Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_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: 7027529
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 26
Found at i:2156269 original size:32 final size:31
Alignment explanation
Indices: 2156210--2156269 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
2156200 ATATCGAAAG
*
2156210 TAATAATAAAAAAAATAAAATTGTAAAAAAA
1 TAATAATAAAAAAAATAAAATTATAAAAAAA
* *
2156241 TAATGATAAAAGAAATTAAAATTATAAAA
1 TAATAATAAAA-AAAATAAAATTATAAAA
2156270 TTAAATTGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 10 0.40
32 15 0.60
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (31 bp):
TAATAATAAAAAAAATAAAATTATAAAAAAA
Found at i:2156826 original size:22 final size:22
Alignment explanation
Indices: 2156762--2156826 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
2156752 GGTAACCGGT
**
2156762 CGGCCACCGCCGGTCACTATTC
1 CGGCCACCGCCAATCACTATTC
* ** *
2156784 CGACCACCG-TTATTACTATTC
1 CGGCCACCGCCAATCACTATTC
2156805 CGGCCACCGCCAATCACTATTC
1 CGGCCACCGCCAATCACTATTC
2156827 ACGGTGGCCA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.20, C:0.42, G:0.15, T:0.23
Consensus pattern (22 bp):
CGGCCACCGCCAATCACTATTC
Found at i:2157470 original size:3 final size:3
Alignment explanation
Indices: 2157462--2157526 Score: 87
Period size: 3 Copynumber: 21.7 Consensus size: 3
2157452 TTATTTATTA
*
2157462 AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT -AT ATAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
**
2157507 AAT TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
2157527 AACAAAATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.91
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:2161388 original size:22 final size:20
Alignment explanation
Indices: 2161338--2161404 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 20
2161328 GACACATACG
*
2161338 TGGTCCTT-AGAATATGTATA
1 TGGTCCTTAAGAAT-TTTATA
* *
2161358 TGATTCTTAAGGAATTTCTATA
1 TGGTCCTTAA-GAATTT-TATA
2161380 TGGTCCTTATAGACATTTTATA
1 TGGTCCTTA-AGA-ATTTTATA
2161402 TGG
1 TGG
2161405 CACTTCGGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 6 0.16
21 2 0.05
22 24 0.65
23 5 0.14
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.43
Consensus pattern (20 bp):
TGGTCCTTAAGAATTTTATA
Found at i:2166447 original size:60 final size:60
Alignment explanation
Indices: 2166374--2166492 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
2166364 GGATTGACTC
* *
2166374 GAATCGTACATCTAATTTTAATGGGTAAGTCTTCCAGTAAAGATTTTCTATGTAGACAAA
1 GAATCGTACATCTAATTTTAATGGCTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAAA
** * *
2166434 GAATCGTACATCTAATTTTGGTGGCTGAGTCTTCCAGTAAGGATTTTCTACGTAGACAA
1 GAATCGTACATCTAATTTTAATGGCTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAA
2166493 GGACTCGAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (60 bp):
GAATCGTACATCTAATTTTAATGGCTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAAA
Found at i:2168746 original size:30 final size:30
Alignment explanation
Indices: 2168710--2168780 Score: 142
Period size: 30 Copynumber: 2.4 Consensus size: 30
2168700 TTTGTCTTTC
2168710 CTAACGTGCGTCGGTCTCCATAGAGGTGTG
1 CTAACGTGCGTCGGTCTCCATAGAGGTGTG
2168740 CTAACGTGCGTCGGTCTCCATAGAGGTGTG
1 CTAACGTGCGTCGGTCTCCATAGAGGTGTG
2168770 CTAACGTGCGT
1 CTAACGTGCGT
2168781 TATTTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.17, C:0.24, G:0.32, T:0.27
Consensus pattern (30 bp):
CTAACGTGCGTCGGTCTCCATAGAGGTGTG
Found at i:2174114 original size:20 final size:22
Alignment explanation
Indices: 2174066--2174119 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2174056 TACCATAACA
*
2174066 TAGTATCAGTACCATAGTATGG
1 TAGTATCAATACCATAGTATGG
* *
2174088 TAGTATCGATACCATGGTAT-G
1 TAGTATCAATACCATAGTATGG
2174109 -AGTATCAATAC
1 TAGTATCAATAC
2174120 TGAGGACCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.36
21 1 0.04
22 17 0.61
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (22 bp):
TAGTATCAATACCATAGTATGG
Found at i:2174942 original size:54 final size:54
Alignment explanation
Indices: 2174446--2174934 Score: 762
Period size: 54 Copynumber: 9.1 Consensus size: 54
2174436 ACCAAATAGC
* * *
2174446 CACTAAGTGTGCATTTCACGAAATTCATCCTACGTGGATGAATAACTGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * * *
2174500 CACTAAGTGTGCATTTCACGAAATTCATCCTACGTAGATGAATAACCATTTTGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * * * *
2174554 CACTTAGTATTCATTTCATGGAATTCATCCTACGTGGATGAATAATCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * *
2174608 CACTAAGTGTGCATTTCACAGAATTCATCATACGTGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
2174662 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
*
2174716 CACTAAGTGTGCATTTCACGAAATTCATCCTACGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * *
2174770 CACTAAGTGTGTATTTCACGAAATTCATCCTACGTGGATAAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * *
2174824 AACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGATTAACTGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* *
2174878 CACTAAGTGTGCATTTCACGGAATTTATCCTACGTGGATAAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
2174932 CAC
1 CAC
2174935 CATGTGTGAA
Statistics
Matches: 396, Mismatches: 39, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 396 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
Found at i:2175092 original size:55 final size:55
Alignment explanation
Indices: 2174954--2175138 Score: 266
Period size: 55 Copynumber: 3.4 Consensus size: 55
2174944 AAATCCATGG
* * * *
2174954 AATTCATCATGAGTTGATGAATAACCGTACAAGAACTATGTGTCCAAATCCATAG
1 AATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTACAAATCCACAA
*
2175009 AATTCATCATGATTTGATGAATAACCGTACAAGCACTATGTGTACAAATCCACAA
1 AATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTACAAATCCACAA
* * * *
2175064 AATTCATCATGAGTTGATGAATAACCGTACATGCA-TGATGTGTGC-AACCCACGA
1 AATTCATCATGAGTTGATGAATAACCGTACAAGCACT-ATGTGTACAAATCCACAA
2175118 AATTCATCATGAGTTGATGAA
1 AATTCATCATGAGTTGATGAA
2175139 CTACCATATA
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
54 29 0.24
55 90 0.76
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (55 bp):
AATTCATCATGAGTTGATGAATAACCGTACAAGCACTATGTGTACAAATCCACAA
Found at i:2175541 original size:46 final size:46
Alignment explanation
Indices: 2175476--2175737 Score: 354
Period size: 46 Copynumber: 5.8 Consensus size: 46
2175466 GTATAACGTT
*
2175476 GTATA-AAGGGCATGAAAGGATGTCATAAATGAAATGTATAATAGC
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* *
2175521 GTATAGAAGGGTATGAAAGGATGCCATAAATGAAATGTATAATAGT
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
*
2175567 GTATAGCAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* * *
2175613 GTATAGAAGGGCAT-AAA--A-GCCATAGATGAAACGTATAATAGT
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* * * *
2175655 ATATAGAAGGGCATGAAAGAATACCATAAATGAAATGTATAATCGC
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* * * *
2175701 TTATAAAAGGGCATGAAAGGATGTCATAAATAAAATG
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATG
2175738 CATATGGGTG
Statistics
Matches: 190, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
42 34 0.18
43 4 0.02
45 9 0.05
46 143 0.75
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.23
Consensus pattern (46 bp):
GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
Found at i:2175682 original size:88 final size:88
Alignment explanation
Indices: 2175477--2175719 Score: 335
Period size: 88 Copynumber: 2.7 Consensus size: 88
2175467 TATAACGTTG
* *
2175477 TATA-AAGGGCATGAAAGGATGTCATAAATGAAATGTATAATAGCGTATAGAAGGGTATGAAAGG
1 TATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCAT-AAA--
* *
2175541 ATGCCATAAATGAAATGTATAATAGTG
63 A-GCCATAAATGAAACGTATAATAGTA
*
2175568 TATAGCAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCATAAAAGC
1 TATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCATAAAAGC
*
2175633 CATAGATGAAACGTATAATAGTA
66 CATAAATGAAACGTATAATAGTA
* * * * * *
2175656 TATAGAAGGGCATGAAAGAATACCATAAATGAAATGTATAATCGCTTATAAAAGGGCATGAAAG
1 TATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCATAAAAG
2175720 GATGTCATAA
Statistics
Matches: 138, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
88 79 0.57
89 1 0.01
91 7 0.05
92 51 0.37
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.23
Consensus pattern (88 bp):
TATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCATAAAAGC
CATAAATGAAACGTATAATAGTA
Found at i:2175766 original size:45 final size:45
Alignment explanation
Indices: 2175710--2175832 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 45
2175700 CTTATAAAAG
*
2175710 GGCATGAAAGGATGTCATAAATAAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATC
* * * *
2175755 GGCATGAAAGGATACCATAATTGAAATGCATATGGGTGCATTATT
1 GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATC
* * *
2175800 GGCATGAAAGAAGGCCATATATAAACATGCATA
1 GGCATGAAAGGATGCCATAAATAAA-ATGCATA
2175833 ATGGTGTATT
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
45 59 0.89
46 7 0.11
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATC
Found at i:2179991 original size:16 final size:17
Alignment explanation
Indices: 2179970--2180004 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2179960 CTAAGGGAGT
2179970 TTTCTC-ATTCCTTAAA
1 TTTCTCTATTCCTTAAA
*
2179986 TTTCTCTTTTCCTTAAA
1 TTTCTCTATTCCTTAAA
2180003 TT
1 TT
2180005 ACATAGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTCTCTATTCCTTAAA
Found at i:2181080 original size:16 final size:17
Alignment explanation
Indices: 2181059--2181093 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2181049 CTAAGGGAGT
2181059 TTTCTC-ATTCCTTAAA
1 TTTCTCTATTCCTTAAA
*
2181075 TTTCTCTTTTCCTTAAA
1 TTTCTCTATTCCTTAAA
2181092 TT
1 TT
2181094 ACATACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTCTCTATTCCTTAAA
Found at i:2182628 original size:228 final size:228
Alignment explanation
Indices: 2182213--2182658 Score: 777
Period size: 228 Copynumber: 2.0 Consensus size: 228
2182203 TGTATGTCCC
* *
2182213 TTCGGCCTAGTCTATTCATTTTGTATAAATAGCTAATGCCATGGCTTTTGTAAGGCATCATCCTT
1 TTCGACCTAGTCTATTCATTTTGTATAAATAGCTAATGCCATGGCTTTTATAAGGCATCATCCTT
*
2182278 TACTTATTAAATACAAGTGAGAGTTCATATCTTTTCCTTAGTCCTTCGTGACTTTATCGACTGAT
66 TACTTATTAAATACAAGTGAGAGTTCATATCTTTTCCTTAGTCCTTCATGACTTTATCGACTGAT
* *
2182343 CAAGTATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTGATACTCTTGGTTCCTATGTTTT
131 CAAGTATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTAATACTCTTGGTTCCTATATTTT
2182408 AATAGATAATGGGTCAAAGTACTCTCACTTATA
196 AATAGATAATGGGTCAAAGTACTCTCACTTATA
*
2182441 TTCGACCTAGTCTATTCATTTTGTATAAATAGCTAATGCCTTGGCTTTTATAAGGCATCATCCTT
1 TTCGACCTAGTCTATTCATTTTGTATAAATAGCTAATGCCATGGCTTTTATAAGGCATCATCCTT
* * *
2182506 TACTTATTAAATACAAGTGAGAGTTCATCTTTTTTCCTTAGTCCTTCATGACTTTATCGACTTAT
66 TACTTATTAAATACAAGTGAGAGTTCATATCTTTTCCTTAGTCCTTCATGACTTTATCGACTGAT
2182571 CAAGTATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTAATACT-TTGGGTTCCTATATTT
131 CAAGTATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTAATACTCTT-GGTTCCTATATTT
* *
2182635 TCATAGATAGTGGGTCAAAGTACT
195 TAATAGATAATGGGTCAAAGTACT
2182659 AAGCTACCAC
Statistics
Matches: 206, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
227 2 0.01
228 204 0.99
