Multiple sequence alignment - TraesCS5B01G243900

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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 TraesCS5B01G243900 chr5B 100.000 2234 0 0 1 2234 425379254 425381487 0.000000e+00 4126.0
1 TraesCS5B01G243900 chr5B 100.000 1482 0 0 2595 4076 425381848 425383329 0.000000e+00 2737.0
2 TraesCS5B01G243900 chr5B 89.856 1735 91 47 538 2228 425612564 425610871 0.000000e+00 2150.0
3 TraesCS5B01G243900 chr5B 90.274 658 40 13 2685 3328 425610631 425609984 0.000000e+00 839.0
4 TraesCS5B01G243900 chr5B 79.522 586 43 27 1 534 425614190 425613630 3.020000e-91 346.0
5 TraesCS5B01G243900 chr5B 88.535 157 12 1 3373 3523 425609978 425609822 6.960000e-43 185.0
6 TraesCS5B01G243900 chr5B 95.000 80 4 0 2595 2674 425610874 425610795 4.280000e-25 126.0
7 TraesCS5B01G243900 chr5D 84.654 2372 154 103 1 2229 360371719 360369415 0.000000e+00 2170.0
8 TraesCS5B01G243900 chr5D 92.034 1406 59 25 2671 4050 360050010 360051388 0.000000e+00 1927.0
9 TraesCS5B01G243900 chr5D 86.333 1800 122 51 1 1710 360047660 360049425 0.000000e+00 1847.0
10 TraesCS5B01G243900 chr5D 90.691 752 52 9 2597 3338 360369416 360368673 0.000000e+00 985.0
11 TraesCS5B01G243900 chr5D 94.380 516 21 4 1715 2230 360049465 360049972 0.000000e+00 785.0
12 TraesCS5B01G243900 chr5D 85.507 138 16 1 3386 3523 360368673 360368540 1.530000e-29 141.0
13 TraesCS5B01G243900 chr5A 91.035 1517 77 25 2595 4076 461008803 461010295 0.000000e+00 1993.0
14 TraesCS5B01G243900 chr5A 85.483 2039 150 79 242 2231 461006865 461008806 0.000000e+00 1991.0
15 TraesCS5B01G243900 chr5A 88.532 872 50 34 845 1692 461232003 461231158 0.000000e+00 1011.0
16 TraesCS5B01G243900 chr5A 89.272 522 35 8 2701 3208 461230035 461229521 5.750000e-178 634.0
17 TraesCS5B01G243900 chr5A 90.063 473 18 15 1769 2230 461231158 461230704 1.630000e-163 586.0
18 TraesCS5B01G243900 chr5A 79.953 843 76 33 7 808 461233102 461232312 6.000000e-148 534.0
19 TraesCS5B01G243900 chr5A 94.068 118 6 1 2595 2711 461230707 461230590 1.160000e-40 178.0
20 TraesCS5B01G243900 chr5A 91.304 46 4 0 3293 3338 461229507 461229462 3.400000e-06 63.9
21 TraesCS5B01G243900 chrUn 100.000 402 0 0 1576 1977 478540350 478539949 0.000000e+00 743.0


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 TraesCS5B01G243900 chr5B 425379254 425383329 4075 False 3431.500000 4126 100.000000 1 4076 2 chr5B.!!$F1 4075
1 TraesCS5B01G243900 chr5B 425609822 425614190 4368 True 729.200000 2150 88.637400 1 3523 5 chr5B.!!$R1 3522
