Multiple sequence alignment - TraesCS3A01G088300

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3A01G088300 chr3A 100.000 2204 0 0 1 2204 56777942 56780145 0.000000e+00 4071
1 TraesCS3A01G088300 chr3A 89.907 1080 88 11 813 1877 56941040 56942113 0.000000e+00 1371
2 TraesCS3A01G088300 chr3A 92.427 964 51 13 1 947 56852628 56853586 0.000000e+00 1356
3 TraesCS3A01G088300 chr3A 99.310 145 1 0 2060 2204 56802149 56802293 1.680000e-66 263
4 TraesCS3A01G088300 chr3A 87.692 195 16 2 1864 2058 56943336 56943522 1.020000e-53 220
5 TraesCS3A01G088300 chr3D 93.356 1475 84 6 596 2058 45047024 45048496 0.000000e+00 2169
6 TraesCS3A01G088300 chr3D 89.640 917 66 15 7 919 45035783 45036674 0.000000e+00 1140
7 TraesCS3A01G088300 chr3D 88.188 618 64 9 917 1531 45041159 45041770 0.000000e+00 728
8 TraesCS3A01G088300 chr3D 88.822 501 36 12 453 947 45044584 45045070 4.050000e-167 597
9 TraesCS3A01G088300 chr3D 85.855 509 38 16 453 947 45032779 45033267 5.430000e-141 510
10 TraesCS3A01G088300 chr3B 86.684 1547 144 27 498 1992 70469969 70471505 0.000000e+00 1659
11 TraesCS3A01G088300 chr3B 87.984 1290 97 26 7 1279 70453766 70455014 0.000000e+00 1471
12 TraesCS3A01G088300 chr3B 89.934 914 79 10 627 1534 70464737 70465643 0.000000e+00 1166
13 TraesCS3A01G088300 chr3B 90.465 818 57 13 478 1279 70415843 70416655 0.000000e+00 1059
14 TraesCS3A01G088300 chr3B 90.164 732 55 10 563 1279 70421149 70421878 0.000000e+00 937
15 TraesCS3A01G088300 chr3B 89.417 737 55 13 563 1279 70418536 70419269 0.000000e+00 907
16 TraesCS3A01G088300 chr3B 92.665 559 31 8 572 1123 70428584 70429139 0.000000e+00 797
17 TraesCS3A01G088300 chr3B 86.716 542 53 9 1 538 70420627 70421153 3.150000e-163 584
18 TraesCS3A01G088300 chr3B 86.556 543 53 9 1 538 70418013 70418540 4.080000e-162 580
19 TraesCS3A01G088300 chr3B 87.061 456 48 5 1 456 70467242 70467686 2.530000e-139 505
20 TraesCS3A01G088300 chr3B 86.777 363 39 5 153 510 70457907 70458265 1.590000e-106 396
21 TraesCS3A01G088300 chr3B 82.751 429 47 9 1586 1992 70574775 70575198 7.480000e-95 357
22 TraesCS3A01G088300 chr3B 87.375 301 27 7 282 579 70428261 70428553 3.510000e-88 335
23 TraesCS3A01G088300 chr3B 86.792 212 26 2 1324 1534 70455014 70455224 3.660000e-58 235
24 TraesCS3A01G088300 chr3B 91.566 83 7 0 1976 2058 70472166 70472248 4.970000e-22 115
25 TraesCS3A01G088300 chr3B 80.292 137 25 2 165 300 817457090 817456955 3.870000e-18 102
