT AT A- AT AT AA AT AT AT ACT AT AT AC AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * *
389866 A- AT AT -T AT A- AC AT AT GCT AT ACT -T AA AT A- AT ACT AT ACT
1 AT AT AT AT AT AT AT AT AT -AT AT A-T AT AT AT AT AT A-T AT A-T
* *
389905 AT AT A- AT AT A- AGT AT A- AT AA AT AT AT AT A- AT AT AT AC ACT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
389945 CT AA AT A- AT ACT AT AT AT -T AT AT AA AT AT AT TT AT GT ACT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * * *
389987 AT A- AT AT TT AT A- AC AT A- AT AT A- AC AC GT -T AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
390023 AT A- AT AT -T AT AT A- AT AT ACT AT AT GAT AT AC ACC AT ACT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT A-T AT A-T AT
390064 AT A- AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT A
390081 AAAGGTCATG
Statistics
Matches: 299, Mismatches: 48, Indels: 116
0.65 0.10 0.25
Matches are distributed among these distances:
1 43 0.14
2 231 0.77
3 25 0.08
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:389715 original size:48 final size:48
Alignment explanation
Indices: 389652--389781 Score: 158
Period size: 48 Copynumber: 2.7 Consensus size: 48
389642 ATTACTTAAA
**
389652 TATATAATAAAATATAAATGTAATATATAATATAATATAT-TTTATAC
1 TATATAATAAAATATAAATGTAATATATAATATAATATATAAATATAC
* *
389699 TATATAATACAAATATATAAT-AAATATAT-ATATATTATATAAATATAC
1 TATATAATA-AAATATA-AATGTAATATATAATATAATATATAAATATAC
* *
389747 TATATAACATAAATATATATGTAATATATAATATA
1 TATATAATA-AAATATAAATGTAATATATAATATA
389782 TAACGTAATA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
47 21 0.30
48 41 0.59
49 8 0.11
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (48 bp):
TATATAATAAAATATAAATGTAATATATAATATAATATATAAATATAC
Found at i:389820 original size:27 final size:27
Alignment explanation
Indices: 389724--389933 Score: 101
Period size: 27 Copynumber: 7.9 Consensus size: 27
389714 TATAATAAAT
*
389724 ATATATATATTATATAAATATACTATATA
1 ATATA-ATATTATA-ACATATACTATATA
* *
389753 ACATAAATATATATGTA-ATATA-TA-AT-
1 ATAT-AATAT-TAT-AACATATACTATATA
* *
389779 ATATAACGTAATATAACATGTTA-TATATA
1 ATATAA--TATTATAACAT-ATACTATATA
* * *
389808 ATATAATATTATAATATATATTATATT
1 ATATAATATTATAACATATACTATATA
*
389835 ATATAATA-TA-AATATATACTATATA
1 ATATAATATTATAACATATACTATATA
*
389860 CATTATAATATTATAACATATGCTATACT-
1 -A-TATAATATTATAACATATACTATA-TA
389889 -TA-AATA--AT-AC-TATACTATATA
1 ATATAATATTATAACATATACTATATA
*
389910 ATATAAGTATAATAA-ATATA-TATA
1 ATATAA-TATTATAACATATACTATA
389934 ATATATACAC
Statistics
Matches: 143, Mismatches: 15, Indels: 49
0.69 0.07 0.24
Matches are distributed among these distances:
20 1 0.01
21 8 0.06
22 4 0.03
23 4 0.03
24 2 0.01
25 20 0.14
26 21 0.15
27 42 0.29
28 6 0.04
29 29 0.20
30 6 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (27 bp):
ATATAATATTATAACATATACTATATA
Found at i:398758 original size:21 final size:20
Alignment explanation
Indices: 398728--398766 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
398718 CATCAAGGTA
*
398728 TTTGTTGAGGCCATGAAATCT
1 TTTGTCGAGGCCAT-AAATCT
398749 TTTGTCGAGGCCATAAAT
1 TTTGTCGAGGCCATAAAT
398767 TCATGCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
TTTGTCGAGGCCATAAATCT
Found at i:413347 original size:20 final size:20
Alignment explanation
Indices: 413274--413352 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
413264 TTAATCATGA
413274 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
* * *
413294 CATCATTTCATGCATTTTAGTTTTGG
1 CATCCTTTCATGC--CTTA---AT-G
*
413320 CATTCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
413340 CATCCTTTCATGC
1 CATCCTTTCATGC
413353 ATTTTAGTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
20 25 0.56
21 1 0.02
22 3 0.07
24 3 0.07
25 1 0.02
26 12 0.27
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.44
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:413359 original size:46 final size:46
Alignment explanation
Indices: 413254--413365 Score: 170
Period size: 46 Copynumber: 2.4 Consensus size: 46
413244 AATACATTCA
* *
413254 TTCATGCATTTTAATCATGACATCCTTTCATGCCTTAATGCATCAT
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCAT
* * * *
