Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001991.1 Hibiscus syriacus cultivar Beakdansim tig00004072_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: 2373627
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 13
Found at i:2160300 original size:23 final size:24
Alignment explanation
Indices: 2160271--2160316 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 24
2160261 TTACATGTGT
2160271 TTTTTGTCCCTTTTTC-CTTTTTA
1 TTTTTGTCCCTTTTTCTCTTTTTA
2160294 TTTTTGTCCCTTTTTCTCTTTTT
1 TTTTTGTCCCTTTTTCTCTTTTT
2160317 TCTTTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTGTCCCTTTTTCTCTTTTTA
Found at i:2160322 original size:23 final size:23
Alignment explanation
Indices: 2160273--2160323 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
2160263 ACATGTGTTT
*
2160273 TTTGTCCCTTTTTCCTTTTTATT
1 TTTGTCCCTTTTTCCTTTTTATC
2160296 TTTGTCCCTTTTTCTCTTTTT-TC
1 TTTGTCCCTTTTTC-CTTTTTATC
2160319 TTTGT
1 TTTGT
2160324 TTTTTTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.02, C:0.22, G:0.06, T:0.71
Consensus pattern (23 bp):
TTTGTCCCTTTTTCCTTTTTATC
Found at i:2164963 original size:45 final size:43
Alignment explanation
Indices: 2164914--2165002 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 43
2164904 CCAAGGAAAT
* *
2164914 AAATGAAA-CCAATAATAATAAACATAAAATAATTGGATGAAAAAA
1 AAATGAAATCCAATAA-AATAAA-ATAAAATAAAT-GAAGAAAAAA
**
2164959 AAATGAAATTGAATAAAATAAAATAAAATAAATGAAGAAAAAA
1 AAATGAAATCCAATAAAATAAAATAAAATAAATGAAGAAAAAA
2165002 A
1 A
2165003 TATATATACA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
43 10 0.26
44 10 0.26
45 14 0.36
46 5 0.13
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.19
Consensus pattern (43 bp):
AAATGAAATCCAATAAAATAAAATAAAATAAATGAAGAAAAAA
Found at i:2164987 original size:20 final size:19
Alignment explanation
Indices: 2164930--2164985 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
2164920 AACCAATAAT
2164930 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
* *
2164949 GATGAAAAAAAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
2164970 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
2164986 ATAAATGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 11 0.37
20 12 0.40
21 7 0.23
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:2165182 original size:19 final size:18
Alignment explanation
Indices: 2165154--2165189 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2165144 AAAGTATGTA
*
2165154 TAATATAATACTAAATAG
1 TAATATAATAATAAATAG
2165172 TAATAATAATAATAAATA
1 TAAT-ATAATAATAAATA
2165190 AATGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
TAATATAATAATAAATAG
Found at i:2165432 original size:2 final size:2
Alignment explanation
Indices: 2165425--2165460 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2165415 ATATAATTAA
*
2165425 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2165461 AATAATAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2165900 original size:37 final size:37
Alignment explanation
Indices: 2165859--2165955 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
2165849 ATGCTTGTGG
* * * * *
2165859 ATCCTATCTTTAGGAATTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTAT
* * *
2165896 ATCCTATTTTTAGGAGTTTGAATCATAGCAAAATTAT
1 ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTAT
2165933 ATCCTATTTTTAGGAGTTTAAAT
1 ATCCTATTTTTAGGAGTTTAAAT
2165956 CTTAGTAGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATAATAGCAAAACTAT
Found at i:2169846 original size:31 final size:31
Alignment explanation
Indices: 2169808--2169963 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
2169798 CCCGAAGGAC
* * *
2169808 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
2169839 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2169870 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2169901 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
2169932 CATTCCATATGTCCCAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2169963 C
1 C
2169964 CCTCGACCCT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2171238 original size:24 final size:25
Alignment explanation
Indices: 2171211--2171259 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
2171201 CAAATTTACC
* *
2171211 TTCC-AATTTGATTAAAGAACTCTA
1 TTCCAAATTTCATTAAAAAACTCTA
2171235 TTCCAGAATTTCATTAAAAAACTCT
1 TTCCA-AATTTCATTAAAAAACTCT
2171260 TAATCTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
26 17 0.81
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (25 bp):
TTCCAAATTTCATTAAAAAACTCTA
Found at i:2172975 original size:22 final size:22
Alignment explanation
Indices: 2172950--2172997 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
2172940 TTAAATGATT
*
2172950 TTTTAT-ATCTATATTTCTTTAA
1 TTTTATAAT-TATATTTATTTAA
* *
2172972 TTTTTTAATTATATTTATTTAC
1 TTTTATAATTATATTTATTTAA
2172994 TTTT
1 TTTT
2172998 GCTCTAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTTATAATTATATTTATTTAA
Found at i:2176549 original size:15 final size:15
Alignment explanation
Indices: 2176529--2176559 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
2176519 AGGCACACTC
2176529 CAAAGTAATGTGTGA
1 CAAAGTAATGTGTGA
2176544 CAAAGTAATGTGTGA
1 CAAAGTAATGTGTGA
2176559 C
1 C
2176560 GCTGCACGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.26
Consensus pattern (15 bp):
CAAAGTAATGTGTGA
Found at i:2177939 original size:20 final size:20
Alignment explanation
Indices: 2177914--2177962 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
2177904 GGTAAATATA
2177914 ATCTGCACTCAATTCCATGT
1 ATCTGCACTCAATTCCATGT
*
2177934 ATCTGCACTCAATTCTATGT
1 ATCTGCACTCAATTCCATGT
*
2177954 ATTTGCACT
1 ATCTGCACT
2177963 TCATTATCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (20 bp):
ATCTGCACTCAATTCCATGT
Found at i:2183622 original size:26 final size:26
Alignment explanation
Indices: 2183588--2183637 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
2183578 TATCATTATA
*
2183588 TGATATATTTATTCATA-ATATTTTTT
1 TGATATATTGATT-ATACATATTTTTT
*
2183614 TGATTTATTGATTATACATATTTT
1 TGATATATTGATTATACATATTTT
2183638 ATAAATACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (26 bp):
TGATATATTGATTATACATATTTTTT
Found at i:2185314 original size:23 final size:23
Alignment explanation
Indices: 2185288--2185348 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 23
2185278 AAAATATATT
*
2185288 TTCATCCTCTAAAATTTTATAAG
1 TTCATCCTCTAAAATTTTATAAA
*
2185311 TTCATCATCTTTTAAAATTTTATAAA
1 TTCATC--C-TCTAAAATTTTATAAA
*
2185337 TTCATCCCCTAA
1 TTCATCCTCTAA
2185349 CATAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 9 0.29
24 1 0.03
25 1 0.03
26 20 0.65
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.44
Consensus pattern (23 bp):
TTCATCCTCTAAAATTTTATAAA
Found at i:2187670 original size:19 final size:19
Alignment explanation
Indices: 2187646--2187691 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
2187636 CATTTGAAAT
* *
2187646 AGTAGAGAGCTTAGGCCAC
1 AGTAGAGAGCTCAGACCAC
2187665 AGTAGAGAGCTCAGACCAC
1 AGTAGAGAGCTCAGACCAC
2187684 AGTAGAGA
1 AGTAGAGA
2187692 TGAAAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.30, T:0.13
Consensus pattern (19 bp):
AGTAGAGAGCTCAGACCAC
Found at i:2188447 original size:259 final size:260
Alignment explanation
Indices: 2187988--2188507 Score: 1033
Period size: 259 Copynumber: 2.0 Consensus size: 260
2187978 TTAGTGTTAG
2187988 CGGTGAGTTGTAAGTGTCATAAGGATTCTTGTACATGTTATAACCTAGTTCTAAAGAGAAAGTTT
1 CGGTGAGTTGTAAGTGTCATAAGGATTCTTGTACATGTTATAACCTAGTTCTAAAGAGAAAGTTT
2188053 TAGCCAATGATCAAAAGATAGGGGTTTGAGTTTCTAGCCCTTAGTGTTAGATGTTCTAGTAGTTA
66 TAGCCAATGATCAAAAGATAGGGGTTTGAGTTTCTAGCCCTTAGTGTTAGATGTTCTAGTAGTTA
2188118 AGATCTGTCGTAGATGCCCAATAGAGTTTCAGAGTGAAACATTTCTCTAGGAGAATTTTGAGAAC
131 AGATCTGTCGTAGATGCCCAATAGAGTTTCAGAGTGAAACATTTCTCTAGGAGAATTTTGAGAAC
2188183 GAAATTTCTTGTAGGAGAAGAGAGTTGTAATGCCCCGAATTTTAGGTCAGTAGTTCGAG-TAACC
196 GAAATTTCTTGTAGGAGAAGAGAGTTGTAATGCCCCGAATTTTAGGTCAGTAGTTCGAGTTAACC
2188247 CGGTGAGTTGTAAGTGTCATAAGGATTCTTGTACATGTTATAACCTAGTTCTAAAGAGAAAGTTT
1 CGGTGAGTTGTAAGTGTCATAAGGATTCTTGTACATGTTATAACCTAGTTCTAAAGAGAAAGTTT
2188312 TAGCCAATGATCAAAAGATAGGGGTTTGAGTTTCTAGCCCTTAGTGTTAGATGTTCTAGTAGTTA
66 TAGCCAATGATCAAAAGATAGGGGTTTGAGTTTCTAGCCCTTAGTGTTAGATGTTCTAGTAGTTA
2188377 AGATCTGTCGTAGATGCCCAATAGAGTTTCAGAGTGAAACATTTCTCTAGGAGAATTTTGAGAAC
131 AGATCTGTCGTAGATGCCCAATAGAGTTTCAGAGTGAAACATTTCTCTAGGAGAATTTTGAGAAC
2188442 GAAATTTCTTGTAGGAGAAGAGAGTTGTAATGCCCCGAATTTTAGGTCAGTAGTTCGAGTTAACC
196 GAAATTTCTTGTAGGAGAAGAGAGTTGTAATGCCCCGAATTTTAGGTCAGTAGTTCGAGTTAACC
2188507 C
1 C
2188508 AAAACCTATA
Statistics
Matches: 260, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
259 254 0.98
260 6 0.02
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (260 bp):
CGGTGAGTTGTAAGTGTCATAAGGATTCTTGTACATGTTATAACCTAGTTCTAAAGAGAAAGTTT
TAGCCAATGATCAAAAGATAGGGGTTTGAGTTTCTAGCCCTTAGTGTTAGATGTTCTAGTAGTTA
AGATCTGTCGTAGATGCCCAATAGAGTTTCAGAGTGAAACATTTCTCTAGGAGAATTTTGAGAAC
GAAATTTCTTGTAGGAGAAGAGAGTTGTAATGCCCCGAATTTTAGGTCAGTAGTTCGAGTTAACC
Found at i:2190996 original size:23 final size:23
Alignment explanation
Indices: 2190963--2191023 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
2190953 CTCGTTTAAA
*
2190963 TGCACCAAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
2190986 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
2191009 TGCACCGAAGTGCCA
1 TGCACCGAAGTGCCA
2191024 TATAAAATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:2194716 original size:19 final size:19
Alignment explanation
Indices: 2194692--2194728 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2194682 TATTGGAATA
*
2194692 TGCATTCTAGAATATGCAG
1 TGCATTCTAGAACATGCAG
2194711 TGCATTCTAGAACATGCA
1 TGCATTCTAGAACATGCA
2194729 CTGCTAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (19 bp):
TGCATTCTAGAACATGCAG
Found at i:2195834 original size:36 final size:36
Alignment explanation
Indices: 2195766--2195882 Score: 173
Period size: 36 Copynumber: 3.3 Consensus size: 36
2195756 GGTGCACCGA
*
2195766 CGATTCAAATCGAACGGAAGG-AGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTC
* *
2195801 TGATTCAAGTCGAACAGAAGGAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTC
* *
2195837 CGATTCAAGTCGAACGGAATGAAACATCGGCACTTC
1 CGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTC
*
2195873 CGATCCAAGT
1 CGATTCAAGT
2195883 GTTCGTTTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 18 0.25
36 55 0.75
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (36 bp):
CGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTC
