Multiple sequence alignment - TraesCS5D01G525100

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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 TraesCS5D01G525100 chr5D 100.000 3168 0 0 1 3168 543692574 543695741 0.000000e+00 5851
1 TraesCS5D01G525100 chr6D 99.405 1008 3 2 936 1943 21298577 21299581 0.000000e+00 1825
2 TraesCS5D01G525100 chr6D 99.543 438 2 0 935 1372 21303357 21303794 0.000000e+00 798
3 TraesCS5D01G525100 chr6D 93.439 442 21 6 936 1370 3145974 3146414 0.000000e+00 649
4 TraesCS5D01G525100 chr6A 95.857 1038 10 3 936 1943 565338371 565337337 0.000000e+00 1648
5 TraesCS5D01G525100 chr6A 99.310 435 2 1 936 1370 565333560 565333127 0.000000e+00 785
6 TraesCS5D01G525100 chr5B 95.676 925 39 1 1932 2856 685642710 685643633 0.000000e+00 1485
7 TraesCS5D01G525100 chr5B 98.596 285 4 0 2884 3168 685643629 685643913 3.650000e-139 505
8 TraesCS5D01G525100 chr4A 86.407 949 101 21 1932 2866 625403278 625402344 0.000000e+00 1013
9 TraesCS5D01G525100 chr4A 90.355 591 28 9 370 936 625403940 625403355 0.000000e+00 749
10 TraesCS5D01G525100 chr4A 82.322 379 27 14 11 373 625404381 625404027 3.090000e-75 292
11 TraesCS5D01G525100 chr7D 99.540 435 2 0 936 1370 66824957 66824523 0.000000e+00 793
12 TraesCS5D01G525100 chr1A 98.789 413 5 0 936 1348 550790642 550790230 0.000000e+00 736
13 TraesCS5D01G525100 chr7A 96.867 415 5 2 936 1348 3596061 3595653 0.000000e+00 688
14 TraesCS5D01G525100 chr5A 84.389 442 57 9 936 1370 196309918 196309482 1.050000e-114 424
15 TraesCS5D01G525100 chr7B 90.909 55 5 0 3044 3098 619162756 619162702 1.220000e-09 75


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 TraesCS5D01G525100 chr5D 543692574 543695741 3167 False 5851.000000 5851 100.000000 1 3168 1 chr5D.!!$F1 3167
1 TraesCS5D01G525100 chr6D 21298577 21303794 5217 False 1311.500000 1825 99.474000 935 1943 2 chr6D.!!$F2 1008
2 TraesCS5D01G525100 chr6A 565333127 565338371 5244 True 1216.500000 1648 97.583500 936 1943 2 chr6A.!!$R1 1007
3 TraesCS5D01G525100 chr5B 685642710 685643913 1203 False 995.000000 1485 97.136000 1932 3168 2 chr5B.!!$F1 1236
4 TraesCS5D01G525100 chr4A 625402344 625404381 2037 True 684.666667 1013 86.361333 11 2866 3 chr4A.!!$R1 2855

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
128 130 0.108233 TGCATGACACTGCATCGCTA 60.108 50.0 0.00 0.00 46.76 4.26 F
579 702 0.248661 CGTCCTGATGATTCGTCGCT 60.249 55.0 1.59 0.00 0.00 4.93 F
