Multiple sequence alignment - TraesCS7B01G494200

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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 TraesCS7B01G494200 chr7B 100.000 3576 0 0 1 3576 745354830 745358405 0.000000e+00 6604.0
1 TraesCS7B01G494200 chr7B 97.051 2848 76 4 3 2845 744701408 744698564 0.000000e+00 4787.0
2 TraesCS7B01G494200 chr7B 90.170 763 25 10 2836 3576 744697745 744697011 0.000000e+00 948.0
3 TraesCS7B01G494200 chr7D 78.164 1296 226 35 780 2041 632654747 632653475 0.000000e+00 773.0
4 TraesCS7B01G494200 chr2B 79.661 531 80 15 1499 2005 787027416 787027942 1.220000e-94 357.0
5 TraesCS7B01G494200 chr2B 77.395 522 91 15 1501 2004 787141609 787141097 5.840000e-73 285.0
6 TraesCS7B01G494200 chr2B 87.179 117 11 2 1842 1956 17594236 17594122 2.900000e-26 130.0
7 TraesCS7B01G494200 chr2B 89.247 93 10 0 2410 2502 787274021 787273929 2.260000e-22 117.0
8 TraesCS7B01G494200 chr2B 89.247 93 10 0 2410 2502 787291743 787291651 2.260000e-22 117.0
9 TraesCS7B01G494200 chr2B 89.247 93 10 0 2410 2502 787307993 787307901 2.260000e-22 117.0
10 TraesCS7B01G494200 chr2B 74.667 225 47 8 2316 2535 787800418 787800199 1.370000e-14 91.6
11 TraesCS7B01G494200 chr2B 81.111 90 16 1 2180 2269 787027855 787027943 1.780000e-08 71.3
12 TraesCS7B01G494200 chr1D 84.772 197 29 1 1840 2035 12301513 12301709 2.820000e-46 196.0
13 TraesCS7B01G494200 chr3B 84.146 164 22 4 1842 2003 172002636 172002475 4.780000e-34 156.0
14 TraesCS7B01G494200 chr3B 86.066 122 17 0 1842 1963 1373896 1374017 8.060000e-27 132.0
15 TraesCS7B01G494200 chr3A 83.851 161 21 5 1847 2005 127050786 127050629 8.000000e-32 148.0
16 TraesCS7B01G494200 chr7A 86.207 116 11 2 1842 1956 709296575 709296686 1.740000e-23 121.0
17 TraesCS7B01G494200 chr5D 72.634 391 81 20 2180 2559 3544625 3545000 4.880000e-19 106.0
18 TraesCS7B01G494200 chr2D 77.632 152 32 2 2385 2535 650601839 650601689 1.370000e-14 91.6
19 TraesCS7B01G494200 chr2D 82.667 75 12 1 811 885 11252642 11252715 8.290000e-07 65.8
20 TraesCS7B01G494200 chr2D 92.500 40 3 0 155 194 11840226 11840187 1.390000e-04 58.4


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 TraesCS7B01G494200 chr7B 745354830 745358405 3575 False 6604.00 6604 100.0000 1 3576 1 chr7B.!!$F1 3575
1 TraesCS7B01G494200 chr7B 744697011 744701408 4397 True 2867.50 4787 93.6105 3 3576 2 chr7B.!!$R1 3573
2 TraesCS7B01G494200 chr7D 632653475 632654747 1272 True 773.00 773 78.1640 780 2041 1 chr7D.!!$R1 1261
3 TraesCS7B01G494200 chr2B 787141097 787141609 512 True 285.00 285 77.3950 1501 2004 1 chr2B.!!$R2 503