2 TraesCS5B01G243900 chr5D 360047660 360051388 3728 False 1519.666667 1927 90.915667 1 4050 3 chr5D.!!$F1 4049
3 TraesCS5B01G243900 chr5D 360368540 360371719 3179 True 1098.666667 2170 86.950667 1 3523 3 chr5D.!!$R1 3522
4 TraesCS5B01G243900 chr5A 461006865 461010295 3430 False 1992.000000 1993 88.259000 242 4076 2 chr5A.!!$F1 3834
5 TraesCS5B01G243900 chr5A 461229462 461233102 3640 True 501.150000 1011 88.865333 7 3338 6 chr5A.!!$R1 3331

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
444 509 0.105593 CCCCTCATGATCTCACACCG 59.894 60.0 0.00 0.0 0.00 4.94 F
1227 2710 0.029681 ACATGCCCAGGGAGGACTAT 60.030 55.0 10.89 0.0 41.22 2.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1335 2839 0.394488 AATCAGAGGCGAGACGGAGA 60.394 55.0 0.0 0.0 0.00 3.71 R
3184 5536 0.110486 ATTTGACTTGCCCACCGAGT 59.890 50.0 0.0 0.0 40.99 4.18 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
102 104 0.539438 TAGCAAACACCCAGGCTTGG 60.539 55.000 8.15 8.15 44.60 3.61
137 144 3.947612 AGGATTTGCCATGATCAGAGT 57.052 42.857 0.09 0.00 40.02 3.24
143 150 3.548745 TGCCATGATCAGAGTCGAAAT 57.451 42.857 0.09 0.00 0.00 2.17
191 222 5.594926 GGAAAATTGCCATTCATTCGATCT 58.405 37.500 0.00 0.00 0.00 2.75
228 267 2.091541 TGCCTTGAGCCCTAAAAATCG 58.908 47.619 0.00 0.00 42.71 3.34
229 268 2.092323 GCCTTGAGCCCTAAAAATCGT 58.908 47.619 0.00 0.00 34.35 3.73
231 270 3.692593 GCCTTGAGCCCTAAAAATCGTAA 59.307 43.478 0.00 0.00 34.35 3.18
322 380 2.681848 CTCCACAGAAGAACCATCATGC 59.318 50.000 0.00 0.00 0.00 4.06
352 410 0.445043 GTTGTCATCCGTTAACGCCC 59.555 55.000 22.43 7.86 38.18 6.13
359 417 0.538118 TCCGTTAACGCCCTGCTTAT 59.462 50.000 22.43 0.00 38.18 1.73
361 419 1.647346 CGTTAACGCCCTGCTTATCA 58.353 50.000 16.05 0.00 0.00 2.15
362 420 2.210116 CGTTAACGCCCTGCTTATCAT 58.790 47.619 16.05 0.00 0.00 2.45
363 421 2.612212 CGTTAACGCCCTGCTTATCATT 59.388 45.455 16.05 0.00 0.00 2.57
364 422 3.303132 CGTTAACGCCCTGCTTATCATTC 60.303 47.826 16.05 0.00 0.00 2.67
365 423 1.299541 AACGCCCTGCTTATCATTCG 58.700 50.000 0.00 0.00 0.00 3.34
399 463 0.454452 TCATTGTCGCTCTCGTCACG 60.454 55.000 0.00 0.00 33.84 4.35
421 486 4.348656 GTGTGTCCGTTTCTTTCCTTTTC 58.651 43.478 0.00 0.00 0.00 2.29
433 498 5.570320 TCTTTCCTTTTCTTACCCCTCATG 58.430 41.667 0.00 0.00 0.00 3.07
438 503 5.131142 TCCTTTTCTTACCCCTCATGATCTC 59.869 44.000 0.00 0.00 0.00 2.75
439 504 5.104360 CCTTTTCTTACCCCTCATGATCTCA 60.104 44.000 0.00 0.00 0.00 3.27
440 505 5.359194 TTTCTTACCCCTCATGATCTCAC 57.641 43.478 0.00 0.00 0.00 3.51