26 TraesCS3A01G088300 chr1D 94.366 142 8 0 2060 2201 467196154 467196295 3.680000e-53 219
27 TraesCS3A01G088300 chr1D 93.617 141 9 0 2061 2201 467188314 467188454 6.170000e-51 211
28 TraesCS3A01G088300 chr5A 91.195 159 11 3 2044 2201 614695811 614695967 1.710000e-51 213
29 TraesCS3A01G088300 chr1A 93.662 142 9 0 2060 2201 248396288 248396147 1.710000e-51 213
30 TraesCS3A01G088300 chr1A 92.908 141 10 0 2061 2201 248406616 248406476 2.870000e-49 206
31 TraesCS3A01G088300 chr6A 92.908 141 10 0 2061 2201 517382522 517382382 2.870000e-49 206
32 TraesCS3A01G088300 chr7B 91.608 143 11 1 2059 2201 316666500 316666359 1.730000e-46 196
33 TraesCS3A01G088300 chr2B 88.435 147 15 1 2060 2204 387812338 387812192 2.250000e-40 176
34 TraesCS3A01G088300 chr4B 76.292 329 70 6 121 448 423363721 423364042 3.760000e-38 169


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3A01G088300 chr3A 56777942 56780145 2203 False 4071.000000 4071 100.000000 1 2204 1 chr3A.!!$F1 2203
1 TraesCS3A01G088300 chr3A 56852628 56853586 958 False 1356.000000 1356 92.427000 1 947 1 chr3A.!!$F3 946
2 TraesCS3A01G088300 chr3A 56941040 56943522 2482 False 795.500000 1371 88.799500 813 2058 2 chr3A.!!$F4 1245
3 TraesCS3A01G088300 chr3D 45041159 45048496 7337 False 1164.666667 2169 90.122000 453 2058 3 chr3D.!!$F2 1605
4 TraesCS3A01G088300 chr3D 45032779 45036674 3895 False 825.000000 1140 87.747500 7 947 2 chr3D.!!$F1 940
5 TraesCS3A01G088300 chr3B 70464737 70472248 7511 False 861.250000 1659 88.811250 1 2058 4 chr3B.!!$F5 2057
6 TraesCS3A01G088300 chr3B 70415843 70421878 6035 False 813.400000 1059 88.663600 1 1279 5 chr3B.!!$F2 1278
7 TraesCS3A01G088300 chr3B 70453766 70458265 4499 False 700.666667 1471 87.184333 7 1534 3 chr3B.!!$F4 1527
8 TraesCS3A01G088300 chr3B 70428261 70429139 878 False 566.000000 797 90.020000 282 1123 2 chr3B.!!$F3 841

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
184 3896 1.006571 TGAGGCACTTCGGTTCGAC 60.007 57.895 0.00 0.0 41.55 4.20 F
354 4071 1.227556 GGCAGTGGTCGTTCAGTGT 60.228 57.895 13.81 0.0 39.56 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1084 9435 0.667487 AGCACCTCAATCGTGACGTG 60.667 55.0 4.40 0.00 41.24 4.49 R
2175 15511 0.734309 ATGTACGTGCATGTGCCATG 59.266 50.0 21.92 9.94 41.18 3.66 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 3752 1.124477 GGGCTCCGATCCTCCTTGAT 61.124 60.000 0.00 0.00 0.00 2.57
51 3755 2.216898 GCTCCGATCCTCCTTGATTTG 58.783 52.381 0.00 0.00 0.00 2.32