839 962 1.228657 GGAGCAGACCGGTGTTCAAC 61.229 60.0 14.63 0.31 29.67 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1935 2097 1.542915 GCACTTCAATGGCTGTCACAT 59.457 47.619 0.0 0.0 0.0 3.21 R
2058 2549 2.093341 GGCATTTGTGAGGGATTGCATT 60.093 45.455 0.0 0.0 0.0 3.56 R
2522 5242 5.107760 CGTTGCCTCTTTTTCAATGTTCATG 60.108 40.000 0.0 0.0 0.0 3.07 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
81 83 5.373812 TCTGGGGAGGAAAGAACAATATC 57.626 43.478 0.00 0.00 0.00 1.63
85 87 6.318913 TGGGGAGGAAAGAACAATATCAAAA 58.681 36.000 0.00 0.00 0.00 2.44
105 107 8.394971 TCAAAAGACAATTTAGAAGATCAGCA 57.605 30.769 0.00 0.00 0.00 4.41
106 108 8.292448 TCAAAAGACAATTTAGAAGATCAGCAC 58.708 33.333 0.00 0.00 0.00 4.40
107 109 7.750229 AAAGACAATTTAGAAGATCAGCACA 57.250 32.000 0.00 0.00 0.00 4.57
108 110 7.750229 AAGACAATTTAGAAGATCAGCACAA 57.250 32.000 0.00 0.00 0.00 3.33
109 111 7.934855 AGACAATTTAGAAGATCAGCACAAT 57.065 32.000 0.00 0.00 0.00 2.71
110 112 7.759465 AGACAATTTAGAAGATCAGCACAATG 58.241 34.615 0.00 0.00 0.00 2.82
111 113 6.327934 ACAATTTAGAAGATCAGCACAATGC 58.672 36.000 0.00 0.00 45.46 3.56
121 123 2.733127 GCACAATGCATGACACTGC 58.267 52.632 0.00 0.00 44.26 4.40
126 128 3.180423 TGCATGACACTGCATCGC 58.820 55.556 0.00 0.00 46.76 4.58
127 129 1.376295 TGCATGACACTGCATCGCT 60.376 52.632 0.00 0.00 46.76 4.93
128 130 0.108233 TGCATGACACTGCATCGCTA 60.108 50.000 0.00 0.00 46.76 4.26
135 137 3.616821 TGACACTGCATCGCTACATAAAC 59.383 43.478 0.00 0.00 0.00 2.01
139 141 5.163550 ACACTGCATCGCTACATAAACTCTA 60.164 40.000 0.00 0.00 0.00 2.43
143 145 6.621613 TGCATCGCTACATAAACTCTATAGG 58.378 40.000 0.00 0.00 0.00 2.57
147 149 7.450124 TCGCTACATAAACTCTATAGGGAAG 57.550 40.000 6.63 0.00 33.43 3.46
154 156 5.816955 AAACTCTATAGGGAAGGCAGATC 57.183 43.478 6.63 0.00 0.00 2.75
155 157 3.785364 ACTCTATAGGGAAGGCAGATCC 58.215 50.000 6.63 0.00 36.16 3.36
214 216 4.884164 AGGAATTAATGCAGCCTACAGAAC 59.116 41.667 0.00 0.00 0.00 3.01
215 217 4.640201 GGAATTAATGCAGCCTACAGAACA 59.360 41.667 0.00 0.00 0.00 3.18
220 222 1.339055 TGCAGCCTACAGAACATGTCC 60.339 52.381 0.00 0.00 42.70 4.02
226 228 2.632377 CTACAGAACATGTCCGCCAAT 58.368 47.619 0.00 0.00 42.70 3.16
228 230 3.066291 ACAGAACATGTCCGCCAATAA 57.934 42.857 0.00 0.00 37.75 1.40
274 291 9.700831 AAGAAAATACTTAAGACTATGGCCAAT 57.299 29.630 10.96 0.00 0.00 3.16
286 303 0.825425 TGGCCAATCCACAAGCGAAA 60.825 50.000 0.61 0.00 40.72 3.46
320 337 8.802267 ACTATTTTATACAAAAGCATGGTGTGT 58.198 29.630 16.14 16.14 37.08 3.72