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (228 bp):
TTCGACCTAGTCTATTCATTTTGTATAAATAGCTAATGCCATGGCTTTTATAAGGCATCATCCTT
TACTTATTAAATACAAGTGAGAGTTCATATCTTTTCCTTAGTCCTTCATGACTTTATCGACTGAT
CAAGTATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTAATACTCTTGGTTCCTATATTTT
AATAGATAATGGGTCAAAGTACTCTCACTTATA
Found at i:2186546 original size:10 final size:10
Alignment explanation
Indices: 2186531--2186578 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 10
2186521 GTTTTTCATC
2186531 AAAAAGAAAA
1 AAAAAGAAAA
2186541 AAAAAGAAAA
1 AAAAAGAAAA
2186551 GAAAAATGCATAAA
1 -AAAAA-G-A-AAA
2186565 AAAGAAGAAAA
1 AAA-AAGAAAA
2186576 AAA
1 AAA
2186579 TTAAAAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.30
11 11 0.33
12 2 0.06
13 5 0.15
14 5 0.15
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:2186586 original size:20 final size:21
Alignment explanation
Indices: 2186539--2186579 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
2186529 TCAAAAAGAA
2186539 AAAAAAAGAAAAGAAAAATGC
1 AAAAAAAGAAAAGAAAAATGC
2186560 ATAAAAAAGAAGAA-AAAAAT
1 A-AAAAAAGAA-AAGAAAAAT
2186580 TAAAAAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.06
22 15 0.83
23 2 0.11
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAAAAAGAAAAGAAAAATGC
Found at i:2188199 original size:21 final size:21
Alignment explanation
Indices: 2188175--2188232 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
2188165 TATTTGGTAG
*
2188175 GGTACTTCATATACTTACCAA
1 GGTAATTCATATACTTACCAA
* * * *
2188196 GGTATTTCTTTTACTTATCAA
1 GGTAATTCATATACTTACCAA
2188217 GGTAATTCATATACTT
1 GGTAATTCATATACTT
2188233 CCACTTCTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.43
Consensus pattern (21 bp):
GGTAATTCATATACTTACCAA
Found at i:2188405 original size:111 final size:111
Alignment explanation
Indices: 2188228--2188456 Score: 332
Period size: 111 Copynumber: 2.1 Consensus size: 111
2188218 GTAATTCATA
* ** * *
2188228 TACTTCCACTTCTTCTTTTACTCTACCTTATACCATGGATACTAAATCGAATAATGACATCGATG
1 TACTTCTACTTCTTCTTCCACTCCACCTTATACCATGGATACTAAACCGAATAATGACATCGATG
* * *
2188293 AATACGATGCTATCAACATTGTAATATAGGGTAATTCATCTAATTC
66 AATACGATGCTATCAACATTGTAATAGAAGATAATTCATCTAATTC
* * * *
2188339 TACTTCTACTTCTTCTTCCACTCCACCTTCTACCATGGGTACTGAACCGGATAATGACATCGATG
1 TACTTCTACTTCTTCTTCCACTCCACCTTATACCATGGATACTAAACCGAATAATGACATCGATG
*
2188404 AATACGATGCTATCAACATTGTAATAGAAGATAATTCATCTACTTC
66 AATACGATGCTATCAACATTGTAATAGAAGATAATTCATCTAATTC
*
2188450 AACTTCT
1 TACTTCT
2188457 TCTTTTACTC
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (111 bp):
TACTTCTACTTCTTCTTCCACTCCACCTTATACCATGGATACTAAACCGAATAATGACATCGATG
AATACGATGCTATCAACATTGTAATAGAAGATAATTCATCTAATTC
Found at i:2188519 original size:105 final size:105
Alignment explanation
Indices: 2188214--2188541 Score: 340
Period size: 105 Copynumber: 3.1 Consensus size: 105
2188204 TTTTACTTAT
* * * * * * *
2188214 CAAGGTAATTCATATACTTCCACTTCTTCTTTTACTCTACCTTATAC-CATGGATACTAAATCGA
1 CAAGATAATTCATCTACTTCAACTTCTTCTTTTACTCCACCTTCTACTGA-GGATACTGAATCGA
2188278 ATAATGACATCGATGAATACGATGCTATCAACATTGTAATA
65 ATAATGACATCGATGAATACGATGCTATCAACATTGTAATA
* * * * *
2188319 TAGGGTAATTCATCTAATTCTACTTCTACTTCTTCTTCCACTCCACCTTCTACCATG-GG-TACT
1 CAAGATAATTCATCTACTTCAAC-T-T-CTTCTT-TT--ACTCCACCTTCTA-C-TGAGGATACT
* *
2188382 GAACCGGATAATGACATCGATGAATACGATGCTATCAACATTGTAATA
58 GAATCGAATAATGACATCGATGAATACGATGCTATCAACATTGTAATA
* * * *
2188430 GAAGATAATTCATCTACTTCAACTTCTTCTTTTACTCCACCTTCTTCTGAGGATAATGAATCAAA
1 CAAGATAATTCATCTACTTCAACTTCTTCTTTTACTCCACCTTCTACTGAGGATACTGAATCGAA
* * * *
2188495 CAATGGCATCGATGAATATGATGCTAGT-AGCATTGTAATA
66 TAATGACATCGATGAATACGATGCTA-TCAACATTGTAATA
2188535 CAAGATA
1 CAAGATA
2188542 TCGATCTTCA
Statistics
Matches: 185, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
103 2 0.01
104 3 0.02
105 78 0.42
106 2 0.01
107 3 0.02
108 12 0.06
109 3 0.02
110 1 0.01
111 78 0.42
112 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (105 bp):
CAAGATAATTCATCTACTTCAACTTCTTCTTTTACTCCACCTTCTACTGAGGATACTGAATCGAA
TAATGACATCGATGAATACGATGCTATCAACATTGTAATA
Found at i:2192238 original size:60 final size:60
Alignment explanation
Indices: 2192165--2192283 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
2192155 GGATTGACTC
*
2192165 GAATCGTACATCTAATTTTAATGGGTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAAA
1 GAATCGTACATCTAATTTTAATGGCTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAAA
** * *
2192225 GAATCGTACATCTAATTTTGGTGGCTGAGTCTTCCAGTAAGGATTTTCTACGTAGACAA
1 GAATCGTACATCTAATTTTAATGGCTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAA
2192284 GGACTCGAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (60 bp):
GAATCGTACATCTAATTTTAATGGCTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAAA
Found at i:2199665 original size:20 final size:22
Alignment explanation
Indices: 2199617--2199670 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2199607 TACCATAACA
*
2199617 TAGTATCAGTACCATAGTATGG
1 TAGTATCAATACCATAGTATGG
* *
2199639 TAGTATCGATACCATGGTAT-G
1 TAGTATCAATACCATAGTATGG
2199660 -AGTATCAATAC
1 TAGTATCAATAC
2199671 TGAGGACCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.36
21 1 0.04
22 17 0.61
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (22 bp):
TAGTATCAATACCATAGTATGG
Found at i:2200493 original size:54 final size:54
Alignment explanation
Indices: 2199997--2200485 Score: 744
Period size: 54 Copynumber: 9.1 Consensus size: 54
2199987 ACCAAATAGC
* * *
2199997 CACTAAGTGTGCATTTCACGAAATTCATCCTACGTGGATGAATAACTGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * * * *
2200051 CACTAAGTGTGCATTTCAAGAAATTCATCATACGTAGATGAATAACCGTTTTGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * * * *
2200105 CACTTAGTATTCATTTCATGGAATTCATCCTACGTGGATGAATAATCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * *
2200159 CACTAAGTGTGCATTTCACAGAATTCATCATACGTGGATGAATAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
2200213 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
*
2200267 CACTAAGTGTGCATTTCACGAAATTCATCCTACGTGGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * *
2200321 CACTAAGTGTGTATTTCACGAAATTCATCCTACGTGGATAAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
* * * * *
2200375 AACTAAGTGTGCATTTCACAGAATTCATCCTACGTGGTTGATTAACTGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
*
2200429 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATAAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
2200483 CAC
1 CAC
2200486 CATGTGTGAA
Statistics
Matches: 392, Mismatches: 43, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 392 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTCGG
Found at i:2200528 original size:55 final size:54
Alignment explanation
Indices: 2200487--2200689 Score: 230
Period size: 55 Copynumber: 3.7 Consensus size: 54
2200477 TTTCGGCACC
* *
2200487 ATGTGTGAAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACAAGAACT
1 ATGTGT-AAAATCCATAGAATTCATCATGAGTTGATGAATAACCGTACAGGAACT
* * *
2200542 ATGTGTCCAAATCCATAGAATTCATCATGATTTGATGAATAACCGTACAGGTACT
1 ATGTGT-AAAATCCATAGAATTCATCATGAGTTGATGAATAACCGTACAGGAACT
* * * *
2200597 ATGTGTACAAATCCACAAAATTCATCATGAGTTGATGAATAACCGTACATGCA-T
1 ATGTGTA-AAATCCATAGAATTCATCATGAGTTGATGAATAACCGTACAGGAACT
** * *
2200651 GATGTGTGCAACCCA-CGAAATTCATCATGAGTTGATGAA
1 -ATGTGTAAAATCCATAG-AATTCATCATGAGTTGATGAA
2200690 CTACCATATA
Statistics
Matches: 128, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
54 27 0.21
55 101 0.79
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (54 bp):
ATGTGTAAAATCCATAGAATTCATCATGAGTTGATGAATAACCGTACAGGAACT
Found at i:2201092 original size:46 final size:46
Alignment explanation
Indices: 2201027--2201288 Score: 363
Period size: 46 Copynumber: 5.8 Consensus size: 46
2201017 GTATAACGTT
2201027 GTATA-AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* *
2201072 GTATAGAAGGGTATGAAAGGATGCCATAAATGAAATGTATAATAGT
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
*
2201118 GTATAGCAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* * *
2201164 GTATAGAAGGGCAT-AAA--A-GCCATAGATGAAACGTATAATAGT
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* * * *
2201206 ATATAGAAGGGCATGAAAGAATACCATAAATGAAATGTATAATCGC
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
* * * *
2201252 TTATAAAAGGGCATGAAAGGATGTCATAAATAAAATG
1 GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATG
2201289 CATATGGGTG
Statistics
Matches: 191, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
42 34 0.18
43 4 0.02
45 9 0.05
46 144 0.75
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.23
Consensus pattern (46 bp):
GTATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
Found at i:2201239 original size:88 final size:88
Alignment explanation
Indices: 2201028--2201270 Score: 344
Period size: 88 Copynumber: 2.7 Consensus size: 88
2201018 TATAACGTTG
*
2201028 TATA-AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGTATGAAAGG
1 TATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCAT-AAA--
* *
2201092 ATGCCATAAATGAAATGTATAATAGTG
63 A-GCCATAAATGAAACGTATAATAGTA
*
2201119 TATAGCAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCATAAAAGC
1 TATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCATAAAAGC
*
2201184 CATAGATGAAACGTATAATAGTA
66 CATAAATGAAACGTATAATAGTA
* * * * * *
2201207 TATAGAAGGGCATGAAAGAATACCATAAATGAAATGTATAATCGCTTATAAAAGGGCATGAAAG
1 TATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCATAAAAG
2201271 GATGTCATAA
Statistics
Matches: 139, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
88 79 0.57
89 1 0.01
91 7 0.05
92 52 0.37
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (88 bp):
TATAGAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATAGAAGGGCATAAAAGC
CATAAATGAAACGTATAATAGTA
Found at i:2201317 original size:45 final size:45
Alignment explanation
Indices: 2201261--2201375 Score: 167
Period size: 45 Copynumber: 2.6 Consensus size: 45
2201251 CTTATAAAAG
*
2201261 GGCATGAAAGGATGTCATAAATAAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATC
* * * *
2201306 GGCATGAAAGGATACCATAATTGAAATGCATATGGGTGCATTATT
1 GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATC
* *
2201351 GGCATGAAAGAATGCCATATATAAA
1 GGCATGAAAGGATGCCATAAATAAA
2201376 CAGGCATAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.26
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATC
Found at i:2205541 original size:16 final size:17
Alignment explanation
Indices: 2205520--2205554 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2205510 CTAAGGGAGT
2205520 TTTCTC-ATTCCTTAAA
1 TTTCTCTATTCCTTAAA
*
2205536 TTTCTCTTTTCCTTAAA
1 TTTCTCTATTCCTTAAA
2205553 TT
1 TT
2205555 ACATACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTCTCTATTCCTTAAA
Found at i:2206631 original size:16 final size:17
Alignment explanation
Indices: 2206610--2206644 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2206600 CTAAGGGAGT
2206610 TTTCTC-ATTCCTTAAA
1 TTTCTCTATTCCTTAAA
*
2206626 TTTCTCTTTTCCTTAAA
1 TTTCTCTATTCCTTAAA
2206643 TT
1 TT
2206645 ACATACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTCTCTATTCCTTAAA
Found at i:2208177 original size:228 final size:228
Alignment explanation
Indices: 2207768--2208209 Score: 778
Period size: 228 Copynumber: 1.9 Consensus size: 228