52 3756 2.420687 GCTCCGATCCTCCTTGATTTGT 60.421 50.000 0.00 0.00 0.00 2.83
53 3757 3.462021 CTCCGATCCTCCTTGATTTGTC 58.538 50.000 0.00 0.00 0.00 3.18
54 3758 3.107601 TCCGATCCTCCTTGATTTGTCT 58.892 45.455 0.00 0.00 0.00 3.41
55 3759 3.118629 TCCGATCCTCCTTGATTTGTCTG 60.119 47.826 0.00 0.00 0.00 3.51
56 3760 3.369892 CCGATCCTCCTTGATTTGTCTGT 60.370 47.826 0.00 0.00 0.00 3.41
57 3761 3.868077 CGATCCTCCTTGATTTGTCTGTC 59.132 47.826 0.00 0.00 0.00 3.51
58 3762 4.382470 CGATCCTCCTTGATTTGTCTGTCT 60.382 45.833 0.00 0.00 0.00 3.41
70 3782 9.832445 TTGATTTGTCTGTCTAAAGTCTAAACT 57.168 29.630 0.00 0.00 37.32 2.66
161 3873 3.774959 ATGTGCGACGGCGAGATCC 62.775 63.158 18.90 0.00 44.10 3.36
184 3896 1.006571 TGAGGCACTTCGGTTCGAC 60.007 57.895 0.00 0.00 41.55 4.20
300 4017 4.392166 TCCAGTAGGGGAGCGCCA 62.392 66.667 9.31 0.00 37.22 5.69
334 4051 1.952133 CGGTGGCTCGTTTTGACGA 60.952 57.895 1.50 1.50 40.06 4.20
354 4071 1.227556 GGCAGTGGTCGTTCAGTGT 60.228 57.895 13.81 0.00 39.56 3.55
668 8965 4.955450 ACTTGGGCAAGAATATATGTGCAA 59.045 37.500 14.73 4.71 40.79 4.08
691 8990 2.436417 TCAGCTAGATTGCCACCAAAC 58.564 47.619 0.00 0.00 34.05 2.93
1084 9435 0.741221 GATCAACACCGACAGGCCTC 60.741 60.000 0.00 0.00 42.76 4.70
1261 9620 3.577649 TGACAGATCGTGAAAGAGTCC 57.422 47.619 0.00 0.00 0.00 3.85
1508 9879 1.408822 GGGCTCCAATGAACCCTACAG 60.409 57.143 0.00 0.00 42.72 2.74
1607 9978 3.297134 TCCAATACCCAGATTTCCTGC 57.703 47.619 0.00 0.00 41.57 4.85
1615 9987 1.213926 CCAGATTTCCTGCCTTAGCCT 59.786 52.381 0.00 0.00 41.57 4.58
1717 10106 3.466836 CTTGACAGGTTTACTCACAGCA 58.533 45.455 0.00 0.00 0.00 4.41
1736 10132 4.397103 CAGCATTCCAGAGCATAACAAAGA 59.603 41.667 0.00 0.00 0.00 2.52
1752 10173 8.905702 CATAACAAAGACTCAATTTACAGTTGC 58.094 33.333 0.00 0.00 0.00 4.17
1816 10539 9.725019 TGTAAGGGATAGATATTGCTTTGTATG 57.275 33.333 0.00 0.00 0.00 2.39
1821 10544 9.502091 GGGATAGATATTGCTTTGTATGTAACA 57.498 33.333 0.00 0.00 35.88 2.41
1927 11885 8.964150 ACAACTAATTTGCGTAATTGAAACTTC 58.036 29.630 3.95 0.00 39.01 3.01
1937 13486 6.470877 GCGTAATTGAAACTTCACAGAAAACA 59.529 34.615 0.00 0.00 36.83 2.83
1956 13505 3.076621 ACATACCGCCATGCATAATCAG 58.923 45.455 0.00 0.00 0.00 2.90
2025 15361 6.472163 CACTGGTCAAACTGTTAACAACAATC 59.528 38.462 10.03 0.00 41.61 2.67
2026 15362 5.897050 TGGTCAAACTGTTAACAACAATCC 58.103 37.500 10.03 8.65 41.61 3.01
2027 15363 5.163499 TGGTCAAACTGTTAACAACAATCCC 60.163 40.000 10.03 6.85 41.61 3.85
2058 15394 1.893801 ACCCCTGACTAGACAAGTTCG 59.106 52.381 0.00 0.00 39.07 3.95
