Multiple sequence alignment - TraesCS2D01G187800

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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 TraesCS2D01G187800 chr2D 100.000 2828 0 0 1 2828 131359215 131362042 0.000000e+00 5223.0
1 TraesCS2D01G187800 chr2D 79.713 1326 172 48 915 2174 131284156 131285450 0.000000e+00 869.0
2 TraesCS2D01G187800 chr2D 82.900 1000 118 30 1255 2227 131317005 131317978 0.000000e+00 850.0
3 TraesCS2D01G187800 chr2D 77.852 745 128 19 905 1624 131316684 131317416 7.240000e-116 427.0
4 TraesCS2D01G187800 chr2D 83.263 472 51 15 656 1117 131294951 131295404 2.620000e-110 409.0
5 TraesCS2D01G187800 chr2D 85.085 295 19 9 245 535 131292116 131292389 7.720000e-71 278.0
6 TraesCS2D01G187800 chr2D 81.595 326 33 16 228 552 131283544 131283843 7.830000e-61 244.0
7 TraesCS2D01G187800 chr2D 83.142 261 36 4 2382 2637 131309232 131309489 6.090000e-57 231.0
8 TraesCS2D01G187800 chr2D 87.374 198 19 1 1256 1453 131296518 131296709 3.670000e-54 222.0
9 TraesCS2D01G187800 chr2D 86.932 176 13 1 691 856 131316494 131316669 3.720000e-44 189.0
10 TraesCS2D01G187800 chr2D 87.778 90 6 3 17 105 131290714 131290799 1.790000e-17 100.0
11 TraesCS2D01G187800 chr2A 92.700 1000 62 7 1256 2251 138084594 138085586 0.000000e+00 1432.0
12 TraesCS2D01G187800 chr2A 90.257 1088 67 14 210 1285 138083605 138084665 0.000000e+00 1386.0
13 TraesCS2D01G187800 chr2A 79.532 1666 224 61 295 1894 137941622 137943236 0.000000e+00 1079.0
14 TraesCS2D01G187800 chr2A 88.215 577 45 11 2256 2811 138085562 138086136 0.000000e+00 667.0
15 TraesCS2D01G187800 chr2A 85.987 628 53 14 691 1285 137950936 137951561 8.540000e-180 640.0
16 TraesCS2D01G187800 chr2A 84.211 646 81 10 1255 1892 137951489 137952121 2.410000e-170 608.0
17 TraesCS2D01G187800 chr2A 85.642 397 43 9 1500 1892 137936523 137936909 3.390000e-109 405.0
18 TraesCS2D01G187800 chr2A 81.579 456 65 12 2382 2828 137945886 137946331 2.680000e-95 359.0
19 TraesCS2D01G187800 chr2A 81.215 362 65 1 1400 1758 137951511 137951872 3.560000e-74 289.0
20 TraesCS2D01G187800 chr2A 82.371 329 50 4 1297 1624 137936284 137936605 2.150000e-71 279.0
21 TraesCS2D01G187800 chr2A 93.158 190 3 3 1 181 138083420 138083608 1.290000e-68 270.0
22 TraesCS2D01G187800 chr2B 89.608 664 33 12 197 855 184927736 184928368 0.000000e+00 811.0
23 TraesCS2D01G187800 chr2B 81.898 801 84 33 563 1349 184899426 184900179 1.110000e-173 619.0
24 TraesCS2D01G187800 chr2B 90.909 462 23 7 1796 2241 184952258 184952716 1.120000e-168 603.0
25 TraesCS2D01G187800 chr2B 87.226 548 43 8 2297 2827 184952931 184953468 1.450000e-167 599.0