Found at i:2200057 original size:28 final size:28
Alignment explanation
Indices: 2200015--2200072 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
2200005 TATATACTAC
* *
2200015 TTTATAATCAACTTATAATTTAATTGAA
1 TTTATAAACAACTTATAATGTAATTGAA
* *
2200043 TTTATAAACACCTTATAGTGTAATTGAA
1 TTTATAAACAACTTATAATGTAATTGAA
2200071 TT
1 TT
2200073 AATAGATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (28 bp):
TTTATAAACAACTTATAATGTAATTGAA
Found at i:2202854 original size:20 final size:21
Alignment explanation
Indices: 2202820--2202858 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2202810 AAATAAAAAT
*
2202820 AAAAACAAAGAAAAACTTTGA
1 AAAAAAAAAGAAAAACTTTGA
2202841 AAAAAAAAAG-AAAACTTT
1 AAAAAAAAAGAAAAACTTT
2202859 TATTAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (21 bp):
AAAAAAAAAGAAAAACTTTGA
Found at i:2204111 original size:20 final size:19
Alignment explanation
Indices: 2204086--2204139 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
2204076 ACTCAAGGGA
2204086 GTATCGATACCGAGTGAAGG
1 GTATCGATACCGAGT-AAGG
*
2204106 GTATCGATATCCTAAGTAAGG
1 GTATCGATA-CC-GAGTAAGG
*
2204127 GTATCAATACCGA
1 GTATCGATACCGA
2204140 ATCAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.03
20 11 0.38
21 14 0.48
22 3 0.10
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (19 bp):
GTATCGATACCGAGTAAGG
Found at i:2206701 original size:26 final size:26
Alignment explanation
Indices: 2206664--2206753 Score: 162
Period size: 26 Copynumber: 3.5 Consensus size: 26
2206654 GCCTAATCCC
* *
2206664 TGTCGTTTCTTAGCCTTAAATTAAGT
1 TGTCGTTCCTTAACCTTAAATTAAGT
2206690 TGTCGTTCCTTAACCTTAAATTAAGT
1 TGTCGTTCCTTAACCTTAAATTAAGT
2206716 TGTCGTTCCTTAACCTTAAATTAAGT
1 TGTCGTTCCTTAACCTTAAATTAAGT
2206742 TGTCGTTCCTTA
1 TGTCGTTCCTTA
2206754 TATTTTCTCC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.44
Consensus pattern (26 bp):
TGTCGTTCCTTAACCTTAAATTAAGT
Found at i:2207474 original size:51 final size:51
Alignment explanation
Indices: 2207410--2207507 Score: 160
Period size: 51 Copynumber: 1.9 Consensus size: 51
2207400 TCATACTATT
* *
2207410 GGATTTAAGGAAATCAAAGATTGAGATTAAATCTTTATTTTTGTTTTGAAG
1 GGATTGAAGGAAATCAAAGATTGAGATTAAATCATTATTTTTGTTTTGAAG
* *
2207461 GGATTGAATGAAATCAAAGATTGAGATTAACTCATTATTTTTGTTTT
1 GGATTGAAGGAAATCAAAGATTGAGATTAAATCATTATTTTTGTTTT
2207508 TCCGATGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (51 bp):
GGATTGAAGGAAATCAAAGATTGAGATTAAATCATTATTTTTGTTTTGAAG
Found at i:2207717 original size:18 final size:18
Alignment explanation
Indices: 2207694--2207728 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2207684 CAGGTCACAT
2207694 TTTTTTTATTTTAAATTA
1 TTTTTTTATTTTAAATTA
*
2207712 TTTTTTTATTTTTAATT
1 TTTTTTTATTTTAAATT
2207729 CTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTTATTTTAAATTA
Found at i:2208230 original size:41 final size:41
Alignment explanation
Indices: 2208168--2208286 Score: 204
Period size: 41 Copynumber: 2.9 Consensus size: 41
2208158 TTCAATTGAA
2208168 ATTTACATAG-AATTTACAGATTGTCCACCAAGAGTGAGAG
1 ATTTACATAGAAATTTACAGATTGTCCACCAAGAGTGAGAG
*
2208208 ATTTACATAGAAATTTACAGATTGTCCATCAAGAGTGAGAG
1 ATTTACATAGAAATTTACAGATTGTCCACCAAGAGTGAGAG
**
2208249 ATTTACATAGAAATTTACATTTTGTCCACCAAGAGTGA
1 ATTTACATAGAAATTTACAGATTGTCCACCAAGAGTGA
2208287 CGGTAGTATG
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 10 0.14
41 64 0.86
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (41 bp):
ATTTACATAGAAATTTACAGATTGTCCACCAAGAGTGAGAG
Found at i:2210148 original size:17 final size:17
Alignment explanation
Indices: 2210126--2210159 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2210116 ATAAAATTTT
2210126 ACCAAATTATGTTATTG
1 ACCAAATTATGTTATTG
2210143 ACCAAATTATGTTATTG
1 ACCAAATTATGTTATTG
2210160 GAATATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
ACCAAATTATGTTATTG
Found at i:2215468 original size:21 final size:21
Alignment explanation
Indices: 2215442--2215482 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2215432 GACTATTGCA
2215442 TTGCGATTTCCCAAATTCGCG
1 TTGCGATTTCCCAAATTCGCG
* *
2215463 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTCCCAAATTCGC
2215483 AGCGCGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGCG
Found at i:2215508 original size:20 final size:20
Alignment explanation
Indices: 2215479--2215590 Score: 120
Period size: 20 Copynumber: 5.5 Consensus size: 20
2215469 TTTTCCTAAT
*
2215479 TCGCAGCGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
*
2215499 TCGCAACGCGTAT-CTGTAAA
1 TCGCAACGCGAATAC-GTAAA
*
2215519 TCGCAACGAGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
* * * *
2215539 TCGTAATGCGTATCCGTAAA
1 TCGCAACGCGAATACGTAAA
2215559 TCGCAACGAC-AATACGTAAAA
1 TCGCAACG-CGAATACGT-AAA
2215580 TCGCAACGCGA
1 TCGCAACGCGA
2215591 TTTTTAAAGC
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
19 1 0.01
20 59 0.80
21 14 0.19
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:2215534 original size:40 final size:40
Alignment explanation
Indices: 2215479--2215589 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 40
2215469 TTTTCCTAAT
* * *
2215479 TCGCAGCGCGAATACGTAAATCGCAACGCGTATCTGTAAA
1 TCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAA
* *
2215519 TCGCAACGAGAATACGTAAATCGTAATGCGTATCCGTAAA
1 TCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAA
*
2215559 TCGCAACGACAATACGTAAAATCGCAACGCG
1 TCGCAACGAGAATACGT-AAATCGCAACGCG
2215590 ATTTTTAAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
40 51 0.82
41 11 0.18
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (40 bp):
TCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAAA
Found at i:2216208 original size:21 final size:21
Alignment explanation
Indices: 2216147--2216225 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
2216137 TTCTAAACTT
2216147 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
2216167 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
2216187 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
2216208 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
2216226 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:2216373 original size:20 final size:19
Alignment explanation
Indices: 2216245--2216376 Score: 148
Period size: 19 Copynumber: 7.1 Consensus size: 19
2216235 GAAACCAAAA
*
2216245 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2216264 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2216283 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2216302 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
2216316 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
2216335 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
2216355 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2216375 TC
1 TC
2216377 AACCAAAAGA
Statistics
Matches: 99, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
14 10 0.10
16 2 0.02
17 3 0.03
19 51 0.52
20 32 0.32
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2218214 original size:94 final size:94
Alignment explanation
Indices: 2218053--2218432 Score: 629
Period size: 94 Copynumber: 4.1 Consensus size: 94
2218043 TAGATTGCTT
* *
2218053 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
2218118 ATTTGTCTTTTGTTTTTTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
* *
2218147 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAAATGTGTATTCTTTAACACTGTGAAATTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2218212 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
2218241 AGTAAATTTGTTCGGTTGCTGCCAATTCTGTTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
2218306 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * *
2218335 AATAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
2218400 ATTTGTCTTTGTTTTATCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2218428 AGTAA
1 AGTAA
2218433 TGCAATCCAT
Statistics
Matches: 270, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
93 24 0.09
94 246 0.91
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2218295 original size:17 final size:17
Alignment explanation
Indices: 2218265--2218297 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2218255 GTTGCTGCCA
2218265 ATTCTGTTAAACTGTGT
1 ATTCTGTTAAACTGTGT
2218282 ATTCT-TTAACACTGTG
1 ATTCTGTTAA-ACTGTG
2218298 AAGTTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (17 bp):
ATTCTGTTAAACTGTGT
Found at i:2218827 original size:42 final size:42
Alignment explanation
Indices: 2218767--2218859 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
2218757 GCCCGACTCG
* *
2218767 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCC
* * *
2218809 CCTATCATTCCTCGAGAGTCCCCTCCCATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCC
* *
2218851 ACTGTCATC
1 CCTATCATC
2218860 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.25
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCC
Found at i:2218847 original size:21 final size:21
Alignment explanation
Indices: 2218778--2218889 Score: 57
Period size: 21 Copynumber: 5.3 Consensus size: 21
2218768 CTATCATCCC
* *
2218778 TCAAGAGTCCACTCCTATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * ** *
2218799 TGAAGAGGCCCCTATCATTC-C
1 TCAAGAGTCCCCTCCCA-TCGT
*
2218820 TCGAGAGTCCCCTCCCATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * **
2218841 TCAAGAGGCCACTGTCATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * *
2218862 TGAAGAGGT-CCCTCCCACCAT
1 TCAAGA-GTCCCCTCCCATCGT
2218883 TCAAGAG
1 TCAAGAG
2218890 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 26, Indels: 7
0.65 0.27 0.07
Matches are distributed among these distances:
20 3 0.05
21 56 0.90
22 3 0.05
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCATCGT
Found at i:2220262 original size:14 final size:14
Alignment explanation
Indices: 2220243--2220278 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2220233 ATTGTTTAAT
2220243 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2220257 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2220271 TGATTTGT
1 TGATTTGT
2220279 TTAATTGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2220401 original size:19 final size:17
Alignment explanation
Indices: 2220385--2220435 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
2220375 AAAAATGACT
2220385 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
2220404 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
2220418 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
2220435 A
1 A
2220436 AATCGCAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
16 5 0.19
17 7 0.26
19 7 0.26