2059 15395 1.893801 CCCCTGACTAGACAAGTTCGT 59.106 52.381 0.00 0.00 39.07 3.85
2060 15396 2.299297 CCCCTGACTAGACAAGTTCGTT 59.701 50.000 0.00 0.00 39.07 3.85
2061 15397 3.318017 CCCTGACTAGACAAGTTCGTTG 58.682 50.000 0.00 0.00 39.07 4.10
2125 15461 8.470040 TTCTTTTTATGATGAGCTTTTCATGC 57.530 30.769 17.86 1.59 46.51 4.06
2126 15462 7.604549 TCTTTTTATGATGAGCTTTTCATGCA 58.395 30.769 17.86 0.00 46.51 3.96
2127 15463 7.758076 TCTTTTTATGATGAGCTTTTCATGCAG 59.242 33.333 17.86 10.47 46.51 4.41
2128 15464 5.509716 TTATGATGAGCTTTTCATGCAGG 57.490 39.130 17.86 0.00 46.51 4.85
2129 15465 2.799017 TGATGAGCTTTTCATGCAGGT 58.201 42.857 0.00 0.00 46.51 4.00
2130 15466 3.159472 TGATGAGCTTTTCATGCAGGTT 58.841 40.909 0.00 0.00 46.51 3.50
2131 15467 4.334552 TGATGAGCTTTTCATGCAGGTTA 58.665 39.130 0.00 0.00 46.51 2.85
2132 15468 4.156556 TGATGAGCTTTTCATGCAGGTTAC 59.843 41.667 0.00 0.00 46.51 2.50
2133 15469 3.485394 TGAGCTTTTCATGCAGGTTACA 58.515 40.909 0.00 0.00 0.00 2.41
2134 15470 3.253188 TGAGCTTTTCATGCAGGTTACAC 59.747 43.478 0.00 0.00 0.00 2.90
2135 15471 2.226437 AGCTTTTCATGCAGGTTACACG 59.774 45.455 0.00 0.00 0.00 4.49
2136 15472 2.031157 GCTTTTCATGCAGGTTACACGT 60.031 45.455 0.00 0.00 0.00 4.49
2137 15473 3.554524 CTTTTCATGCAGGTTACACGTG 58.445 45.455 15.48 15.48 37.08 4.49
2144 15480 2.949714 CAGGTTACACGTGCAAAGAG 57.050 50.000 17.22 0.00 0.00 2.85
2145 15481 2.479837 CAGGTTACACGTGCAAAGAGA 58.520 47.619 17.22 0.00 0.00 3.10
2146 15482 2.869801 CAGGTTACACGTGCAAAGAGAA 59.130 45.455 17.22 0.00 0.00 2.87
2147 15483 3.059597 CAGGTTACACGTGCAAAGAGAAG 60.060 47.826 17.22 0.00 0.00 2.85
2148 15484 2.870411 GGTTACACGTGCAAAGAGAAGT 59.130 45.455 17.22 0.00 0.00 3.01
2149 15485 3.311596 GGTTACACGTGCAAAGAGAAGTT 59.688 43.478 17.22 0.00 0.00 2.66
2150 15486 4.201881 GGTTACACGTGCAAAGAGAAGTTT 60.202 41.667 17.22 0.00 0.00 2.66
2151 15487 5.329493 GTTACACGTGCAAAGAGAAGTTTT 58.671 37.500 17.22 0.00 0.00 2.43
2152 15488 3.758300 ACACGTGCAAAGAGAAGTTTTG 58.242 40.909 17.22 0.00 38.30 2.44
2153 15489 3.438781 ACACGTGCAAAGAGAAGTTTTGA 59.561 39.130 17.22 0.00 37.65 2.69
2154 15490 4.096382 ACACGTGCAAAGAGAAGTTTTGAT 59.904 37.500 17.22 0.00 37.65 2.57
2155 15491 4.438797 CACGTGCAAAGAGAAGTTTTGATG 59.561 41.667 0.82 0.00 37.65 3.07
2156 15492 4.096382 ACGTGCAAAGAGAAGTTTTGATGT 59.904 37.500 0.00 0.00 37.65 3.06
2157 15493 5.295787 ACGTGCAAAGAGAAGTTTTGATGTA 59.704 36.000 0.00 0.00 37.65 2.29
2158 15494 6.183360 ACGTGCAAAGAGAAGTTTTGATGTAA 60.183 34.615 0.00 0.00 37.65 2.41