441 506 3.994317 TCTTACCCCTCATGATCTCACA 58.006 45.455 0.00 0.00 0.00 3.58
442 507 3.706594 TCTTACCCCTCATGATCTCACAC 59.293 47.826 0.00 0.00 0.00 3.82
443 508 1.207791 ACCCCTCATGATCTCACACC 58.792 55.000 0.00 0.00 0.00 4.16
444 509 0.105593 CCCCTCATGATCTCACACCG 59.894 60.000 0.00 0.00 0.00 4.94
445 510 0.826715 CCCTCATGATCTCACACCGT 59.173 55.000 0.00 0.00 0.00 4.83
446 511 1.202463 CCCTCATGATCTCACACCGTC 60.202 57.143 0.00 0.00 0.00 4.79
447 512 1.753649 CCTCATGATCTCACACCGTCT 59.246 52.381 0.00 0.00 0.00 4.18
461 526 2.094894 CACCGTCTTCTGCAATCATCAC 59.905 50.000 0.00 0.00 0.00 3.06
474 539 5.870433 TGCAATCATCACATTTCATTTCACC 59.130 36.000 0.00 0.00 0.00 4.02
500 565 2.609825 CACCGGCAGTGCATATCTC 58.390 57.895 18.61 0.00 40.28 2.75
513 586 4.738740 GTGCATATCTCTTTTACGCGTACT 59.261 41.667 20.44 0.00 0.00 2.73
521 594 1.705256 TTTACGCGTACTTGCCAGAG 58.295 50.000 20.44 0.00 0.00 3.35
526 599 1.630244 GCGTACTTGCCAGAGTGCAG 61.630 60.000 0.00 0.00 43.21 4.41
541 1680 3.016736 AGTGCAGCGGTAAAAGCAATAT 58.983 40.909 0.00 0.00 38.91 1.28
542 1681 4.196193 AGTGCAGCGGTAAAAGCAATATA 58.804 39.130 0.00 0.00 38.91 0.86
543 1682 4.273480 AGTGCAGCGGTAAAAGCAATATAG 59.727 41.667 0.00 0.00 38.91 1.31
549 1690 8.665685 GCAGCGGTAAAAGCAATATAGTAATAT 58.334 33.333 0.00 0.00 37.01 1.28
572 1713 9.877178 ATATGAAAGAAACACGATAGAAGAACT 57.123 29.630 0.00 0.00 41.38 3.01
599 1743 6.703607 AGAGACATAAGTAATGCAGGAATTCG 59.296 38.462 0.00 0.00 39.39 3.34
608 1752 1.911293 GCAGGAATTCGCTCACGCAA 61.911 55.000 0.00 0.00 39.84 4.85
611 1755 1.069227 AGGAATTCGCTCACGCAAAAC 60.069 47.619 0.00 0.00 39.84 2.43
693 1840 3.219281 TCGGAAAGAAAAGGGGTTCAAG 58.781 45.455 0.00 0.00 0.00 3.02
778 1925 1.359459 CGTCTTTACCTCTTGCCCGC 61.359 60.000 0.00 0.00 0.00 6.13
870 2298 0.556380 TCCCCTCCTCTTCCTCCTCT 60.556 60.000 0.00 0.00 0.00 3.69
968 2421 1.299165 ATCTGCGCCGTGTATCGTC 60.299 57.895 4.18 0.00 37.94 4.20
977 2434 2.095869 GCCGTGTATCGTCGTATCATCT 60.096 50.000 0.00 0.00 37.94 2.90
978 2435 3.124128 GCCGTGTATCGTCGTATCATCTA 59.876 47.826 0.00 0.00 37.94 1.98
979 2436 4.635982 CCGTGTATCGTCGTATCATCTAC 58.364 47.826 0.00 0.00 37.94 2.59
1010 2478 3.467226 GAGACCGATGGCCCCGAA 61.467 66.667 15.18 0.00 0.00 4.30
1152 2635 4.719369 GACGAGTTCGCAGCGGGT 62.719 66.667 16.42 5.54 44.43 5.28
1227 2710 0.029681 ACATGCCCAGGGAGGACTAT 60.030 55.000 10.89 0.00 41.22 2.12
1332 2836 0.450583 TAATCGACGCGAGCTGTCTT 59.549 50.000 15.93 0.00 39.91 3.01
1333 2837 1.073216 AATCGACGCGAGCTGTCTTG 61.073 55.000 15.93 0.00 39.91 3.02