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:2220427 original size:33 final size:33
Alignment explanation
Indices: 2220385--2220464 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
2220375 AAAAATGACT
* *
2220385 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2220418 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2220451 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
2220465 CTAAATCGCG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2220441 original size:19 final size:19
Alignment explanation
Indices: 2220385--2220443 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
2220375 AAAAATGACT
2220385 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2220404 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2220418 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2220437 ATCGCAA
1 ATCGCAA
2220444 CGACAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2220497 original size:19 final size:19
Alignment explanation
Indices: 2220470--2220529 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
2220460 CGAAACTAAA
*
2220470 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2220489 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
2220505 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2220522 TCGCATTG
1 TCGCATTG
2220530 TCGTTGCGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 7 0.21
19 13 0.39
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2220558 original size:20 final size:20
Alignment explanation
Indices: 2220531--2220604 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
2220521 TTCGCATTGT
2220531 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACA
* * * *
2220551 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACA
* *
2220571 CGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGGATACA
2220591 CGTTGCGATTTACG
1 CGTTGCGATTTACG
2220605 TAATCGCATT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACA
Found at i:2220577 original size:40 final size:40
Alignment explanation
Indices: 2220530--2220606 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
2220520 TTTCGCATTG
*
2220530 TCGTTGCGATTTACGGATACACATTGCGATTTACGTATTC
1 TCGTTGCGATTTACAGATACACATTGCGATTTACGTATTC
* *
2220570 TCGTTGCGATTTACAGATACGCGTTGCGATTTACGTA
1 TCGTTGCGATTTACAGATACACATTGCGATTTACGTA
2220607 ATCGCATTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (40 bp):
TCGTTGCGATTTACAGATACACATTGCGATTTACGTATTC
Found at i:2220616 original size:20 final size:20
Alignment explanation
Indices: 2220533--2220618 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
2220523 CGCATTGTCG
* *
2220533 TTGCGATTTACGGATACACA
1 TTGCGATTTACGAATACGCA
* * * *
2220553 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGAATACGCA
*
2220573 TTGCGATTTAC-AGATACGCG
1 TTGCGATTTACGA-ATACGCA
2220593 TTGCGATTTACGTAAT-CGCA
1 TTGCGATTTACG-AATACGCA
2220613 TTGCGA
1 TTGCGA
2220619 ATTAGGAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
20 52 0.95
21 2 0.04
22 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGCGATTTACGAATACGCA
Found at i:2220617 original size:40 final size:40
Alignment explanation
Indices: 2220533--2220618 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
2220523 CGCATTGTCG
* * * *
2220533 TTGCGATTTACGGATACACATTGCGATTTACGTATTCTCG
1 TTGCGATTTACAGATACACATTGCGATTTACGTAATCGCA
* *
2220573 TTGCGATTTACAGATACGCGTTGCGATTTACGTAATCGCA
1 TTGCGATTTACAGATACACATTGCGATTTACGTAATCGCA
2220613 TTGCGA
1 TTGCGA
2220619 ATTAGGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (40 bp):
TTGCGATTTACAGATACACATTGCGATTTACGTAATCGCA
Found at i:2228195 original size:11 final size:11
Alignment explanation
Indices: 2228179--2228204 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2228169 TTTCTTATTA
2228179 AAAAAAAAAAG
1 AAAAAAAAAAG
2228190 AAAAAAAAAAG
1 AAAAAAAAAAG
2228201 AAAA
1 AAAA
2228205 GAGAACTGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:2232804 original size:13 final size:13
Alignment explanation
Indices: 2232786--2232810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2232776 TTAGTACACA
2232786 CACAGACAAAATT
1 CACAGACAAAATT
2232799 CACAGACAAAAT
1 CACAGACAAAAT
2232811 CTATAAGAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.24, G:0.08, T:0.12
Consensus pattern (13 bp):
CACAGACAAAATT
Found at i:2233597 original size:205 final size:209
Alignment explanation
Indices: 2233242--2233660 Score: 801
Period size: 205 Copynumber: 2.0 Consensus size: 209
2233232 TCCCATCCTT
2233242 AGTTAAACATCACTGGCAATCTATAATCACCAACTGCAAACAAAAACAAGGCGAACAAATAGCCA
1 AGTTAAACATCACTGGCAATCTATAATCACCAACTGCAAACAAAAACAAGGCGAAC-AATAGCCA
2233307 AGTAAACCCAGACATGAAACCCGTTAATTAATCTGGGATAATAAAGACAAATAAGAGATACCATA
65 AGTAAACCCAGACATGAAACCCGTTAATTAATCTGGGATAATAAAGACAAATAAGAGATACCATA
2233372 TTAGACATTAATCAAAATGGAAACTAAAACGACACATCAACACACGTCAATTAATG-GAAT-ATT
130 TTAGACATTAATCAAAATGGAAACTAAAACGACACATCAACACACGTCAATTAATGTGAATAATT
2233435 GTTAAAGCTATCTCC
195 GTTAAAGCTATCTCC
2233450 AGTTAAACATCACTGGCAATCTATAATCACCAACTGCAAACAAAAACAAGGCGAAC-A-AGCCAA
1 AGTTAAACATCACTGGCAATCTATAATCACCAACTGCAAACAAAAACAAGGCGAACAATAGCCAA
2233513 GTAAACCCAGACATGAAACCCGTTAATTAATCTGGGATAATAAAGACAAATAAGAGATACCATAT
66 GTAAACCCAGACATGAAACCCGTTAATTAATCTGGGATAATAAAGACAAATAAGAGATACCATAT
2233578 TAGACATTAATCAAAATGGAAACTAAAACGACACATCAACACACGTCAATTAATGTGAATAATTG
131 TAGACATTAATCAAAATGGAAACTAAAACGACACATCAACACACGTCAATTAATGTGAATAATTG
2233643 TTAAAGCTATCTCC
196 TTAAAGCTATCTCC
2233657 AGTT
1 AGTT
2233661 TCCACAAATA
Statistics
Matches: 209, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
205 126 0.60
206 5 0.02
207 22 0.11
208 56 0.27
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (209 bp):
AGTTAAACATCACTGGCAATCTATAATCACCAACTGCAAACAAAAACAAGGCGAACAATAGCCAA
GTAAACCCAGACATGAAACCCGTTAATTAATCTGGGATAATAAAGACAAATAAGAGATACCATAT
TAGACATTAATCAAAATGGAAACTAAAACGACACATCAACACACGTCAATTAATGTGAATAATTG
TTAAAGCTATCTCC
Found at i:2235408 original size:25 final size:25
Alignment explanation
Indices: 2235379--2235426 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
2235369 TAAAAGTTTG
2235379 ATTTTGATTTAATTATATAAATAAA
1 ATTTTGATTTAATTATATAAATAAA
2235404 ATTTTGATTTAATTATATAAATA
1 ATTTTGATTTAATTATATAAATA
2235427 CACGTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
ATTTTGATTTAATTATATAAATAAA
Found at i:2237696 original size:31 final size:31
Alignment explanation
Indices: 2237661--2237721 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
2237651 TAGAGTGACT
* *
2237661 ATTTTGTTACAAATTAATAACGTTAATGATC
1 ATTTTATTACAAATTAATAACATTAATGATC
* *
2237692 ATTTTATTATAAATTGATAACATTAATGAT
1 ATTTTATTACAAATTAATAACATTAATGAT
2237722 TAATTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (31 bp):
ATTTTATTACAAATTAATAACATTAATGATC
Found at i:2254632 original size:182 final size:183
Alignment explanation
Indices: 2254339--2255445 Score: 1304
Period size: 182 Copynumber: 6.2 Consensus size: 183
2254329 ATGTCAAGCG
2254339 CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGA
1 CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGA
***
2254404 GAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGCAAATGTATCGATCCATAACAATATA
66 GAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTAAAAAAATGTATCGATCCATAACAATATA
*
2254469 ACA-ACCTAAAATATGACAAAACCGGTCTCAAAATGACAAAATAGGTAAATAA
131 ACAGACCTAAAAAATGACAAAACCGGTCTCAAAATGACAAAATAGGTAAATAA
* *
2254521 CTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTTGAATTTAAAAGA
1 CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGA
* *
2254586 GAAGAAGTTATAGCGCCTATAAA-GTGTCGATACTTTAAAAAAATGTATCGATCCATAATAATAT
66 GAAGAAGTTATAGCGCCTA-AAACGTGTCGACACTTTAAAAAAATGTATCGATCCATAACAATAT
* * * * *
2254650 AACAGATCTAAAAAATGACAAAACTGG--T--AAA--ACGATATCGGGT--AT-A
130 AACAGACCTAAAAAATGACAAAACCGGTCTCAAAATGACAAAAT-AGGTAAATAA
* * * * *
2254696 TTGA--A-A-GTGTCG--A---T--AA--TTTAATATAAGTATCAACACTTTCTGAATTTAAAAG
1 CT-ACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAG
* * *
2254748 AGAAGAGGTTATAGCGCTTAAAACGTGTCGACAATTTAAAAAAATGTATCGATCCATAACAATAT
65 AGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTAAAAAAATGTATCGATCCATAACAATAT
* * *
2254813 AACA-ACCTAAAATATGACAAAATCGGTCTCAAAATGACAAAAGAGGTAAATAA
130 AACAGACCTAAAAAATGACAAAACCGGTCTCAAAATGACAAAATAGGTAAATAA
* * *
2254866 CTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT-TGGAATTTAAAAG
1 CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCT-GAATTTAAAAG
* * **
2254930 AGAAGAAGTTACAGCGCCTACAAA-GTGTCGATACTTTAAAAAAAAATATCGATCCATAACAATA
65 AGAAGAAGTTATAGCGCCTA-AAACGTGTCGACACTTTAAAAAAATGTATCGATCCATAACAATA
* * * * ** ***
2254994 TAACAG--GTAAAAATAGGATAAAACCGGTCTAAAAATGACAAAACCGGTAAAGCG
129 TAACAGACCTAAAAA-ATGACAAAACCGGTCTCAAAATGACAAAATAGGTAAATAA
*
2255048 CTA-CATGATATGTTGAAAGTGTCGATAATTTAATATAAGTATTGACACTTTCTGAATTTAAAAG
1 CTACCA-GATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAG
**
2255112 AGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATAT
65 AGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTAAAAAAATGTATCGATCCATAACAATAT
* *
2255177 AACA-ACCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATAA
130 AACAGACCTAAAAAATGACAAAACCGGTCTCAAAATGACAAAATAGGTAAATAA
* * *
2255230 CTACCGGATATGTTGAAAGTGTCGATATTTTAATATAATTATCGACACTTT-TGAAATTTAAAAG
1 CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTG-AATTTAAAAG
* * * *
2255294 AGAATAAGTTATAGCGCC-AATAAAGTGTCGATACTTT-AAAAAATGTATCGATCCATAATAATA
65 AGAAGAAGTTATAGCGCCTAA-AACGTGTCGACACTTTAAAAAAATGTATCGATCCATAACAATA
* * *
2255357 TAACAG-GC-AAAAATAGGACAAAACAGGTCT-AAAATTGACAAAACT-GGT-AA-AA
129 TAACAGACCTAAAAA-ATGACAAAACCGGTCTCAAAA-TGACAAAA-TAGGTAAATAA
*
2255409 CGATACCAGATATATTGAAAGTGTCGATAATTTAATA
1 C--TACCAGATATGTTGAAAGTGTCGATAATTTAATA
2255446 AGTACGCATA
Statistics
Matches: 788, Mismatches: 92, Indels: 91
0.81 0.09 0.09
Matches are distributed among these distances:
162 21 0.03
163 94 0.12
164 1 0.00
165 1 0.00
166 3 0.00
167 4 0.01
168 4 0.01
169 3 0.00
170 3 0.00
172 5 0.01
173 5 0.01
174 1 0.00
175 3 0.00
176 3 0.00
177 5 0.01
178 4 0.01
179 6 0.01
180 11 0.01
181 100 0.13
182 479 0.61
183 32 0.04
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (183 bp):
CTACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGA
GAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTAAAAAAATGTATCGATCCATAACAATATA
ACAGACCTAAAAAATGACAAAACCGGTCTCAAAATGACAAAATAGGTAAATAA
Found at i:2254895 original size:345 final size:344
Alignment explanation
Indices: 2254279--2255362 Score: 1602
Period size: 345 Copynumber: 3.1 Consensus size: 344
2254269 CGATACAAAT