323 340 8.978564 TTTTATACAAAAGCATGGTGTGTATG 57.021 30.769 28.14 12.18 36.38 2.39
324 341 7.695480 TTATACAAAAGCATGGTGTGTATGT 57.305 32.000 28.14 16.16 36.38 2.29
325 342 8.794335 TTATACAAAAGCATGGTGTGTATGTA 57.206 30.769 28.14 17.39 36.38 2.29
326 343 7.695480 ATACAAAAGCATGGTGTGTATGTAA 57.305 32.000 23.52 8.13 34.83 2.41
386 493 1.195448 GTCTTCACACTGACATTGCCG 59.805 52.381 0.00 0.00 33.75 5.69
397 504 3.792401 TGACATTGCCGTAGAACCATAG 58.208 45.455 0.00 0.00 0.00 2.23
427 536 6.350027 GGGTGTGTACCTTCTTAGAGTTCTAC 60.350 46.154 0.00 0.00 46.66 2.59
428 537 6.313252 GTGTGTACCTTCTTAGAGTTCTACG 58.687 44.000 0.00 0.00 0.00 3.51
429 538 6.148480 GTGTGTACCTTCTTAGAGTTCTACGA 59.852 42.308 0.00 0.00 0.00 3.43
431 540 7.094890 TGTGTACCTTCTTAGAGTTCTACGAAG 60.095 40.741 20.25 20.25 46.14 3.79
562 685 7.683437 TCTTACATTCTCGATATATGACCGT 57.317 36.000 8.11 0.00 0.00 4.83
579 702 0.248661 CGTCCTGATGATTCGTCGCT 60.249 55.000 1.59 0.00 0.00 4.93
652 775 9.203421 CTGTACATATTTGACTTGACTGTAACA 57.797 33.333 0.00 0.00 0.00 2.41
703 826 3.196901 TGTACCCTCTGCATAACGACATT 59.803 43.478 0.00 0.00 0.00 2.71
734 857 6.403049 TGAAAGATCATGGAACTACGCTAAA 58.597 36.000 0.00 0.00 0.00 1.85
741 864 7.284919 TCATGGAACTACGCTAAAGATATGA 57.715 36.000 0.00 0.00 0.00 2.15
839 962 1.228657 GGAGCAGACCGGTGTTCAAC 61.229 60.000 14.63 0.31 29.67 3.18
902 1033 6.720288 ACTTTAGGCTTGAGTGTCTAGTAAGA 59.280 38.462 0.00 0.00 0.00 2.10
1591 1753 2.049156 CCGCAGCTGACGAAGACA 60.049 61.111 25.33 0.00 0.00 3.41
1935 2097 1.597854 CCAAGCTGCGGACACTTGA 60.598 57.895 14.32 0.00 42.71 3.02
2058 2549 0.687920 TGGCATTCCACGTGAAGGTA 59.312 50.000 19.30 0.00 37.10 3.08
2163 4880 8.343366 CAAGTAAGAGGTAAAAAGAAGTGGAAC 58.657 37.037 0.00 0.00 0.00 3.62
2169 4886 7.718314 AGAGGTAAAAAGAAGTGGAACGTAAAT 59.282 33.333 0.00 0.00 45.86 1.40
2197 4914 4.833380 GCTATCCTGAGTTGTCATACCCTA 59.167 45.833 0.00 0.00 30.18 3.53
2383 5100 2.408271 TGTGCTTGAGCCTCATAAGG 57.592 50.000 0.00 0.00 46.44 2.69
2409 5126 5.511386 ACCACTCTCTCAAATTGATCCTT 57.489 39.130 0.00 0.00 0.00 3.36
2522 5242 5.047802 TGGAAAATTCTGGAATCTGCACTTC 60.048 40.000 0.00 0.00 0.00 3.01
2617 5609 8.833231 TTTTCAGAGAAATTACTCGTGATCTT 57.167 30.769 0.00 0.00 41.25 2.40
2804 6425 6.590292 CGTGTGTATGTCAATTAAGGACTTCT 59.410 38.462 10.37 0.98 36.26 2.85
2805 6426 7.758076 CGTGTGTATGTCAATTAAGGACTTCTA 59.242 37.037 10.37 0.27 36.26 2.10
2833 6456 7.981225 ACAATTTTTCACCATGCATCCTATAAC 59.019 33.333 0.00 0.00 0.00 1.89