2207758 TGTCCCTTCA
*
2207768 GCCTAGTCTATTCATTTTGTATAAATAGCTAATGCCATGGCTTTTGTAAGGCATCATCCTTTACT
1 GCCTAGTCTATTCATTTTGTATAAATAGCTAATGCCATGGCTTTTATAAGGCATCATCCTTTACT
*
2207833 TATTAAATACAAGTGAGAGTTCATATCTTTTCCTTAGTCCTTCGTGACTTTATCGACTGATCAAG
66 TATTAAATACAAGTGAGAGTTCATATCTTTTCCTTAGTCCTTCATGACTTTATCGACTGATCAAG
* *
2207898 TATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTGATACTCTGGGTTCCTATGTTTTAATA
131 TATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTAATACTCTGGGTTCCTATATTTTAATA
2207963 GATAATGGGTCAAAGTACTCTCACTTATATTCG
196 GATAATGGGTCAAAGTACTCTCACTTATATTCG
2207996 GCCTAGTCTATTCATTTTGTATAAATAGCTAATG-CATTGGCTTTTATAAGGCATCATCCTTTAC
1 GCCTAGTCTATTCATTTTGTATAAATAGCTAATGCCA-TGGCTTTTATAAGGCATCATCCTTTAC
* * *
2208060 TTATTAAATACAAGTGAGAGTTCATCTTTTTTCCTTAGTCCTTCATGACTTTATCGACTTATCAA
65 TTATTAAATACAAGTGAGAGTTCATATCTTTTCCTTAGTCCTTCATGACTTTATCGACTGATCAA
* *
2208125 GTATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTAATACTTTGGGTTCCTATATTTTCAT
130 GTATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTAATACTCTGGGTTCCTATATTTTAAT
*
2208190 AGATAGTGGGTCAAAGTACT
195 AGATAATGGGTCAAAGTACT
2208210 AAGCTACCAC
Statistics
Matches: 203, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
227 2 0.01
228 201 0.99
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (228 bp):
GCCTAGTCTATTCATTTTGTATAAATAGCTAATGCCATGGCTTTTATAAGGCATCATCCTTTACT
TATTAAATACAAGTGAGAGTTCATATCTTTTCCTTAGTCCTTCATGACTTTATCGACTGATCAAG
TATTCCATACTTGTGGCATCAACCCCTTCCTTTCCATTAATACTCTGGGTTCCTATATTTTAATA
GATAATGGGTCAAAGTACTCTCACTTATATTCG
Found at i:2212130 original size:20 final size:21
Alignment explanation
Indices: 2212083--2212123 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
2212073 ATCAAAAAGA
2212083 AAAAAAAGAAAAGAAAAATGC
1 AAAAAAAGAAAAGAAAAATGC
2212104 ATAAAAAAGAAGAA-AAAAAT
1 A-AAAAAAGAA-AAGAAAAAT
2212124 TAAAAAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.06
22 15 0.83
23 2 0.11
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAAAAAGAAAAGAAAAATGC
Found at i:2213745 original size:21 final size:21
Alignment explanation
Indices: 2213721--2213778 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
2213711 TATTTGGTAG
*
2213721 GGTACTTCATATACTTACCAA
1 GGTAATTCATATACTTACCAA
* * * *
2213742 GGTATTTCTTTTACTTATCAA
1 GGTAATTCATATACTTACCAA
2213763 GGTAATTCATATACTT
1 GGTAATTCATATACTT
2213779 CCACTTCTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.43
Consensus pattern (21 bp):
GGTAATTCATATACTTACCAA
Found at i:2213888 original size:6 final size:6
Alignment explanation
Indices: 2213877--2213908 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
2213867 GGGTAATTCA
*
2213877 TCTACT TCTACT TCTACT TCTACT TCTTCT TC
1 TCTACT TCTACT TCTACT TCTACT TCTACT TC
2213909 CACTCCACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.12, C:0.34, G:0.00, T:0.53
Consensus pattern (6 bp):
TCTACT
Found at i:2213980 original size:117 final size:117
Alignment explanation
Indices: 2213774--2214017 Score: 335
Period size: 117 Copynumber: 2.1 Consensus size: 117
2213764 GTAATTCATA
* ** * **
2213774 TACTTCCACTTCTTCTTTTACTCTACCTTATACCATGGATACTAAATTGAATAATGACATCGATG
1 TACTTCTACTTCTTCTTCCACTCCACCTTATACCATGGATACTAAACCGAATAATGACATCGATG
* * * *
2213839 AATACGATGCTATCAACATTGTAATATAGGGTAATTCATCTACTTCTACTTC
66 AATACGATGCTATCAACATTGTAATAGAAGATAATTCATCTACTTCAACTTC
* * * * *
2213891 TACTTCTACTTCTTCTTCCACTCCACCTTCTACCATGGGTACTGAACCGGATAATTACATCGATG
1 TACTTCTACTTCTTCTTCCACTCCACCTTATACCATGGATACTAAACCGAATAATGACATCGATG
2213956 AATACGATGCTATCAACATTGTAATAGAAGATAATTCATCTACTTCAACTTC
66 AATACGATGCTATCAACATTGTAATAGAAGATAATTCATCTACTTCAACTTC
* *
2214008 TTCTTTTACT
1 TACTTCTACT
2214018 CCACCTTCTT
Statistics
Matches: 110, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (117 bp):
TACTTCTACTTCTTCTTCCACTCCACCTTATACCATGGATACTAAACCGAATAATGACATCGATG
AATACGATGCTATCAACATTGTAATAGAAGATAATTCATCTACTTCAACTTC
Found at i:2217788 original size:60 final size:60
Alignment explanation
Indices: 2217715--2217833 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
2217705 GGATTGACTC
* *
2217715 GAATCGTACATCTAATTTTAATGGGTAAGTCTTCCAGTAAAGATTTTCTACTTAGACAAA
1 GAATCGTACATCTAATTTTAATGGCTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAAA
* * *
2217775 GAATCGTACATCTAATTTTAGTGGCTGAGTCTTCCAGTAAGGATTTTCTACGTAGACAA
1 GAATCGTACATCTAATTTTAATGGCTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAA
2217834 GGACTCGAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (60 bp):
GAATCGTACATCTAATTTTAATGGCTAAGTCTTCCAGTAAAGATTTTCTACGTAGACAAA
Found at i:2225458 original size:20 final size:22
Alignment explanation
Indices: 2225410--2225463 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2225400 TACCATAACA
*
2225410 TAGTATCAGTACCATAGTATGG
1 TAGTATCAATACCATAGTATGG
* *
2225432 TAGTATCGATACCATGGTAT-G
1 TAGTATCAATACCATAGTATGG
2225453 -AGTATCAATAC
1 TAGTATCAATAC
2225464 TGAGGAGCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.36
21 1 0.04
22 17 0.61
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (22 bp):
TAGTATCAATACCATAGTATGG
Found at i:2226285 original size:54 final size:54
Alignment explanation
Indices: 2225787--2226277 Score: 703
Period size: 54 Copynumber: 9.1 Consensus size: 54
2225777 TTACCATATA
* *
2225787 GGCACTAAGTGTGCATTTCACGAAATTCATCCTACGTGGATGAATAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
* * * * * *
2225841 GACACTAAGTGTGCATTTCATGAAATTCATCCTACGTAGATGAATAACCATTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
* * * *
2225895 GGCACTAAGTATTCATTTCATGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
* * *
2225949 GGCACTAAGTGTGCATTTCACAGAATTCGTCATACGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
*
2226003 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCTTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
* * *
2226057 GGCACTAAGTGTTCATTTCATGAAATTCATCCTACGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
* * * *
2226111 AGCACTAAGTGTGTATTTCACGAAATTCATCCTACGTGGATAAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
** * * * *
2226165 GAAACTAAGTGTACATTTCACGGAATTCATCATACGTGGATGATTAACTGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
* *
2226219 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATAAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
2226273 GGCAC
1 GGCAC
2226278 CATGTGTGAA
Statistics
Matches: 385, Mismatches: 52, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 385 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTACGTGGATGAATAACCGTTTC
Found at i:2226435 original size:55 final size:55
Alignment explanation
Indices: 2226279--2226481 Score: 277
Period size: 55 Copynumber: 3.7 Consensus size: 55
2226269 TTTCGGCACC
* * * *
2226279 ATGTGTGAAAATCCATGGAATTCATCATGAGTTGATGAATAACCGTACAAGAACT
1 ATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACATGAACT
* * * *
2226334 ATGTGTCCAAATCCA-TAGAATTCATCATGATTTGATGAATAACCGTACATGTACT
1 ATGTGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACATGAACT
*
2226389 ATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACATGCA-T
1 ATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACATGAACT
*
2226443 GATGTGTGC-AACCCACGAAATTCATCATGAGTTGATGAA
1 -ATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAA
2226482 CTACCATATA
Statistics
Matches: 133, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
54 30 0.23
55 102 0.77
56 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (55 bp):
ATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACATGAACT
Found at i:2226889 original size:46 final size:46
Alignment explanation
Indices: 2226821--2227081 Score: 302
Period size: 46 Copynumber: 5.8 Consensus size: 46
2226811 GTATAACGTT
*
2226821 GTATA-AAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
1 GTATAGAAGGGCATGAAAAGATGCCATAAATGAAATGTATAATAGC
*
2226866 GTATAGAAGGGCATGAAAAGATGCCATAAATGAAATGTATAATAGT
1 GTATAGAAGGGCATGAAAAGATGCCATAAATGAAATGTATAATAGC
* *
2226912 GTATAG-CGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGC
1 GTATAGAAGGGCATGAAAAGATGCCATAAATGAAATGTATAATAGC
* * * **
2226957 GTATATAAGGGCAT--AAA-A-GCCATAGATGAAACGTATAATAAT
1 GTATAGAAGGGCATGAAAAGATGCCATAAATGAAATGTATAATAGC
* * * *
2226999 ATATAGAAAGGCATG-AAAGAATACCATAAATGAAATGTATAATCGC
1 GTATAGAAGGGCATGAAAAG-ATGCCATAAATGAAATGTATAATAGC
* * * * *
2227045 TTATAAAAGGGCATGAAAGGATGTCATAAATAAAATG
1 GTATAGAAGGGCATGAAAAGATGCCATAAATGAAATG
2227082 CATATGGGTG
Statistics
Matches: 181, Mismatches: 28, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
42 31 0.17
43 4 0.02
44 2 0.01
45 47 0.26
46 94 0.52
47 3 0.02
ACGTcount: A:0.46, C:0.09, G:0.22, T:0.23
Consensus pattern (46 bp):
GTATAGAAGGGCATGAAAAGATGCCATAAATGAAATGTATAATAGC
Found at i:2227103 original size:133 final size:133
Alignment explanation
Indices: 2226842--2227085 Score: 321
Period size: 133 Copynumber: 1.8 Consensus size: 133
2226832 ATGAAAGGAT
* * * * *
2226842 GCCATAAATGAAATGTATAATAGCGTATAGAAGGGCATGAAAAGATGCCATAAATGAAATGTATA
1 GCCATAAATGAAACGTATAATAACATATAGAAAGGCATGAAAAGATACCATAAATGAAATGTATA
** * * *
2226907 ATAGTGTATAGCGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTATATAAGGGCATA
66 ATAGTGTATAAAGGGCATGAAAGGATGCCATAAATAAAATGCATAATAGCGTATATAACGGCATA
2226972 AAA
131 AAA
* *
2226975 GCCATAGATGAAACGTATAATAATATATAGAAAGGCATG-AAAGAATACCATAAATGAAATGTAT
1 GCCATAAATGAAACGTATAATAACATATAGAAAGGCATGAAAAG-ATACCATAAATGAAATGTAT
* *
2227039 AATCGCT-TATAAAAGGGCATGAAAGGATGTCATAAATAAAATGCATA
65 AATAG-TGTAT-AAAGGGCATGAAAGGATGCCATAAATAAAATGCATA
2227086 TGGGTGCATT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
132 4 0.04
133 59 0.62
134 32 0.34
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.23
Consensus pattern (133 bp):
GCCATAAATGAAACGTATAATAACATATAGAAAGGCATGAAAAGATACCATAAATGAAATGTATA
ATAGTGTATAAAGGGCATGAAAGGATGCCATAAATAAAATGCATAATAGCGTATATAACGGCATA
AAA
Found at i:2227110 original size:45 final size:45
Alignment explanation
Indices: 2227054--2227188 Score: 164
Period size: 45 Copynumber: 3.0 Consensus size: 45
2227044 CTTATAAAAG
*
2227054 GGCATGAAAGGATGTCATAAATAAAATGCATATGGGTGCATTATC
1 GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATC
* * * * *
2227099 GGCATGAAAGGATACCACAATTGAAATGCATATGGGTGCATTATT
1 GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATC
* * *
2227144 GGCATGAAAGAATGCCATATATAAACAGGCATAAT-GGTGCATTAT
1 GGCATGAAAGGATGCCATAAATAAA-ATGCAT-ATGGGTGCATTAT
2227189 AAATATGAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
45 58 0.77
46 15 0.20
47 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.26
Consensus pattern (45 bp):
GGCATGAAAGGATGCCATAAATAAAATGCATATGGGTGCATTATC
Found at i:2234811 original size:2 final size:2
Alignment explanation
Indices: 2234804--2234829 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2234794 TAATAACCCC
2234804 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
2234830 TTAAGTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2236213 original size:13 final size:13
Alignment explanation
Indices: 2236197--2236234 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2236187 CTATACACAC
*
2236197 TATATAATGTAAA
1 TATATAATATAAA
*
2236210 TATATATTATAAA
1 TATATAATATAAA
2236223 TATATAATATAA
1 TATATAATATAA
2236235 TATGTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
TATATAATATAAA
Found at i:2242961 original size:55 final size:55