2159 15495 6.690957 CGTGCAAAGAGAAGTTTTGATGTAAA 59.309 34.615 0.00 0.00 37.65 2.01
2160 15496 7.096885 CGTGCAAAGAGAAGTTTTGATGTAAAG 60.097 37.037 0.00 0.00 37.65 1.85
2161 15497 7.168135 GTGCAAAGAGAAGTTTTGATGTAAAGG 59.832 37.037 0.00 0.00 37.65 3.11
2162 15498 6.144563 GCAAAGAGAAGTTTTGATGTAAAGGC 59.855 38.462 2.18 0.00 37.65 4.35
2163 15499 6.959639 AAGAGAAGTTTTGATGTAAAGGCA 57.040 33.333 0.00 0.00 0.00 4.75
2164 15500 6.959639 AGAGAAGTTTTGATGTAAAGGCAA 57.040 33.333 0.00 0.00 0.00 4.52
2165 15501 7.346751 AGAGAAGTTTTGATGTAAAGGCAAA 57.653 32.000 0.00 0.00 0.00 3.68
2166 15502 7.781056 AGAGAAGTTTTGATGTAAAGGCAAAA 58.219 30.769 0.00 0.00 38.68 2.44
2167 15503 8.424133 AGAGAAGTTTTGATGTAAAGGCAAAAT 58.576 29.630 0.00 0.00 41.69 1.82
2168 15504 9.691362 GAGAAGTTTTGATGTAAAGGCAAAATA 57.309 29.630 0.00 0.00 41.69 1.40
2169 15505 9.476202 AGAAGTTTTGATGTAAAGGCAAAATAC 57.524 29.630 0.00 0.00 41.69 1.89
2170 15506 9.255304 GAAGTTTTGATGTAAAGGCAAAATACA 57.745 29.630 0.00 0.00 41.69 2.29
2171 15507 9.606631 AAGTTTTGATGTAAAGGCAAAATACAA 57.393 25.926 0.00 0.00 41.69 2.41
2172 15508 9.777297 AGTTTTGATGTAAAGGCAAAATACAAT 57.223 25.926 0.00 0.00 41.69 2.71
2194 15530 4.711892 TGGCACATGCACGTACAT 57.288 50.000 6.15 0.00 44.36 2.29
2195 15531 3.842869 TGGCACATGCACGTACATA 57.157 47.368 0.00 0.00 44.36 2.29
2196 15532 1.364721 TGGCACATGCACGTACATAC 58.635 50.000 0.00 0.00 44.36 2.39
2197 15533 1.066502 TGGCACATGCACGTACATACT 60.067 47.619 0.00 0.00 44.36 2.12
2198 15534 2.006888 GGCACATGCACGTACATACTT 58.993 47.619 0.00 0.00 44.36 2.24
2199 15535 2.223021 GGCACATGCACGTACATACTTG 60.223 50.000 0.00 0.87 44.36 3.16
2200 15536 2.415168 GCACATGCACGTACATACTTGT 59.585 45.455 0.00 0.00 41.59 3.16
2201 15537 3.615056 GCACATGCACGTACATACTTGTA 59.385 43.478 0.00 0.00 41.59 2.41
2202 15538 4.491924 GCACATGCACGTACATACTTGTAC 60.492 45.833 0.00 6.27 45.65 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 6.127619 CCAAAAGACCAACTCAAAGAAGAAGT 60.128 38.462 0.00 0.00 0.00 3.01
48 3752 9.095065 GTTCAGTTTAGACTTTAGACAGACAAA 57.905 33.333 0.00 0.00 32.54 2.83
51 3755 6.362820 CGGTTCAGTTTAGACTTTAGACAGAC 59.637 42.308 0.00 0.00 32.54 3.51
52 3756 6.263842 TCGGTTCAGTTTAGACTTTAGACAGA 59.736 38.462 0.00 0.00 32.54 3.41
53 3757 6.362820 GTCGGTTCAGTTTAGACTTTAGACAG 59.637 42.308 0.00 0.00 32.54 3.51
54 3758 6.183360 TGTCGGTTCAGTTTAGACTTTAGACA 60.183 38.462 0.00 0.00 32.54 3.41