4 TraesCS7B01G494200 chr2B 787027416 787027943 527 False 214.15 357 80.3860 1499 2269 2 chr2B.!!$F1 770

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
49 50 0.037605 CGTACCTGACTTTCGGCCTT 60.038 55.0 0.00 0.00 0.00 4.35 F
754 759 0.306840 GCACATCGATGATGGTGCAG 59.693 55.0 31.33 10.88 43.60 4.41 F
761 766 0.952280 GATGATGGTGCAGCTCCATG 59.048 55.0 29.68 0.00 44.52 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1144 1149 1.081774 GCAAACATGCACGCCGTAA 60.082 52.632 0.0 0.0 34.41 3.18 R
2552 2588 3.368248 ACATTGCCTTGATGCTAATGGT 58.632 40.909 0.0 0.0 35.72 3.55 R
2756 2792 1.968493 ACGCTCTCTTACAAGGGTCAA 59.032 47.619 0.0 0.0 33.90 3.18 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
37 38 2.347452 CCACAACGATTTAGCGTACCTG 59.653 50.000 0.00 0.00 44.86 4.00
49 50 0.037605 CGTACCTGACTTTCGGCCTT 60.038 55.000 0.00 0.00 0.00 4.35
51 52 2.353011 CGTACCTGACTTTCGGCCTTTA 60.353 50.000 0.00 0.00 0.00 1.85
88 89 7.553044 GCCTAAGTGGATCTTTTTACACAGTAT 59.447 37.037 0.00 0.00 38.35 2.12
93 94 8.932791 AGTGGATCTTTTTACACAGTATAAACG 58.067 33.333 0.00 0.00 36.35 3.60
96 97 7.903431 GGATCTTTTTACACAGTATAAACGCAG 59.097 37.037 0.00 0.00 0.00 5.18
130 131 9.875691 TTATATACATGCATACACTCATCCTTC 57.124 33.333 0.00 0.00 0.00 3.46
135 136 5.363562 TGCATACACTCATCCTTCTGAAT 57.636 39.130 0.00 0.00 0.00 2.57
137 138 5.121811 GCATACACTCATCCTTCTGAATGT 58.878 41.667 0.00 0.00 38.90 2.71
143 144 7.268586 ACACTCATCCTTCTGAATGTATACAC 58.731 38.462 7.96 0.00 34.13 2.90
151 152 4.754322 TCTGAATGTATACACACGCACAT 58.246 39.130 7.96 0.00 37.54 3.21
156 157 4.036567 TGTATACACACGCACATCCTAC 57.963 45.455 0.08 0.00 0.00 3.18
178 179 7.377928 CCTACACCTATATAGTTGACGAAAACG 59.622 40.741 13.70 0.00 35.13 3.60
180 181 7.092716 ACACCTATATAGTTGACGAAAACGTT 58.907 34.615 13.70 0.00 35.13 3.99
196 197 3.553828 ACGTTTTCTCCCACTGAAAGA 57.446 42.857 0.00 0.00 37.43 2.52
197 198 3.467803 ACGTTTTCTCCCACTGAAAGAG 58.532 45.455 0.00 0.00 37.43 2.85
201 202 6.014840 ACGTTTTCTCCCACTGAAAGAGTATA 60.015 38.462 0.00 0.00 37.43 1.47
207 208 6.895756 TCTCCCACTGAAAGAGTATAGCTAAA 59.104 38.462 0.00 0.00 37.43 1.85
208 209 7.399191 TCTCCCACTGAAAGAGTATAGCTAAAA 59.601 37.037 0.00 0.00 37.43 1.52
209 210 7.913789 TCCCACTGAAAGAGTATAGCTAAAAA 58.086 34.615 0.00 0.00 37.43 1.94
250 251 0.729116 AATGCGAGCACCAAGATTCG 59.271 50.000 0.00 0.00 36.23 3.34
257 258 2.154462 AGCACCAAGATTCGAACCTTG 58.846 47.619 23.18 23.18 39.43 3.61
308 309 4.526970 ACCATCTAATCGCAGATTGGTTT 58.473 39.130 12.17 2.42 45.12 3.27
350 351 4.704965 ACTAAGAACTTTGCCGACTTCTT 58.295 39.130 0.00 0.00 36.95 2.52
