Multiple sequence alignment - TraesCS5D01G204200

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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 TraesCS5D01G204200 chr5D 100.000 2237 0 0 1 2237 309402911 309400675 0.000000e+00 4132.0
1 TraesCS5D01G204200 chr5A 89.668 2168 156 39 1 2140 402658853 402656726 0.000000e+00 2700.0
2 TraesCS5D01G204200 chr5B 91.018 1748 101 31 1 1735 354716363 354714659 0.000000e+00 2307.0
3 TraesCS5D01G204200 chr5B 96.594 411 10 2 1734 2141 354714630 354714221 0.000000e+00 678.0
4 TraesCS5D01G204200 chr5B 94.681 94 4 1 2145 2237 10424 10331 6.440000e-31 145.0
5 TraesCS5D01G204200 chr3B 94.792 96 4 1 2143 2237 256197708 256197803 4.980000e-32 148.0
6 TraesCS5D01G204200 chr4B 95.556 90 3 1 2149 2237 631847479 631847568 2.320000e-30 143.0
7 TraesCS5D01G204200 chr4B 90.141 71 6 1 2168 2237 661628978 661628908 8.510000e-15 91.6
8 TraesCS5D01G204200 chr4B 81.373 102 17 2 430 530 544447542 544447442 5.120000e-12 82.4
9 TraesCS5D01G204200 chr7D 94.565 92 4 1 2147 2237 628601406 628601315 8.330000e-30 141.0
10 TraesCS5D01G204200 chr7D 92.391 92 6 1 2147 2237 51752374 51752465 1.800000e-26 130.0
11 TraesCS5D01G204200 chr6B 94.505 91 4 1 2146 2235 49764358 49764448 3.000000e-29 139.0
12 TraesCS5D01G204200 chr7B 93.548 93 5 1 2146 2237 12548969 12549061 1.080000e-28 137.0
13 TraesCS5D01G204200 chr1A 91.489 94 6 2 2145 2237 443669957 443670049 6.480000e-26 128.0
14 TraesCS5D01G204200 chr4A 100.000 30 0 0 503 532 527501359 527501330 3.100000e-04 56.5


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 TraesCS5D01G204200 chr5D 309400675 309402911 2236 True 4132.0 4132 100.000 1 2237 1 chr5D.!!$R1 2236
1 TraesCS5D01G204200 chr5A 402656726 402658853 2127 True 2700.0 2700 89.668 1 2140 1 chr5A.!!$R1 2139
2 TraesCS5D01G204200 chr5B 354714221 354716363 2142 True 1492.5 2307 93.806 1 2141 2 chr5B.!!$R2 2140

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
111 112 0.392336 GTTTTGTCCTGCCATGCCAA 59.608 50.0 0.0 0.0 0.0 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1889 1945 0.179037 ATGCATGCCGATACTGTGCT 60.179 50.0 16.68 0.0 36.78 4.4 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
27 28 4.913335 TCTGCTAGGGTTGTATTAGTCG 57.087 45.455 0.00 0.00 0.00 4.18
31 32 1.575419 AGGGTTGTATTAGTCGGGCA 58.425 50.000 0.00 0.00 0.00 5.36
110 111 0.758310 TGTTTTGTCCTGCCATGCCA 60.758 50.000 0.00 0.00 0.00 4.92
111 112 0.392336 GTTTTGTCCTGCCATGCCAA 59.608 50.000 0.00 0.00 0.00 4.52