2848 6471 7.364232 GCATCCTATAACTATCCTATGTGTGCT 60.364 40.741 0.00 0.00 0.00 4.40
2851 6474 8.391699 TCCTATAACTATCCTATGTGTGCTAGT 58.608 37.037 0.00 0.00 0.00 2.57
2853 6476 9.847706 CTATAACTATCCTATGTGTGCTAGTTG 57.152 37.037 0.00 0.00 33.05 3.16
2854 6477 6.546428 AACTATCCTATGTGTGCTAGTTGT 57.454 37.500 0.00 0.00 30.49 3.32
2866 6489 8.487313 TGTGTGCTAGTTGTAAAATATAGTGG 57.513 34.615 0.00 0.00 0.00 4.00
2867 6490 8.315482 TGTGTGCTAGTTGTAAAATATAGTGGA 58.685 33.333 0.00 0.00 0.00 4.02
2868 6491 9.158233 GTGTGCTAGTTGTAAAATATAGTGGAA 57.842 33.333 0.00 0.00 0.00 3.53
2869 6492 9.378551 TGTGCTAGTTGTAAAATATAGTGGAAG 57.621 33.333 0.00 0.00 0.00 3.46
2870 6493 8.827677 GTGCTAGTTGTAAAATATAGTGGAAGG 58.172 37.037 0.00 0.00 0.00 3.46
2871 6494 7.497909 TGCTAGTTGTAAAATATAGTGGAAGGC 59.502 37.037 0.00 0.00 0.00 4.35
2872 6495 7.715686 GCTAGTTGTAAAATATAGTGGAAGGCT 59.284 37.037 0.00 0.00 0.00 4.58
2873 6496 9.614792 CTAGTTGTAAAATATAGTGGAAGGCTT 57.385 33.333 0.00 0.00 0.00 4.35
2875 6498 9.392259 AGTTGTAAAATATAGTGGAAGGCTTAC 57.608 33.333 1.37 1.37 0.00 2.34
2876 6499 9.169592 GTTGTAAAATATAGTGGAAGGCTTACA 57.830 33.333 8.42 8.42 0.00 2.41
2877 6500 9.742144 TTGTAAAATATAGTGGAAGGCTTACAA 57.258 29.630 15.08 6.51 35.49 2.41
2878 6501 9.742144 TGTAAAATATAGTGGAAGGCTTACAAA 57.258 29.630 15.08 5.95 0.00 2.83
2879 6502 9.999009 GTAAAATATAGTGGAAGGCTTACAAAC 57.001 33.333 15.08 2.46 0.00 2.93
2880 6503 8.644374 AAAATATAGTGGAAGGCTTACAAACA 57.356 30.769 15.08 2.38 0.00 2.83
2881 6504 8.823220 AAATATAGTGGAAGGCTTACAAACAT 57.177 30.769 15.08 9.99 0.00 2.71
2882 6505 8.451908 AATATAGTGGAAGGCTTACAAACATC 57.548 34.615 15.08 0.81 0.00 3.06
3028 6651 3.695830 TCGTTAATCAGAGGCCTTTGT 57.304 42.857 21.87 7.37 0.00 2.83
3140 6763 0.321298 TTGTAGCCGTTTCCTCCAGC 60.321 55.000 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 9.984190 TCACATTGTGTACATGTTAAGTAAGTA 57.016 29.630 16.06 0.00 34.79 2.24
7 8 8.896320 TCACATTGTGTACATGTTAAGTAAGT 57.104 30.769 16.06 0.00 34.79 2.24
8 9 9.594038 GTTCACATTGTGTACATGTTAAGTAAG 57.406 33.333 18.31 0.00 34.71 2.34
9 10 8.561212 GGTTCACATTGTGTACATGTTAAGTAA 58.439 33.333 22.75 2.64 35.94 2.24
81 83 8.077991 TGTGCTGATCTTCTAAATTGTCTTTTG 58.922 33.333 0.00 0.00 0.00 2.44
85 87 7.627939 GCATTGTGCTGATCTTCTAAATTGTCT 60.628 37.037 0.00 0.00 40.96 3.41
91 93 5.648960 TCATGCATTGTGCTGATCTTCTAAA 59.351 36.000 0.00 0.00 45.31 1.85