* * *
2254279 AAAAAATGTATCGATCCATAACAATATAACAG--GTAAAAATAGGACAAAACAT-GTCAAGCGCT
1 AAAAAATGTATCGATCCATAACAATATAACAGATCTAAAAA-ATGACAAAAC-TGGTAAAGCGCT
2254341 ACCAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGA
64 A-CAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGA
*
2254406 AGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGCAAATGTATCGATCCATAACAATATAAC
128 AGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAAC
* *
2254471 AACCTAAAATATGACAAAACCGGTCTCAAAATGACAAAATAGGTAAATAACTACCAGATATGTTG
193 AACCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTG
2254536 AAAGTGTCGATACTTTAATATAAGTATCGACACTTTTTGAATTTAAAAGAGAAGAAGTTATAGCG
258 AAAGTGTCGATACTTTAATATAAGTATCGACACTTTTTGAATTTAAAAGAGAAGAAGTTATAGCG
2254601 CCTATAAAGTGTCGATACTTTA
323 CCTATAAAGTGTCGATACTTTA
* * *
2254623 AAAAAATGTATCGATCCATAATAATATAACAGATCTAAAAAATGACAAAACTGGTAAAACGATAT
1 AAAAAATGTATCGATCCATAACAATATAACAGATCTAAAAAATGACAAAACTGGTAAAGCGCTA-
* * * *
2254688 CGGGTATATTGAAAGTGTCGATAATTTAATATAAGTATCAACACTTTCTGAATTTAAAAGAGAAG
65 CAGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAG
* * * **
2254753 AGGTTATAGCGCTTAAAACGTGTCGACAATTTAAAAAAATGTATCGATCCATAACAATATAACAA
130 AAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAA
* * *
2254818 CCTAAAATATGACAAAATCGGTCTCAAAATGACAAAAGAGGTAAATAACTATCGGATATGTTGAA
195 CCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAA
* *
2254883 AGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTACAGCGCC
260 AGTGTCGATACTTTAATATAAGTATCGACACTTTTTGAATTTAAAAGAGAAGAAGTTATAGCGCC
*
2254948 TACAAAGTGTCGATACTTTA
325 TATAAAGTGTCGATACTTTA
** *
2254968 AAAAAAAATATCGATCCATAACAATATAACAGGTAAAAATAGGATAAAACCGGTCTAAAAATGAC
1 AAAAAATGTATCGATCCATAACAATATAAC----------A-GAT-----C--T-AAAAAATGAC
* *
2255033 AAAACCGGTAAAGCGCTACATGATATGTTGAAAGTGTCGATAATTTAATATAAGTATTGACACTT
47 AAAACTGGTAAAGCGCTACA-GATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
2255098 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATCG
111 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATCG
2255163 ATCCATAACAATATAACAACCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAT
176 ATCCATAACAATATAACAACCTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAT
* *
2255228 AACTACCGGATATGTTGAAAGTGTCGATATTTTAATATAATTATCGACAC-TTTTGAAATTTAAA
241 AACTACCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTTG-AATTTAAA
* *
2255292 AGAGAATAAGTTATAGCGCCAATAAAGTGTCGATACTTT-
305 AGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTA
*
2255331 AAAAAATGTATCGATCCATAATAATATAACAG
1 AAAAAATGTATCGATCCATAACAATATAACAG
2255363 GCAAAAATAG
Statistics
Matches: 662, Mismatches: 54, Indels: 40
0.88 0.07 0.05
Matches are distributed among these distances:
344 32 0.05
345 307 0.46
346 6 0.01
352 1 0.00
353 1 0.00
355 1 0.00
356 3 0.00
361 1 0.00
363 33 0.05
364 277 0.42
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (344 bp):
AAAAAATGTATCGATCCATAACAATATAACAGATCTAAAAAATGACAAAACTGGTAAAGCGCTAC
AGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGA
AGTTATAGCGCCTAAAACGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAAC
CTAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAATAACTACCGGATATGTTGAAA
GTGTCGATACTTTAATATAAGTATCGACACTTTTTGAATTTAAAAGAGAAGAAGTTATAGCGCCT
ATAAAGTGTCGATACTTTA
Found at i:2255867 original size:20 final size:19
Alignment explanation
Indices: 2255831--2255893 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
2255821 CTTTTATTTA
*
2255831 ATATTATATGTAAAAAATG
1 ATATTATAAGTAAAAAATG
2255850 ATATTATAAGTAAAAAAATG
1 ATATTATAAGT-AAAAAATG
* *
2255870 ATATTATAGGTAGAAAATG
1 ATATTATAAGTAAAAAATG
2255889 ATATT
1 ATATT
2255894 TTAGGTTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 22 0.55
20 18 0.45
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (19 bp):
ATATTATAAGTAAAAAATG
Found at i:2257459 original size:9 final size:9
Alignment explanation
Indices: 2257442--2257492 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
2257432 TATTGTCAAT
*
2257442 GAGGTAGAG
1 GAGGCAGAG
2257451 GAGGCAGAG
1 GAGGCAGAG
*
2257460 GAGGTAGAG
1 GAGGCAGAG
*
2257469 GAGACAGAG
1 GAGGCAGAG
* *
2257478 GAAGCAGAT
1 GAGGCAGAG
2257487 GAGGCA
1 GAGGCA
2257493 TTGGAGAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.37, C:0.08, G:0.49, T:0.06
Consensus pattern (9 bp):
GAGGCAGAG
Found at i:2257465 original size:18 final size:18
Alignment explanation
Indices: 2257442--2257479 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2257432 TATTGTCAAT
*
2257442 GAGGTAGAGGAGGCAGAG
1 GAGGTAGAGGAGACAGAG
2257460 GAGGTAGAGGAGACAGAG
1 GAGGTAGAGGAGACAGAG
2257478 GA
1 GA
2257480 AGCAGATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.53, T:0.05
Consensus pattern (18 bp):
GAGGTAGAGGAGACAGAG
Found at i:2257898 original size:18 final size:19
Alignment explanation
Indices: 2257867--2257906 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
2257857 GAAAAAATTT
*
2257867 GAAGAAAGAGAAGATAGAG
1 GAAGAAAGAAAAGATAGAG
*
2257886 GAAG-AAGAAAAGATGGAG
1 GAAGAAAGAAAAGATAGAG
2257904 GAA
1 GAA
2257907 ATGGGGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (19 bp):
GAAGAAAGAAAAGATAGAG
Found at i:2259395 original size:19 final size:19
Alignment explanation
Indices: 2259371--2259420 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
2259361 AAATGTAGGG
2259371 TTAATTTTGCT-TAAGATTT
1 TTAATTTTG-TATAAGATTT
*
2259390 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
2259409 TTAATTTTGTAT
1 TTAATTTTGTAT
2259421 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 1 0.03
19 28 0.97
ACGTcount: A:0.26, C:0.04, G:0.10, T:0.60
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:2260132 original size:199 final size:199
Alignment explanation
Indices: 2259792--2262389 Score: 4377
Period size: 199 Copynumber: 13.0 Consensus size: 199
2259782 ATAAACTTAT
* * * *
2259792 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAATATTGAAACCCATAATTATGATGTAATA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* * *
2259857 GGTAAATTAACAATTTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACACGTGCACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2259922 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTACACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2259987 AAAA
196 AAAA
*
2259991 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
*
2260056 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * *
2260121 TTGACACAAATAAAACAAGTGTCGATACTTTTAGTTCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2260186 AAAA
196 AAAA
* * * * *
2260190 GTGTCGGTACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGATATAATA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* *
2260255 GGTAAATTAACAATTTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2260320 TCAACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2260385 AAAA
196 AAAA
* * *
2260389 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAATATCGAAATCCATAATTATAATGTACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* *
2260454 AGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTATACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2260519 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTTCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2260584 AAAA
196 AAAA
* * * *
2260588 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGATATAATA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* * *
2260653 TGTAAATTAACAATTTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2260718 TCAACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2260783 AAAA
196 AAAA
* *
2260787 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAATCCATAATTATAATGTACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* * *
2260852 AGTAAATTAACAATGTAACCAGTCTAAGTATACCGGTTTTTGAGAAAACAGGTATACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
2260917 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2260982 AAAA
196 AAAA
*
2260986 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAAAATGTACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* *
2261051 GGTAAATTAATAATGTAACCAGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
2261116 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2261181 AAAA
196 AAAA
* * * * * * *
2261185 GTGTCGATACATTTATAAGAAGTGTCGATCTCAAAAATATTGAAACCCATAATTATGATATAATA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* * **
2261250 GGTAAATTAACAATTTAACCGGTTTAAGTATACCGACTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2261315 TCAACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2261380 AAAA
196 AAAA
*
2261384 GTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
*
2261449 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAAACATGTGTACAAAAAGT
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAG-AAAACAGGTGTACAAAAAGT
*
2261514 ATCGACACAAATAAAACAAGTGTCAATACTTTTGGTCCAGAATGTATTTCAAATACCAAGTGCAC
130 ATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAA-ACCAAGTGCAC
2261579 TAAAAA
194 TAAAAA
* * *
2261585 ATGTCGATACATTTATAATAAGTGTCAATCCCAAAAACATGGAAACCCATAATTATAATGTACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* * *
2261650 GATAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACATGTATACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
2261715 TCGACACAAATAAAACAAGTGTCGATATTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2261780 AAAA
196 AAAA
2261784 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* *
2261849 GGTAAATTAACAATGTAACCGGTCTAAGTATACTGGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
2261914 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGAATTTCAAAACCAATGTGCACT
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAA-GTGCACT
2261979 AAAAA
195 AAAAA
* * * * *
2261984 GTGTCGATTCATTTATAATAAGTCTCGATACCAAAAACATCGAAACCCATAATTATGATGTAATA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* * *
2262049 GGTAAATTAACAATTTAACCGGTCTAAGTATACCGATTTTTGAGAAAACAGGTATACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
2262114 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTTCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2262179 AAAA
196 AAAA
* *
2262183 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAATATCGAAACTCATAATTATAATGTACTA
1 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
* * *
2262248 GGTAAATTAACAAGGTAACCAGTCTAAGTATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
2262313 TCGATAAAAATAAAACAAATGTCGATACTTTTGGTTCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
2262378 AAAA
196 AAAA
2262382 GTGTCGAT
1 GTGTCGAT