112 113 0.392336 TTTTGTCCTGCCATGCCAAC 59.608 50.000 0.00 0.00 0.00 3.77
256 257 6.984474 TGTCTCGCTGAACCCTTATAATAAAG 59.016 38.462 0.00 0.00 0.00 1.85
311 312 5.584253 TCTCTCTTAGAAAAGGTCATCCG 57.416 43.478 0.00 0.00 39.05 4.18
332 337 4.142469 CCGGTCCTTGTGAATTTGTTATCC 60.142 45.833 0.00 0.00 0.00 2.59
334 339 5.183140 CGGTCCTTGTGAATTTGTTATCCTT 59.817 40.000 0.00 0.00 0.00 3.36
356 361 5.855740 TTTTTCTAACACGGGGACAAATT 57.144 34.783 0.00 0.00 0.00 1.82
357 362 5.855740 TTTTCTAACACGGGGACAAATTT 57.144 34.783 0.00 0.00 0.00 1.82
373 378 3.880047 AATTTGGATGCACACATGAGG 57.120 42.857 0.00 0.00 36.35 3.86
378 383 1.409241 GGATGCACACATGAGGGTGAT 60.409 52.381 16.95 9.67 41.32 3.06
379 384 2.158769 GGATGCACACATGAGGGTGATA 60.159 50.000 16.95 8.19 41.32 2.15
407 412 2.800544 CCATAAACGCCTTCATAGTCGG 59.199 50.000 0.00 0.00 0.00 4.79
408 413 2.589798 TAAACGCCTTCATAGTCGGG 57.410 50.000 0.00 0.00 0.00 5.14
411 416 1.067582 CGCCTTCATAGTCGGGGAC 59.932 63.158 0.00 0.00 33.01 4.46
427 436 1.641577 GGACGCTCTTCGCAGTAAAT 58.358 50.000 0.00 0.00 43.23 1.40
428 437 1.324736 GGACGCTCTTCGCAGTAAATG 59.675 52.381 0.00 0.00 43.23 2.32
444 453 6.072508 GCAGTAAATGAACATCACCAGAAAGA 60.073 38.462 0.00 0.00 0.00 2.52
447 456 8.375506 AGTAAATGAACATCACCAGAAAGACTA 58.624 33.333 0.00 0.00 0.00 2.59
532 541 1.269448 CCATCACAAGGAACCAAACCG 59.731 52.381 0.00 0.00 0.00 4.44
544 553 5.297527 AGGAACCAAACCGTTTAAACTACAG 59.702 40.000 16.01 5.15 0.00 2.74
550 559 5.978934 AACCGTTTAAACTACAGTCACTG 57.021 39.130 16.01 2.22 37.52 3.66
552 561 4.056050 CCGTTTAAACTACAGTCACTGCT 58.944 43.478 16.01 0.00 34.37 4.24
553 562 4.150098 CCGTTTAAACTACAGTCACTGCTC 59.850 45.833 16.01 0.00 34.37 4.26
554 563 4.743151 CGTTTAAACTACAGTCACTGCTCA 59.257 41.667 16.01 0.00 34.37 4.26
555 564 5.233476 CGTTTAAACTACAGTCACTGCTCAA 59.767 40.000 16.01 0.00 34.37 3.02
556 565 6.073765 CGTTTAAACTACAGTCACTGCTCAAT 60.074 38.462 16.01 0.00 34.37 2.57
557 566 7.518370 CGTTTAAACTACAGTCACTGCTCAATT 60.518 37.037 16.01 0.00 34.37 2.32
558 567 7.801716 TTAAACTACAGTCACTGCTCAATTT 57.198 32.000 4.13 1.83 34.37 1.82
559 568 6.699575 AAACTACAGTCACTGCTCAATTTT 57.300 33.333 4.13 0.00 34.37 1.82
560 569 6.699575 AACTACAGTCACTGCTCAATTTTT 57.300 33.333 4.13 0.00 34.37 1.94
592 601 4.153986 CACTCACTTCGCATGAATTTGTC 58.846 43.478 0.00 0.00 32.61 3.18
593 602 3.814842 ACTCACTTCGCATGAATTTGTCA 59.185 39.130 0.00 0.00 41.67 3.58