1334 2838 3.832171 CGACGCGAGCTGTCTTGC 61.832 66.667 15.93 0.00 44.54 4.01
1335 2839 2.431601 GACGCGAGCTGTCTTGCT 60.432 61.111 15.93 0.00 45.56 3.91
1382 2894 2.930012 TTCGCGTCGATCCGGTGATG 62.930 60.000 5.77 5.15 35.23 3.07
1383 2895 2.411701 GCGTCGATCCGGTGATGA 59.588 61.111 14.58 1.80 0.00 2.92
1384 2896 1.007271 GCGTCGATCCGGTGATGAT 60.007 57.895 14.58 0.00 0.00 2.45
1386 2898 1.335597 GCGTCGATCCGGTGATGATTA 60.336 52.381 14.58 0.00 0.00 1.75
2069 3678 1.200020 GGAAAAATCTCACGCTGTGGG 59.800 52.381 8.46 5.68 34.95 4.61
2162 3771 2.852075 TGGCCGGGGAAGAACACT 60.852 61.111 2.18 0.00 0.00 3.55
2187 3796 3.755628 CAAGGCGGCTTGCTGCAT 61.756 61.111 34.71 17.40 45.43 3.96
2650 4259 0.955905 GCGTGGTTCTTGGCCTTTTA 59.044 50.000 3.32 0.00 0.00 1.52
2658 4267 0.804989 CTTGGCCTTTTAGACCTGCG 59.195 55.000 3.32 0.00 0.00 5.18
2713 5040 1.077805 TCGCCCCTGTTCCTGTAGA 59.922 57.895 0.00 0.00 0.00 2.59
2725 5053 0.374758 CCTGTAGACGCGCGTACTTA 59.625 55.000 37.91 24.35 0.00 2.24
2728 5056 1.303676 GTAGACGCGCGTACTTATCG 58.696 55.000 37.91 2.95 0.00 2.92
2836 5169 0.248377 GAGTTGCCATGAAGCGATGC 60.248 55.000 0.00 0.00 34.65 3.91
2904 5237 3.541713 GGCAGAGCCTACTCCCCG 61.542 72.222 0.00 0.00 46.69 5.73
2949 5282 3.017581 GGGGTGCTGGACCTGGAT 61.018 66.667 18.16 0.00 45.33 3.41
2961 5294 2.746375 CCTGGATGCCGGCTACCTT 61.746 63.158 30.94 13.29 0.00 3.50
3009 5348 1.078497 GACCACCATGCCATCGTCA 60.078 57.895 0.00 0.00 0.00 4.35
3012 5354 1.078214 CACCATGCCATCGTCACCT 60.078 57.895 0.00 0.00 0.00 4.00
3014 5356 1.267574 ACCATGCCATCGTCACCTCT 61.268 55.000 0.00 0.00 0.00 3.69
3107 5458 3.433031 GGACGATGATATGTTCCAACCCA 60.433 47.826 0.00 0.00 0.00 4.51
3180 5532 2.667536 GCGCGCCCATCATCATCT 60.668 61.111 23.24 0.00 0.00 2.90
3184 5536 1.337167 CGCGCCCATCATCATCTCTAA 60.337 52.381 0.00 0.00 0.00 2.10
3297 5658 1.806542 GCGTTGTGGACATGACAAGAT 59.193 47.619 0.00 0.00 34.02 2.40
3363 5725 7.067737 GGCTCTGAAGTCTGAATTACTACTACT 59.932 40.741 0.00 0.00 0.00 2.57
3523 5891 6.166279 CACTGATTGTCCTAGCTCTGTTTTA 58.834 40.000 0.00 0.00 0.00 1.52
3564 5932 4.469657 TGCACTGTTCTGTAATTTTCCCT 58.530 39.130 0.00 0.00 0.00 4.20
3565 5933 5.626142 TGCACTGTTCTGTAATTTTCCCTA 58.374 37.500 0.00 0.00 0.00 3.53
3582 5951 5.441709 TCCCTAATTTCCGTTGTGAAAAC 57.558 39.130 0.00 0.00 37.74 2.43
3618 5993 5.700373 TGAGATAAGCAAACAAATTTTGGCC 59.300 36.000 13.42 0.00 34.12 5.36
3756 6134 6.431234 GGGGTTATGAACTATCAACATCATCC 59.569 42.308 0.00 0.00 39.49 3.51