361 362 1.270839 CCGACTTCTTGAGCTCCCAAA 60.271 52.381 12.15 1.42 0.00 3.28
474 475 3.246226 CGACTCGATCCAAAAAGCATAGG 59.754 47.826 0.00 0.00 0.00 2.57
526 527 2.159179 ATAATTCTTTTGGCCGGCCT 57.841 45.000 43.34 24.82 36.94 5.19
529 530 0.967380 ATTCTTTTGGCCGGCCTCAG 60.967 55.000 43.34 33.15 36.94 3.35
530 531 3.064324 CTTTTGGCCGGCCTCAGG 61.064 66.667 43.34 26.79 36.94 3.86
585 590 7.816995 GCTTTACTGTATATTGATCCTCTCAGG 59.183 40.741 0.00 0.00 34.68 3.86
663 668 1.669115 CAGCAAGCACAGCTACCGT 60.669 57.895 0.00 0.00 41.14 4.83
665 670 2.730672 GCAAGCACAGCTACCGTCG 61.731 63.158 0.00 0.00 38.25 5.12
695 700 2.491693 GTTTTTGGGATCCGAAGCATCA 59.508 45.455 9.32 0.00 0.00 3.07
714 719 2.653115 CGTGAGGACAGCAGCTCA 59.347 61.111 0.00 0.00 0.00 4.26
736 741 1.428219 TCGAAGAGATCCACGACGC 59.572 57.895 0.00 0.00 0.00 5.19
737 742 1.136774 CGAAGAGATCCACGACGCA 59.863 57.895 0.00 0.00 0.00 5.24
754 759 0.306840 GCACATCGATGATGGTGCAG 59.693 55.000 31.33 10.88 43.60 4.41
761 766 0.952280 GATGATGGTGCAGCTCCATG 59.048 55.000 29.68 0.00 44.52 3.66
778 783 3.574445 GCTCTCAGCCAGCGCATG 61.574 66.667 11.47 4.88 34.48 4.06
822 827 5.234466 ACCAAGAGTTAAAGCAGATCACT 57.766 39.130 0.00 0.00 0.00 3.41
1034 1039 5.460646 GGAAATCATCGCTGTCAAAAAGAA 58.539 37.500 0.00 0.00 0.00 2.52
1144 1149 2.628178 TGCGTAGGCTACTGCTATGATT 59.372 45.455 28.29 0.00 40.82 2.57
1394 1399 3.462982 TCAATCGGTGGTTCCAATATCG 58.537 45.455 0.00 0.00 35.57 2.92
2503 2539 2.743928 CGCACCAAGAGGCCTCAC 60.744 66.667 33.90 9.73 39.06 3.51
2552 2588 5.554437 AGGATCAGAGAGTATCGACTACA 57.446 43.478 0.00 0.00 42.67 2.74
2562 2598 5.770663 AGAGTATCGACTACACCATTAGCAT 59.229 40.000 0.00 0.00 42.67 3.79
2570 2606 2.806434 ACACCATTAGCATCAAGGCAA 58.194 42.857 0.00 0.00 35.83 4.52
2574 2610 4.338964 CACCATTAGCATCAAGGCAATGTA 59.661 41.667 0.00 0.00 33.95 2.29
2659 2695 1.197721 GTCATCGCACCCTGTGAAAAG 59.802 52.381 0.00 0.00 40.59 2.27
2756 2792 3.701205 TCCATATGCAGTGTTGTGAGT 57.299 42.857 0.00 0.00 0.00 3.41
2775 2811 2.028930 AGTTGACCCTTGTAAGAGAGCG 60.029 50.000 0.00 0.00 0.00 5.03
2807 2844 1.295746 GACGGAAGGGGTGGAGAAC 59.704 63.158 0.00 0.00 0.00 3.01
2824 2861 4.116926 CAAGATTGGCTTGCCCCA 57.883 55.556 9.35 0.00 46.67 4.96
2856 3721 2.409975 CTTTAGTTGTTTCTCGCCCGA 58.590 47.619 0.00 0.00 0.00 5.14
2866 3731 2.433491 TCGCCCGATCGTTGGTTG 60.433 61.111 15.09 6.43 0.00 3.77
2874 3739 3.181479 CCCGATCGTTGGTTGAGAGATAA 60.181 47.826 15.09 0.00 0.00 1.75
2892 3757 9.839817 GAGAGATAAAGAGGGCTAATAAAAACT 57.160 33.333 0.00 0.00 0.00 2.66