606 615 6.808008 TGAATTTGTCATCAGAAGGTTCTC 57.192 37.500 0.00 0.00 34.74 2.87
607 616 5.409520 TGAATTTGTCATCAGAAGGTTCTCG 59.590 40.000 0.00 0.00 34.74 4.04
853 864 1.555533 CCCTCCCTATTTATCCCGAGC 59.444 57.143 0.00 0.00 0.00 5.03
884 895 1.004758 CTCCCTCCCTCCCCATCAA 59.995 63.158 0.00 0.00 0.00 2.57
1263 1274 2.540383 ACCTCTGCTCTTGTGGTATGA 58.460 47.619 0.00 0.00 30.61 2.15
1540 1564 5.857822 AAAAAGTTCTGTCGCACCTATAC 57.142 39.130 0.00 0.00 0.00 1.47
1600 1624 5.749596 TCAAAGAAATACATGGGTATGCG 57.250 39.130 0.00 0.00 40.09 4.73
1630 1654 6.245408 TGCATTGTTAACTGGAAATAGGAGT 58.755 36.000 7.22 0.00 0.00 3.85
1678 1703 0.894141 CACTCTCAGACCCTGTCCTG 59.106 60.000 0.00 0.00 32.18 3.86
1731 1758 6.882681 TCAGACGGCTGATGAACAGTACTAG 61.883 48.000 19.45 0.00 45.88 2.57
1839 1895 4.392047 CCATTGCTAGCTGTTCCATATGA 58.608 43.478 17.23 0.00 0.00 2.15
1854 1910 5.964958 CCATATGATGGCTATCCGTTTTT 57.035 39.130 7.68 0.00 44.70 1.94
1889 1945 3.266636 CATACGTGTAATGGAGTGGCAA 58.733 45.455 0.00 0.00 0.00 4.52
2141 2200 9.374838 GACAAAAGCTTTGATGGAATATGATTT 57.625 29.630 13.54 0.00 0.00 2.17
2170 2229 6.804770 TTTTTAATGAAAGGATCGAACCGA 57.195 33.333 6.02 0.00 41.13 4.69
2171 2230 6.417191 TTTTAATGAAAGGATCGAACCGAG 57.583 37.500 6.02 0.00 39.91 4.63
2172 2231 1.941325 ATGAAAGGATCGAACCGAGC 58.059 50.000 6.02 0.30 41.76 5.03
2177 2236 2.026301 GATCGAACCGAGCCCGAG 59.974 66.667 0.00 0.00 39.91 4.63
2178 2237 2.754658 ATCGAACCGAGCCCGAGT 60.755 61.111 0.00 0.00 39.91 4.18
2179 2238 1.442526 GATCGAACCGAGCCCGAGTA 61.443 60.000 0.00 0.00 39.91 2.59
2180 2239 1.445716 ATCGAACCGAGCCCGAGTAG 61.446 60.000 0.00 0.00 39.91 2.57
2181 2240 2.806237 GAACCGAGCCCGAGTAGG 59.194 66.667 0.00 0.00 38.22 3.18
2195 2254 3.569250 GAGTAGGGCTCGATCTTCATC 57.431 52.381 0.00 0.00 34.13 2.92
2196 2255 2.230266 GAGTAGGGCTCGATCTTCATCC 59.770 54.545 0.00 0.00 34.13 3.51
2197 2256 1.068194 GTAGGGCTCGATCTTCATCCG 60.068 57.143 0.00 0.00 0.00 4.18
2198 2257 1.005630 GGGCTCGATCTTCATCCGG 60.006 63.158 0.00 0.00 0.00 5.14
2199 2258 1.666234 GGCTCGATCTTCATCCGGC 60.666 63.158 0.00 0.00 0.00 6.13
2200 2259 1.365633 GCTCGATCTTCATCCGGCT 59.634 57.895 0.00 0.00 0.00 5.52
2201 2260 0.249657 GCTCGATCTTCATCCGGCTT 60.250 55.000 0.00 0.00 0.00 4.35
2202 2261 1.808133 GCTCGATCTTCATCCGGCTTT 60.808 52.381 0.00 0.00 0.00 3.51
2203 2262 1.863454 CTCGATCTTCATCCGGCTTTG 59.137 52.381 0.00 0.00 0.00 2.77
2204 2263 1.480545 TCGATCTTCATCCGGCTTTGA 59.519 47.619 0.00 0.00 0.00 2.69