3758 6136 7.041098 GGGTTATGAACTATCAACATCATCCAC 60.041 40.741 0.00 0.00 39.49 4.02
3879 6262 0.959553 GGAGACACTGTCTGGACGAA 59.040 55.000 16.69 0.00 43.53 3.85
3911 6294 4.114794 CACAAGCATAAAAATAGGGCTGC 58.885 43.478 0.00 0.00 34.56 5.25
4026 6413 5.809562 TCGCCAAATTGCAGTTATAAAATGG 59.190 36.000 0.00 0.00 0.00 3.16
4031 6418 3.773860 TGCAGTTATAAAATGGGTGCG 57.226 42.857 0.00 0.00 31.99 5.34
4043 6430 0.760567 TGGGTGCGGCTAGATCTCAT 60.761 55.000 0.00 0.00 0.00 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
47 49 6.463360 TCTCTTTTTGCAGAAACAACCTTTT 58.537 32.000 0.00 0.00 0.00 2.27
48 50 6.036577 TCTCTTTTTGCAGAAACAACCTTT 57.963 33.333 0.00 0.00 0.00 3.11
84 86 1.833934 CCAAGCCTGGGTGTTTGCT 60.834 57.895 0.00 0.00 39.30 3.91
102 104 3.874392 AATCCTACAAAGTTGGCATGC 57.126 42.857 9.90 9.90 0.00 4.06
167 177 3.768406 TCGAATGAATGGCAATTTTCCG 58.232 40.909 0.00 0.00 0.00 4.30
181 212 2.297315 CCCTCGGATCAAGATCGAATGA 59.703 50.000 4.14 0.00 38.69 2.57
191 222 1.967319 GCAAATAGCCCTCGGATCAA 58.033 50.000 0.00 0.00 37.23 2.57
213 252 6.540914 CCAATACTTACGATTTTTAGGGCTCA 59.459 38.462 0.00 0.00 0.00 4.26
228 267 8.809066 AGTTTATTTTTGGACCCCAATACTTAC 58.191 33.333 0.00 0.00 43.55 2.34
229 268 8.959676 AGTTTATTTTTGGACCCCAATACTTA 57.040 30.769 0.00 0.00 43.55 2.24
231 270 8.809066 GTTAGTTTATTTTTGGACCCCAATACT 58.191 33.333 0.00 0.00 43.55 2.12
281 339 3.629087 AGGGGATCTTCAGCAAAATCTG 58.371 45.455 0.00 0.00 35.46 2.90
283 341 2.954989 GGAGGGGATCTTCAGCAAAATC 59.045 50.000 0.00 0.00 0.00 2.17
295 353 1.210722 GGTTCTTCTGTGGAGGGGATC 59.789 57.143 0.00 0.00 0.00 3.36
322 380 8.540492 GTTAACGGATGACAACTAACATATGAG 58.460 37.037 10.38 0.00 0.00 2.90
352 410 3.374988 TGCCTTTGTCGAATGATAAGCAG 59.625 43.478 0.00 0.00 0.00 4.24
359 417 1.879380 CACCTTGCCTTTGTCGAATGA 59.121 47.619 0.00 0.00 0.00 2.57
361 419 1.880027 GACACCTTGCCTTTGTCGAAT 59.120 47.619 0.00 0.00 30.95 3.34
362 420 1.305201 GACACCTTGCCTTTGTCGAA 58.695 50.000 0.00 0.00 30.95 3.71
363 421 0.179234 TGACACCTTGCCTTTGTCGA 59.821 50.000 0.00 0.00 42.20 4.20
364 422 1.238439 ATGACACCTTGCCTTTGTCG 58.762 50.000 0.00 0.00 42.20 4.35
365 423 2.362077 ACAATGACACCTTGCCTTTGTC 59.638 45.455 0.00 0.00 40.14 3.18
399 463 4.095932 AGAAAAGGAAAGAAACGGACACAC 59.904 41.667 0.00 0.00 0.00 3.82
421 486 3.181461 GGTGTGAGATCATGAGGGGTAAG 60.181 52.174 0.09 0.00 0.00 2.34
433 498 1.067565 TGCAGAAGACGGTGTGAGATC 60.068 52.381 0.00 0.00 0.00 2.75
438 503 1.511850 TGATTGCAGAAGACGGTGTG 58.488 50.000 0.00 0.00 0.00 3.82
439 504 2.289631 TGATGATTGCAGAAGACGGTGT 60.290 45.455 0.00 0.00 0.00 4.16