Alignment explanation
Indices: 2242875--2243019 Score: 220
Period size: 55 Copynumber: 2.6 Consensus size: 55
2242865 TCATACTTGG
* * * *
2242875 GGGTATCGATAGACTCCTCAGTGTACCGATACATAAATAGCATTCGATATTTTGA
1 GGGTATCGATACACTCCTCAGTGTACTGATACACAAAGAGCATTCGATATTTTGA
* *
2242930 GGGTATCGATACACTCCTCAGTGTACTGATACACAAAGGGCATTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACTGATACACAAAGAGCATTCGATATTTTGA
2242985 GGGTATCGATACACTCCTCAGTGTA-TCGATACACA
1 GGGTATCGATACACTCCTCAGTGTACT-GATACACA
2243020 CTCATACAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 1 0.01
55 82 0.99
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACTGATACACAAAGAGCATTCGATATTTTGA
Found at i:2246462 original size:19 final size:19
Alignment explanation
Indices: 2246438--2246478 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
2246428 ATGAATGTAA
2246438 AAACATGGAAAATAAAAAT
1 AAACATGGAAAATAAAAAT
2246457 AAACATGGAAAATAAAAAT
1 AAACATGGAAAATAAAAAT
2246476 AAA
1 AAA
2246479 ATGCAAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (19 bp):
AAACATGGAAAATAAAAAT
Found at i:2251976 original size:2 final size:2
Alignment explanation
Indices: 2251969--2252017 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2251959 AAAACAATTG
2251969 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2252011 TA TA TA T
1 TA TA TA T
2252018 TAAACAAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2254135 original size:22 final size:21
Alignment explanation
Indices: 2254065--2254137 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
2254055 TACTGGTATT
* * *
2254065 AAAGTGCCTCAGCACTGATAC
1 AAAGTGCATTAGCACTGATGC
* *
2254086 GAAAGGGCATTAACACTGATGC
1 -AAAGTGCATTAGCACTGATGC
*
2254108 AGAAGTGTATTAGCACTGATGC
1 A-AAGTGCATTAGCACTGATGC
2254130 TAAAGTGC
1 -AAAGTGC
2254138 TGGGGATATA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 1 0.03
22 38 0.95
23 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (21 bp):
AAAGTGCATTAGCACTGATGC
Found at i:2261364 original size:20 final size:20
Alignment explanation
Indices: 2261339--2261385 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2261329 ATGAAGGTTC
2261339 GTGCAAATTATATTTGAACA
1 GTGCAAATTATATTTGAACA
2261359 GTGCAAATTATATTTGAACA
1 GTGCAAATTATATTTGAACA
*
2261379 ATGCAAA
1 GTGCAAA
2261386 AATCGGACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (20 bp):
GTGCAAATTATATTTGAACA
Found at i:2264628 original size:36 final size:36
Alignment explanation
Indices: 2264583--2264881 Score: 383
Period size: 36 Copynumber: 8.4 Consensus size: 36
2264573 TCAAAAAAGT
* *
2264583 TCTCGAGTGAGATAAAATTTGTTTTAAGGAAAACAA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
* * *
2264619 TCTCTAGTGAGATAAAATATGTTTTAAGAAAAATAA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
*
2264655 TCTCAAGTGAGATAAAATATGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
**
2264691 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAATTA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
* *
2264727 CCTCAAGTGAGAT-AAATTCTATTTTAAG-AAAA-AA
1 TCTCAAGTGAGATAAAATT-TGTTTTAAGAAAAACAA
2264761 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
* * * *
2264797 TATCAAGTAAGAT-AAATAT-ATTTAAGAAAAACAA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
* * * *
2264831 TATCAAGTAAGATAAAATCTTTTTTTAATAAAAACAA
1 TCTCAAGTGAGATAAAAT-TTGTTTTAAGAAAAACAA
2264868 TCTCAAGTGAGATA
1 TCTCAAGTGAGATA
2264882 TAATCTTGAG
Statistics
Matches: 233, Mismatches: 23, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
34 48 0.21
35 27 0.12
36 133 0.57
37 25 0.11
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (36 bp):
TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
Found at i:2265164 original size:42 final size:41
Alignment explanation
Indices: 2265069--2265148 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 41
2265059 GGTCTTATTG
* *
2265069 ATGACCCAAAGGACTTATCATCTTGCTCGAAAGACTTACAA
1 ATGACCCGAAGGACTTATCATCATGCTCGAAAGACTTACAA
*
2265110 ATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTA
1 ATGACCCGAAGGACTT-ATCATCATGCTCGAAAGACTTA
2265149 TTGATAGCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 14 0.40
42 21 0.60
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (41 bp):
ATGACCCGAAGGACTTATCATCATGCTCGAAAGACTTACAA
Found at i:2270706 original size:15 final size:15
Alignment explanation
Indices: 2270686--2270765 Score: 88
Period size: 16 Copynumber: 5.0 Consensus size: 15
2270676 ACAGATTATA
2270686 GGTCTGAGTTCAATG
1 GGTCTGAGTTCAATG
2270701 GGTCTGAGTTCAAATG
1 GGTCTGAGTTC-AATG
2270717 GGTCTGAGTTCAAATG
1 GGTCTGAGTTC-AATG
* *
2270733 GGTCGTGGGTTTGCAACG
1 GGTC-TGAG-TT-CAATG
*
2270751 GGTCTGAGTGCAATG
1 GGTCTGAGTTCAATG
2270766 AAATTGGGCA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
15 15 0.27
16 25 0.45
17 6 0.11
18 9 0.16
19 1 0.02
ACGTcount: A:0.20, C:0.14, G:0.36, T:0.30
Consensus pattern (15 bp):
GGTCTGAGTTCAATG
Found at i:2270718 original size:16 final size:16
Alignment explanation
Indices: 2270686--2270736 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
2270676 ACAGATTATA
2270686 GGTCTGAGTTC-AATG
1 GGTCTGAGTTCAAATG
2270701 GGTCTGAGTTCAAATG
1 GGTCTGAGTTCAAATG
2270717 GGTCTGAGTTCAAATG
1 GGTCTGAGTTCAAATG
2270733 GGTC
1 GGTC
2270737 GTGGGTTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 11 0.31
16 24 0.69
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (16 bp):
GGTCTGAGTTCAAATG
Found at i:2271898 original size:6 final size:6
Alignment explanation
Indices: 2271887--2271914 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2271877 GATTGGTTTG
2271887 CAATTA CAATTA CAATTA CAATTA CAAT
1 CAATTA CAATTA CAATTA CAATTA CAAT
2271915 AATTATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
CAATTA
Found at i:2276899 original size:18 final size:18
Alignment explanation
Indices: 2276856--2276927 Score: 90
Period size: 18 Copynumber: 4.0 Consensus size: 18
2276846 ATTCTAAATG
*
2276856 TTTACAATTATCAGACAT
1 TTTACAATTATCAGACGT
*
2276874 ATTACAATTATCAGACGT
1 TTTACAATTATCAGACGT
* * *
2276892 TTTTCAATTATTAGATGT
1 TTTACAATTATCAGACGT
*
2276910 TTTACAGTTATCAGACGT
1 TTTACAATTATCAGACGT
2276928 AGATTAATAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (18 bp):
TTTACAATTATCAGACGT
Found at i:2282755 original size:15 final size:16
Alignment explanation
Indices: 2282735--2282768 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2282725 ATCGATTTGG
*
2282735 TTATCG-ATTTTATTT
1 TTATCGAATTTTATAT
2282750 TTATCGAATTTTATAT
1 TTATCGAATTTTATAT
2282766 TTA
1 TTA
2282769 AGTTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
TTATCGAATTTTATAT
Found at i:2285995 original size:17 final size:18
Alignment explanation
Indices: 2285962--2285995 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2285952 TCTTCTGATA
2285962 TTTAATCTCCAAGGAATC
1 TTTAATCTCCAAGGAATC
*
2285980 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAAGGAAT
2285996 ATACTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (18 bp):
TTTAATCTCCAAGGAATC
Found at i:2290301 original size:15 final size:16
Alignment explanation
Indices: 2290281--2290313 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2290271 TTGATTTAAG
*
2290281 TATCG-ATTTTATTTT
1 TATCGAATTTTATATT
2290296 TATCGAATTTTATATT
1 TATCGAATTTTATATT
2290312 TA
1 TA
2290314 AGTTTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TATCGAATTTTATATT
Found at i:2291149 original size:18 final size:18
Alignment explanation
Indices: 2291126--2291208 Score: 166
Period size: 18 Copynumber: 4.6 Consensus size: 18
2291116 AAAGCAATTA
2291126 GTATCGATACTGATGTAG
1 GTATCGATACTGATGTAG
2291144 GTATCGATACTGATGTAG
1 GTATCGATACTGATGTAG
2291162 GTATCGATACTGATGTAG
1 GTATCGATACTGATGTAG
2291180 GTATCGATACTGATGTAG
1 GTATCGATACTGATGTAG
2291198 GTATCGATACT
1 GTATCGATACT
2291209 ATGAGGAAGG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (18 bp):
GTATCGATACTGATGTAG
Found at i:2291840 original size:54 final size:54
Alignment explanation
Indices: 2291748--2292146 Score: 509
Period size: 54 Copynumber: 7.4 Consensus size: 54
2291738 CTATGTGTAC
* * *
2291748 TATAGGCACTAAGTGTACAACCCA-TGAAATTCAGCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* * * * *
2291802 TATAGGCACTAAGTGTGCAATCCATAGAACTCGTCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * * * *
2291856 TATAGGCACTAAGTGTGAAAACCACATAATTCATCATATGTTGATGAACAACTG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
*
2291910 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTAGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * *
2291964 TATAGGCACTAAGTGTGCAACCCATAAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* *
2292018 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACTG
1 TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * * * * *
2292072 TATAGGTACTATGTGTGCGAA-CCAC-GAAATTCATAATATGTTTATGAATGACTG
1 TATAGGCACTAAGTGTGC-AACCCACAG-AATTCATCATATGTTGATGAACGACCG
2292126 TATAGAG-ACTAAGTGTGCAAC
1 TATAG-GCACTAAGTGTGCAAC
2292147 TCAATGAAAT
Statistics
Matches: 305, Mismatches: 35, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
53 3 0.01
54 298 0.98
55 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
Found at i:2292015 original size:162 final size:162
Alignment explanation
Indices: 2291748--2292146 Score: 579
Period size: 162 Copynumber: 2.5 Consensus size: 162
2291738 CTATGTGTAC
* * *
2291748 TATAGGCACTAAGTGTACAACCCATGAAATTCAGCATATGTTGATGAACGACCGTATAGGCACTA
1 TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCGTATAGGCACTA
* * *
2291813 AGTGTGCAATCCATAGAACTCGTCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGAAAAC
66 AGTGTGCAACCCATAAAACTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGAAAAC
*
2291878 CACATAATTCATCATATGTTGATGAACAACTG
131 CACAGAATTCATCATATGTTGATGAACAACTG
*
2291910 TATAGGCACTAAGTGTGCAACCCAC-AGAATTCATCATATGTAGATGAACGACCGTATAGGCACT
1 TATAGGCACTAAGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGACCGTATAGGCACT
* * *
2291974 AAGTGTGCAACCCATAAAATTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGCAAC
65 AAGTGTGCAACCCATAAAACTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGAAAA
* *
2292039 CCACGGAATTCATCATATGTTGATGAACGACTG
130 CCACAGAATTCATCATATGTTGATGAACAACTG
* * * * * *
2292072 TATAGGTACTATGTGTGCGAA-CCACGAAATTCATAATATGTTTATGAATGACTGTATAGAG-AC
1 TATAGGCACTAAGTGTGC-AACCCACGAAATTCATCATATGTTGATGAACGACCGTATAG-GCAC
2292135 TAAGTGTGCAAC
64 TAAGTGTGCAAC
2292147 TCAATGAAAT
Statistics
Matches: 213, Mismatches: 20, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
161 1 0.00
162 208 0.98
163 4 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (162 bp):
TATAGGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCGTATAGGCACTA
AGTGTGCAACCCATAAAACTCATCATATGTTGATGAACAACCGTATAGGCACTAAGTGTGAAAAC
CACAGAATTCATCATATGTTGATGAACAACTG
Found at i:2307882 original size:41 final size:41
Alignment explanation
Indices: 2307717--2308115 Score: 286
Period size: 41 Copynumber: 9.7 Consensus size: 41
2307707 GCGGCATTTG
* * ** * *
2307717 TAGTGGCGTTTTTAGAATAAACGTTGCTAAAGACTAGTACTA
1 TAGTGGCATTTTTA-TATAAACGCCGCTAAAGACTCGTACTT
* * * * * ** *
2307759 TAGCGGCGTTTTTACAAAAATGCCATTAAAGAAT-GTACTT
1 TAGTGGCATTTTTATATAAACGCCGCTAAAGACTCGTACTT
* * *** *
2307799 TAGTGTCTTTTTTATATAAATAACGTTAAAGACT-GT-CATT
1 TAGTGGCATTTTTATATAAACGCCGCTAAAGACTCGTAC-TT