26 TraesCS2D01G187800 chr2B 78.407 954 142 25 717 1624 184909359 184910294 1.900000e-156 562.0
27 TraesCS2D01G187800 chr2B 88.942 416 36 2 862 1267 184930502 184930917 3.250000e-139 505.0
28 TraesCS2D01G187800 chr2B 83.212 548 69 18 799 1336 184876821 184877355 5.480000e-132 481.0
29 TraesCS2D01G187800 chr2B 84.327 453 59 8 1319 1765 184930780 184931226 1.560000e-117 433.0
30 TraesCS2D01G187800 chr2B 81.952 543 64 22 1500 2019 184877474 184878005 2.010000e-116 429.0
31 TraesCS2D01G187800 chr2B 83.894 416 54 8 928 1336 184789291 184789700 4.420000e-103 385.0
32 TraesCS2D01G187800 chr2B 79.655 580 72 29 1623 2183 184789819 184790371 2.660000e-100 375.0
33 TraesCS2D01G187800 chr2B 80.963 457 69 11 2382 2828 184903857 184904305 2.090000e-91 346.0
34 TraesCS2D01G187800 chr2B 84.164 341 44 7 295 633 184798258 184798590 3.510000e-84 322.0
35 TraesCS2D01G187800 chr2B 82.933 375 42 11 1530 1894 184900237 184900599 4.550000e-83 318.0
36 TraesCS2D01G187800 chr2B 82.727 330 47 5 1297 1624 184877235 184877556 4.610000e-73 285.0
37 TraesCS2D01G187800 chr2B 81.073 354 62 4 1255 1604 184900043 184900395 7.720000e-71 278.0
38 TraesCS2D01G187800 chr2B 83.117 308 42 5 1297 1602 184789580 184789879 3.590000e-69 272.0
39 TraesCS2D01G187800 chr2B 80.060 331 34 13 228 552 184777215 184777519 1.710000e-52 217.0
40 TraesCS2D01G187800 chr2B 96.774 124 4 0 28 151 184927608 184927731 1.030000e-49 207.0
41 TraesCS2D01G187800 chr2B 81.452 248 33 5 1917 2163 184900656 184900891 1.030000e-44 191.0
42 TraesCS2D01G187800 chr2B 85.417 192 12 11 2038 2227 184910848 184911025 4.810000e-43 185.0
43 TraesCS2D01G187800 chr2B 83.562 146 11 6 10 155 184872988 184873120 1.060000e-24 124.0
44 TraesCS2D01G187800 chr7B 78.328 323 52 12 923 1230 604334529 604334848 2.880000e-45 193.0
45 TraesCS2D01G187800 chr7B 88.462 52 6 0 2264 2315 604335795 604335846 2.350000e-06 63.9
46 TraesCS2D01G187800 chr5B 83.908 87 10 3 2531 2613 485912069 485912155 2.340000e-11 80.5
47 TraesCS2D01G187800 chr6B 97.500 40 1 0 2531 2570 668909653 668909614 5.060000e-08 69.4
48 TraesCS2D01G187800 chr4B 83.784 74 10 2 2532 2603 31874017 31873944 5.060000e-08 69.4
49 TraesCS2D01G187800 chr6A 85.294 68 5 4 2498 2564 595025207 595025270 6.540000e-07 65.8


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 TraesCS2D01G187800 chr2D 131359215 131362042 2827 False 5223.000000 5223 100.000000 1 2828 1 chr2D.!!$F2 2827
1 TraesCS2D01G187800 chr2D 131283544 131285450 1906 False 556.500000 869 80.654000 228 2174 2 chr2D.!!$F3 1946
2 TraesCS2D01G187800 chr2D 131316494 131317978 1484 False 488.666667 850 82.561333 691 2227 3 chr2D.!!$F5 1536