2262390 CCCAAAAACA
Statistics
Matches: 2254, Mismatches: 142, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
199 1807 0.80
200 326 0.14
201 121 0.05
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTA
GGTAAATTAACAATGTAACCGGTCTAAGTATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:2264022 original size:6 final size:6
Alignment explanation
Indices: 2264008--2264053 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
2263998 CAAGCGGTCA
* * * *
2264008 ATGAAG ATGACG ATGAAG ATGAAG ATGATG ATGATG ATGACG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
2264054 TGATCCAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.41, C:0.04, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:2264054 original size:12 final size:12
Alignment explanation
Indices: 2264008--2264057 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
2263998 CAAGCGGTCA
*
2264008 ATGAAGATGACG
1 ATGAAGATGATG
*
2264020 ATGAAGATGAAG
1 ATGAAGATGATG
*
2264032 ATGATGATGATG
1 ATGAAGATGATG
*
2264044 ATGACGATGATG
1 ATGAAGATGATG
2264056 AT
1 AT
2264058 CCAAACAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.24
Consensus pattern (12 bp):
ATGAAGATGATG
Found at i:2264054 original size:18 final size:18
Alignment explanation
Indices: 2264008--2264057 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
2263998 CAAGCGGTCA
*
2264008 ATGAAGATGACGATGAAG
1 ATGAAGATGATGATGAAG
*
2264026 ATGAAGATGATGATGATG
1 ATGAAGATGATGATGAAG
*
2264044 ATGACGATGATGAT
1 ATGAAGATGATGAT
2264058 CCAAACAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.24
Consensus pattern (18 bp):
ATGAAGATGATGATGAAG
Found at i:2265318 original size:24 final size:24
Alignment explanation
Indices: 2265285--2265341 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
2265275 TTTTCATTTC
2265285 ATTTATAATTAGAGTTTGAATTTAA
1 ATTTA-AATTAGAGTTTGAATTTAA
* * *
2265310 ATTTAAATTTGAGTTTGAGTTTGA
1 ATTTAAATTAGAGTTTGAATTTAA
2265334 ATTTAAAT
1 ATTTAAAT
2265342 GTAAATTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (24 bp):
ATTTAAATTAGAGTTTGAATTTAA
Found at i:2265918 original size:198 final size:198
Alignment explanation
Indices: 2265537--2266448 Score: 1182
Period size: 198 Copynumber: 4.7 Consensus size: 198
2265527 GATACATGTT
**
2265537 GTCCAGAATAAATTTCAAAACCAAGTGCACTAAAACGTGTCGATACATTTATAATAAGTGTCGAT
1 GTCCAGAATGTATTTCAAAACCAAGTGCACTAAAACGTGTCGATACATTTATAATAAGTGTCGAT
* *
2265602 CCCAAAAACATCGAAACCCATAATTATGATGTAATAGGTAAATTAACAATTTAACCGGTCTAAGT
66 CCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAGT
*
2265667 ATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAACAAGTGTCGATACT
131 ATACC-GGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACT
2265731 TTTG
195 TTTG
* *
2265735 GTCCATAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTATAATAAGTGTCGAT
1 GTCCAGAATGTATTTCAAAACCAAGTGCACTAAAACGTGTCGATACATTTATAATAAGTGTCGAT
* * * *
2265800 CCCAAAAACATCGAAACCCATAATTATAATGTACTATGTAAATTAACAATGTAACCGATCTACGT
66 CCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAGT
*
2265865 ATACCGGTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTT
131 ATACCGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTT
2265930 TTG
196 TTG
*
2265933 GTCCAGAATGTATTTCAAAACCAAGTGCACTAAAA-GTGTCGATCCCA---A-AA-AA---TCG-
1 GTCCAGAATGTATTTCAAAACCAAGTGCACTAAAACGTGTCGAT-ACATTTATAATAAGTGTCGA
** ** * * * ** *
2265988 ----AAACCCAT---AA-TTATAATGTACT-AGGTAA-A--TTAA-CAA-TGTA--ACCGGTCTA
65 TCCCAAAAACATCGAAACCCATAAT-TA-TAATGTAATAGGTAAATTAACAATGTAACCGGTCTA
**
2266037 AGTATACCCATTTTTGAGAAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGA
128 AGTATA-CCGGTTTTGAG-AAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGA
2266102 TACTTTTG
191 TACTTTTG
*
2266110 GTCCAGAATGTATTTCAAAACCAAATGCACT-AAACGTGTCGATACATTTATAATAAGTGTCGAT
1 GTCCAGAATGTATTTCAAAACCAAGTGCACTAAAACGTGTCGATACATTTATAATAAGTGTCGAT
*
2266174 CCCAAAAACATCGAAACCCATAATTATGAA-GTAATAGGTAAATTAACAATGTAACCGGTCTAAA
66 CCCAAAAACATCGAAACCCATAATTAT-AATGTAATAGGTAAATTAACAATGTAACCGGTCTAAG
* * *
2266238 TATACCGGTTTATTAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTTGATAC
130 TATACCGGTTT-TGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATAC
2266303 TTTTG
194 TTTTG
*
2266308 GTCCAGAATGTATTTCAAAACCAATTGCACTAAAACGTGTCGATACATTTATAATAAGTGTCGAT
1 GTCCAGAATGTATTTCAAAACCAAGTGCACTAAAACGTGTCGATACATTTATAATAAGTGTCGAT
* * * ** * * *
2266373 ACTAAAAACATTGAAATACATAGA-TATAATGTAATAGGGAAATTAACAATGTAACCAGTCTAAA
66 CCCAAAAACATCGAAACCCATA-ATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAG
2266437 TATACCGGTTTT
130 TATACCGGTTTT
2266449 ATGAGCAAAT
Statistics
Matches: 622, Mismatches: 55, Indels: 74
0.83 0.07 0.10
Matches are distributed among these distances:
175 13 0.02
176 14 0.02
177 92 0.15
178 2 0.00
179 4 0.01
180 2 0.00
181 8 0.01
182 8 0.01
183 1 0.00
184 3 0.00
185 6 0.01
189 6 0.01
190 3 0.00
191 1 0.00
192 8 0.01
193 9 0.01
194 2 0.00
195 4 0.01
196 2 0.00
197 48 0.08
198 272 0.44
199 113 0.18
200 1 0.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (198 bp):
GTCCAGAATGTATTTCAAAACCAAGTGCACTAAAACGTGTCGATACATTTATAATAAGTGTCGAT
CCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAACCGGTCTAAGT
ATACCGGTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTT
TTG
Found at i:2266116 original size:177 final size:177
Alignment explanation
Indices: 2265790--2266351 Score: 745
Period size: 177 Copynumber: 3.1 Consensus size: 177
2265780 CATTTATAAT
*
2265790 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTATGTAAATTAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTAGGTAAATTAACAATGTAAC
* * *
2265855 CGATCTACGTATA-CCGGTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAAAACAAG
66 CGGTCTAAGTATACCCGTTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAAAACAAG
*
2265919 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
131 TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAA
2265966 AAGTGTCGATCCCAAAAA-ATCGAAACCCATAATTATAATGTACTAGGTAAATTAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTAGGTAAATTAACAATGTAAC
* *
2266030 CGGTCTAAGTATACCCATTTTTGAGAAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAA
66 CGGTCTAAGTATACCCGTTTTTGAG-AAAACAAGTGTACAAAAAGTATCGACACAAATAAAACAA
2266095 GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAA
130 GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAA
*
2266143 ACGTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGAA-GTA
1 AAGTGTCGAT-C---------------C-----CAAAAACATCGAAACCCATAATTAT-AATGTA
* * * *
2266207 ATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTATT-AGAAAACATGTGTACAAAA
44 CTAGGTAAATTAACAATGTAACCGGTCTAAGTATACCCGTTT-TTGAGAAAACAAGTGTACAAAA
* *
2266271 AGTATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCAAAACCAATTGC
108 AGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGC
2266336 ACTAA
173 ACTAA
2266341 AACGTGTCGAT
1 AA-GTGTCGAT
2266352 ACATTTATAA
Statistics
Matches: 343, Mismatches: 16, Indels: 31
0.88 0.04 0.08
Matches are distributed among these distances:
175 56 0.16
176 27 0.08
177 94 0.27
178 1 0.00
193 1 0.00
198 91 0.27
199 69 0.20
200 4 0.01
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (177 bp):
AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTACTAGGTAAATTAACAATGTAAC
CGGTCTAAGTATACCCGTTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAAAACAAG
TGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAA
Found at i:2266156 original size:374 final size:375
Alignment explanation
Indices: 2265592--2266351 Score: 1305
Period size: 374 Copynumber: 2.0 Consensus size: 375
2265582 CATTTATAAT
* *
2265592 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGATGTAATAGGTAAATTAACAATTTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
2265657 CGGTCTAAGTATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAACAAGT
66 CGGTCTAAGTATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAACAAGT
* *
2265722 GTCGATACTTTTGGTCCATAATGTATTTCAAAACCAAGTGCACTAAAAAGTGTCGATACATTTAT
131 GTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAAAAGTGTCGATACATTTAT
* *
2265787 AATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-AATGTACTATGTAAATTAACAATG
196 AATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGAA-GTAATAGGTAAATTAACAATG
**
2265851 TAACCGATCTACGTATACCGGTTT-TGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAAAA
260 TAACCGATCTAAATATACCGGTTTATGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAAAA
2265915 CAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
325 CAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
*
2265966 AAGTGTCGATCCCAAAAA-ATCGAAACCCATAATTATAATGTACTAGGTAAATTAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
2266030 CGGTCTAAGTATACCCA-TTTTTGAGAAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACA
66 CGGTCTAAGTATA-CCAGTTTTTGAG-AAAACAGGTGTACAAAAAGTATCGACACAAAT-AAACA
*
2266094 AGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACT-AAACGTGTCGATACATT
128 AGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAAAAGTGTCGATACATT
2266158 TATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGAAGTAATAGGTAAATTAACAA
193 TATAATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGAAGTAATAGGTAAATTAACAA
* * *
2266223 TGTAACCGGTCTAAATATACCGGTTTATTAGAAAACATGTGTACAAAAAGTATCGACACAAATAA
258 TGTAACCGATCTAAATATACCGGTTTATGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAA
* *
2266288 AACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCAAAACCAATTGCACTAA
323 AACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
2266341 AACGTGTCGAT
1 AA-GTGTCGAT
2266352 ACATTTATAA
Statistics
Matches: 365, Mismatches: 15, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
373 64 0.18
374 152 0.42
375 141 0.39
376 8 0.02
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (375 bp):
AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
CGGTCTAAGTATACCAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAACAAGT
GTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAAAAGTGTCGATACATTTAT
AATAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGAAGTAATAGGTAAATTAACAATGT
AACCGATCTAAATATACCGGTTTATGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAAAAC
AAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
Found at i:2266349 original size:199 final size:199
Alignment explanation
Indices: 2265966--2266453 Score: 770
Period size: 199 Copynumber: 2.5 Consensus size: 199
2265956 AGTGCACTAA
*
2265966 AAGTGTCGATCCCAAAAA-ATCGAAACCCATAATTATAATGTACTAGGTAAATTAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
* **