110 112 0.302890 GTAGCGATGCAGTGTCATGC 59.697 55.000 5.01 8.47 46.68 4.06
111 113 1.643880 TGTAGCGATGCAGTGTCATG 58.356 50.000 5.01 0.00 0.00 3.07
112 114 2.609427 ATGTAGCGATGCAGTGTCAT 57.391 45.000 0.00 0.44 0.00 3.06
113 115 3.518634 TTATGTAGCGATGCAGTGTCA 57.481 42.857 0.00 0.00 0.00 3.58
114 116 3.865745 AGTTTATGTAGCGATGCAGTGTC 59.134 43.478 0.00 0.00 0.00 3.67
115 117 3.861840 AGTTTATGTAGCGATGCAGTGT 58.138 40.909 0.00 0.00 0.00 3.55
116 118 4.115516 AGAGTTTATGTAGCGATGCAGTG 58.884 43.478 0.00 0.00 0.00 3.66
117 119 4.392921 AGAGTTTATGTAGCGATGCAGT 57.607 40.909 0.00 0.00 0.00 4.40
118 120 6.749578 CCTATAGAGTTTATGTAGCGATGCAG 59.250 42.308 0.00 0.00 0.00 4.41
119 121 6.350194 CCCTATAGAGTTTATGTAGCGATGCA 60.350 42.308 0.00 0.00 0.00 3.96
120 122 6.037098 CCCTATAGAGTTTATGTAGCGATGC 58.963 44.000 0.00 0.00 0.00 3.91
121 123 7.392494 TCCCTATAGAGTTTATGTAGCGATG 57.608 40.000 0.00 0.00 0.00 3.84
122 124 7.122948 CCTTCCCTATAGAGTTTATGTAGCGAT 59.877 40.741 0.00 0.00 0.00 4.58
123 125 6.433404 CCTTCCCTATAGAGTTTATGTAGCGA 59.567 42.308 0.00 0.00 0.00 4.93
124 126 6.622549 CCTTCCCTATAGAGTTTATGTAGCG 58.377 44.000 0.00 0.00 0.00 4.26
125 127 6.014499 TGCCTTCCCTATAGAGTTTATGTAGC 60.014 42.308 0.00 0.00 0.00 3.58
126 128 7.451877 TCTGCCTTCCCTATAGAGTTTATGTAG 59.548 40.741 0.00 0.00 0.00 2.74
127 129 7.302948 TCTGCCTTCCCTATAGAGTTTATGTA 58.697 38.462 0.00 0.00 0.00 2.29
128 130 6.143915 TCTGCCTTCCCTATAGAGTTTATGT 58.856 40.000 0.00 0.00 0.00 2.29
135 137 2.757868 CGGATCTGCCTTCCCTATAGAG 59.242 54.545 0.00 0.00 0.00 2.43
139 141 2.062070 GCGGATCTGCCTTCCCTAT 58.938 57.895 16.13 0.00 0.00 2.57
172 174 1.749634 CTTACAGGTAGCGCCAGTAGT 59.250 52.381 2.29 0.00 39.83 2.73
201 203 1.373570 GGACATGTTCTGTAGGCTGC 58.626 55.000 0.00 0.00 38.54 5.25
214 216 2.780065 CCATGTTATTGGCGGACATG 57.220 50.000 12.47 12.47 46.29 3.21
226 228 2.224426 ACAACTCCTTGTCGCCATGTTA 60.224 45.455 0.00 0.00 35.57 2.41
228 230 0.108585 ACAACTCCTTGTCGCCATGT 59.891 50.000 0.00 0.00 35.57 3.21
268 270 0.109132 CTTTCGCTTGTGGATTGGCC 60.109 55.000 0.00 0.00 37.10 5.36
269 271 0.733909 GCTTTCGCTTGTGGATTGGC 60.734 55.000 0.00 0.00 0.00 4.52
270 272 0.597568 TGCTTTCGCTTGTGGATTGG 59.402 50.000 0.00 0.00 36.97 3.16
274 291 1.317613 ACATTGCTTTCGCTTGTGGA 58.682 45.000 0.00 0.00 33.82 4.02
301 318 8.794335 TTACATACACACCATGCTTTTGTATA 57.206 30.769 6.99 0.00 32.77 1.47
311 328 6.426633 TGTCAGACTTTTACATACACACCATG 59.573 38.462 1.31 0.00 0.00 3.66