2898 3763 8.577048 AAAGAGGGCTAATAAAAACTCTAACC 57.423 34.615 0.00 0.00 34.48 2.85
2923 3788 8.704668 CCTGTAGGCATTATTTAATTCCCTTTT 58.295 33.333 5.20 0.00 30.57 2.27
3029 3916 4.020662 GGCACCATTATCCTTGTTTGGAAA 60.021 41.667 0.00 0.00 39.85 3.13
3073 3960 1.347320 CCTACCGCTTTCACGACTTC 58.653 55.000 0.00 0.00 34.06 3.01
3166 4053 6.946340 TCTAAGCACAAGATATCAGGACAAA 58.054 36.000 5.32 0.00 0.00 2.83
3168 4055 8.049117 TCTAAGCACAAGATATCAGGACAAAAT 58.951 33.333 5.32 0.00 0.00 1.82
3170 4057 6.182627 AGCACAAGATATCAGGACAAAATGA 58.817 36.000 5.32 0.00 0.00 2.57
3171 4058 6.832384 AGCACAAGATATCAGGACAAAATGAT 59.168 34.615 5.32 0.00 39.44 2.45
3173 4060 6.916387 CACAAGATATCAGGACAAAATGATGC 59.084 38.462 5.32 0.00 36.81 3.91
3174 4061 6.604396 ACAAGATATCAGGACAAAATGATGCA 59.396 34.615 5.32 0.00 36.81 3.96
3175 4062 6.630444 AGATATCAGGACAAAATGATGCAC 57.370 37.500 5.32 0.00 36.81 4.57
3176 4063 6.124340 AGATATCAGGACAAAATGATGCACA 58.876 36.000 5.32 0.00 36.81 4.57
3177 4064 6.604396 AGATATCAGGACAAAATGATGCACAA 59.396 34.615 5.32 0.00 36.81 3.33
3178 4065 5.670792 ATCAGGACAAAATGATGCACAAT 57.329 34.783 0.00 0.00 34.88 2.71
3179 4066 4.811908 TCAGGACAAAATGATGCACAATG 58.188 39.130 0.00 0.00 0.00 2.82
3180 4067 3.930229 CAGGACAAAATGATGCACAATGG 59.070 43.478 0.00 0.00 0.00 3.16
3181 4068 3.833650 AGGACAAAATGATGCACAATGGA 59.166 39.130 0.00 0.00 0.00 3.41
3182 4069 4.283978 AGGACAAAATGATGCACAATGGAA 59.716 37.500 0.00 0.00 0.00 3.53
3183 4070 5.046159 AGGACAAAATGATGCACAATGGAAT 60.046 36.000 0.00 0.00 0.00 3.01
3184 4071 5.292589 GGACAAAATGATGCACAATGGAATC 59.707 40.000 0.00 0.00 0.00 2.52
3185 4072 5.795972 ACAAAATGATGCACAATGGAATCA 58.204 33.333 0.00 0.00 0.00 2.57
3186 4073 6.411376 ACAAAATGATGCACAATGGAATCAT 58.589 32.000 0.00 0.00 34.56 2.45
3187 4074 6.882140 ACAAAATGATGCACAATGGAATCATT 59.118 30.769 10.31 10.31 43.79 2.57
3188 4075 7.392113 ACAAAATGATGCACAATGGAATCATTT 59.608 29.630 17.48 17.48 45.18 2.32
3189 4076 7.931578 AAATGATGCACAATGGAATCATTTT 57.068 28.000 17.48 8.31 42.52 1.82
3190 4077 6.918892 ATGATGCACAATGGAATCATTTTG 57.081 33.333 0.00 0.00 41.29 2.44
3196 4083 6.503589 CACAATGGAATCATTTTGCCATTT 57.496 33.333 0.00 0.00 46.05 2.32
3197 4084 6.915349 CACAATGGAATCATTTTGCCATTTT 58.085 32.000 0.00 0.00 46.05 1.82
3198 4085 7.024768 CACAATGGAATCATTTTGCCATTTTC 58.975 34.615 0.00 0.00 46.05 2.29
3201 4088 7.948034 ATGGAATCATTTTGCCATTTTCAAT 57.052 28.000 0.00 0.00 37.88 2.57
3215 4102 6.652062 GCCATTTTCAATCATTTGGTTCTCTT 59.348 34.615 0.00 0.00 33.44 2.85
3340 4227 1.112113 ACACAGTATCTGGCCGGTAG 58.888 55.000 12.43 1.88 35.51 3.18