2266030 CGGTCTAAGTATACCCATTTTTGAGAAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAA
66 CGGTCTAAATATACCGGTTTTTGAGAAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAA
2266095 GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAACGTGTCGATACATTTA
131 GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAACGTGTCGATACATTTA
2266160 TAAT
196 TAAT
2266164 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATGAA-GTAATAGGTAAATTAACAATGTAA
1 AAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT-AATGTAATAGGTAAATTAACAATGTAA
*
2266228 CCGGTCTAAATATACCGGTTTATT-AG-AAAACATGTGTACAAAAAGTATCGACACAAATAAAAC
65 CCGGTCTAAATATACCGGTTT-TTGAGAAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAC
* *
2266291 AAGTGTTGATACTTTTGGTCCAGAATGTATTTCAAAACCAATTGCACTAAAACGTGTCGATACAT
129 AAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACT-AAACGTGTCGATACAT
2266356 TTATAAT
193 TTATAAT
* * * ** *
2266363 AAGTGTCGATACTAAAAACATTGAAATACATAGA-TATAATGTAATAGGGAAATTAACAATGTAA
1 AAGTGTCGATCCCAAAAACATCGAAACCCATA-ATTATAATGTAATAGGTAAATTAACAATGTAA
*
2266427 CCAGTCTAAATATACCGGTTTTATGAG
65 CCGGTCTAAATATACCGGTTTT-TGAG
2266454 CAAATAAGTC
Statistics
Matches: 268, Mismatches: 14, Indels: 14
0.91 0.05 0.05
Matches are distributed among these distances:
198 103 0.38
199 158 0.59
200 7 0.03
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (199 bp):
AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTAACAATGTAAC
CGGTCTAAATATACCGGTTTTTGAGAAAAACAGGTGTACAAAAAGTATCGACACAAATAAAACAA
GTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAATGCACTAAACGTGTCGATACATTTA
TAAT
Found at i:2270515 original size:182 final size:182
Alignment explanation
Indices: 2270153--2270654 Score: 828
Period size: 182 Copynumber: 2.8 Consensus size: 182
2270143 GTAAATTAAC
*
2270153 AGTGTCGATAATTTAATATAAATATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
*
2270218 TAAAAAGTGTCGATACTTTA-AAAAATGTATCGATCCATAACAATATTACAGGTAAAAATATGAC
66 TAAAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC
* * *
2270282 AAAACCAGTCTCAAAATGACAAAACTGGTAAAACGATATCAGATTTGTTGCA
131 AAAACCGGTCTCAAAATGACAAAACCGGTAAAACGATATCAGATATGTTGCA
*
2270334 AGTGTTGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* * * *
2270399 TAAAAAGTGTCGACACTTTATGAAAATGTATCAATCTATAACAATATAACAGGTAAAAATATGAC
66 TAAAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC
* * *
2270464 AAAATCGGTCTCAAAATGACAAAACCGGTAAAACGCTATCGGATATGTTGCA
131 AAAACCGGTCTCAAAATGACAAAACCGGTAAAACGATATCAGATATGTTGCA
* * *
2270516 AGTGTCGATAATTTAGTATAAGTATCGACACTTTCTGAATTTTAAAGAGAATAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
*
2270581 TAAAAAGTGTCGATACTTT-TAAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGA
66 TAAAAAGTGTCGATACTTTAT-AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA
2270645 CAAAACCGGT
130 CAAAACCGGT
2270655 AAAAAGATAC
Statistics
Matches: 296, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
181 83 0.28
182 213 0.72
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.28
Consensus pattern (182 bp):
AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
TAAAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAC
AAAACCGGTCTCAAAATGACAAAACCGGTAAAACGATATCAGATATGTTGCA
Found at i:2271283 original size:87 final size:87
Alignment explanation
Indices: 2271179--2271341 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
2271169 AAATAGGTCA
* *
2271179 ATATAAGTGCTACCTATTACATTATATAAGCGCTACCTAGTATGTTATTATACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
2271244 CCGGTTAAATGCTTATTTTATT
66 CCGGTTAAATGCTTATTTTATT
* * *
2271266 ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
2271331 CCGGTTAAATG
66 CCGGTTAAATG
2271342 ATATAACATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
CCGGTTAAATGCTTATTTTATT
Found at i:2271313 original size:23 final size:23
Alignment explanation
Indices: 2271263--2271307 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2271253 TGCTTATTTT
* *
2271263 ATTATATAAGCGTTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
2271286 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
2271308 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:2272041 original size:35 final size:34
Alignment explanation
Indices: 2272002--2272102 Score: 90
Period size: 27 Copynumber: 3.1 Consensus size: 34
2271992 TTAAAAAATT
2272002 TAAAAAAATAAAAGTTTTATATACTAAAACTAAAA
1 TAAAAAAATAAAAGTTTTATATACTAAAACT-AAA
* ** * *
2272037 TAAAAAATTAAAA-AATTATGTA-T--AA-T--T
1 TAAAAAAATAAAAGTTTTATATACTAAAACTAAA
*
2272064 TAAAAAAATAAAAGTTTTATATACTAAAACTAAT
1 TAAAAAAATAAAAGTTTTATATACTAAAACTAAA
2272098 TAAAA
1 TAAAA
2272103 CGAATAAGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
27 12 0.24
28 6 0.12
29 1 0.02
30 1 0.02
31 4 0.08
32 1 0.02
33 1 0.02
34 12 0.24
35 12 0.24
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (34 bp):
TAAAAAAATAAAAGTTTTATATACTAAAACTAAA
Found at i:2277311 original size:18 final size:18
Alignment explanation
Indices: 2277290--2277360 Score: 88
Period size: 18 Copynumber: 3.8 Consensus size: 18
2277280 CGAAAATTTG
* *
2277290 TCCCGAATGACCACTATG
1 TCCCGAAGGACCACTATA
2277308 TCCCGAAGGACCACTGATTA
1 TCCCGAAGGACCACT-A-TA
* *
2277328 TTCCGAAGAACCACTATA
1 TCCCGAAGGACCACTATA
2277346 TCCCGAAGGACCACT
1 TCCCGAAGGACCACT
2277361 GTTTGTCTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 29 0.64
19 2 0.04
20 14 0.31
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (18 bp):
TCCCGAAGGACCACTATA
Found at i:2278977 original size:24 final size:20
Alignment explanation
Indices: 2278924--2278981 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
2278914 TCCCCTTTGA
*
2278924 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
2278944 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
2278967 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
2278982 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:2280064 original size:5 final size:5
Alignment explanation
Indices: 2280054--2280090 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
2280044 GAAGGATGTG
2280054 GGGGT GGGGT GGGGT GGGGT GGGGT GGGGT GGGGT GG
1 GGGGT GGGGT GGGGT GGGGT GGGGT GGGGT GGGGT GG
2280091 AAGTGGGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.81, T:0.19
Consensus pattern (5 bp):
GGGGT
Found at i:2280104 original size:6 final size:6
Alignment explanation
Indices: 2280095--2280127 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
2280085 GGGTGGAAGT
2280095 GGGAGA GGGAGA GGGAGA -GG-GA GGGAGA GGGAG
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAG
2280128 GGTGGGGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 2 0.08
5 4 0.16
6 19 0.76
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:2280120 original size:10 final size:10
Alignment explanation
Indices: 2280095--2280129 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
2280085 GGGTGGAAGT
2280095 GGGAGAGGGAGA
1 GGGAGA-GG-GA
2280107 GGGAGAGGGA
1 GGGAGAGGGA
2280117 GGGAGAGGGA
1 GGGAGAGGGA
2280127 GGG
1 GGG
2280130 TGGGGTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.65
11 2 0.09
12 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (10 bp):
GGGAGAGGGA
Found at i:2280194 original size:2 final size:2
Alignment explanation
Indices: 2280189--2280246 Score: 56
Period size: 2 Copynumber: 31.0 Consensus size: 2
2280179 ACACACACAC
2280189 AT AT AT AT AT AT AT AT -T A- AT AT AT A- AT GAT -T 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
2280228 AT AT AT A- AT CAT -T AT AT AT
1 AT AT AT AT AT -AT AT AT AT AT
2280247 TAATAAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
1 6 0.12
2 38 0.79
3 4 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2280224 original size:21 final size:21
Alignment explanation
Indices: 2280198--2280251 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
2280188 CATATATATA
*
2280198 TATATATTAATATATAATGAT
1 TATATATTAATATATAATCAT
2280219 TATATA-TATATATATAATCAT
1 TATATATTA-ATATATAATCAT
2280240 TATATATTAATA
1 TATATATTAATA
2280252 AAATAGCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TATATATTAATATATAATCAT
Found at i:2280622 original size:22 final size:22
Alignment explanation
Indices: 2280597--2280667 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
2280587 TTAAAAAAAC
*
2280597 AAAATAACAGTTTAAAATATCA
1 AAAATAACAGATTAAAATATCA
* * *
2280619 AAAATTTA-AGAATTAAAAAAAC-
1 AAAA-TAACAG-ATTAAAATATCA
*
2280641 AAAATAACAGGTTAAAATATCA
1 AAAATAACAGATTAAAATATCA
*
2280663 TAAAT
1 AAAAT
2280668 TAAGGACTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
21 10 0.28
22 16 0.44
23 10 0.28
ACGTcount: A:0.62, C:0.07, G:0.06, T:0.25
Consensus pattern (22 bp):
AAAATAACAGATTAAAATATCA
Found at i:2280628 original size:44 final size:44
Alignment explanation
Indices: 2280574--2280668 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
2280564 AAAAACAAAT
*
2280574 AAAAATTTAAGAATTAAAAAAACAAAATAACAGTTTAAAATATC
1 AAAAATTTAAGAATTAAAAAAACAAAATAACAGGTTAAAATATC
2280618 AAAAATTTAAGAATTAAAAAAACAAAATAACAGGTTAAAATATC
1 AAAAATTTAAGAATTAAAAAAACAAAATAACAGGTTAAAATATC
*
2280662 ATAAATT
1 AAAAATT
2280669 AAGGACTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.25
Consensus pattern (44 bp):
AAAAATTTAAGAATTAAAAAAACAAAATAACAGGTTAAAATATC
Found at i:2281712 original size:40 final size:40
Alignment explanation
Indices: 2281658--2281737 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
2281648 TGTCCAGTTA
2281658 GATTGATTTCCTCTGAACAATG-AAACACAAGTTTTTGGCT
1 GATTGATTTCCTCTGAACAATGAAAAC-CAAGTTTTTGGCT
* *
2281698 GATTGATTTCCTCTGAAGAATGAAAACCAATTTTTTGGCT
1 GATTGATTTCCTCTGAACAATGAAAACCAAGTTTTTGGCT
2281738 TTTGAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 33 0.89
41 4 0.11
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (40 bp):
GATTGATTTCCTCTGAACAATGAAAACCAAGTTTTTGGCT
Found at i:2283655 original size:32 final size:32
Alignment explanation
Indices: 2283600--2283684 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
2283590 CAAATACTAG
* * * *
2283600 TCAGTGTTGCATTCAGATAATGCACAA-TATGT
1 TCAGTGTTGTATTTAGATAATGCACAAGAAT-A
2283632 TCAG-GTGTGTATTTAGATAATGCACAAGAATA
1 TCAGTGT-TGTATTTAGATAATGCACAAGAATA
2283664 TCAGTGTTGTATTTAGATAAT
1 TCAGTGTTGTATTTAGATAAT
2283685 ACGTAACAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 2 0.04
32 40 0.87
33 4 0.09
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (32 bp):
TCAGTGTTGTATTTAGATAATGCACAAGAATA
Found at i:2287414 original size:17 final size:17
Alignment explanation
Indices: 2287371--2287414 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
2287361 TATTTTAATC
*
2287371 TTAATTTTTTTTACATT