3 TraesCS2D01G187800 chr2D 131290714 131296709 5995 False 252.250000 409 85.875000 17 1453 4 chr2D.!!$F4 1436
4 TraesCS2D01G187800 chr2A 138083420 138086136 2716 False 938.750000 1432 91.082500 1 2811 4 chr2A.!!$F4 2810
5 TraesCS2D01G187800 chr2A 137941622 137946331 4709 False 719.000000 1079 80.555500 295 2828 2 chr2A.!!$F2 2533
6 TraesCS2D01G187800 chr2A 137950936 137952121 1185 False 512.333333 640 83.804333 691 1892 3 chr2A.!!$F3 1201
7 TraesCS2D01G187800 chr2A 137936284 137936909 625 False 342.000000 405 84.006500 1297 1892 2 chr2A.!!$F1 595
8 TraesCS2D01G187800 chr2B 184952258 184953468 1210 False 601.000000 603 89.067500 1796 2827 2 chr2B.!!$F8 1031
9 TraesCS2D01G187800 chr2B 184927608 184931226 3618 False 489.000000 811 89.912750 28 1765 4 chr2B.!!$F7 1737
10 TraesCS2D01G187800 chr2B 184909359 184911025 1666 False 373.500000 562 81.912000 717 2227 2 chr2B.!!$F6 1510
11 TraesCS2D01G187800 chr2B 184899426 184904305 4879 False 350.400000 619 81.663800 563 2828 5 chr2B.!!$F5 2265
12 TraesCS2D01G187800 chr2B 184789291 184790371 1080 False 344.000000 385 82.222000 928 2183 3 chr2B.!!$F3 1255
13 TraesCS2D01G187800 chr2B 184872988 184878005 5017 False 329.750000 481 82.863250 10 2019 4 chr2B.!!$F4 2009

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
76 86 0.166814 CTTGCAACCGAGCTAGCAAC 59.833 55.000 18.83 9.62 41.55 4.17 F
618 7681 1.130561 GAGTACAATTGAACGGCAGGC 59.869 52.381 13.59 0.00 0.00 4.85 F
1030 10350 0.329596 GAGCACCATGTCCTCCCTTT 59.670 55.000 0.00 0.00 0.00 3.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1030 10350 0.106708 AGCAGTGCAACGAGGAAGAA 59.893 50.0 19.2 0.0 45.86 2.52 R
1699 12399 1.025113 GGTAACTCGGGCTCCTTTGC 61.025 60.0 0.0 0.0 0.00 3.68 R
2232 16808 2.922740 TTTTGCGGGAGTTCTGTACT 57.077 45.0 0.0 0.0 40.71 2.73 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
76 86 0.166814 CTTGCAACCGAGCTAGCAAC 59.833 55.000 18.83 9.62 41.55 4.17
136 163 3.857052 TCACGTGAAACTAGCCCTAATG 58.143 45.455 17.62 0.00 31.75 1.90
180 1410 7.715657 TGACATTCCACCATATCAAAATAAGC 58.284 34.615 0.00 0.00 0.00 3.09
181 1411 7.560991 TGACATTCCACCATATCAAAATAAGCT 59.439 33.333 0.00 0.00 0.00 3.74
182 1412 7.945134 ACATTCCACCATATCAAAATAAGCTC 58.055 34.615 0.00 0.00 0.00 4.09
183 1413 6.618287 TTCCACCATATCAAAATAAGCTCG 57.382 37.500 0.00 0.00 0.00 5.03
184 1414 5.063204 TCCACCATATCAAAATAAGCTCGG 58.937 41.667 0.00 0.00 0.00 4.63
185 1415 4.216257 CCACCATATCAAAATAAGCTCGGG 59.784 45.833 0.00 0.00 0.00 5.14
186 1416 4.216257 CACCATATCAAAATAAGCTCGGGG 59.784 45.833 0.00 0.00 0.00 5.73
187 1417 3.758554 CCATATCAAAATAAGCTCGGGGG 59.241 47.826 0.00 0.00 0.00 5.40
253 1489 3.202706 GCGCCGGGATGTTTCCTC 61.203 66.667 2.18 0.00 42.20 3.71