* * * *
2307839 TAGTGGCATTTTTGTATAAACGCCGATATAGAGTCGTACTT
1 TAGTGGCATTTTTATATAAACGCCGCTAAAGACTCGTACTT
* * *
2307880 TAGTGACATTTTTAT-TGCAAACGCCACTATAGACTCGTGA-TT
1 TAGTGGCATTTTTATAT--AAACGCCGCTAAAGACTCGT-ACTT
* * * * *
2307922 TAGTGGCGTTTTTATACAAACACCGCTAAAAACTCATACTT
1 TAGTGGCATTTTTATATAAACGCCGCTAAAGACTCGTACTT
* * * *
2307963 CAGTGGCGTTTATATAAAAACGCCGCTAAAGACTCGTACTT
1 TAGTGGCATTTTTATATAAACGCCGCTAAAGACTCGTACTT
* * * *
2308004 TAGTGGCATTTATATACAAATGCCGCTAAAGACTCATACTT
1 TAGTGGCATTTTTATATAAACGCCGCTAAAGACTCGTACTT
** *
2308045 TAGTGGTGTTTTTATATAAACGCCGCTAAATACTCGTACTT
1 TAGTGGCATTTTTATATAAACGCCGCTAAAGACTCGTACTT
** ***
2308086 TAACGGTGCTTTTATATAAACGCCGCTAAA
1 TAGTGGCATTTTTATATAAACGCCGCTAAA
2308116 TATTGTAAGG
Statistics
Matches: 287, Mismatches: 62, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
39 1 0.00
40 61 0.21
41 178 0.62
42 46 0.16
43 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (41 bp):
TAGTGGCATTTTTATATAAACGCCGCTAAAGACTCGTACTT
Found at i:2311215 original size:21 final size:21
Alignment explanation
Indices: 2311191--2311249 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2311181 TGATTTATTA
**
2311191 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
2311212 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
2311233 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
2311250 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:2311465 original size:43 final size:43
Alignment explanation
Indices: 2311419--2311713 Score: 351
Period size: 43 Copynumber: 6.9 Consensus size: 43
2311409 GTTTGTTCTA
* * * * *
2311419 AAAAACGCCGCTATATAC-C-AGATCTTTTGCGGTGTTTATGGG
1 AAAAACGCCGCTAAAT-CTCAAGACCTATTGCGGCGTTTGTGGG
* *
2311461 AAAAATGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGA
1 AAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGG
* *
2311504 AAAAATGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGG
*
2311547 AAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTGGG
1 AAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGG
* * ** *
2311590 AAAAACTCCGCTAAATCTCAACACCTATTGCGAAGTTTGTTGG
1 AAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGG
* * *
2311633 AAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTGTTGG
1 AAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGG
* * * * **
2311676 ACAAACGCTGCTATATATCATTACCTATTGCGGCGTTT
1 AAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTT
2311714 TTTTTGTTAC
Statistics
Matches: 228, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
41 1 0.00
42 15 0.07
43 212 0.93
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (43 bp):
AAAAACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGG
Found at i:2312827 original size:23 final size:23
Alignment explanation
Indices: 2312801--2312868 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
2312791 TACCTTACGT
2312801 AGAGAAAAAAGTG-CTACAAAGAC
1 AGAGAAAAAAGTGTC-ACAAAGAC
* * *
2312824 AGAGATAAACGTGTCATAAAGAC
1 AGAGAAAAAAGTGTCACAAAGAC
*
2312847 AGAGATAAACA-TGTCACAAAGA
1 AGAGA-AAAAAGTGTCACAAAGA
2312869 TTGAATTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
23 33 0.92
24 3 0.08
ACGTcount: A:0.53, C:0.13, G:0.21, T:0.13
Consensus pattern (23 bp):
AGAGAAAAAAGTGTCACAAAGAC
Found at i:2313642 original size:178 final size:177
Alignment explanation
Indices: 2313344--2313691 Score: 536
Period size: 178 Copynumber: 2.0 Consensus size: 177
2313334 AAAATATCTA
* * * *
2313344 TTTAATTTAAAATTTATTTTCTTTTTTAAGAAAATATTACATTCTTGTTTGTTGTTGTTATTAAA
1 TTTAATTTAAAATTTATTTTCTTTTTTAACAAAATATTACATTCTTATATGTTGATGTTATTAAA
2313409 TTATTTTCATCTATTTTTCTGTAATATTTATCCATATTTATTGACTAATTAAATTAATAATTAAT
66 TTATTTTCATCTATTTTTCTGTAATATTTATCCATATTTATTGACTAATTAAATTAATAATTAAT
*
2313474 CATAAATCAATATAAATGAAAAATATGTACTAAAATTATTATATTAT
131 CATAAATCAATATAAATGAAAAATATATACTAAAATTATTATATTAT
* * * *
2313521 TTTAATTTTAAATTTATTTTCTTTTTTTAACAAGATATTATATTCTTATATGTTGATGTTATTCA
1 TTTAATTTAAAATTTATTTTC-TTTTTTAACAAAATATTACATTCTTATATGTTGATGTTATTAA
* *
2313586 ATTATTTTCATCTATTTTGT-TGTTATATTTATCCATATTTATTGATTAATTAAATTAATAATTA
65 ATTATTTTCATCTATTTT-TCTGTAATATTTATCCATATTTATTGACTAATTAAATTAATAATTA
* * * *
2313650 ATCTTAAATCAATATATATTAAAAATATATACTAAATTTATT
129 ATCATAAATCAATATAAATGAAAAATATATACTAAAATTATT
2313692 CTTAATATAT
Statistics
Matches: 154, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
177 20 0.13
178 133 0.86
179 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.52
Consensus pattern (177 bp):
TTTAATTTAAAATTTATTTTCTTTTTTAACAAAATATTACATTCTTATATGTTGATGTTATTAAA
TTATTTTCATCTATTTTTCTGTAATATTTATCCATATTTATTGACTAATTAAATTAATAATTAAT
CATAAATCAATATAAATGAAAAATATATACTAAAATTATTATATTAT
Found at i:2316066 original size:60 final size:60
Alignment explanation
Indices: 2315993--2316114 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
2315983 TCTAACAACA
*
2315993 CTAATTTATCAAATTTTAATGCAAGCTAACATATTAACTTATTGATCACCAATTGACGAT
1 CTAATTTATCAAATTTTAATGCAAGCTAACATATTAACTTATTGATCACCAATGGACGAT
2316053 CTAATTTATCAAATTTTAATGCAAGCTAACATATTAACTTATTGATCACCAATGGACGAT
1 CTAATTTATCAAATTTTAATGCAAGCTAACATATTAACTTATTGATCACCAATGGACGAT
2316113 CT
1 CT
2316115 GTTGGGATTA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (60 bp):
CTAATTTATCAAATTTTAATGCAAGCTAACATATTAACTTATTGATCACCAATGGACGAT
Found at i:2317064 original size:23 final size:23
Alignment explanation
Indices: 2317012--2317058 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
2317002 GTGATAAATT
* *
2317012 TTCTATTATGTAGGAAGGACAAA
1 TTCTATCATGTAGGAAGAACAAA
2317035 TTCTATCATGTAGGAAGAACAAA
1 TTCTATCATGTAGGAAGAACAAA
2317058 T
1 T
2317059 CATATCTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (23 bp):
TTCTATCATGTAGGAAGAACAAA
Found at i:2327918 original size:51 final size:49
Alignment explanation
Indices: 2327858--2328040 Score: 151
Period size: 51 Copynumber: 3.6 Consensus size: 49
2327848 CAACATTATG
*
2327858 AAAGATTGACTTCTCAACACGAGAAAGTCAAGTTGAGGAATGATACTACTGA
1 AAAG-TTGACTTCTC-TCACGAGAAAGTCAAGTTGAGGAATGATA-TACTGA
* * * *
2327910 AAAGTTGACTTCTCTC-CGTAAGAAAGTAAAGTTGAGAAAGGATAATACCGA
1 AAAGTTGACTTCTCTCACG--AGAAAGTCAAGTTGAGGAATGAT-ATACTGA
* *
2327961 AAAGTTGAC-TCATCTCCGCGAGAAA-TGCAAGTTGAGG-ATGACATCACT-A
1 AAAGTTGACTTC-TCT-CACGAGAAAGT-CAAGTTGAGGAATGATAT-ACTGA
*
2328010 AAAGGTTGACTCCTCTTCACGAGAAAGTCAA
1 AAA-GTTGACTTCTC-TCACGAGAAAGTCAA
2328041 TAAGGACACA
Statistics
Matches: 107, Mismatches: 12, Indels: 26
0.74 0.08 0.18
Matches are distributed among these distances:
49 8 0.07
50 28 0.26
51 63 0.59
52 6 0.06
53 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (49 bp):
AAAGTTGACTTCTCTCACGAGAAAGTCAAGTTGAGGAATGATATACTGA
Found at i:2328116 original size:45 final size:45
Alignment explanation
Indices: 2328000--2328525 Score: 549
Period size: 45 Copynumber: 11.7 Consensus size: 45
2327990 AGTTGAGGAT
* * * *
2328000 GACATCACTAAAAGGTTGACTCCTCTTCACGAGAAAGTCAATAAG
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAG
* * * *
2328045 GAC-ACACTAAAAGATGGACTCCTCTTCGCGAGGAAGTCAAGAAG
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAG
* **
2328089 GACAACATTAAAAGATTGACTTCTCTTCGTGAGAAAGTCAAGGAAG
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAA-GAAG
* * *
2328135 G-CAACACTAAAAGATTGACTCCTCTTCGCGAGGAAGTCAAGAAG
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAG
* *
2328179 GACAACATTAAAAGATTGACTTCTCTTCGCGAGAAAGTCAAGGAAG
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAA-GAAG
* * **
2328225 G-CAACACTAAAAGATTGAATCCTCTTCAC-ATGAAAGTCAAGATT
1 GACAACACTAAAAGATTGACTTCTCTTCACGA-GAAAGTCAAGAAG
* *
2328269 GACAATACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATG
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAA-G
* * * *
2328315 G-TAACACTAAAAGACTGTCTTCTCTTCACGAGAAAGTCAAGAAT
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAG
* ** * * * *
2328359 GACAACACTAAAATATCAACTTTTCTTCGCAAGAAAGTCAAGAAC
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAG
* * * * * *
2328404 GACATCACTAAAAGGTTGACTTCACTCCATGAGAAAGTCAAGAAC
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAG
* * * ** *
2328449 AACACCACTAAAAGATTGACTTTTCTTCATAAGAAAGTCAAGTAG
1 GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAG
* * *
2328494 GATAACACTAAAAGATCGAATTCTCTTCACGA
1 GACAACACTAAAAGATTGACTTCTCTTCACGA
2328526 CGATGTCAAG
Statistics
Matches: 398, Mismatches: 74, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
44 48 0.12
45 338 0.85
46 12 0.03
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (45 bp):
GACAACACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAG
Found at i:2339407 original size:36 final size:36
Alignment explanation
Indices: 2339347--2339506 Score: 140
Period size: 36 Copynumber: 4.7 Consensus size: 36
2339337 AGCAATAAGT
* * * * *
2339347 GCATGTATATTATGTATGTAATCATCAGTAGCAAGA
1 GCATGTATATCATGCATATAATCATTATTAGCAAGA
* * * * *
2339383 GTATGTATATCATGCATATGATCATTATTAGTAGGC
1 GCATGTATATCATGCATATAATCATTATTAGCAAGA
*
2339419 GCATGTATATCATGCATATAAACATTATTAGC-A-A
1 GCATGTATATCATGCATATAATCATTATTAGCAAGA
* *
2339453 G--TG-----CATGTATATAATCATTATTAGCAAGC
1 GCATGTATATCATGCATATAATCATTATTAGCAAGA
2339482 GCATGTATATCATGCATATAATCAT
1 GCATGTATATCATGCATATAATCAT
2339507 CAACAATAAG
Statistics
Matches: 95, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
27 20 0.21
28 1 0.01
29 1 0.01
31 2 0.02
32 2 0.02
34 1 0.01
36 68 0.72
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (36 bp):
GCATGTATATCATGCATATAATCATTATTAGCAAGA
Found at i:2339471 original size:27 final size:27
Alignment explanation
Indices: 2339429--2339491 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
2339419 GCATGTATAT
* *
2339429 CATGCATATAAACATTATTAGCAAGTG
1 CATGTATATAAACATTATTAGCAAGCG
*
2339456 CATGTATATAATCATTATTAGCAAGCG
1 CATGTATATAAACATTATTAGCAAGCG
2339483 CATGTATAT
1 CATGTATAT
2339492 CATGCATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (27 bp):
CATGTATATAAACATTATTAGCAAGCG
Found at i:2339522 original size:63 final size:63
Alignment explanation
Indices: 2339393--2339525 Score: 167
Period size: 63 Copynumber: 2.1 Consensus size: 63
2339383 GTATGTATAT
* * * * * ** * *
2339393 CATGCATATGATCATTATTAGTAGGCGCATGTATATCATGCATATAAACATTATTAGCAAGTG
1 CATGTATATAATCATTATTAGCAAGCGCATGTATATCATGCATATAAACATCAACAACAAGCG
* *
2339456 CATGTATATAATCATTATTAGCAAGCGCATGTATATCATGCATATAATCATCAACAATAAGCG
1 CATGTATATAATCATTATTAGCAAGCGCATGTATATCATGCATATAAACATCAACAACAAGCG
2339519 CATGTAT
1 CATGTAT
2339526 CATCATTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (63 bp):
CATGTATATAATCATTATTAGCAAGCGCATGTATATCATGCATATAAACATCAACAACAAGCG
Found at i:2340475 original size:19 final size:19
Alignment explanation
Indices: 2340339--2340602 Score: 183
Period size: 19 Copynumber: 13.8 Consensus size: 19
2340329 AATTATCTAG
*
2340339 TTTCCAACCTAAAATC-CA
1 TTTCCAACCTAAAATCTGA
* *
2340357 GTTTCCAACCTTAAATCTGG
1 -TTTCCAACCTAAAATCTGA
* *
2340377 TTTCTAACATAAAATCTGA
1 TTTCCAACCTAAAATCTGA
* * *
2340396 TTTCCAACCTGAATTC-AA
1 TTTCCAACCTAAAATCTGA
* *
2340414 GTTTTCAAACTAAAATCTGA
1 -TTTCCAACCTAAAATCTGA
2340434 TTTCCAACCTAAAATCT-A
1 TTTCCAACCTAAAATCTGA
* *
2340452 TTTTCCAACCTGAAATATGA
1 -TTTCCAACCTAAAATCTGA
* * * *
2340472 TTTCCAATCTTAAATTTGGTT
1 TTTCCAACCTAAAATCT-G-A
2340493 TTTCCAACCTAAAATCTGA
1 TTTCCAACCTAAAATCTGA
* * * *
2340512 TATCCAACCTGAAATTTGG
1 TTTCCAACCTAAAATCTGA