55 3759 6.211515 TGTCGGTTCAGTTTAGACTTTAGAC 58.788 40.000 0.00 0.00 32.54 2.59
56 3760 6.263842 TCTGTCGGTTCAGTTTAGACTTTAGA 59.736 38.462 0.00 0.00 36.85 2.10
57 3761 6.444633 TCTGTCGGTTCAGTTTAGACTTTAG 58.555 40.000 0.00 0.00 36.85 1.85
58 3762 6.395426 TCTGTCGGTTCAGTTTAGACTTTA 57.605 37.500 0.00 0.00 36.85 1.85
70 3782 0.539669 TCCAGAGCTCTGTCGGTTCA 60.540 55.000 35.47 12.43 42.27 3.18
161 3873 1.157870 AACCGAAGTGCCTCACAACG 61.158 55.000 0.00 4.70 36.74 4.10
167 3879 1.009389 CAGTCGAACCGAAGTGCCTC 61.009 60.000 0.00 0.00 37.72 4.70
184 3896 1.726791 CGTCGTCATTGAACCCTTCAG 59.273 52.381 0.00 0.00 41.38 3.02
334 4051 2.029073 CTGAACGACCACTGCCGT 59.971 61.111 0.00 0.00 41.14 5.68
354 4071 6.627087 AAGATTACATTGAGGTCTCTGGAA 57.373 37.500 0.00 0.00 0.00 3.53
668 8965 4.712051 TTGGTGGCAATCTAGCTGATAT 57.288 40.909 0.00 0.00 34.45 1.63
691 8990 6.464222 TGGTACAAGGAAATGTTCTCTAGTG 58.536 40.000 0.00 0.00 34.75 2.74
896 9235 1.132554 AGGGCAGCCAGAGGATATGG 61.133 60.000 15.19 0.00 41.04 2.74
1084 9435 0.667487 AGCACCTCAATCGTGACGTG 60.667 55.000 4.40 0.00 41.24 4.49
1180 9531 3.868985 AACCGTTGGAGTGGCCGT 61.869 61.111 0.00 0.00 40.66 5.68
1437 9808 8.948631 TGTCCATAAAGATCTTCACTCATTAC 57.051 34.615 8.78 1.50 0.00 1.89
1508 9879 3.889196 TTGTGCAGAATTACCAACGTC 57.111 42.857 0.00 0.00 0.00 4.34
1607 9978 2.486796 GCTTGAAGCCAGGCTAAGG 58.513 57.895 16.56 8.13 41.57 2.69
1615 9987 4.968259 TGAAGTACTTAAGCTTGAAGCCA 58.032 39.130 14.45 0.00 43.77 4.75
1717 10106 5.809001 TGAGTCTTTGTTATGCTCTGGAAT 58.191 37.500 0.00 0.00 0.00 3.01
1736 10132 4.887071 TCCAACAGCAACTGTAAATTGAGT 59.113 37.500 0.00 0.00 44.62 3.41
1927 11885 2.731968 GCATGGCGGTATGTTTTCTGTG 60.732 50.000 0.00 0.00 0.00 3.66
1937 13486 3.701205 TCTGATTATGCATGGCGGTAT 57.299 42.857 10.16 0.00 0.00 2.73
1940 13489 2.224606 ACTTCTGATTATGCATGGCGG 58.775 47.619 10.16 3.66 0.00 6.13
2025 15361 3.057548 GGGGTTAACGCAACGGGG 61.058 66.667 22.45 0.00 38.09 5.73
2026 15362 2.032987 AGGGGTTAACGCAACGGG 59.967 61.111 22.45 0.00 38.09 5.28
2027 15363 1.301874 TCAGGGGTTAACGCAACGG 60.302 57.895 22.45 8.48 38.09 4.44
2058 15394 3.670991 TGCACAAAAACTTGTCGAACAAC 59.329 39.130 0.00 0.00 33.96 3.32
2059 15395 3.902150 TGCACAAAAACTTGTCGAACAA 58.098 36.364 0.00 0.00 36.54 2.83
2060 15396 3.560902 TGCACAAAAACTTGTCGAACA 57.439 38.095 0.00 0.00 31.86 3.18
2061 15397 6.747659 ATATTGCACAAAAACTTGTCGAAC 57.252 33.333 0.00 0.00 31.86 3.95
2062 15398 7.159437 CAATATTGCACAAAAACTTGTCGAA 57.841 32.000 1.74 0.00 31.86 3.71