290 1533 1.835121 TAACATGCCTCGATCGTTCG 58.165 50.000 15.94 9.59 46.87 3.95
291 1534 1.421410 AACATGCCTCGATCGTTCGC 61.421 55.000 15.94 14.82 45.10 4.70
292 1535 1.589993 CATGCCTCGATCGTTCGCT 60.590 57.895 15.94 3.16 45.10 4.93
293 1536 1.589993 ATGCCTCGATCGTTCGCTG 60.590 57.895 15.94 5.70 45.10 5.18
296 1539 3.315521 CTCGATCGTTCGCTGGCG 61.316 66.667 15.94 8.80 45.10 5.69
467 5007 2.106566 TCTTCAGGAGATCAGCCAGAC 58.893 52.381 7.30 0.00 0.00 3.51
559 7606 3.755112 TCAGGTTCGATGTACCACAAA 57.245 42.857 7.49 0.00 38.16 2.83
581 7628 2.418368 ATTTCGGTGCATAGGCTGAA 57.582 45.000 0.00 0.00 41.91 3.02
609 7672 9.783081 AGCATGTATTGATATGAGTACAATTGA 57.217 29.630 13.59 0.00 36.06 2.57
618 7681 1.130561 GAGTACAATTGAACGGCAGGC 59.869 52.381 13.59 0.00 0.00 4.85
845 7960 3.181467 CCAAGGCACCAAAATTCAGTCAA 60.181 43.478 0.00 0.00 0.00 3.18
999 10319 4.453478 TCGATACACGTAGACAAGAACACT 59.547 41.667 0.00 0.00 43.13 3.55
1013 10333 1.361668 AACACTATGCCGCGCAAGAG 61.362 55.000 8.75 7.35 43.62 2.85
1030 10350 0.329596 GAGCACCATGTCCTCCCTTT 59.670 55.000 0.00 0.00 0.00 3.11
1041 10361 2.038689 GTCCTCCCTTTTCTTCCTCGTT 59.961 50.000 0.00 0.00 0.00 3.85
1044 10364 1.142060 TCCCTTTTCTTCCTCGTTGCA 59.858 47.619 0.00 0.00 0.00 4.08
1149 11486 3.737172 CCGGAACAGCCAAAGCCG 61.737 66.667 0.00 0.00 41.25 5.52
1155 11492 0.755327 AACAGCCAAAGCCGGAACTT 60.755 50.000 5.05 0.00 41.25 2.66
1274 11611 3.476031 CTGAAGTGCCACACCCCGT 62.476 63.158 0.00 0.00 34.49 5.28
1275 11612 2.978010 GAAGTGCCACACCCCGTG 60.978 66.667 0.00 0.00 45.92 4.94
1293 11630 3.655481 GTGCCGGAGACACCAAAG 58.345 61.111 5.05 0.00 38.90 2.77
1294 11631 1.966451 GTGCCGGAGACACCAAAGG 60.966 63.158 5.05 0.00 38.90 3.11
1295 11632 2.144078 TGCCGGAGACACCAAAGGA 61.144 57.895 5.05 0.00 38.90 3.36
1299 11636 1.831652 CGGAGACACCAAAGGAGCCT 61.832 60.000 0.00 0.00 38.90 4.58
1303 11640 1.202818 AGACACCAAAGGAGCCTGAAC 60.203 52.381 0.00 0.00 0.00 3.18
1308 11645 1.302832 AAAGGAGCCTGAACTGCCG 60.303 57.895 0.00 0.00 0.00 5.69
1363 11700 4.838152 CGCCGCACCCTGCTATGT 62.838 66.667 0.00 0.00 42.25 2.29
1365 11702 2.903357 CCGCACCCTGCTATGTCT 59.097 61.111 0.00 0.00 42.25 3.41
1466 11920 0.807496 GAGGTGTCAAAGCATGAGCC 59.193 55.000 0.00 0.00 43.56 4.70
1469 11923 1.242076 GTGTCAAAGCATGAGCCACT 58.758 50.000 0.00 0.00 43.56 4.00
1497 11951 3.550431 GCTATGCCCGAGCTCCCA 61.550 66.667 8.47 3.40 40.80 4.37
1522 11976 3.618019 GCTTGAACTACCACATCCGGTTA 60.618 47.826 0.00 0.00 40.67 2.85
1558 12012 3.825160 GAGCCGGAAGTGCCACACA 62.825 63.158 5.05 0.00 36.74 3.72
1634 12334 1.177895 TTGCCGAAGCCTGAAATGCA 61.178 50.000 0.00 0.00 38.69 3.96