2205 2264 2.093711 TCGATCTTCATCCGGCTTTGAA 60.094 45.455 0.00 5.35 0.00 2.69
2206 2265 2.874701 CGATCTTCATCCGGCTTTGAAT 59.125 45.455 12.70 2.38 31.83 2.57
2207 2266 3.313526 CGATCTTCATCCGGCTTTGAATT 59.686 43.478 12.70 6.07 31.83 2.17
2208 2267 4.511454 CGATCTTCATCCGGCTTTGAATTA 59.489 41.667 12.70 6.89 31.83 1.40
2209 2268 5.007626 CGATCTTCATCCGGCTTTGAATTAA 59.992 40.000 12.70 5.07 31.83 1.40
2210 2269 5.560966 TCTTCATCCGGCTTTGAATTAAC 57.439 39.130 12.70 0.00 31.83 2.01
2211 2270 5.007034 TCTTCATCCGGCTTTGAATTAACA 58.993 37.500 12.70 0.00 31.83 2.41
2212 2271 5.475220 TCTTCATCCGGCTTTGAATTAACAA 59.525 36.000 12.70 0.00 31.83 2.83
2213 2272 5.713792 TCATCCGGCTTTGAATTAACAAA 57.286 34.783 0.00 0.00 37.98 2.83
2223 2282 6.670077 TTTGAATTAACAAAGCCAACAACC 57.330 33.333 0.00 0.00 35.29 3.77
2224 2283 4.363999 TGAATTAACAAAGCCAACAACCG 58.636 39.130 0.00 0.00 0.00 4.44
2225 2284 2.873133 TTAACAAAGCCAACAACCGG 57.127 45.000 0.00 0.00 0.00 5.28
2231 2290 2.909965 GCCAACAACCGGCCAGAA 60.910 61.111 0.00 0.00 44.22 3.02
2232 2291 2.275380 GCCAACAACCGGCCAGAAT 61.275 57.895 0.00 0.00 44.22 2.40
2233 2292 1.815817 GCCAACAACCGGCCAGAATT 61.816 55.000 0.00 0.00 44.22 2.17
2234 2293 1.540267 CCAACAACCGGCCAGAATTA 58.460 50.000 0.00 0.00 0.00 1.40
2235 2294 1.201414 CCAACAACCGGCCAGAATTAC 59.799 52.381 0.00 0.00 0.00 1.89
2236 2295 1.883275 CAACAACCGGCCAGAATTACA 59.117 47.619 0.00 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 0.609131 CCAAAACAGGATGCCCGACT 60.609 55.000 0.00 0.00 42.53 4.18
27 28 0.541764 TCCACCAAAACAGGATGCCC 60.542 55.000 0.00 0.00 42.53 5.36
31 32 1.697432 TCGAGTCCACCAAAACAGGAT 59.303 47.619 0.00 0.00 33.33 3.24
110 111 5.475719 TCGATCTTCATTAAGGACGTTGTT 58.524 37.500 0.00 0.00 35.17 2.83
111 112 5.068234 TCGATCTTCATTAAGGACGTTGT 57.932 39.130 0.00 0.00 35.17 3.32
112 113 5.340803 TCTCGATCTTCATTAAGGACGTTG 58.659 41.667 0.00 0.00 35.17 4.10
191 192 2.557490 GGTTCTACCTGTGACGAGAAGT 59.443 50.000 0.00 0.00 34.73 3.01
269 270 8.373220 AGAGAGATTTCATGGATTTTGCTTTTT 58.627 29.630 0.00 0.00 0.00 1.94
274 275 8.218338 TCTAAGAGAGATTTCATGGATTTTGC 57.782 34.615 0.00 0.00 0.00 3.68
282 283 8.783833 TGACCTTTTCTAAGAGAGATTTCATG 57.216 34.615 0.00 0.00 32.88 3.07
303 304 0.323629 TTCACAAGGACCGGATGACC 59.676 55.000 9.46 6.01 0.00 4.02
311 312 6.590234 AAGGATAACAAATTCACAAGGACC 57.410 37.500 0.00 0.00 0.00 4.46
334 339 5.855740 AATTTGTCCCCGTGTTAGAAAAA 57.144 34.783 0.00 0.00 0.00 1.94