1 TTAATTTTTTATACATT
*
2287388 TTAATGTTTTTATAGATT
1 TTAAT-TTTTTATACATT
*
2287406 TTTATTTTT
1 TTAATTTTT
2287415 AGAAATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (17 bp):
TTAATTTTTTATACATT
Found at i:2293817 original size:2 final size:2
Alignment explanation
Indices: 2293810--2293841 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2293800 TATCAGTTGA
2293810 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
2293842 GAGTATGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2297586 original size:16 final size:16
Alignment explanation
Indices: 2297565--2297600 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2297555 CACTGTCCAT
2297565 GTGCCATTGCTCTGCA
1 GTGCCATTGCTCTGCA
2297581 GTGCCATTGCTCTGCA
1 GTGCCATTGCTCTGCA
2297597 GTGC
1 GTGC
2297601 ATCAAGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.31, G:0.28, T:0.31
Consensus pattern (16 bp):
GTGCCATTGCTCTGCA
Found at i:2302995 original size:19 final size:19
Alignment explanation
Indices: 2302971--2303020 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
2302961 AAAACGTTTT
2302971 TATGAATAGTACTATACTG
1 TATGAATAGTACTATACTG
*
2302990 TATGAATAGTACTATATTG
1 TATGAATAGTACTATACTG
*
2303009 TATGAACAGTAC
1 TATGAATAGTAC
2303021 CGTGAAGAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
TATGAATAGTACTATACTG
Found at i:2303067 original size:21 final size:21
Alignment explanation
Indices: 2303041--2303084 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2303031 AATGAACATT
*
2303041 ACTGCTACAGTGTACTGATGC
1 ACTGCTACAGTATACTGATGC
* *
2303062 ACTGCTATAGTATATTGATGC
1 ACTGCTACAGTATACTGATGC
2303083 AC
1 AC
2303085 AAAAACATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (21 bp):
ACTGCTACAGTATACTGATGC
Found at i:2303743 original size:23 final size:24
Alignment explanation
Indices: 2303682--2303734 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2303672 CTCGTATACA
*
2303682 TTGCACCAAAGTGCCACGTAGAAT
1 TTGCACCTAAGTGCCACGTAGAAT
*
2303706 TTGCACCTAAGTGCCGCGTAGAA-
1 TTGCACCTAAGTGCCACGTAGAAT
2303729 TTGCAC
1 TTGCAC
2303735 TGTAGTGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (24 bp):
TTGCACCTAAGTGCCACGTAGAAT
Found at i:2303887 original size:23 final size:23
Alignment explanation
Indices: 2303857--2303900 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2303847 AATACATATA
2303857 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
*
2303880 TGTCCCGAAGGACCGCGTAGA
1 TGTCCCGAAGGACCACGTAGA
2303901 CTTTCTACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.30, T:0.16
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:2308362 original size:6 final size:5
Alignment explanation
Indices: 2308353--2308456 Score: 54
Period size: 5 Copynumber: 19.2 Consensus size: 5
2308343 ATATGTTAAT
2308353 ATAAGA ATAATA ATAAA AT-AA ATAAA ATAGATGA ATAAA GAT-AA ATAAA
1 ATAA-A ATAA-A ATAAA ATAAA ATAAA ATA-A--A ATAAA -ATAAA ATAAA
* *
2308402 ATTGAGA A-AAA ATAAGA AAAAA ATAAA ATAAA A-AGATA ATAAA ATAATA
1 A-T-AAA ATAAA ATAA-A ATAAA ATAAA ATAAA ATA-A-A ATAAA ATAA-A
2308451 ATAAA A
1 ATAAA A
2308457 AGGGTAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 29
0.70 0.04 0.26
Matches are distributed among these distances:
4 10 0.13
5 35 0.44
6 25 0.32
7 5 0.06
8 4 0.05
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:2308372 original size:11 final size:11
Alignment explanation
Indices: 2308349--2308456 Score: 70
Period size: 11 Copynumber: 10.0 Consensus size: 11
2308339 AAAAATATGT
2308349 TAAT-ATAAGAA
1 TAATAATAA-AA
2308360 TAATAATAAAA
1 TAATAATAAAA
2308371 T-A-AATAAAA
1 TAATAATAAAA
2308380 TAGATGAATAAAGA
1 TA-AT-AATAAA-A
2308394 T-A-AATAAAA
1 TAATAATAAAA
* *
2308403 TTGAGAA-AAAA
1 -TAATAATAAAA
* *
2308414 TAAGAAAAAAA
1 TAATAATAAAA
2308425 TAA-AATAAAA
1 TAATAATAAAA
2308435 -AGATAATAAAA
1 TA-ATAATAAAA
2308446 TAATAATAAAA
1 TAATAATAAAA
2308457 AGGGTAAATT
Statistics
Matches: 82, Mismatches: 2, Indels: 26
0.75 0.02 0.24
Matches are distributed among these distances:
9 10 0.12
10 20 0.24
11 36 0.44
12 8 0.10
13 6 0.07
14 2 0.02
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:2308449 original size:8 final size:8
Alignment explanation
Indices: 2308410--2308451 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
2308400 AAATTGAGAA
*
2308410 AAAATAAG
1 AAAATAAT
*
2308418 AAAAAAAT
1 AAAATAAT
2308426 AAAATAA-
1 AAAATAAT
2308433 AAAGATAAT
1 AAA-ATAAT
2308442 AAAATAAT
1 AAAATAAT
2308450 AA
1 AA
2308452 TAAAAAGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 3 0.10
8 23 0.79
9 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (8 bp):
AAAATAAT
Found at i:2309265 original size:26 final size:26
Alignment explanation
Indices: 2309232--2309296 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
2309222 TAATTAAGTG
2309232 GGTAGTGGTGGATTAGGTGGTTAATA
1 GGTAGTGGTGGATTAGGTGGTTAATA
* *
2309258 GGTAGTGGTGGATTAGGTGGTTAGTG
1 GGTAGTGGTGGATTAGGTGGTTAATA
2309284 GGTAGTGGTGGAT
1 GGTAGTGGTGGAT
2309297 AGTGGGTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.34
Consensus pattern (26 bp):
GGTAGTGGTGGATTAGGTGGTTAATA
Found at i:2309299 original size:17 final size:17
Alignment explanation
Indices: 2309273--2309305 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2309263 TGGTGGATTA
*
2309273 GGTGGTTAGTGGGTAGT
1 GGTGGATAGTGGGTAGT
2309290 GGTGGATAGTGGGTAG
1 GGTGGATAGTGGGTAG
2309306 GGAAGTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.55, T:0.30
Consensus pattern (17 bp):
GGTGGATAGTGGGTAGT
Found at i:2310816 original size:21 final size:20
Alignment explanation
Indices: 2310789--2310852 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
2310779 ATTTTCAAAG
2310789 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
2310809 AAACCATTT-TCAAA-----A
1 AAA-CATTTACCAAACTTTGA
2310824 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
2310844 AAATCATTT
1 AAA-CATTT
2310853 TTTCAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 8 0.24
20 11 0.32
21 10 0.29
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:2310828 original size:35 final size:35
Alignment explanation
Indices: 2310744--2310853 Score: 141
Period size: 35 Copynumber: 3.1 Consensus size: 35
2310734 CCATTATCAT
* * * *
2310744 TTTTC-AACAAACATCTATCAAACTTTGAAAAACTAA
1 TTTTCAAAAAAACATTTACCAAACTTTG-AAAAC-CA
*
2310780 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
*
2310815 TTTTCAAAAAAACATTTACCAAACTTTGAAAATCA
1 TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
2310850 TTTT
1 TTTT
2310854 TTCAAAGTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
35 38 0.57
36 10 0.15
37 19 0.28
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (35 bp):
TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
Found at i:2314913 original size:16 final size:17
Alignment explanation
Indices: 2314885--2314916 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2314875 TGTCGCCGAC
2314885 AAATTTCACTATTCACG
1 AAATTTCACTATTCACG
2314902 AAATTT-ACTATTCAC
1 AAATTTCACTATTCAC
2314917 ATGAATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTTCACTATTCACG
Found at i:2315381 original size:37 final size:37
Alignment explanation
Indices: 2315323--2315442 Score: 156
Period size: 35 Copynumber: 3.3 Consensus size: 37
2315313 TCCCATTATC
* *
2315323 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAAAAACATTTACCAAACTTTGAAAAACT
* *
2315359 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACC
1 ATTTTTCAAAAAAACATTTACCAAACTTTGAAAAACT
*
2315395 A-TTTTCAAAAAAACATTTACCAAACTTTGAAAATCAT
1 ATTTTTCAAAAAAACATTTACCAAACTTTGAAAAAC-T
*
2315432 TTTTTTCAAAA
1 ATTTTTCAAAA
2315443 TTGGTTGCCA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
35 27 0.37
36 17 0.23
37 20 0.27
38 9 0.12
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.33
Consensus pattern (37 bp):
ATTTTTCAAAAAAACATTTACCAAACTTTGAAAAACT
Found at i:2315397 original size:21 final size:20
Alignment explanation
Indices: 2315370--2315433 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
2315360 TTTTTCAAAG
2315370 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
2315390 AAACCATTT-TCAAA-----A
1 AAA-CATTTACCAAACTTTGA
2315405 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
2315425 AAATCATTT
1 AAA-CATTT
2315434 TTTTCAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 8 0.24
20 11 0.32
21 10 0.29
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:2316297 original size:20 final size:20
Alignment explanation
Indices: 2316274--2316339 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
2316264 TGTATATAAG
2316274 TTATATTCTTTCATTGAGAA
1 TTATATTCTTTCATTGAGAA
* ** *
2316294 TTATGTTCTCTTTGTAT-ATAA
1 TTATATTCT-TTCAT-TGAGAA
*
2316315 GTTCTATTCTTTCATTGAGAA
1 -TTATATTCTTTCATTGAGAA
2316336 TTAT
1 TTAT
2316340 GTTTTGGTCT
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
20 12 0.38
21 12 0.38
22 8 0.25
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (20 bp):
TTATATTCTTTCATTGAGAA
Found at i:2316303 original size:42 final size:42
Alignment explanation
Indices: 2316256--2316342 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
2316246 AATTATTAAG
2316256 GTTCTCTTTGTATATAAGTTATATTCTTTCATTGAGAATTAT
1 GTTCTCTTTGTATATAAGTTATATTCTTTCATTGAGAATTAT
*
2316298 GTTCTCTTTGTATATAAGTTCTATTCTTTCATTGAGAATTAT
1 GTTCTCTTTGTATATAAGTTATATTCTTTCATTGAGAATTAT
2316340 GTT
1 GTT
2316343 TTGGTCTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.53
Consensus pattern (42 bp):
GTTCTCTTTGTATATAAGTTATATTCTTTCATTGAGAATTAT
Found at i:2317786 original size:3 final size:3
Alignment explanation
Indices: 2317778--2317838 Score: 97
Period size: 3 Copynumber: 20.0 Consensus size: 3
2317768 CTTTGAGCAT
2317778 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG-
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
2317825 TCGA TGAA TGA TGA
1 T-GA TG-A TGA TGA
2317839 GCCAGGCGAG
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 1 0.02
3 50 0.91
4 4 0.07
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:2318636 original size:25 final size:25
Alignment explanation
Indices: 2318589--2318636 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
2318579 TGCTCCTTCA
**
2318589 AAATTTTATAAATTCTTACCTCCAT
1 AAATTTTATAAATTCGCACCTCCAT
* *
2318614 AAATTTTATAAGTTCGCATCTCC
1 AAATTTTATAAATTCGCACCTCC
2318637 TAACATAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (25 bp):
AAATTTTATAAATTCGCACCTCCAT
Found at i:2319660 original size:31 final size:32
Alignment explanation
Indices: 2319597--2319664 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
2319587 ATATATAAAG
* * * **