440 505 2.094894 GTGATGATTGCAGAAGACGGTG 59.905 50.000 0.00 0.00 0.00 4.94
441 506 2.289631 TGTGATGATTGCAGAAGACGGT 60.290 45.455 0.00 0.00 0.00 4.83
442 507 2.349590 TGTGATGATTGCAGAAGACGG 58.650 47.619 0.00 0.00 0.00 4.79
443 508 4.611310 AATGTGATGATTGCAGAAGACG 57.389 40.909 0.00 0.00 0.00 4.18
444 509 5.946298 TGAAATGTGATGATTGCAGAAGAC 58.054 37.500 0.00 0.00 0.00 3.01
445 510 6.769134 ATGAAATGTGATGATTGCAGAAGA 57.231 33.333 0.00 0.00 0.00 2.87
446 511 7.544217 TGAAATGAAATGTGATGATTGCAGAAG 59.456 33.333 0.00 0.00 0.00 2.85
447 512 7.329962 GTGAAATGAAATGTGATGATTGCAGAA 59.670 33.333 0.00 0.00 0.00 3.02
461 526 5.409214 GGTGTGAAATGGGTGAAATGAAATG 59.591 40.000 0.00 0.00 0.00 2.32
474 539 1.580942 CACTGCCGGTGTGAAATGG 59.419 57.895 20.14 0.00 40.79 3.16
492 557 5.657499 CAAGTACGCGTAAAAGAGATATGC 58.343 41.667 22.44 3.67 33.02 3.14
493 558 5.332355 GGCAAGTACGCGTAAAAGAGATATG 60.332 44.000 22.44 10.11 0.00 1.78
494 559 4.743644 GGCAAGTACGCGTAAAAGAGATAT 59.256 41.667 22.44 0.00 0.00 1.63
495 560 4.107622 GGCAAGTACGCGTAAAAGAGATA 58.892 43.478 22.44 0.00 0.00 1.98
496 561 2.928116 GGCAAGTACGCGTAAAAGAGAT 59.072 45.455 22.44 0.00 0.00 2.75
497 562 2.288334 TGGCAAGTACGCGTAAAAGAGA 60.288 45.455 22.44 1.16 0.00 3.10
498 563 2.063266 TGGCAAGTACGCGTAAAAGAG 58.937 47.619 22.44 10.46 0.00 2.85
500 565 2.063266 TCTGGCAAGTACGCGTAAAAG 58.937 47.619 22.44 14.06 0.00 2.27
513 586 2.390306 TTACCGCTGCACTCTGGCAA 62.390 55.000 0.00 0.00 44.40 4.52
521 594 2.911819 TATTGCTTTTACCGCTGCAC 57.088 45.000 0.00 0.00 35.01 4.57
549 1690 7.207383 TGAGTTCTTCTATCGTGTTTCTTTCA 58.793 34.615 0.00 0.00 0.00 2.69
565 1706 7.761704 TGCATTACTTATGTCTCTGAGTTCTTC 59.238 37.037 4.32 0.00 36.57 2.87
571 1712 6.154203 TCCTGCATTACTTATGTCTCTGAG 57.846 41.667 0.00 0.00 36.57 3.35
572 1713 6.544928 TTCCTGCATTACTTATGTCTCTGA 57.455 37.500 0.00 0.00 36.57 3.27
778 1925 1.852626 AAGGGAGGGAGGGGTGTTG 60.853 63.158 0.00 0.00 0.00 3.33
870 2298 2.836154 GGGTGAGGTGTGGAAGCA 59.164 61.111 0.00 0.00 0.00 3.91
946 2399 2.978452 GATACACGGCGCAGATGGCT 62.978 60.000 16.26 0.98 41.67 4.75
968 2421 5.314529 TCCTTCCTGGTAGTAGATGATACG 58.685 45.833 0.00 0.00 37.07 3.06
977 2434 3.624205 CGGTCTCTTCCTTCCTGGTAGTA 60.624 52.174 0.00 0.00 35.11 1.82
978 2435 2.822697 GGTCTCTTCCTTCCTGGTAGT 58.177 52.381 0.00 0.00 35.11 2.73
979 2436 1.751924 CGGTCTCTTCCTTCCTGGTAG 59.248 57.143 0.00 0.00 37.07 3.18
1010 2478 2.442272 AGGCGGCCATCTCGTAGT 60.442 61.111 23.09 0.00 0.00 2.73