339 344 3.150767 TCCAAATTTGTCCCCGTGTTAG 58.849 45.455 16.73 0.00 0.00 2.34
346 351 1.622811 TGTGCATCCAAATTTGTCCCC 59.377 47.619 16.73 3.78 0.00 4.81
349 354 4.558178 TCATGTGTGCATCCAAATTTGTC 58.442 39.130 16.73 4.17 31.99 3.18
355 360 1.203038 ACCCTCATGTGTGCATCCAAA 60.203 47.619 0.00 0.00 31.99 3.28
356 361 0.405198 ACCCTCATGTGTGCATCCAA 59.595 50.000 0.00 0.00 31.99 3.53
357 362 0.322726 CACCCTCATGTGTGCATCCA 60.323 55.000 0.00 0.00 31.99 3.41
378 383 4.643463 TGAAGGCGTTTATGGTGACTTTA 58.357 39.130 0.00 0.00 0.00 1.85
379 384 3.482436 TGAAGGCGTTTATGGTGACTTT 58.518 40.909 0.00 0.00 0.00 2.66
413 418 5.446473 GGTGATGTTCATTTACTGCGAAGAG 60.446 44.000 0.00 0.00 0.00 2.85
414 419 4.391830 GGTGATGTTCATTTACTGCGAAGA 59.608 41.667 0.00 0.00 0.00 2.87
419 428 5.627499 TTCTGGTGATGTTCATTTACTGC 57.373 39.130 0.00 0.00 0.00 4.40
427 436 9.567776 TTAATTTAGTCTTTCTGGTGATGTTCA 57.432 29.630 0.00 0.00 0.00 3.18
472 481 8.488668 GGGAAAGTCCTGTAGTTAATATTGGTA 58.511 37.037 0.00 0.00 36.57 3.25
514 523 2.358322 ACGGTTTGGTTCCTTGTGAT 57.642 45.000 0.00 0.00 0.00 3.06
532 541 6.598753 TTGAGCAGTGACTGTAGTTTAAAC 57.401 37.500 14.82 10.47 33.43 2.01
559 568 6.665474 TGCGAAGTGAGTGTAGTTTAAAAA 57.335 33.333 0.00 0.00 0.00 1.94
560 569 6.480651 TCATGCGAAGTGAGTGTAGTTTAAAA 59.519 34.615 0.00 0.00 0.00 1.52
561 570 5.986741 TCATGCGAAGTGAGTGTAGTTTAAA 59.013 36.000 0.00 0.00 0.00 1.52
562 571 5.534407 TCATGCGAAGTGAGTGTAGTTTAA 58.466 37.500 0.00 0.00 0.00 1.52
563 572 5.128992 TCATGCGAAGTGAGTGTAGTTTA 57.871 39.130 0.00 0.00 0.00 2.01
564 573 3.990092 TCATGCGAAGTGAGTGTAGTTT 58.010 40.909 0.00 0.00 0.00 2.66
565 574 3.660501 TCATGCGAAGTGAGTGTAGTT 57.339 42.857 0.00 0.00 0.00 2.24
566 575 3.660501 TTCATGCGAAGTGAGTGTAGT 57.339 42.857 0.00 0.00 0.00 2.73
567 576 5.106948 ACAAATTCATGCGAAGTGAGTGTAG 60.107 40.000 0.00 0.00 33.74 2.74
568 577 4.754618 ACAAATTCATGCGAAGTGAGTGTA 59.245 37.500 0.00 0.00 33.74 2.90
569 578 3.565482 ACAAATTCATGCGAAGTGAGTGT 59.435 39.130 0.00 0.00 33.74 3.55
570 579 4.151258 ACAAATTCATGCGAAGTGAGTG 57.849 40.909 0.00 0.00 33.74 3.51
571 580 3.814842 TGACAAATTCATGCGAAGTGAGT 59.185 39.130 0.00 0.00 33.74 3.41
572 581 4.408993 TGACAAATTCATGCGAAGTGAG 57.591 40.909 0.00 0.00 33.74 3.51
573 582 4.455190 TGATGACAAATTCATGCGAAGTGA 59.545 37.500 0.00 0.00 45.67 3.41
576 585 5.225899 TCTGATGACAAATTCATGCGAAG 57.774 39.130 0.00 0.00 45.67 3.79
592 601 2.989840 GTGTGTCGAGAACCTTCTGATG 59.010 50.000 0.00 0.00 37.73 3.07