315 332 5.989777 ACCTGTCAGACTTTTACATACACAC 59.010 40.000 0.00 0.00 0.00 3.82
317 334 5.408604 CCACCTGTCAGACTTTTACATACAC 59.591 44.000 0.00 0.00 0.00 2.90
318 335 5.512404 CCCACCTGTCAGACTTTTACATACA 60.512 44.000 0.00 0.00 0.00 2.29
319 336 4.935808 CCCACCTGTCAGACTTTTACATAC 59.064 45.833 0.00 0.00 0.00 2.39
320 337 4.564821 GCCCACCTGTCAGACTTTTACATA 60.565 45.833 0.00 0.00 0.00 2.29
321 338 3.810743 GCCCACCTGTCAGACTTTTACAT 60.811 47.826 0.00 0.00 0.00 2.29
322 339 2.486548 GCCCACCTGTCAGACTTTTACA 60.487 50.000 0.00 0.00 0.00 2.41
323 340 2.152016 GCCCACCTGTCAGACTTTTAC 58.848 52.381 0.00 0.00 0.00 2.01
324 341 1.771854 TGCCCACCTGTCAGACTTTTA 59.228 47.619 0.00 0.00 0.00 1.52
325 342 0.550914 TGCCCACCTGTCAGACTTTT 59.449 50.000 0.00 0.00 0.00 2.27
326 343 0.179018 GTGCCCACCTGTCAGACTTT 60.179 55.000 0.00 0.00 0.00 2.66
358 375 3.764434 TGTCAGTGTGAAGACCCTATCTC 59.236 47.826 0.00 0.00 36.27 2.75
386 493 4.020485 ACACACCCTTCACTATGGTTCTAC 60.020 45.833 0.00 0.00 0.00 2.59
466 575 9.862585 CCGTTTGATTTTGAAATTAGGAAAAAG 57.137 29.630 0.00 0.00 0.00 2.27
467 576 8.338986 GCCGTTTGATTTTGAAATTAGGAAAAA 58.661 29.630 0.00 0.00 0.00 1.94
473 582 7.382218 ACTGAAGCCGTTTGATTTTGAAATTAG 59.618 33.333 0.00 0.00 0.00 1.73
537 660 8.282455 ACGGTCATATATCGAGAATGTAAGAT 57.718 34.615 0.00 0.00 0.00 2.40
550 673 5.974158 CGAATCATCAGGACGGTCATATATC 59.026 44.000 10.76 0.00 0.00 1.63
557 680 1.841450 GACGAATCATCAGGACGGTC 58.159 55.000 0.00 0.00 0.00 4.79
562 685 1.609072 CCTAGCGACGAATCATCAGGA 59.391 52.381 0.00 0.00 0.00 3.86
579 702 1.772308 ACCGGAGACAGGTGTCCTA 59.228 57.895 9.46 0.00 45.85 2.94
598 721 5.164954 GGTGTTCTGATAATAGAGATCGCC 58.835 45.833 0.00 0.00 33.57 5.54
652 775 0.991920 AGGTCATGGACACCGGAAAT 59.008 50.000 9.46 0.00 39.13 2.17
655 778 1.078528 AGAGGTCATGGACACCGGA 59.921 57.895 9.46 0.00 39.13 5.14
703 826 9.529325 CGTAGTTCCATGATCTTTCAGTAATAA 57.471 33.333 0.00 0.00 34.73 1.40
761 884 4.445305 CCTTATGGTGCTTCTCCATGATCA 60.445 45.833 0.00 0.00 44.26 2.92
763 886 3.181436 CCCTTATGGTGCTTCTCCATGAT 60.181 47.826 9.84 0.00 44.26 2.45
768 891 1.141858 CTCCCCTTATGGTGCTTCTCC 59.858 57.143 0.00 0.00 0.00 3.71
775 898 2.620627 GGAAACCACTCCCCTTATGGTG 60.621 54.545 0.00 0.00 46.18 4.17
839 962 2.941480 AGGATAAGCCAGGAAAGCATG 58.059 47.619 0.00 0.00 40.02 4.06
902 1033 3.785887 TGGAAGCACCTTATCCCTATGTT 59.214 43.478 1.91 0.00 39.86 2.71
1935 2097 1.542915 GCACTTCAATGGCTGTCACAT 59.457 47.619 0.00 0.00 0.00 3.21