2063 15399 6.746104 CAATATTGCACAAAAACTTGTCGA 57.254 33.333 1.74 0.00 31.86 4.20
2102 15438 7.010183 CCTGCATGAAAAGCTCATCATAAAAAG 59.990 37.037 12.39 8.50 43.28 2.27
2103 15439 6.814644 CCTGCATGAAAAGCTCATCATAAAAA 59.185 34.615 12.39 1.38 43.28 1.94
2105 15441 5.419788 ACCTGCATGAAAAGCTCATCATAAA 59.580 36.000 12.39 5.16 43.28 1.40
2110 15446 3.863142 AACCTGCATGAAAAGCTCATC 57.137 42.857 0.00 0.00 43.28 2.92
2111 15447 4.081406 TGTAACCTGCATGAAAAGCTCAT 58.919 39.130 0.00 0.00 46.25 2.90
2115 15451 2.031157 ACGTGTAACCTGCATGAAAAGC 60.031 45.455 0.00 0.00 0.00 3.51
2116 15452 3.554524 CACGTGTAACCTGCATGAAAAG 58.445 45.455 7.58 0.00 0.00 2.27
2117 15453 2.287308 GCACGTGTAACCTGCATGAAAA 60.287 45.455 18.38 0.00 46.13 2.29
2118 15454 1.265635 GCACGTGTAACCTGCATGAAA 59.734 47.619 18.38 0.00 46.13 2.69
2119 15455 0.871722 GCACGTGTAACCTGCATGAA 59.128 50.000 18.38 0.00 46.13 2.57
2120 15456 2.539003 GCACGTGTAACCTGCATGA 58.461 52.632 18.38 0.00 46.13 3.07
2124 15460 0.941542 TCTTTGCACGTGTAACCTGC 59.058 50.000 19.04 1.33 46.86 4.85
2125 15461 2.479837 TCTCTTTGCACGTGTAACCTG 58.520 47.619 19.04 11.84 0.00 4.00
2126 15462 2.902705 TCTCTTTGCACGTGTAACCT 57.097 45.000 19.04 0.00 0.00 3.50
2127 15463 2.870411 ACTTCTCTTTGCACGTGTAACC 59.130 45.455 19.04 0.86 0.00 2.85
2128 15464 4.531659 AACTTCTCTTTGCACGTGTAAC 57.468 40.909 19.04 1.26 0.00 2.50
2129 15465 5.122554 TCAAAACTTCTCTTTGCACGTGTAA 59.877 36.000 15.43 15.43 34.43 2.41
2130 15466 4.632251 TCAAAACTTCTCTTTGCACGTGTA 59.368 37.500 18.38 10.46 34.43 2.90
2131 15467 3.438781 TCAAAACTTCTCTTTGCACGTGT 59.561 39.130 18.38 0.00 34.43 4.49
2132 15468 4.014847 TCAAAACTTCTCTTTGCACGTG 57.985 40.909 12.28 12.28 34.43 4.49
2133 15469 4.096382 ACATCAAAACTTCTCTTTGCACGT 59.904 37.500 0.00 0.00 34.43 4.49
2134 15470 4.601019 ACATCAAAACTTCTCTTTGCACG 58.399 39.130 0.00 0.00 34.43 5.34
2135 15471 7.168135 CCTTTACATCAAAACTTCTCTTTGCAC 59.832 37.037 0.00 0.00 34.43 4.57
2136 15472 7.202526 CCTTTACATCAAAACTTCTCTTTGCA 58.797 34.615 0.00 0.00 34.43 4.08
2137 15473 6.144563 GCCTTTACATCAAAACTTCTCTTTGC 59.855 38.462 0.00 0.00 34.43 3.68
2138 15474 7.202526 TGCCTTTACATCAAAACTTCTCTTTG 58.797 34.615 0.00 0.00 35.51 2.77
2139 15475 7.346751 TGCCTTTACATCAAAACTTCTCTTT 57.653 32.000 0.00 0.00 0.00 2.52
2140 15476 6.959639 TGCCTTTACATCAAAACTTCTCTT 57.040 33.333 0.00 0.00 0.00 2.85
2141 15477 6.959639 TTGCCTTTACATCAAAACTTCTCT 57.040 33.333 0.00 0.00 0.00 3.10