413300 TTCATGCATTTTAGTTTTGGCATTCTTTCATGCCTTAATGCATCCT
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCAT
413346 TTCATGCATTTTAGTTATGA
1 TTCATGCATTTTAGTTATGA
413366 ATTCGGTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.46
Consensus pattern (46 bp):
TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCAT
Found at i:413895 original size:22 final size:22
Alignment explanation
Indices: 413867--413918 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
413857 CCTTCTCTCA
413867 GTATCGATGCCATTGTACTATG
1 GTATCGATGCCATTGTACTATG
413889 GTATCGATGCCATTGTACTATG
1 GTATCGATGCCATTGTACTATG
413911 GTATCGAT
1 GTATCGAT
413919 ACTCCCTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (22 bp):
GTATCGATGCCATTGTACTATG
Found at i:418693 original size:18 final size:18
Alignment explanation
Indices: 418672--418706 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
418662 TCTCTTCCTG
418672 AGCTCT-TTTAATAACTTT
1 AGCTCTGTTT-ATAACTTT
418690 AGCTCTGTTTATAACTT
1 AGCTCTGTTTATAACTT
418707 CTTGTAGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (18 bp):
AGCTCTGTTTATAACTTT
Found at i:420212 original size:46 final size:46
Alignment explanation
Indices: 420144--420445 Score: 371
Period size: 46 Copynumber: 6.6 Consensus size: 46
420134 TTATTGATTA
* * * *
420144 ATTTCAGTTATGGTC-TCTTTTCATGCATTAATACATCCATTCATGC
1 ATTTTAGTTATGG-CATCCTTTCATGCCTTAATGCATCCATTCATGC
* * *
420190 ATTTTAATCATGGCACCCTTTCATGCCTTAATGCAT-CATTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCA-TTCATGC
* *
420236 ATTTTAGTTATGGCATCATTTCATGCCTTAATGCAT-CATTTCATGT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCA-TTCATGC
* * *
420282 ATTTTAGTTATGGCAT-CTTTGCATTCCTTAATGCATCCTTTCATTC
1 ATTTTAGTTATGGCATCCTTT-CATGCCTTAATGCATCCATTCATGC
* * *
420328 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGAATTCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCATTCATGC
* *
420374 ATTTTAGTTACGGCATCCTTTCATGCCTTAAT-CTATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGC-ATCCATTCATGC
420420 ATTTTAGTTATGGCATCCTTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGC
420446 ATTTTAGTTA
Statistics
Matches: 225, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
45 6 0.03
46 214 0.95
47 5 0.02
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCATTCATGC
Found at i:420233 original size:20 final size:20
Alignment explanation
Indices: 420208--420280 Score: 83
Period size: 20 Copynumber: 3.4 Consensus size: 20
420198 CATGGCACCC
420208 TTTCATGCCTTAATGCATCA
1 TTTCATGCCTTAATGCATCA
*
420228 TTTCATGCATTTTAGTTATGGCATCA
1 TTTCATGC--CTTA---AT-GCATCA
420254 TTTCATGCCTTAATGCATCA
1 TTTCATGCCTTAATGCATCA
420274 TTTCATG
1 TTTCATG
420281 TATTTTAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
20 21 0.47
21 2 0.04
22 3 0.07
24 3 0.07
25 2 0.04
26 14 0.31
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (20 bp):
TTTCATGCCTTAATGCATCA
Found at i:420397 original size:138 final size:138
Alignment explanation
Indices: 420144--420448 Score: 411
Period size: 138 Copynumber: 2.2 Consensus size: 138
420134 TTATTGATTA
* *
420144 ATTTCAGTTATGGTC-TCTTTTCATGCATTAATACATCCATTCATGCATTTTAATCATGGCACCC
1 ATTTTAGTTATGG-CATCTTTGCATGCATTAATACATCCATTCATGCATTTTAATCATGGCACCC
* *
420208 TTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATGGCATCATTTCATGCCTTAATGC-AT
65 TTTCATGCCTTAATGAATCATTTCATGCATTTTAGTTACGGCATCATTTCATGCCTTAAT-CTAT
*
420272 CATTTCATGT
129 CATTTCATGC
* * * * * * * *
420282 ATTTTAGTTATGGCATCTTTGCATTCCTTAATGCATCCTTTCATTCATTTTAGTTATGGCATCCT
1 ATTTTAGTTATGGCATCTTTGCATGCATTAATACATCCATTCATGCATTTTAATCATGGCACCCT
*
420347 TTCATGCCTTAATGAATTC-TTTCATGCATTTTAGTTACGGCATCCTTTCATGCCTTAATCTATC
66 TTCATGCCTTAATGAA-TCATTTCATGCATTTTAGTTACGGCATCATTTCATGCCTTAATCTATC
*
420411 CTTTCATGC
130 ATTTCATGC
420420 ATTTTAGTTATGGCATCCTTT-CATGCATT
1 ATTTTAGTTATGGCAT-CTTTGCATGCATT
420449 TTAGTTATGG
Statistics
Matches: 146, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
137 2 0.01
138 138 0.95
139 6 0.04
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.45
Consensus pattern (138 bp):
ATTTTAGTTATGGCATCTTTGCATGCATTAATACATCCATTCATGCATTTTAATCATGGCACCCT
TTCATGCCTTAATGAATCATTTCATGCATTTTAGTTACGGCATCATTTCATGCCTTAATCTATCA
TTTCATGC
Done.