1109 2583 2.885861 CGCAGTACGGAGAGCCTT 59.114 61.111 0.00 0.00 38.44 4.35
1136 2619 3.802418 AAACCCGCTGCGAACTCGT 62.802 57.895 25.45 8.15 42.22 4.18
1139 2622 2.668550 GGAAACCCGCTGCGAACT 60.669 61.111 25.45 4.51 0.00 3.01
1332 2836 3.134792 GAGGCGAGACGGAGAGCA 61.135 66.667 0.00 0.00 0.00 4.26
1333 2837 2.826738 AGAGGCGAGACGGAGAGC 60.827 66.667 0.00 0.00 0.00 4.09
1334 2838 0.817634 ATCAGAGGCGAGACGGAGAG 60.818 60.000 0.00 0.00 0.00 3.20
1335 2839 0.394488 AATCAGAGGCGAGACGGAGA 60.394 55.000 0.00 0.00 0.00 3.71
1376 2888 4.389374 ACACCGATGGATTAATCATCACC 58.611 43.478 17.07 0.60 40.58 4.02
1452 2971 2.000447 GAAGCGGTCCATGTAGTTGAC 59.000 52.381 0.00 0.00 0.00 3.18
2069 3678 3.027170 CTGCCATGCGTGAACCGAC 62.027 63.158 7.72 0.00 39.56 4.79
2187 3796 2.941064 CGTCTCACCTTATCTACGTGGA 59.059 50.000 3.36 3.36 0.00 4.02
2713 5040 0.315706 GTCTCGATAAGTACGCGCGT 60.316 55.000 39.05 39.05 0.00 6.01
2725 5053 0.977627 TCCCTGCATGGTGTCTCGAT 60.978 55.000 7.98 0.00 0.00 3.59
2728 5056 1.021390 CGTTCCCTGCATGGTGTCTC 61.021 60.000 7.98 0.00 0.00 3.36
2812 5145 0.599558 GCTTCATGGCAACTCAGCAA 59.400 50.000 0.00 0.00 35.83 3.91
2961 5294 1.020861 CGCCATCACTTGTGCAGCTA 61.021 55.000 0.00 0.00 0.00 3.32
3137 5488 6.814146 ACAGAAGAGACCTTTAATCAATCGAC 59.186 38.462 0.00 0.00 31.62 4.20
3138 5489 6.813649 CACAGAAGAGACCTTTAATCAATCGA 59.186 38.462 0.00 0.00 31.62 3.59
3139 5490 6.456181 GCACAGAAGAGACCTTTAATCAATCG 60.456 42.308 0.00 0.00 31.62 3.34
3180 5532 0.606604 GACTTGCCCACCGAGTTAGA 59.393 55.000 0.00 0.00 38.32 2.10
3184 5536 0.110486 ATTTGACTTGCCCACCGAGT 59.890 50.000 0.00 0.00 40.99 4.18
3280 5634 4.284829 TGCTATCTTGTCATGTCCACAA 57.715 40.909 0.00 0.00 32.75 3.33
3297 5658 2.905075 CATCCATGGACGTCTTTGCTA 58.095 47.619 18.99 5.04 0.00 3.49
3526 5894 1.603802 GTGCAAACTACTCAAGCAGCA 59.396 47.619 0.00 0.00 35.66 4.41
3564 5932 7.807687 TTTTTCGTTTTCACAACGGAAATTA 57.192 28.000 12.95 0.00 46.53 1.40
3565 5933 6.707599 TTTTTCGTTTTCACAACGGAAATT 57.292 29.167 12.95 0.00 46.53 1.82
3618 5993 7.882179 TCTCAATCATGCCATCATTATTTGAG 58.118 34.615 0.00 0.00 39.17 3.02
3713 6090 1.893137 CCCTAAAGGCAAAACCCACTC 59.107 52.381 0.00 0.00 40.58 3.51
3756 6134 5.030874 AGCTAAAAAGAAAACCGATCGTG 57.969 39.130 15.09 8.18 0.00 4.35
3758 6136 5.164187 GCAAAGCTAAAAAGAAAACCGATCG 60.164 40.000 8.51 8.51 0.00 3.69
3879 6262 0.981183 TATGCTTGTGTTCCCGAGGT 59.019 50.000 0.00 0.00 0.00 3.85
4026 6413 2.246719 AAATGAGATCTAGCCGCACC 57.753 50.000 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.