* * * *
2340531 TTTCTAACTTAAAATATGG
1 TTTCCAACCTAAAATCTGA
* * * *
2340550 TTTCTAACTTGAAATATGA
1 TTTCCAACCTAAAATCTGA
* *
2340569 TTTCCACCCTGAAATCTGA
1 TTTCCAACCTAAAATCTGA
*
2340588 TTTCTAACCTAAAAT
1 TTTCCAACCTAAAAT
2340603 ATGGTTCAAA
Statistics
Matches: 191, Mismatches: 47, Indels: 14
0.76 0.19 0.06
Matches are distributed among these distances:
18 2 0.01
19 171 0.90
20 4 0.02
21 14 0.07
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (19 bp):
TTTCCAACCTAAAATCTGA
Found at i:2340592 original size:57 final size:57
Alignment explanation
Indices: 2340339--2340608 Score: 226
Period size: 57 Copynumber: 4.7 Consensus size: 57
2340329 AATTATCTAG
* * * * * *
2340339 TTTCCAACCTAAAATC-CAGTTTCCAACCTT-AAATCTGGTTTCTAACATAAAATCTGA
1 TTTCCAACCTGAAATCTGA-TTTCTAA-CTTAAAATATGGTTTCCAACCTAAAATCTGA
* * * * * *
2340396 TTTCCAACCTGAATTCAAGTTTTCAAAC-TAAAATCTGATTTCCAACCTAAAATCT-A
1 TTTCCAACCTGAAATC-TGATTTCTAACTTAAAATATGGTTTCCAACCTAAAATCTGA
* * *
2340452 TTTTCCAACCTGAAATATGATTTCCAATCTT-AAATTTGGTTTTTCCAACCTAAAATCTGA
1 -TTTCCAACCTGAAATCTGATTTCTAA-CTTAAAATATGG--TTTCCAACCTAAAATCTGA
* * * * * * *
2340512 TATCCAACCTGAAATTTGGTTTCTAACTTAAAATATGGTTTCTAACTTGAAATATGA
1 TTTCCAACCTGAAATCTGATTTCTAACTTAAAATATGGTTTCCAACCTAAAATCTGA
* *
2340569 TTTCCACCCTGAAATCTGATTTCTAACCTAAAATATGGTT
1 TTTCCAACCTGAAATCTGATTTCTAACTTAAAATATGGTT
2340609 CAAAACACAT
Statistics
Matches: 174, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
56 9 0.05
57 108 0.62
58 10 0.06
59 46 0.26
60 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (57 bp):
TTTCCAACCTGAAATCTGATTTCTAACTTAAAATATGGTTTCCAACCTAAAATCTGA
Found at i:2342125 original size:20 final size:21
Alignment explanation
Indices: 2342100--2342171 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 21
2342090 GCTGCTGGAA
2342100 AACCGGTTT-AACCAGTTTTG
1 AACCGGTTTGAACCAGTTTTG
*
2342120 AACCGGTTTGAACC-GGTTTG
1 AACCGGTTTGAACCAGTTTTG
* *
2342140 -ACCGGTCTGAACC-GGTTTG
1 AACCGGTTTGAACCAGTTTTG
*
2342159 -ACCGGTCTGAACC
1 AACCGGTTTGAACC
2342172 GGGTTGACCC
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
19 31 0.63
20 14 0.29
21 4 0.08
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (21 bp):
AACCGGTTTGAACCAGTTTTG
Found at i:2342145 original size:9 final size:10
Alignment explanation
Indices: 2342100--2342178 Score: 92
Period size: 10 Copynumber: 8.1 Consensus size: 10
2342090 GCTGCTGGAA
2342100 AACCGGTTT-
1 AACCGGTTTG
*
2342109 AACCAGTTTTG
1 AACC-GGTTTG
2342120 AACCGGTTTG
1 AACCGGTTTG
2342130 AACCGGTTTG
1 AACCGGTTTG
*
2342140 -ACCGGTCTG
1 AACCGGTTTG
2342149 AACCGGTTTG
1 AACCGGTTTG
*
2342159 -ACCGGTCTG
1 AACCGGTTTG
*
2342168 AACCGGGTTG
1 AACCGGTTTG
2342178 A
1 A
2342179 CCCGACCCGA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
9 20 0.34
10 35 0.59
11 4 0.07
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:2342145 original size:19 final size:19
Alignment explanation
Indices: 2342116--2342180 Score: 103
Period size: 19 Copynumber: 3.4 Consensus size: 19
2342106 TTTAACCAGT
*
2342116 TTTGAACCGGTTTGAACCGG
1 TTTG-ACCGGTCTGAACCGG
2342136 TTTGACCGGTCTGAACCGG
1 TTTGACCGGTCTGAACCGG
2342155 TTTGACCGGTCTGAACCGG
1 TTTGACCGGTCTGAACCGG
*
2342174 GTTGACC
1 TTTGACC
2342181 CGACCCGACT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
19 39 0.91
20 4 0.09
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.28
Consensus pattern (19 bp):
TTTGACCGGTCTGAACCGG
Found at i:2342196 original size:17 final size:17
Alignment explanation
Indices: 2342174--2342231 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
2342164 TCTGAACCGG
*
2342174 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
2342191 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
2342208 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
2342225 GTTGACC
1 GTTGACC
2342232 GTGATCGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:2342231 original size:7 final size:7
Alignment explanation
Indices: 2342221--2342263 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
2342211 GACCCGACCC
2342221 GACCGTT
1 GACCGTT
2342228 GACCG-T
1 GACCGTT
*
2342234 GATCGTT
1 GACCGTT
2342241 GACCG-T
1 GACCGTT
2342247 GACCGTT
1 GACCGTT
2342254 GACCGTT
1 GACCGTT
2342261 GAC
1 GAC
2342264 TTTCTTTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 11 0.34
7 21 0.66
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:2342242 original size:13 final size:13
Alignment explanation
Indices: 2342221--2342259 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2342211 GACCCGACCC
2342221 GACCGTTGACCGT
1 GACCGTTGACCGT
*
2342234 GATCGTTGACCGT
1 GACCGTTGACCGT
2342247 GACCGTTGACCGT
1 GACCGTTGACCGT
2342260 TGACTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.28, G:0.31, T:0.26
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:2342246 original size:20 final size:20
Alignment explanation
Indices: 2342221--2342263 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2342211 GACCCGACCC
*
2342221 GACCGTTGACCGTGATCGTT
1 GACCGTTGACCGTGACCGTT
2342241 GACCG-TGACCGTTGACCGTT
1 GACCGTTGACCG-TGACCGTT
2342261 GAC
1 GAC
2342264 TTTCTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.16, C:0.28, G:0.30, T:0.26
Consensus pattern (20 bp):
GACCGTTGACCGTGACCGTT
Found at i:2343194 original size:63 final size:63
Alignment explanation
Indices: 2343126--2343249 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
2343116 CTAATGTGAC
* * *
2343126 TCTTAGGTAGG-CTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTG
1 TCTTAGGTAGGCCTC-ACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTG
2343188 T
63 T
* *
2343189 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
2343250 TCCCTTAGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.02
63 48 0.91
64 4 0.08
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:2343209 original size:32 final size:32
Alignment explanation
Indices: 2343126--2343249 Score: 80
Period size: 31 Copynumber: 4.0 Consensus size: 32
2343116 CTAATGTGAC
* * *
2343126 TCTTAGGTAGGCTCT-GCGGCCCTGAGAT-CA
1 TCTTAGGTAGGCTCTCACGGCCCTAAGATGTA
** * * *
2343156 TTCTCGGGTAGGCCCT-GCGGCCCTAAGATGTGT
1 -TCTTAGGTAGGCTCTCACGGCCCTAAGATGT-A
* *
2343189 TCTTAGGTAGGC-CTCACGGCCCCGAA-ATCTA
1 TCTTAGGTAGGCTCTCACGG-CCCTAAGATGTA
*
2343220 TCTTGGGTAGGCTCTCA-GGCCCTAAGATGT
1 TCTTAGGTAGGCTCTCACGGCCCTAAGATGT
2343250 TCCCTTAGGG
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
30 5 0.07
31 42 0.58
32 20 0.28
33 5 0.07
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (32 bp):
TCTTAGGTAGGCTCTCACGGCCCTAAGATGTA
Found at i:2349488 original size:9 final size:9
Alignment explanation
Indices: 2349456--2349525 Score: 50
Period size: 10 Copynumber: 7.3 Consensus size: 9
2349446 CTGCTGGAAA
*
2349456 ACCGGTTTA
1 ACCGGTTTG
*
2349465 ACCAGTTTTG
1 ACC-GGTTTG
2349475 AACCGGTTTG
1 -ACCGGTTTG
*
2349485 ACCGGTCTG
1 ACCGGTTTG
*
2349494 AACCGGGTTG
1 -ACCGGTTTG
*
2349504 ACCGGTCTG
1 ACCGGTTTG
*
2349513 AACCGGGTTG
1 -ACCGGTTTG
2349523 ACC
1 ACC
2349526 CGACCCGACT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
9 21 0.45
10 23 0.49
11 3 0.06
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.26
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:2349497 original size:19 final size:19
Alignment explanation
Indices: 2349473--2349525 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
2349463 TAACCAGTTT
*
2349473 TGAACCGGTTTGACCGGTC
1 TGAACCGGGTTGACCGGTC
2349492 TGAACCGGGTTGACCGGTC
1 TGAACCGGGTTGACCGGTC
2349511 TGAACCGGGTTGACC
1 TGAACCGGGTTGACC
2349526 CGACCCGACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.17, C:0.26, G:0.34, T:0.23
Consensus pattern (19 bp):
TGAACCGGGTTGACCGGTC
Found at i:2349498 original size:10 final size:10
Alignment explanation
Indices: 2349473--2349518 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
2349463 TAACCAGTTT
*
2349473 TGAACCGGTT
1 TGAACCGGTC
2349483 TG-ACCGGTC
1 TGAACCGGTC
2349492 TGAACCGGGT-
1 TGAACC-GGTC
2349502 TG-ACCGGTC
1 TGAACCGGTC
2349511 TGAACCGG
1 TGAACCGG
2349519 GTTGACCCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 12 0.39
11 3 0.10
ACGTcount: A:0.17, C:0.26, G:0.35, T:0.22
Consensus pattern (10 bp):
TGAACCGGTC
Found at i:2349541 original size:17 final size:17
Alignment explanation
Indices: 2349519--2349576 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
2349509 TCTGAACCGG
*
2349519 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
2349536 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
2349553 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
2349570 GTTGACC
1 GTTGACC
2349577 GTGACCGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:2349576 original size:7 final size:7
Alignment explanation
Indices: 2349566--2349608 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
2349556 GACCCGACCC
2349566 GACCGTT
1 GACCGTT
2349573 GACCG-T
1 GACCGTT
2349579 GACCGTT
1 GACCGTT
2349586 GACCG-T
1 GACCGTT
2349592 GACCGTT
1 GACCGTT
2349599 GACCGTT
1 GACCGTT
2349606 GAC
1 GAC
2349609 TTTCTTTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.35
7 22 0.65
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:2349584 original size:13 final size:13
Alignment explanation
Indices: 2349566--2349604 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2349556 GACCCGACCC
2349566 GACCGTTGACCGT
1 GACCGTTGACCGT
2349579 GACCGTTGACCGT
1 GACCGTTGACCGT
2349592 GACCGTTGACCGT
1 GACCGTTGACCGT
2349605 TGACTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:2349591 original size:20 final size:20
Alignment explanation
Indices: 2349566--2349608 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
2349556 GACCCGACCC
2349566 GACCGTTGACCGTGACCGTT
1 GACCGTTGACCGTGACCGTT
2349586 GACCG-TGACCGTTGACCGTT
1 GACCGTTGACCG-TGACCGTT
2349606 GAC
1 GAC
2349609 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.23
Consensus pattern (20 bp):
GACCGTTGACCGTGACCGTT
Found at i:2350545 original size:63 final size:63
Alignment explanation
Indices: 2350477--2350600 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
2350467 CTAATGTGAC
* * *
2350477 TCTTAGGTAGG-CTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTG
1 TCTTAGGTAGGCCTC-ACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTG
2350539 T
63 T
* *
2350540 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
2350601 TCCCTTAGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.02
63 48 0.91
64 4 0.08
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:2350560 original size:32 final size:32
Alignment explanation
Indices: 2350477--2350600 Score: 80
Period size: 31 Copynumber: 4.0 Consensus size: 32
2350467 CTAATGTGAC
* * *
2350477 TCTTAGGTAGGCTCT-GCGGCCCTGAGAT-CA
1 TCTTAGGTAGGCTCTCACGGCCCTAAGATGTA
** * * *
2350507 TTCTCGGGTAGGCCCT-GCGGCCCTAAGATGTGT
1 -TCTTAGGTAGGCTCTCACGGCCCTAAGATGT-A
* *
2350540 TCTTAGGTAGGC-CTCACGGCCCCGAA-ATCTA
1 TCTTAGGTAGGCTCTCACGG-CCCTAAGATGTA
*
2350571 TCTTGGGTAGGCTCTCA-GGCCCTAAGATGT
1 TCTTAGGTAGGCTCTCACGGCCCTAAGATGT
2350601 TCCCTTAGGG
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
30 5 0.07
31 42 0.58
32 20 0.28
33 5 0.07
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (32 bp):
TCTTAGGTAGGCTCTCACGGCCCTAAGATGTA
Found at i:2352836 original size:21 final size:21
Alignment explanation
Indices: 2352811--2352851 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2352801 ATTAGAAATT