2319597 TGATGATGTGATATGTGTTATATCACTTAAAA
1 TGATGATGTGACATGTATCATATCACCCAAAA
2319629 TGATGATGT-ACATGTATCATATCACCCAAAA
1 TGATGATGTGACATGTATCATATCACCCAAAA
2319660 TGATG
1 TGATG
2319665 GCATAACACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGATGATGTGACATGTATCATATCACCCAAAA
Found at i:2321670 original size:39 final size:39
Alignment explanation
Indices: 2321616--2321729 Score: 180
Period size: 39 Copynumber: 3.0 Consensus size: 39
2321606 ACACCATCGA
2321616 TAAAATAGATAACTAACAGAAAAAATTTCAAATTTTAGG
1 TAAAATAGATAACTAACAGAAAAAATTTCAAATTTTAGG
*
2321655 TAAAATAGATAACTAACAGAAAATATTTCAAATTTTAGG
1 TAAAATAGATAACTAACAGAAAAAATTTCAAATTTTAGG
* *
2321694 TAAAATAG---ACTAACAGAAAGAATTTCAAAATTTAGG
1 TAAAATAGATAACTAACAGAAAAAATTTCAAATTTTAGG
2321730 GTGGATACTT
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
36 25 0.35
39 46 0.65
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (39 bp):
TAAAATAGATAACTAACAGAAAAAATTTCAAATTTTAGG
Found at i:2325567 original size:10 final size:10
Alignment explanation
Indices: 2325552--2325585 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
2325542 CGGGTCTAGA
*
2325552 GAACATAAAC
1 GAACATAAAT
2325562 GAACATAAAT
1 GAACATAAAT
2325572 GAACATAAAT
1 GAACATAAAT
2325582 GAAC
1 GAAC
2325586 GAATTATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.59, C:0.15, G:0.12, T:0.15
Consensus pattern (10 bp):
GAACATAAAT
Found at i:2333194 original size:22 final size:22
Alignment explanation
Indices: 2333169--2333212 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2333159 AAAATACGGT
*
2333169 ATGAATAGTACCGTGAACAGTA
1 ATGAACAGTACCGTGAACAGTA
*
2333191 ATGAACAGTATCGTGAACAGTA
1 ATGAACAGTACCGTGAACAGTA
2333213 CCCTATTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (22 bp):
ATGAACAGTACCGTGAACAGTA
Found at i:2333742 original size:17 final size:18
Alignment explanation
Indices: 2333705--2333764 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 18
2333695 ATCTTCTTCC
2333705 TTATCATT-ATCCTATTA
1 TTATCATTAATCCTATTA
2333722 TTATCATTAATACCT-TT-
1 TTATCATTAAT-CCTATTA
*
2333739 TTATCATATAATCATA-TA
1 TTATCAT-TAATCCTATTA
2333757 CTTATCAT
1 -TTATCAT
2333765 ATTTACACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
17 18 0.50
18 8 0.22
19 10 0.28
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATCATTAATCCTATTA
Found at i:2334099 original size:18 final size:18
Alignment explanation
Indices: 2334076--2334110 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2334066 CCGCGTAGAA
2334076 ATGTCCCGAATGACCACT
1 ATGTCCCGAATGACCACT
2334094 ATGTCCCGAATGACCAC
1 ATGTCCCGAATGACCAC
2334111 ATATCACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (18 bp):
ATGTCCCGAATGACCACT
Found at i:2335161 original size:20 final size:20
Alignment explanation
Indices: 2335132--2335170 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2335122 TTTTTTCTTT
*
2335132 AGGGGGGAATCGATACCCCC
1 AGGGGAGAATCGATACCCCC
*
2335152 AGGGGAGAATCTATACCCC
1 AGGGGAGAATCGATACCCC
2335171 TGCGTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.31, T:0.13
Consensus pattern (20 bp):
AGGGGAGAATCGATACCCCC
Found at i:2335577 original size:20 final size:20
Alignment explanation
Indices: 2335552--2335612 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
2335542 ACTTAAGCTT
2335552 AGTTATGATCTAATGATCAA
1 AGTTATGATCTAATGATCAA
2335572 AGTTATGATCTAATGATCAA
1 AGTTATGATCTAATGATCAA
*
2335592 AGTTATCATCTAATGATCAA
1 AGTTATGATCTAATGATCAA
2335612 A
1 A
2335613 ACTAACTCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (20 bp):
AGTTATGATCTAATGATCAA
Found at i:2342512 original size:14 final size:14
Alignment explanation
Indices: 2342493--2342523 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2342483 ATTCATTGTC
2342493 ATAATTCTGAACAT
1 ATAATTCTGAACAT
2342507 ATAATTCTGAACAT
1 ATAATTCTGAACAT
2342521 ATA
1 ATA
2342524 TTACTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (14 bp):
ATAATTCTGAACAT
Found at i:2345666 original size:12 final size:12
Alignment explanation
Indices: 2345649--2345673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2345639 ATCGATGTAA
2345649 TATTTTTTATTT
1 TATTTTTTATTT
2345661 TATTTTTTATTT
1 TATTTTTTATTT
2345673 T
1 T
2345674 TTTAATATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:2350017 original size:31 final size:29
Alignment explanation
Indices: 2349960--2350017 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 29
2349950 TCTGATATGA
*
2349960 CAGTTTCTAGAAGATCCAGTCAACATTGG
1 CAGTTTCTAGAAGATCCAATCAACATTGG
2349989 CAGTTTCTAGAAGCAGTCCAATCAACATT
1 CAGTTTCTAGAAG-A-TCCAATCAACATT
2350018 ATCGGGAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 1 0.04
31 12 0.46
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (29 bp):
CAGTTTCTAGAAGATCCAATCAACATTGG
Found at i:2352025 original size:41 final size:41
Alignment explanation
Indices: 2351861--2352173 Score: 231
Period size: 41 Copynumber: 7.6 Consensus size: 41
2351851 AAGAATGTAT
** * * *
2351861 TTTAGTGGTATTTTTATATAAACGCCGCTAAAGACT-GTAA
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAATACTAGTAC
* * * * * *
2351901 TTTAGTGGCGTTTTTATAAAAAATGACGTTATAGACTCA-TAC
1 TTTAGTGGCGTTTTTAT-ACAAACGCCGCTAAATACT-AGTAC
* ** * * * *
2351943 TTTAGTGGCTTTTTTATACAAATACCGTTATAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAATACTAGTAC
*
2351984 TTTAGTGGCGTTTTTATACAAACGCCGCTAAATATTAGTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAATACTAGTAC
* ** * * * *
2352025 TTTAGTGTCGTTTAAAGCACAAACGCTGCTAAACACTCGTAC
1 TTTAGTGGCGTTTTTA-TACAAACGCCGCTAAATACTAGTAC
** *
2352067 TTTAGTGGCACTTTTATAGAAACGCCGCTAAATACT-GTAC
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAATACTAGTAC
* * * * *
2352107 TTTAATGGCGTTTTAAGCACAAACGCCGCTAAATAATCA-TTC
1 TTTAGTGGCGTTTTTA-TACAAACGCCGCTAAATACT-AGTAC
*
2352149 TTTAGTGGCATTTTT-TACAAACGCC
1 TTTAGTGGCGTTTTTATACAAACGCC
2352174 ACTATATATA
Statistics
Matches: 215, Mismatches: 50, Indels: 16
0.77 0.18 0.06
Matches are distributed among these distances:
40 40 0.19
41 112 0.52
42 63 0.29
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.35
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAATACTAGTAC
Found at i:2352047 original size:83 final size:82
Alignment explanation
Indices: 2351976--2352182 Score: 272
Period size: 82 Copynumber: 2.5 Consensus size: 82
2351966 ACCGTTATAG
* * *
2351976 ACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAATATTAGTACTTTAGTGTCGTTTAAA
1 ACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAATATT-GTACTTTAATGGCGTTTAAA
*
2352041 GCACAAACGCTGCTAAAC
65 GCACAAACGCCGCTAAAC
* * * *
2352059 ACTCGTACTTTAGTGGCACTTTTATAGAAACGCCGCTAAATACTGTACTTTAATGGCGTTTTAAG
1 ACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAATATTGTACTTTAATGGCGTTTAAAG
*
2352124 CACAAACGCCGCTAAAT
66 CACAAACGCCGCTAAAC
* * * * *
2352141 AATCATTCTTTAGTGGCATTTTT-TACAAACGCCACTATATAT
1 ACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAATAT
2352183 ATACCACATT
Statistics
Matches: 107, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 15 0.14
82 52 0.49
83 40 0.37
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (82 bp):
ACTCGTACTTTAGTGGCATTTTTATACAAACGCCGCTAAATATTGTACTTTAATGGCGTTTAAAG
CACAAACGCCGCTAAAC
Found at i:2355463 original size:21 final size:21
Alignment explanation
Indices: 2355439--2355497 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2355429 TGATTTATTA
*
2355439 TTATGGATTTCAATTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* * *
2355460 TTATGAATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
2355481 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
2355498 ATTGGATAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.05, G:0.19, T:0.54
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:2355771 original size:41 final size:42
Alignment explanation
Indices: 2355609--2355877 Score: 243
Period size: 43 Copynumber: 6.2 Consensus size: 42
2355599 AAGGTAATTA
* * *
2355609 GCGGAGTTTGTATCCTAAAACGCCGCTATAGATATGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTGACCTTTT
** * * * *
2355652 GCAACGTTTGTTCCAAAAAAAAAATGCTGTTATAGAGCTGACCTTTT
1 GCGGCGTTTGTTCC-----AAAAACGCCGCTATAGATCTGACCTTTT
*
2355699 GTGGCGTTTGTTCCAAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTTCC-AAAAACGCCGCTATAGATCTGACCTTTT
* * *
2355742 ACGGCGTTTGTT-CAAAAACACCGCTATAGATCTGACATTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
*** * * *
2355783 ATTGCCTTTGTTCCAAAAGCGCCGCTATAGATCTTGAACTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATC-TGACCTTTT
* * * *
2355826 GCGGTGTTTGATCCAAAAACGCCACTATAGATCTCGACCTATT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCT-GACCTTTT
2355869 GCGGCGTTT
1 GCGGCGTTT
2355878 TTTATTCTCA
Statistics
Matches: 180, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
41 35 0.19
42 23 0.13
43 89 0.49
47 33 0.18
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:2355825 original size:84 final size:85
Alignment explanation
Indices: 2355682--2355859 Score: 225
Period size: 84 Copynumber: 2.1 Consensus size: 85
2355672 AAAATGCTGT
* * * * *
2355682 TATAGAGCTGACCTTTTGTGGCGTTTGTTCCAAAAAACGCCGCTATAGATCTGACCTTTTACGGC
1 TATAGATCTGACATTTTATGGCCTTTGTTCCAAAAAACGCCGCTATAGATCTGAACTTTTACGGC
* *
2355747 GTTTG-TTCAAAAACACCGC
66 GTTTGATCCAAAAACACCAC
* * *
2355766 TATAGATCTGACATTTTATTGCCTTTGTTCC-AAAAGCGCCGCTATAGATCTTGAACTTTTGCGG
1 TATAGATCTGACATTTTATGGCCTTTGTTCCAAAAAACGCCGCTATAGATC-TGAACTTTTACGG
* *
2355830 TGTTTGATCCAAAAACGCCAC
65 CGTTTGATCCAAAAACACCAC
2355851 TATAGATCT
1 TATAGATCT
2355860 CGACCTATTG
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
83 18 0.22
84 42 0.52
85 20 0.25
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (85 bp):
TATAGATCTGACATTTTATGGCCTTTGTTCCAAAAAACGCCGCTATAGATCTGAACTTTTACGGC
GTTTGATCCAAAAACACCAC
Found at i:2358865 original size:37 final size:37
Alignment explanation
Indices: 2358815--2358888 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
2358805 ACGCTATGTT
* * *
2358815 GCACTAATACAGATACAGGGAAGGGGACGGCAAATAA
1 GCACTAATACAGATACAGGGAACGGAAAGGCAAATAA
2358852 GCACTAATACAGATACAGGGAACGGAAAGGCAAATAA
1 GCACTAATACAGATACAGGGAACGGAAAGGCAAATAA
2358889 TAATTTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (37 bp):
GCACTAATACAGATACAGGGAACGGAAAGGCAAATAA
Found at i:2359855 original size:11 final size:10
Alignment explanation
Indices: 2359836--2359862 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2359826 TAAAATAGAG
2359836 AAGAAAAAAA
1 AAGAAAAAAA
2359846 AAGAAAAAAA
1 AAGAAAAAAA
2359856 AAGAAAA
1 AAGAAAA
2359863 TATGGCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Done.