593 602 2.351835 CGTGTGTCGAGAACCTTCTGAT 60.352 50.000 0.00 0.00 42.86 2.90
606 615 0.778815 GCTTTGTCTCTCGTGTGTCG 59.221 55.000 0.00 0.00 41.41 4.35
607 616 0.778815 CGCTTTGTCTCTCGTGTGTC 59.221 55.000 0.00 0.00 0.00 3.67
802 812 0.882927 TTTGGGAGCGGACGTTTCAG 60.883 55.000 0.00 0.00 0.00 3.02
1166 1177 1.305633 CTGAGGAGCTCCACCCTGA 60.306 63.158 33.90 11.40 38.89 3.86
1209 1220 3.589881 GAGTCGCCATGGCCATGC 61.590 66.667 36.08 28.60 37.49 4.06
1395 1408 3.196685 TGGACAGAAAAACAAAACCCCTG 59.803 43.478 0.00 0.00 0.00 4.45
1520 1544 4.530710 TGTATAGGTGCGACAGAACTTT 57.469 40.909 0.00 0.00 0.00 2.66
1564 1588 7.594758 TGTATTTCTTTGATTCTTTCTTTGCCG 59.405 33.333 0.00 0.00 0.00 5.69
1600 1624 4.963276 TCCAGTTAACAATGCATACTGC 57.037 40.909 17.51 0.00 45.29 4.40
1630 1654 9.393249 GAAAATCGATCAAAAACAAGATACACA 57.607 29.630 0.00 0.00 0.00 3.72
1678 1703 6.932356 TTTGAGATCAAAGATGAGGCATAC 57.068 37.500 3.91 0.00 40.55 2.39
1731 1758 9.278734 GTGCTTGAATATTTTTGAAGTACTAGC 57.721 33.333 0.00 0.00 0.00 3.42
1741 1797 4.090354 CACGGCAGTGCTTGAATATTTTTG 59.910 41.667 16.11 0.00 41.94 2.44
1839 1895 4.270008 ACAAGCTAAAAACGGATAGCCAT 58.730 39.130 0.00 0.00 44.42 4.40
1889 1945 0.179037 ATGCATGCCGATACTGTGCT 60.179 50.000 16.68 0.00 36.78 4.40
2065 2121 2.162681 AGCCAAACAGTAGCAATGGTC 58.837 47.619 0.00 0.00 33.63 4.02
2147 2206 6.622028 GCTCGGTTCGATCCTTTCATTAAAAA 60.622 38.462 10.71 0.00 34.61 1.94
2148 2207 5.163794 GCTCGGTTCGATCCTTTCATTAAAA 60.164 40.000 10.71 0.00 34.61 1.52
2149 2208 4.331717 GCTCGGTTCGATCCTTTCATTAAA 59.668 41.667 10.71 0.00 34.61 1.52
2150 2209 3.869246 GCTCGGTTCGATCCTTTCATTAA 59.131 43.478 10.71 0.00 34.61 1.40
2151 2210 3.454375 GCTCGGTTCGATCCTTTCATTA 58.546 45.455 10.71 0.00 34.61 1.90
2152 2211 2.280628 GCTCGGTTCGATCCTTTCATT 58.719 47.619 10.71 0.00 34.61 2.57
2153 2212 1.473434 GGCTCGGTTCGATCCTTTCAT 60.473 52.381 10.71 0.00 38.84 2.57
2154 2213 0.108329 GGCTCGGTTCGATCCTTTCA 60.108 55.000 10.71 0.00 38.84 2.69
2155 2214 0.810426 GGGCTCGGTTCGATCCTTTC 60.810 60.000 10.71 0.00 41.23 2.62
2156 2215 1.221021 GGGCTCGGTTCGATCCTTT 59.779 57.895 10.71 0.00 41.23 3.11
2157 2216 2.901042 GGGCTCGGTTCGATCCTT 59.099 61.111 10.71 0.00 41.23 3.36
2158 2217 3.528370 CGGGCTCGGTTCGATCCT 61.528 66.667 10.71 0.00 41.23 3.24
2159 2218 3.486252 CTCGGGCTCGGTTCGATCC 62.486 68.421 5.94 2.15 40.82 3.36
2160 2219 1.442526 TACTCGGGCTCGGTTCGATC 61.443 60.000 5.94 0.00 34.61 3.69