1699 12399 0.818296 CCCTGAGGTACCAGAAGTCG 59.182 60.000 15.94 0.00 36.29 4.18
1722 12422 2.499685 GAGCCCGAGTTACCGCAT 59.500 61.111 0.00 0.00 0.00 4.73
1833 12533 3.741860 GCCAAGCCATGATCGGAG 58.258 61.111 0.00 0.00 0.00 4.63
1835 12535 1.147824 CCAAGCCATGATCGGAGCT 59.852 57.895 0.00 0.00 37.10 4.09
2038 14438 3.763897 TCCCTACTTCCCTTTACGTACAC 59.236 47.826 0.00 0.00 0.00 2.90
2108 14668 9.353999 GTTTGGAGTTTTTATATTGGATCACAC 57.646 33.333 0.00 0.00 0.00 3.82
2109 14669 8.642935 TTGGAGTTTTTATATTGGATCACACA 57.357 30.769 0.00 0.00 0.00 3.72
2246 16822 9.590451 TTTTGTATTAATAGTACAGAACTCCCG 57.410 33.333 0.00 0.00 39.80 5.14
2247 16823 6.742109 TGTATTAATAGTACAGAACTCCCGC 58.258 40.000 0.00 0.00 39.80 6.13
2248 16824 5.864418 ATTAATAGTACAGAACTCCCGCA 57.136 39.130 0.00 0.00 39.80 5.69
2249 16825 5.664294 TTAATAGTACAGAACTCCCGCAA 57.336 39.130 0.00 0.00 39.80 4.85
2250 16826 4.546829 AATAGTACAGAACTCCCGCAAA 57.453 40.909 0.00 0.00 39.80 3.68
2251 16827 2.922740 AGTACAGAACTCCCGCAAAA 57.077 45.000 0.00 0.00 30.33 2.44
2252 16828 3.202829 AGTACAGAACTCCCGCAAAAA 57.797 42.857 0.00 0.00 30.33 1.94
2253 16829 3.751518 AGTACAGAACTCCCGCAAAAAT 58.248 40.909 0.00 0.00 30.33 1.82
2254 16830 4.901868 AGTACAGAACTCCCGCAAAAATA 58.098 39.130 0.00 0.00 30.33 1.40
2255 16831 5.497474 AGTACAGAACTCCCGCAAAAATAT 58.503 37.500 0.00 0.00 30.33 1.28
2256 16832 6.646267 AGTACAGAACTCCCGCAAAAATATA 58.354 36.000 0.00 0.00 30.33 0.86
2257 16833 7.280356 AGTACAGAACTCCCGCAAAAATATAT 58.720 34.615 0.00 0.00 30.33 0.86
2258 16834 7.773690 AGTACAGAACTCCCGCAAAAATATATT 59.226 33.333 0.00 0.00 30.33 1.28
2434 17847 5.751680 CGAGAAATATTGGGTGTAATGCAG 58.248 41.667 0.00 0.00 0.00 4.41
2435 17848 5.527214 CGAGAAATATTGGGTGTAATGCAGA 59.473 40.000 0.00 0.00 0.00 4.26
2738 18163 6.984474 TGTCTCTAAACTTGGTCACACTTTAG 59.016 38.462 0.00 0.00 32.89 1.85
2796 18229 9.787532 AATATATTTTCACCAAACTGATGAACG 57.212 29.630 0.00 0.00 27.60 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 6.168270 AGTTGGGAATACTAAGAGCAGATC 57.832 41.667 0.00 0.0 0.00 2.75
76 86 1.065928 GTGTCTATCGACCAGGCGG 59.934 63.158 0.00 0.0 39.47 6.13
136 163 2.100584 TCATTTGTGGTGGTTGTGCTTC 59.899 45.455 0.00 0.0 0.00 3.86
185 1415 3.663202 CACTTAACGTGTGCCCCC 58.337 61.111 0.00 0.0 38.84 5.40
193 1423 7.172532 TGAGATTGCTTTTATCACACTTAACGT 59.827 33.333 0.00 0.0 0.00 3.99
194 1424 7.518161 TGAGATTGCTTTTATCACACTTAACG 58.482 34.615 0.00 0.0 0.00 3.18
195 1425 9.677567 TTTGAGATTGCTTTTATCACACTTAAC 57.322 29.630 0.00 0.0 0.00 2.01
205 1435 5.957842 TCCGTGTTTGAGATTGCTTTTAT 57.042 34.783 0.00 0.0 0.00 1.40
253 1489 3.317711 TGTTAATTTCAGTGGCTGTGGTG 59.682 43.478 0.00 0.0 32.61 4.17