* * *
2352811 TTTTTTTACGTATAGTCTTTA
1 TTTTTGTACATATAATCTTTA
2352832 TTTTTGTACATATAATCTTT
1 TTTTTGTACATATAATCTTT
2352852 TATTATTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTTTGTACATATAATCTTTA
Found at i:2355316 original size:15 final size:15
Alignment explanation
Indices: 2355277--2355308 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2355267 ATTATTATGA
2355277 CAAATTTAATTTTGT
1 CAAATTTAATTTTGT
2355292 CAAATTTAATTTTGT
1 CAAATTTAATTTTGT
2355307 CA
1 CA
2355309 CTATTAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.50
Consensus pattern (15 bp):
CAAATTTAATTTTGT
Found at i:2355836 original size:182 final size:179
Alignment explanation
Indices: 2355508--2355939 Score: 457
Period size: 182 Copynumber: 2.4 Consensus size: 179
2355498 AAATTAAAGG
* * ** * * *
2355508 CATATAATGACAAATTTTGTAACTAGAAGTTTTAGTAACTATGACAGAAAAAATTGTCACAACAA
1 CATATAGTGACAAATTTTGTAACTATAAGTGATAATAATTATTACA-AAAAAATTGTCACAACAA
* * *
2355573 ATAATGAGATTTAGATTTGTTGTGACAAATTTTGTTTGTAATTATATATTTTAATTATAGTGACA
65 ATAATGAGATTTAGATTTGTTGTAAAAAATGTTGTTTGTAATTATATATTTTAATTATAGTGACA
* *
2355638 AAACGTATATTCACAAATGATT-ATCTCCA-ATTTTTTGTACAAAAAACAAAAT
130 AAAC-TATATTCACAAA-AATTCACCTCCATATTTTTT-TACAAAAAA-AAAAT
** * *
2355690 CATATAGTGACATGTTTTGTAACTATAAGCT-ATAATTATTGTTACAAAAAAAGTTGTCACAACA
1 CATATAGTGACAAATTTTGTAACTATAAG-TGATAATAATTATTACAAAAAAA-TTGTCACAACA
**
2355754 AATAATGAGATTTA-AGTTT-TTAGTAAAAAATAGTT-TTTGTTGTTATATATTTTAATTATAGT
64 AATAATGAGATTTAGA-TTTGTT-GTAAAAAAT-GTTGTTTGTAATTATATATTTTAATTATAGT
* * * * * *
2355816 GACAAAA-TATACTGTCACAAAAATTCCCCTCTATATTTTTTTGCGACAAAAAAGT
126 GACAAAACTATA-T-TCACAAAAATTCACCTCCATATTTTTTTACAAAAAAAAAAT
* *
2355871 CATATTGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAACATTGTCACAA-AA
1 CATATAGTGACAAATTTTGTAACTATAAGTGATAATAATTATTACAAAAAA-ATTGTCACAACAA
2355935 ATAAT
65 ATAAT
2355940 ACTATTCACA
Statistics
Matches: 210, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
180 12 0.06
181 69 0.33
182 119 0.57
183 10 0.05
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (179 bp):
CATATAGTGACAAATTTTGTAACTATAAGTGATAATAATTATTACAAAAAAATTGTCACAACAAA
TAATGAGATTTAGATTTGTTGTAAAAAATGTTGTTTGTAATTATATATTTTAATTATAGTGACAA
AACTATATTCACAAAAATTCACCTCCATATTTTTTTACAAAAAAAAAAT
Found at i:2356496 original size:419 final size:414
Alignment explanation
Indices: 2355812--2356606 Score: 1130
Period size: 419 Copynumber: 1.9 Consensus size: 414
2355802 ATTTTAATTA
* * * *
2355812 TAGTGACAAAATATACTGTCACAAAAATTCCCCTCTATATTTTTTTGCGACAAAAAAGTCATATT
1 TAGTAACAAAATATACTGTCACAAAAATTCCCCTCCATATTTTTTTGC-ACAAAAAAATCATATA
*
2355877 GTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAACATTGTCACAAAAATAATAC
65 GTAACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAACATTGTCACAAAAATAATAC
* * *
2355942 TATTCACATTTTTGTGACAAATTATATTTGTAGTTATAAATTTTAACTATAGTGATAGCATATAT
130 TATTCACACTTTTGTGACAAATTATATTTGTAGCTATAAATTTTAACTATAGTGATAACATATAT
* *
2356007 TGTCATAACTATTTTTTCTCAACTTTTTTATTTCAAAAGTTATATTGACAATTTTTATAATTATA
195 TGTCATAAATATTTTTTCTCAACTTTTTTATTTCAAAAGTTATATTGACAAGTTTTATAATTATA
* * * *
2356072 ATTTATAGTTATTGTTACATAAAAAATTATTACATCAAATAATAAAATTCAAGTTTTTTGTAATA
260 ATTTATAGTTATTGTTACAGAAAAAATTATCACATCAAATAATAAAAATCAAGTTTTTGGTAATA
2356137 AATTATTTTTGTACTTATATATTTTAATAATTATGAAAAATAATACTATCAGAACCATTTCTCCC
325 AATTATTTTTGTACTTATATATTTTAATAATTATGAAAAATAATACTATCAGAACCATTTCTCCC
2356202 TATCTTTAGTGTCAAAAATGTTATG
390 TATCTTTAGTGTCAAAAATGTTATG
* * * ***
2356227 TAGTAACAAAATATATTGTCATAAAGATTTTTCTCCATATTTTTTGTGC-CAAAAAAATCATATA
1 TAGTAACAAAATATACTGTCACAAAAATTCCCCTCCATATTTTTT-TGCACAAAAAAATCATATA
*
2356291 GTAAC-AATTTTCGTAACTATAAGTGTTTATAATTATTACAAAAAAAAAACATTGTCACGAAAAA
65 GTAACAAATTTT-GTAACTATAAGTGTTAATAATTATTAC----AAAAAACATTGTCAC-AAAAA
** * *
2356355 TAATGGTATTCACACTTTTGTGGCAAATTATACTTT-TAGCTATAAATTTTAATTATAGTGATAA
124 TAATACTATTCACACTTTTGTGACAAATTATA-TTTGTAGCTATAAATTTTAACTATAGTGATAA
* * * * * *
2356419 CATATATTGTGATAAATA-TTTTTCTCCACTTTTTTGTTTCAAAAATTTATATTGATAAGTTTTG
188 CATATATTGTCATAAATATTTTTTCTCAACTTTTTTATTTC-AAAAGTTATATTGACAAGTTTTA
* * *
2356483 TAATTATAATTTATAGTTATTGTTATAGAAAAAATTATCACATTAGATAATAAAAATCAAGTTTT
252 TAATTATAATTTATAGTTATTGTTACAGAAAAAATTATCACATCAAATAATAAAAATCAAGTTTT
* * * *
2356548 TGGTAATCAATTATTTTTGTAGTTATATATTTTAATCATTATGAAAAATTATACTATCA
317 TGGTAATAAATTATTTTTGTACTTATATATTTTAATAATTATGAAAAATAATACTATCA
2356607 ACAAAAATAA
Statistics
Matches: 333, Mismatches: 38, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
413 6 0.02
414 43 0.13
415 37 0.11
416 3 0.01
418 35 0.11
419 206 0.62
420 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (414 bp):
TAGTAACAAAATATACTGTCACAAAAATTCCCCTCCATATTTTTTTGCACAAAAAAATCATATAG
TAACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAACATTGTCACAAAAATAATACT
ATTCACACTTTTGTGACAAATTATATTTGTAGCTATAAATTTTAACTATAGTGATAACATATATT
GTCATAAATATTTTTTCTCAACTTTTTTATTTCAAAAGTTATATTGACAAGTTTTATAATTATAA
TTTATAGTTATTGTTACAGAAAAAATTATCACATCAAATAATAAAAATCAAGTTTTTGGTAATAA
ATTATTTTTGTACTTATATATTTTAATAATTATGAAAAATAATACTATCAGAACCATTTCTCCCT
ATCTTTAGTGTCAAAAATGTTATG
Found at i:2364154 original size:21 final size:21
Alignment explanation
Indices: 2364130--2364172 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2364120 AAAAGCTGAG
2364130 GAGCATTATTAAAAAGTCAAT
1 GAGCATTATTAAAAAGTCAAT
**
2364151 GAGCATTATTGCAAAGTCAAT
1 GAGCATTATTAAAAAGTCAAT
2364172 G
1 G
2364173 TTCATCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (21 bp):
GAGCATTATTAAAAAGTCAAT
Found at i:2369847 original size:24 final size:25
Alignment explanation
Indices: 2369815--2369865 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 25
2369805 CAGATCCAAT
2369815 CCGATCCAAAAAA-ATAACCGAAAA
1 CCGATCCAAAAAACATAACCGAAAA
2369839 CCGATCCAAAAAACTGATAACCGAAAA
1 CCGATCCAAAAAAC--ATAACCGAAAA
2369866 AATCGAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 13 0.54
27 11 0.46
ACGTcount: A:0.55, C:0.25, G:0.10, T:0.10
Consensus pattern (25 bp):
CCGATCCAAAAAACATAACCGAAAA
Found at i:2370223 original size:127 final size:126
Alignment explanation
Indices: 2370073--2370326 Score: 499
Period size: 127 Copynumber: 2.0 Consensus size: 126
2370063 CGAATCCGAC
2370073 TGTATCCTTGTTTATAATTTTTTTTCCTTTTGCTTTCTTGATAATACAAACATTGGTCATTGGGT
1 TGTATCCTTGTTTATAATTTTTTTTCCTTTTGCTTTCTTGATAATACAAACATTGGTCATTGGGT
2370138 GTTTCGTAAACCATTGTGGGTATAAAATAGGCAAATCCCAAAGGAATCATTCAGTGAAGCCA
66 GTTTCGTAAACCATTGTGGGTATAAAATAGGCAAATCCCAAAGGAATCATTCA-TGAAGCCA
2370200 TGTATCCTTGTTTATAATTTTTTTTCCTTTTGCTTTCTTGATAATACAAACATTGGTCATTGGGT
1 TGTATCCTTGTTTATAATTTTTTTTCCTTTTGCTTTCTTGATAATACAAACATTGGTCATTGGGT
2370265 GTTTCGTAAACCATTGTGGGTATAAAATAGGCAAATCCCAAAGGAATCATTCATGAAGCCA
66 GTTTCGTAAACCATTGTGGGTATAAAATAGGCAAATCCCAAAGGAATCATTCATGAAGCCA
2370326 T
1 T
2370327 CAAGTTAGTG
Statistics
Matches: 127, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 9 0.07
127 118 0.93
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (126 bp):
TGTATCCTTGTTTATAATTTTTTTTCCTTTTGCTTTCTTGATAATACAAACATTGGTCATTGGGT
GTTTCGTAAACCATTGTGGGTATAAAATAGGCAAATCCCAAAGGAATCATTCATGAAGCCA
Found at i:2372273 original size:20 final size:20
Alignment explanation
Indices: 2372245--2372284 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2372235 CGAAAATATC
*
2372245 CCAACCTGAATCCTTCTTGT
1 CCAAACTGAATCCTTCTTGT
2372265 CCAAACTGAATCCTTCTTGT
1 CCAAACTGAATCCTTCTTGT
2372285 TAAGTGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.33, G:0.10, T:0.35
Consensus pattern (20 bp):
CCAAACTGAATCCTTCTTGT
Found at i:2378339 original size:25 final size:25
Alignment explanation
Indices: 2378299--2378361 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
2378289 TGTGTGTAGT
*
2378299 ATAACTGCCTATGAATAAATTACA-C
1 ATAAGTGCCT-TGAATAAATTACACC
* *
2378324 ATATAGTGCCTTGAATCAATTGCACC
1 ATA-AGTGCCTTGAATAAATTACACC
*
2378350 ATAGGTGCCTTG
1 ATAAGTGCCTTG
2378362 TGAATGTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 22 0.69
26 10 0.31
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (25 bp):
ATAAGTGCCTTGAATAAATTACACC
Found at i:2382871 original size:25 final size:25
Alignment explanation
Indices: 2382840--2382890 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
2382830 ACTTAACGTA
2382840 TTCAATTATTTTGATATAAGGTAAT
1 TTCAATTATTTTGATATAAGGTAAT
2382865 TTCAATTATTTTGATATAAGGTAAT
1 TTCAATTATTTTGATATAAGGTAAT
2382890 T
1 T
2382891 ACGCATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (25 bp):
TTCAATTATTTTGATATAAGGTAAT
Found at i:2382902 original size:23 final size:25
Alignment explanation
Indices: 2382847--2382902 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
2382837 GTATTCAATT
**
2382847 ATTTTGATATAAGGTAATTTCAATT
1 ATTTTGATATAAGGTAATTTCAAGC
*
2382872 ATTTTGATATAAGGTAA-TT-ACGC
1 ATTTTGATATAAGGTAATTTCAAGC
2382895 ATTTTGAT
1 ATTTTGAT
2382903 TTTTTTAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 9 0.32
24 2 0.07
25 17 0.61
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (25 bp):
ATTTTGATATAAGGTAATTTCAAGC
Found at i:2384554 original size:37 final size:37
Alignment explanation
Indices: 2384481--2384555 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
2384471 GTTGGAAAAT
* *
2384481 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
2384518 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
2384555 A
1 A
2384556 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:2388485 original size:9 final size:9
Alignment explanation
Indices: 2388471--2388512 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
2388461 CGTGTGATCT
2388471 CCATTATCA
1 CCATTATCA
*
2388480 CCATTATCT
1 CCATTATCA
2388489 CCATTATCA
1 CCATTATCA
2388498 CCATTATCA
1 CCATTATCA
2388507 -CATTAT
1 CCATTAT
2388513 TAGCAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 6 0.19
9 25 0.81
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (9 bp):
CCATTATCA
Found at i:2388490 original size:18 final size:18
Alignment explanation
Indices: 2388467--2388505 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
2388457 GACACGTGTG
2388467 ATCTCCATTATCACCATT
1 ATCTCCATTATCACCATT
2388485 ATCTCCATTATCACCATT
1 ATCTCCATTATCACCATT
2388503 ATC
1 ATC
2388506 ACATTATTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.38
Consensus pattern (18 bp):
ATCTCCATTATCACCATT
Found at i:2389182 original size:11 final size:11
Alignment explanation
Indices: 2389166--2389197 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
2389156 TCTTCGTGAA
2389166 TCATGCGCCTT
1 TCATGCGCCTT
2389177 TCATGCGCCTT
1 TCATGCGCCTT
2389188 TCATGCGCCT
1 TCATGCGCCT
2389198 CGCGCCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.38, G:0.19, T:0.34
Consensus pattern (11 bp):
TCATGCGCCTT
Found at i:2413945 original size:38 final size:34
Alignment explanation
Indices: 2413866--2413930 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
2413856 CTACCTATTG
*
2413866 ATTTCATTCATTTCCTTCACCCAAATACTTTTTC
1 ATTTCATTCATTTCCTTCACACAAATACTTTTTC
2413900 ATTTCATTCATTTCCTTCACACAAATACTTT
1 ATTTCATTCATTTCCTTCACACAAATACTTT
2413931 GTGTTTTCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (34 bp):
ATTTCATTCATTTCCTTCACACAAATACTTTTTC
Found at i:2417459 original size:23 final size:23
Alignment explanation
Indices: 2417433--2417480 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2417423 TTTTAATATA