2142 15478 8.593492 ATTTTGCCTTTACATCAAAACTTCTC 57.407 30.769 0.00 0.00 40.89 2.87
2143 15479 9.476202 GTATTTTGCCTTTACATCAAAACTTCT 57.524 29.630 0.00 0.00 40.89 2.85
2144 15480 9.255304 TGTATTTTGCCTTTACATCAAAACTTC 57.745 29.630 0.00 0.00 40.89 3.01
2145 15481 9.606631 TTGTATTTTGCCTTTACATCAAAACTT 57.393 25.926 0.00 0.00 40.89 2.66
2146 15482 9.777297 ATTGTATTTTGCCTTTACATCAAAACT 57.223 25.926 0.00 0.00 40.89 2.66
2149 15485 8.502387 GCAATTGTATTTTGCCTTTACATCAAA 58.498 29.630 7.40 0.00 42.84 2.69
2150 15486 7.658982 TGCAATTGTATTTTGCCTTTACATCAA 59.341 29.630 7.40 0.00 46.97 2.57
2151 15487 7.157347 TGCAATTGTATTTTGCCTTTACATCA 58.843 30.769 7.40 0.00 46.97 3.07
2152 15488 7.593875 TGCAATTGTATTTTGCCTTTACATC 57.406 32.000 7.40 0.00 46.97 3.06
2153 15489 7.066043 CCATGCAATTGTATTTTGCCTTTACAT 59.934 33.333 6.26 0.00 46.97 2.29
2154 15490 6.370994 CCATGCAATTGTATTTTGCCTTTACA 59.629 34.615 6.26 0.00 46.97 2.41
2155 15491 6.675244 GCCATGCAATTGTATTTTGCCTTTAC 60.675 38.462 6.26 0.00 46.97 2.01
2156 15492 5.353678 GCCATGCAATTGTATTTTGCCTTTA 59.646 36.000 6.26 0.00 46.97 1.85
2157 15493 4.156373 GCCATGCAATTGTATTTTGCCTTT 59.844 37.500 6.26 0.00 46.97 3.11
2158 15494 3.690628 GCCATGCAATTGTATTTTGCCTT 59.309 39.130 6.26 0.00 46.97 4.35
2159 15495 3.272581 GCCATGCAATTGTATTTTGCCT 58.727 40.909 6.26 0.00 46.97 4.75
2160 15496 3.008330 TGCCATGCAATTGTATTTTGCC 58.992 40.909 6.26 0.00 46.97 4.52
2162 15498 5.564768 CATGTGCCATGCAATTGTATTTTG 58.435 37.500 6.26 0.00 41.47 2.44
2163 15499 4.095185 GCATGTGCCATGCAATTGTATTTT 59.905 37.500 25.80 0.00 41.47 1.82
2164 15500 3.623960 GCATGTGCCATGCAATTGTATTT 59.376 39.130 25.80 0.00 41.47 1.40
2165 15501 3.199677 GCATGTGCCATGCAATTGTATT 58.800 40.909 25.80 0.00 41.47 1.89
2166 15502 2.828877 GCATGTGCCATGCAATTGTAT 58.171 42.857 25.80 5.10 41.47 2.29
2167 15503 2.296831 GCATGTGCCATGCAATTGTA 57.703 45.000 25.80 2.30 41.47 2.41
2168 15504 3.146783 GCATGTGCCATGCAATTGT 57.853 47.368 25.80 0.00 41.47 2.71
2174 15510 1.226379 GTACGTGCATGTGCCATGC 60.226 57.895 24.69 24.69 44.76 4.06
2175 15511 0.734309 ATGTACGTGCATGTGCCATG 59.266 50.000 21.92 9.94 41.18 3.66
2176 15512 1.939934 GTATGTACGTGCATGTGCCAT 59.060 47.619 26.72 22.01 41.18 4.40
2177 15513 1.066502 AGTATGTACGTGCATGTGCCA 60.067 47.619 26.72 17.15 41.18 4.92
2178 15514 1.651987 AGTATGTACGTGCATGTGCC 58.348 50.000 26.72 12.11 41.18 5.01
2179 15515 2.415168 ACAAGTATGTACGTGCATGTGC 59.585 45.455 26.72 20.41 38.90 4.57


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.