291 1534 3.625897 TCACCAGTCACCCGCCAG 61.626 66.667 0.00 0.0 0.00 4.85
292 1535 3.936203 GTCACCAGTCACCCGCCA 61.936 66.667 0.00 0.0 0.00 5.69
293 1536 4.699522 GGTCACCAGTCACCCGCC 62.700 72.222 0.00 0.0 0.00 6.13
296 1539 1.053424 TGTTAGGTCACCAGTCACCC 58.947 55.000 0.00 0.0 32.45 4.61
397 1643 0.240945 CCGTTTGGTGATGAACTGCC 59.759 55.000 0.00 0.0 0.00 4.85
401 1648 0.671251 TTGGCCGTTTGGTGATGAAC 59.329 50.000 0.00 0.0 37.67 3.18
403 1650 0.179004 AGTTGGCCGTTTGGTGATGA 60.179 50.000 0.00 0.0 37.67 2.92
501 5046 1.658994 TGATTCGGTAATTGGTCGGC 58.341 50.000 0.00 0.0 0.00 5.54
559 7606 4.085357 TCAGCCTATGCACCGAAATATT 57.915 40.909 0.00 0.0 41.13 1.28
605 7664 1.377725 CCAGAGCCTGCCGTTCAAT 60.378 57.895 0.00 0.0 0.00 2.57
609 7672 1.764571 TTGTACCAGAGCCTGCCGTT 61.765 55.000 0.00 0.0 0.00 4.44
618 7681 5.543507 ATGGCTCTAAGATTGTACCAGAG 57.456 43.478 0.00 0.0 36.62 3.35
889 10145 6.597672 CCAAAAATGCTAGACCTACATGTGTA 59.402 38.462 9.11 0.0 0.00 2.90
902 10174 7.809806 GCTGGTATTTATAGCCAAAAATGCTAG 59.190 37.037 10.20 10.2 43.98 3.42
985 10291 2.603560 GCGGCATAGTGTTCTTGTCTAC 59.396 50.000 0.00 0.0 0.00 2.59
999 10319 3.195002 GTGCTCTTGCGCGGCATA 61.195 61.111 8.83 0.0 43.34 3.14
1013 10333 1.177401 GAAAAGGGAGGACATGGTGC 58.823 55.000 0.00 0.0 0.00 5.01
1030 10350 0.106708 AGCAGTGCAACGAGGAAGAA 59.893 50.000 19.20 0.0 45.86 2.52
1137 11474 1.152756 AAGTTCCGGCTTTGGCTGT 60.153 52.632 0.00 0.0 42.91 4.40
1139 11476 1.603739 GGAAGTTCCGGCTTTGGCT 60.604 57.895 6.06 0.0 38.73 4.75
1149 11486 2.671963 GGGTGCGGTGGAAGTTCC 60.672 66.667 15.50 15.5 36.96 3.62
1276 11613 1.966451 CCTTTGGTGTCTCCGGCAC 60.966 63.158 0.00 0.0 39.52 5.01
1277 11614 2.111999 CTCCTTTGGTGTCTCCGGCA 62.112 60.000 0.00 0.0 39.52 5.69
1278 11615 1.376037 CTCCTTTGGTGTCTCCGGC 60.376 63.158 0.00 0.0 39.52 6.13
1279 11616 1.376037 GCTCCTTTGGTGTCTCCGG 60.376 63.158 0.00 0.0 39.52 5.14
1280 11617 1.376037 GGCTCCTTTGGTGTCTCCG 60.376 63.158 0.00 0.0 39.52 4.63
1281 11618 0.322008 CAGGCTCCTTTGGTGTCTCC 60.322 60.000 0.00 0.0 27.94 3.71
1282 11619 0.687354 TCAGGCTCCTTTGGTGTCTC 59.313 55.000 0.00 0.0 27.94 3.36
1283 11620 1.140312 TTCAGGCTCCTTTGGTGTCT 58.860 50.000 0.00 0.0 30.80 3.41
1284 11621 1.202818 AGTTCAGGCTCCTTTGGTGTC 60.203 52.381 0.00 0.0 0.00 3.67
1285 11622 0.846693 AGTTCAGGCTCCTTTGGTGT 59.153 50.000 0.00 0.0 0.00 4.16
1286 11623 1.242076 CAGTTCAGGCTCCTTTGGTG 58.758 55.000 0.00 0.0 0.00 4.17
1287 11624 0.538287 GCAGTTCAGGCTCCTTTGGT 60.538 55.000 0.00 0.0 0.00 3.67
1288 11625 1.246737 GGCAGTTCAGGCTCCTTTGG 61.247 60.000 0.00 0.0 0.00 3.28
1289 11626 1.580845 CGGCAGTTCAGGCTCCTTTG 61.581 60.000 0.00 0.0 0.00 2.77
1290 11627 1.302832 CGGCAGTTCAGGCTCCTTT 60.303 57.895 0.00 0.0 0.00 3.11