2417433 TTAATATTAAAAAATTTAAAA-AT
1 TTAATATT-AAAAATTTAAAACAT
**
2417456 TTAATATTTTAAATTTAAAACAT
1 TTAATATTAAAAATTTAAAACAT
2417479 TT
1 TT
2417481 TTATTTTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAATATTAAAAATTTAAAACAT
Found at i:2418496 original size:20 final size:20
Alignment explanation
Indices: 2418471--2418512 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2418461 AGCCATCAAC
2418471 CTTTAACAATTGACAAAATA
1 CTTTAACAATTGACAAAATA
*
2418491 CTTTAACAATTGACAAATTA
1 CTTTAACAATTGACAAAATA
2418511 CT
1 CT
2418513 GACGTGATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (20 bp):
CTTTAACAATTGACAAAATA
Found at i:2422480 original size:12 final size:12
Alignment explanation
Indices: 2422463--2422493 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
2422453 CGATTTTGTG
2422463 TACCTCCGATGA
1 TACCTCCGATGA
2422475 TACCTCCGATGA
1 TACCTCCGATGA
2422487 TACCTCC
1 TACCTCC
2422494 TCCTTCGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.39, G:0.13, T:0.26
Consensus pattern (12 bp):
TACCTCCGATGA
Found at i:2422835 original size:12 final size:12
Alignment explanation
Indices: 2422818--2422843 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2422808 TTAGAAATAT
2422818 AATAATAATAAA
1 AATAATAATAAA
2422830 AATAATAATAAA
1 AATAATAATAAA
2422842 AA
1 AA
2422844 ATGTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:2422988 original size:37 final size:37
Alignment explanation
Indices: 2422884--2423229 Score: 248
Period size: 37 Copynumber: 8.9 Consensus size: 37
2422874 AAAAATATAT
* **
2422884 TTTTTTTAAAACTATATATTATACGTATTTTCAAAAA
1 TTTTTTAAAAACTATATATTATATATATTTTCAAAAA
* * * * **
2422921 CGTTTTAAAAAACTATATAATATATGTATTTTTTAAAA
1 -TTTTTTAAAAACTATATATTATATATATTTTCAAAAA
**
2422959 TTTTTTAAAAGTTATATATTATATATATTTTCAAAAA
1 TTTTTTAAAAACTATATATTATATATATTTTCAAAAA
* * * *
2422996 TGTTTTTTTTTAAAAAAAATCATATAACATATAAATGTTTTC-AAAA
1 -----TTTTTT--AAAAACT-ATAT-A-TTATATATATTTTCAAAAA
* * *
2423042 TGTTTTCAAAACTATATATTATATAAATTTTCAAAAA
1 TTTTTTAAAAACTATATATTATATATATTTTCAAAAA
* * * *
2423079 TGTTTTCAAAATTATATATTATATA-AGATTTCAAAAA
1 TTTTTTAAAAACTATATATTATATATA-TTTTCAAAAA
* * * *
2423116 TGATTTTAAAAATTATATATTATCTATATTTTCTAAAACGT
1 T-TTTTTAAAAACTATATATTATATATATTTTC-AAAA--A
* *
2423157 TTTTTTAAAAACTGTATATTATATA-GTTTTCAAAAA
1 TTTTTTAAAAACTATATATTATATATATTTTCAAAAA
*
2423193 TGTTTTAAAAACTATATATTATATACGTATTTTCAAA
1 TTTTTTAAAAACTATATATTATATA--TATTTTCAAA
2423230 GATCGGTTGC
Statistics
Matches: 245, Mismatches: 43, Indels: 39
0.75 0.13 0.12
Matches are distributed among these distances:
36 34 0.14
37 68 0.28
38 63 0.26
39 23 0.09
40 20 0.08
41 6 0.02
42 6 0.02
44 5 0.02
45 4 0.02
46 5 0.02
47 11 0.04
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (37 bp):
TTTTTTAAAAACTATATATTATATATATTTTCAAAAA
Found at i:2423044 original size:11 final size:11
Alignment explanation
Indices: 2423028--2423052 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2423018 TATAACATAT
2423028 AAATGTTTTCA
1 AAATGTTTTCA
2423039 AAATGTTTTCA
1 AAATGTTTTCA
2423050 AAA
1 AAA
2423053 CTATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:2424175 original size:84 final size:84
Alignment explanation
Indices: 2423901--2424605 Score: 761
Period size: 84 Copynumber: 8.5 Consensus size: 84
2423891 TCGGGGGTCT
* * * *
2423901 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGATCGTAGT
*
2423966 CAAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* * * ** * *
2423985 -TGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGTTATGCCCTTGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTG-AGCTGA-TCGTA
* * *
2424048 ATCGAACTTAAGGGTC---T-
64 GTCGAACTCAAAGGTCTTTTG
* * * * * * *
2424065 TTGGCATATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGATCGTAGT
*
2424130 CGAACTCAAAAGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* * * *
2424149 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGTAAATGATATGCC-TTAGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTT-GAGCTGATCGTAG
* *
2424213 TCGAACTCGAAGGTCTTTGG
65 TCGAACTCAAAGGTCTTTTG
* *
2424233 TTGGCAGATAACCCTTCTGGACTTAAGTTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGATCGTAGT
2424298 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* ** * * * * *
2424317 GTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCGTTGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGATCGTAGT
2424382 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* * *
2424401 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTT-GAGCTGATCGTAG
* *
2424465 TCGAACTCGAAGGTCTTTGG
65 TCGAACTCAAAGGTCTTTTG
* * * * *
2424485 TTGGCAGATAACCCTTCTCGACTTAAGTTACGCTGCAAATGATGTGCCCTCGAGGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGA-GCTGA-TCGTA
* * * *
2424549 ATCGAACTC--GGGGC-TCT-
64 GTCGAACTCAAAGGTCTTTTG
* * *
2424566 TTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAAT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAAT
2424606 AGTTTGTTTG
Statistics
Matches: 515, Mismatches: 92, Indels: 31
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.00
80 21 0.04
81 74 0.14
82 1 0.00
83 48 0.09
84 350 0.68
85 20 0.04
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (84 bp):
TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCGTTGAGCTGATCGTAGT
CGAACTCAAAGGTCTTTTG
Found at i:2424296 original size:168 final size:165
Alignment explanation
Indices: 2423848--2424605 Score: 877
Period size: 168 Copynumber: 4.6 Consensus size: 165
2423838 TTCCTTGAGC
* * * * **
2423848 TATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTC--TTTGGCAGATA
1 TATGCTGTAAATGATATG-CCTTG-AGCTGAGCGTAATCGAACTCGAAGGTCTTTTTGGCAGATA
*
2423911 GCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCAAACTCAAA
64 GCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAA
* *
2423976 GGTCTTTTG-TGACAGATAACCCTTCTAGCCTTGAGT
129 GGTCTTTTGTTGACAGATAACCCTTCTAGACTTAAGT
* * * * *
2424012 TATGCTATAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACT-TAAGGGTC--TTTGGCATAT
1 TATGCTGTAAATGATATG-CCTTG-AGCTGAGCGTAATCGAACTCGAA-GGTCTTTTTGGCAGAT
* *
2424074 AGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAA
63 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAA
* * *
2424139 AAGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGT
128 AGGTCTTTTGTTGACAGATAACCCTTCTAGACTTAAGT
* *
2424177 TGTGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
1 TATGCTGTAAATGATATGCCTT-GAGCTGAGCGTAATCGAACTCGAAGGTCTTT--TTGGCAGAT
* * *
2424242 AACCCTTCTGGACTTAAGTTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAA
63 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAA
* * * *
2424307 AGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGT
128 AGGTCTTTTGTTGACAGATAACCCTTCTAGACTTAAGT
* * * *
2424345 TATGCTGTAAATGTTATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGAC
1 TATGCTGTAAATGATATGCC-TTGAGCTGAGCGTAATCGAACTCGAAGGTC-TTT-TTGGCAGAT
* * * * * * *
2424410 AACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTCGAACTCG
63 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTT-GAGCTGATCGTAGTCGAACTCA
* * *
2424474 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGT
127 AAGGTCTTTTGTTGACAGATAACCCTTCTAGACTTAAGT
* * * * * * *
2424513 TACGCTGCAAATGATGTGCCCTCGAGGCTGAGTGTAATCGAACTCG--GGGCTCTTTGGCAGATA
1 TATGCTGTAAATGATATG-CCTTGA-GCTGAGCGTAATCGAACTCGAAGGTCTTTTTGGCAGATA
*
2424576 GCCCTTCTTGACTTAAGCTATGCTGCAAAT
64 GCCCTTCTCGACTTAAGCTATGCTGCAAAT
2424606 AGTTTGTTTG
Statistics
Matches: 513, Mismatches: 68, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
164 147 0.29
165 76 0.15
166 3 0.01
167 5 0.01
168 258 0.50
169 24 0.05
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (165 bp):
TATGCTGTAAATGATATGCCTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTTGGCAGATAGC
CCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAGG
TCTTTTGTTGACAGATAACCCTTCTAGACTTAAGT
Found at i:2424414 original size:252 final size:248
Alignment explanation
Indices: 2423901--2424605 Score: 896
Period size: 252 Copynumber: 2.8 Consensus size: 248
2423891 TCGGGGGTCT
* * * * * * *
2423901 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCC-TTGAGCTGAGCGTAGT
* * * * * * ** * *
2423966 CAAACTCAAAGGTCTTTTG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGTTATG
65 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
* * * * * *
2424030 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCATATAGCTCTTCTCGACTTAAGCTA
130 CCCTTGAAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTA
* *
2424095 TACTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAAAAGTCTTTTG
195 TACTGCAAATGATATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTG
*
2424149 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTT-GAGCTGAGCGTAGT
*
2424214 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTGGACTTAAGTTATGCTGCAAATGATGTG
65 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
* * * *
2424279 CCGTTG-AGCTGA-TCGTAGTCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTG
130 CCCTTGAAGCTGAGT-GTAATCGAACTCAAAGGTC-TTTGG---CAGATAACCCTTCTAGACTTA
* * * * *
2424342 AGTTATGCTGTAAATGTTATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTG
190 AGCTATACTGCAAATGATATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTG
2424401 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTT-GAGCTGAGCGTAGT
* *
2424466 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTACGCTGCAAATGATGTG
65 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
* * ** * *
2424531 CCCTCGAGGCTGAGTGTAATCGAACTC-GGGGCTCTTTGGCAGATAGCCCTTCTTGACTTAAGCT
130 CCCTTGAAGCTGAGTGTAATCGAACTCAAAGG-TCTTTGGCAGATAACCCTTCTAGACTTAAGCT
*
2424595 ATGCTGCAAAT
194 ATACTGCAAAT
2424606 AGTTTGTTTG
Statistics
Matches: 395, Mismatches: 52, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
247 3 0.01
248 92 0.23
249 77 0.19
252 204 0.52
253 18 0.05
254 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (248 bp):
TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGC
CCTTGAAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTAGACTTAAGCTAT
ACTGCAAATGATATGCCGTTGAGCTGAGCGTAGTCGAACTCAAAAGTCTTTTG
Found at i:2428029 original size:19 final size:19
Alignment explanation
Indices: 2428005--2428050 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2427995 AGTTAATGTG
2428005 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
2428024 AATGCAAAGAAAATAACGA
1 AATGCAAAGAAAATAACAA
2428043 AATGCAAA
1 AATGCAAA
2428051 ATGCATGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.65, C:0.11, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:2430826 original size:12 final size:12
Alignment explanation
Indices: 2430809--2430839 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
2430799 CGATTTTGTG
2430809 TACCTCCGATGA
1 TACCTCCGATGA
2430821 TACCTCCGATGA
1 TACCTCCGATGA
2430833 TACCTCC
1 TACCTCC
2430840 TCATTCGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.39, G:0.13, T:0.26
Consensus pattern (12 bp):
TACCTCCGATGA
Found at i:2431181 original size:12 final size:12
Alignment explanation
Indices: 2431164--2431189 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2431154 TTAGAAATAT
2431164 AATAATAATAAA
1 AATAATAATAAA
2431176 AATAATAATAAA
1 AATAATAATAAA
2431188 AA
1 AA
2431190 ATGTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAATAATAAA
Done.