2058 2549 2.093341 GGCATTTGTGAGGGATTGCATT 60.093 45.455 0.00 0.00 0.00 3.56
2163 4880 7.203910 ACAACTCAGGATAGCTCTTATTTACG 58.796 38.462 0.00 0.00 0.00 3.18
2169 4886 6.265649 GGTATGACAACTCAGGATAGCTCTTA 59.734 42.308 0.00 0.00 0.00 2.10
2383 5100 6.881602 AGGATCAATTTGAGAGAGTGGTAAAC 59.118 38.462 5.21 0.00 0.00 2.01
2431 5148 6.112058 GGAAGTGATAGCTGTGAAGAGATTT 58.888 40.000 0.00 0.00 0.00 2.17
2522 5242 5.107760 CGTTGCCTCTTTTTCAATGTTCATG 60.108 40.000 0.00 0.00 0.00 3.07
2617 5609 9.541143 GGAAAATGTCATTAAAAGAGTTGGAAA 57.459 29.630 0.00 0.00 0.00 3.13
2804 6425 7.658525 AGGATGCATGGTGAAAAATTGTATA 57.341 32.000 2.46 0.00 0.00 1.47
2805 6426 6.549433 AGGATGCATGGTGAAAAATTGTAT 57.451 33.333 2.46 0.00 0.00 2.29
2833 6456 8.942338 TTTTACAACTAGCACACATAGGATAG 57.058 34.615 0.00 0.00 0.00 2.08
2851 6474 9.742144 TTGTAAGCCTTCCACTATATTTTACAA 57.258 29.630 0.00 0.00 36.62 2.41
2853 6476 9.999009 GTTTGTAAGCCTTCCACTATATTTTAC 57.001 33.333 0.00 0.00 0.00 2.01
2854 6477 9.742144 TGTTTGTAAGCCTTCCACTATATTTTA 57.258 29.630 0.00 0.00 0.00 1.52
2861 6484 5.499004 AGATGTTTGTAAGCCTTCCACTA 57.501 39.130 0.00 0.00 0.00 2.74
2866 6489 5.705905 AGGTACAAGATGTTTGTAAGCCTTC 59.294 40.000 0.00 0.00 36.74 3.46
2867 6490 5.631119 AGGTACAAGATGTTTGTAAGCCTT 58.369 37.500 0.00 0.00 36.74 4.35
2868 6491 5.242795 AGGTACAAGATGTTTGTAAGCCT 57.757 39.130 0.00 3.20 36.74 4.58
2869 6492 7.443259 TTTAGGTACAAGATGTTTGTAAGCC 57.557 36.000 0.00 1.19 36.74 4.35
2870 6493 7.021790 GCTTTAGGTACAAGATGTTTGTAAGC 58.978 38.462 8.04 8.04 36.74 3.09
2871 6494 8.324163 AGCTTTAGGTACAAGATGTTTGTAAG 57.676 34.615 0.00 0.00 36.74 2.34
2872 6495 8.685838 AAGCTTTAGGTACAAGATGTTTGTAA 57.314 30.769 0.00 0.00 36.74 2.41
2873 6496 8.685838 AAAGCTTTAGGTACAAGATGTTTGTA 57.314 30.769 10.72 0.00 34.11 2.41
2874 6497 7.582667 AAAGCTTTAGGTACAAGATGTTTGT 57.417 32.000 10.72 0.00 36.49 2.83
2877 6500 9.297037 ACATAAAAGCTTTAGGTACAAGATGTT 57.703 29.630 13.10 0.00 0.00 2.71
2878 6501 8.863872 ACATAAAAGCTTTAGGTACAAGATGT 57.136 30.769 13.10 8.08 0.00 3.06
2880 6503 9.953565 TGTACATAAAAGCTTTAGGTACAAGAT 57.046 29.630 29.23 11.20 44.14 2.40
3009 6632 3.502211 ACAACAAAGGCCTCTGATTAACG 59.498 43.478 14.57 0.00 0.00 3.18
3028 6651 1.411612 TGCATGCACAATGACCAACAA 59.588 42.857 18.46 0.00 38.72 2.83
3140 6763 6.662616 CACTCTCTTTGAAGGTACACAAATG 58.337 40.000 10.75 8.31 36.65 2.32


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

AutoCloner maintained by Alex Coulton.