1291 11628 2.348998 CGGCAGTTCAGGCTCCTT 59.651 61.111 0.00 0.0 0.00 3.36
1292 11629 4.400961 GCGGCAGTTCAGGCTCCT 62.401 66.667 0.00 0.0 0.00 3.69
1293 11630 4.704833 TGCGGCAGTTCAGGCTCC 62.705 66.667 0.00 0.0 0.00 4.70
1294 11631 3.426568 GTGCGGCAGTTCAGGCTC 61.427 66.667 1.18 0.0 0.00 4.70
1453 11907 1.246056 GGCAGTGGCTCATGCTTTGA 61.246 55.000 9.90 0.0 42.19 2.69
1497 11951 3.074412 CGGATGTGGTAGTTCAAGCTTT 58.926 45.455 0.00 0.0 0.00 3.51
1502 11956 4.509616 CATAACCGGATGTGGTAGTTCAA 58.490 43.478 9.46 0.0 42.89 2.69
1634 12334 2.985282 CTGGCACGGCATGGTGTT 60.985 61.111 0.00 0.0 40.08 3.32
1698 12398 1.079405 TAACTCGGGCTCCTTTGCG 60.079 57.895 0.00 0.0 0.00 4.85
1699 12399 1.025113 GGTAACTCGGGCTCCTTTGC 61.025 60.000 0.00 0.0 0.00 3.68
2108 14668 8.382130 GCACATATGTAAATCCAAACACAAATG 58.618 33.333 8.32 0.0 0.00 2.32
2109 14669 8.093307 TGCACATATGTAAATCCAAACACAAAT 58.907 29.630 8.32 0.0 0.00 2.32
2229 16805 4.546829 TTTGCGGGAGTTCTGTACTATT 57.453 40.909 0.00 0.0 37.17 1.73
2230 16806 4.546829 TTTTGCGGGAGTTCTGTACTAT 57.453 40.909 0.00 0.0 37.17 2.12
2231 16807 4.339872 TTTTTGCGGGAGTTCTGTACTA 57.660 40.909 0.00 0.0 37.17 1.82
2232 16808 2.922740 TTTTGCGGGAGTTCTGTACT 57.077 45.000 0.00 0.0 40.71 2.73
2233 16809 5.813080 ATATTTTTGCGGGAGTTCTGTAC 57.187 39.130 0.00 0.0 0.00 2.90
2234 16810 9.616156 TTAATATATTTTTGCGGGAGTTCTGTA 57.384 29.630 2.68 0.0 0.00 2.74
2235 16811 8.514330 TTAATATATTTTTGCGGGAGTTCTGT 57.486 30.769 2.68 0.0 0.00 3.41
2255 16831 7.931948 GCTTTCAGGCCTTCTGTACTATTAATA 59.068 37.037 0.00 0.0 43.76 0.98
2256 16832 6.768381 GCTTTCAGGCCTTCTGTACTATTAAT 59.232 38.462 0.00 0.0 43.76 1.40
2257 16833 6.113411 GCTTTCAGGCCTTCTGTACTATTAA 58.887 40.000 0.00 0.0 43.76 1.40
2258 16834 5.671493 GCTTTCAGGCCTTCTGTACTATTA 58.329 41.667 0.00 0.0 43.76 0.98
2285 16861 9.950496 ATATCTTATTATGCTTCCGATCAAACT 57.050 29.630 0.00 0.0 0.00 2.66
2373 17754 5.163683 CGTCTGGAGCATGAAAATTCAGAAT 60.164 40.000 0.00 0.0 41.08 2.40
2378 17766 4.889832 ATCGTCTGGAGCATGAAAATTC 57.110 40.909 0.00 0.0 0.00 2.17
2525 17948 5.479124 TTTGGAACAGAGGGAGTAAGTAC 57.521 43.478 0.00 0.0 42.39 2.73
2615 18040 9.747898 TTGTATTTGGTGTTAATCCAGATAGTT 57.252 29.630 10.78 0.0 34.31 2.24
2630 18055 7.230747 TCCCATCCTATATGTTGTATTTGGTG 58.769 38.462 0.00 0.0 0.00 4.17
2632 18057 8.884124 ATTCCCATCCTATATGTTGTATTTGG 57.116 34.615 0.00 0.0 0.00 3.28
2664 18089 6.749216 ACTAGTTGCATTATATTCGTCACG 57.251 37.500 0.00 0.0 0.00 4.35
2709 18134 6.260936 AGTGTGACCAAGTTTAGAGACAAATG 59.739 38.462 0.00 0.0 0.00 2.32


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

AutoCloner maintained by Alex Coulton.