2161 2220 1.445716 CTACTCGGGCTCGGTTCGAT 61.446 60.000 5.94 0.00 34.61 3.59
2162 2221 2.046023 TACTCGGGCTCGGTTCGA 60.046 61.111 5.94 0.00 36.95 3.71
2163 2222 2.408022 CTACTCGGGCTCGGTTCG 59.592 66.667 5.94 0.00 36.95 3.95
2164 2223 2.806237 CCTACTCGGGCTCGGTTC 59.194 66.667 5.94 0.00 36.95 3.62
2175 2234 2.230266 GGATGAAGATCGAGCCCTACTC 59.770 54.545 0.00 0.00 42.47 2.59
2176 2235 2.243810 GGATGAAGATCGAGCCCTACT 58.756 52.381 0.00 0.00 0.00 2.57
2177 2236 1.068194 CGGATGAAGATCGAGCCCTAC 60.068 57.143 0.00 0.00 0.00 3.18
2178 2237 1.248486 CGGATGAAGATCGAGCCCTA 58.752 55.000 0.00 0.00 0.00 3.53
2179 2238 1.467678 CCGGATGAAGATCGAGCCCT 61.468 60.000 0.00 0.00 0.00 5.19
2180 2239 1.005630 CCGGATGAAGATCGAGCCC 60.006 63.158 0.00 0.00 0.00 5.19
2181 2240 1.666234 GCCGGATGAAGATCGAGCC 60.666 63.158 5.05 0.00 0.00 4.70
2182 2241 0.249657 AAGCCGGATGAAGATCGAGC 60.250 55.000 5.05 0.00 0.00 5.03
2183 2242 1.863454 CAAAGCCGGATGAAGATCGAG 59.137 52.381 5.05 0.00 0.00 4.04
2184 2243 1.480545 TCAAAGCCGGATGAAGATCGA 59.519 47.619 5.05 0.00 0.00 3.59
2185 2244 1.939974 TCAAAGCCGGATGAAGATCG 58.060 50.000 5.05 0.00 0.00 3.69
2186 2245 4.907879 AATTCAAAGCCGGATGAAGATC 57.092 40.909 18.52 0.00 38.80 2.75
2187 2246 5.652014 TGTTAATTCAAAGCCGGATGAAGAT 59.348 36.000 18.52 13.69 38.80 2.40
2188 2247 5.007034 TGTTAATTCAAAGCCGGATGAAGA 58.993 37.500 18.52 4.74 38.80 2.87
2189 2248 5.309323 TGTTAATTCAAAGCCGGATGAAG 57.691 39.130 18.52 2.57 38.80 3.02
2190 2249 5.713792 TTGTTAATTCAAAGCCGGATGAA 57.286 34.783 5.05 13.05 39.66 2.57
2191 2250 5.708948 CTTTGTTAATTCAAAGCCGGATGA 58.291 37.500 5.05 2.71 44.57 2.92
2200 2259 5.292101 CGGTTGTTGGCTTTGTTAATTCAAA 59.708 36.000 0.00 0.00 36.18 2.69
2201 2260 4.806247 CGGTTGTTGGCTTTGTTAATTCAA 59.194 37.500 0.00 0.00 0.00 2.69
2202 2261 4.363999 CGGTTGTTGGCTTTGTTAATTCA 58.636 39.130 0.00 0.00 0.00 2.57
2203 2262 3.738791 CCGGTTGTTGGCTTTGTTAATTC 59.261 43.478 0.00 0.00 0.00 2.17
2204 2263 3.723260 CCGGTTGTTGGCTTTGTTAATT 58.277 40.909 0.00 0.00 0.00 1.40
2205 2264 3.378911 CCGGTTGTTGGCTTTGTTAAT 57.621 42.857 0.00 0.00 0.00 1.40
2206 2265 2.873133 CCGGTTGTTGGCTTTGTTAA 57.127 45.000 0.00 0.00 0.00 2.01
2215 2274 1.201414 GTAATTCTGGCCGGTTGTTGG 59.799 52.381 12.43 0.00 0.00 3.77
2216 2275 1.883275 TGTAATTCTGGCCGGTTGTTG 59.117 47.619 12.43 0.00 0.00 3.33
2217 2276 2.279935 TGTAATTCTGGCCGGTTGTT 57.720 45.000 12.43 7.69 0.00 2.83


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

AutoCloner maintained by Alex Coulton.