3389 4276 1.208844 TGAGTCCTCTCCTCCCGACT 61.209 60.000 0.00 0.00 39.75 4.18
3429 4316 0.671781 CACGACCAGGAGCTTCCTTG 60.672 60.000 0.00 2.64 46.91 3.61
3476 4363 2.203056 CATCCGAATCTGCCGCCA 60.203 61.111 0.00 0.00 0.00 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.034838 TCGTTGTGGGCTGCAAAAGT 61.035 50.000 0.50 0.00 0.00 2.66
7 8 0.749649 AATCGTTGTGGGCTGCAAAA 59.250 45.000 0.50 0.00 0.00 2.44
8 9 0.749649 AAATCGTTGTGGGCTGCAAA 59.250 45.000 0.50 0.00 0.00 3.68
37 38 6.679327 AAGTTGATATAAAGGCCGAAAGTC 57.321 37.500 0.00 0.00 0.00 3.01
49 50 9.381038 AGATCCACTTAGGCTAAGTTGATATAA 57.619 33.333 35.35 20.02 45.59 0.98
51 52 7.863901 AGATCCACTTAGGCTAAGTTGATAT 57.136 36.000 35.35 32.12 45.59 1.63
74 75 5.793457 GCCTGCGTTTATACTGTGTAAAAAG 59.207 40.000 10.69 9.37 0.00 2.27
88 89 6.391537 TGTATATAATGATCGCCTGCGTTTA 58.608 36.000 11.68 0.27 40.74 2.01
93 94 4.571984 TGCATGTATATAATGATCGCCTGC 59.428 41.667 0.00 0.00 0.00 4.85
96 97 7.439356 AGTGTATGCATGTATATAATGATCGCC 59.561 37.037 10.16 0.00 0.00 5.54
130 131 4.025730 GGATGTGCGTGTGTATACATTCAG 60.026 45.833 9.18 2.88 39.39 3.02
135 136 3.444388 TGTAGGATGTGCGTGTGTATACA 59.556 43.478 0.08 0.08 0.00 2.29
137 138 3.181484 GGTGTAGGATGTGCGTGTGTATA 60.181 47.826 0.00 0.00 0.00 1.47
143 144 2.890808 ATAGGTGTAGGATGTGCGTG 57.109 50.000 0.00 0.00 0.00 5.34
151 152 8.408601 GTTTTCGTCAACTATATAGGTGTAGGA 58.591 37.037 23.91 18.04 41.68 2.94
178 179 6.314152 GCTATACTCTTTCAGTGGGAGAAAAC 59.686 42.308 12.97 0.00 36.43 2.43
180 181 5.721960 AGCTATACTCTTTCAGTGGGAGAAA 59.278 40.000 12.97 0.00 36.43 2.52
250 251 2.231235 CACCCCTAATGCAACAAGGTTC 59.769 50.000 10.45 0.00 0.00 3.62
257 258 0.611896 AGTGGCACCCCTAATGCAAC 60.612 55.000 15.27 0.00 45.83 4.17
284 285 4.526970 ACCAATCTGCGATTAGATGGTTT 58.473 39.130 3.96 0.00 37.48 3.27
308 309 9.251440 TCTTAGTTAAATCCACTTAGTCTAGCA 57.749 33.333 0.00 0.00 0.00 3.49
340 341 1.448717 GGGAGCTCAAGAAGTCGGC 60.449 63.158 17.19 0.00 0.00 5.54
350 351 1.270305 CGAAGTGAGTTTGGGAGCTCA 60.270 52.381 17.19 0.00 40.30 4.26
474 475 2.486191 CCATGCCTGAGGTGGATAACTC 60.486 54.545 2.02 0.00 34.94 3.01
526 527 1.476845 TTAACACTGCCCGAGCCTGA 61.477 55.000 0.00 0.00 38.69 3.86
529 530 1.173913 ATTTTAACACTGCCCGAGCC 58.826 50.000 0.00 0.00 38.69 4.70
530 531 3.687698 TCTTATTTTAACACTGCCCGAGC 59.312 43.478 0.00 0.00 40.48 5.03
533 534 3.181500 GCCTCTTATTTTAACACTGCCCG 60.181 47.826 0.00 0.00 0.00 6.13
535 536 3.130516 GGGCCTCTTATTTTAACACTGCC 59.869 47.826 0.84 0.00 34.46 4.85
536 537 4.017126 AGGGCCTCTTATTTTAACACTGC 58.983 43.478 0.00 0.00 0.00 4.40
538 539 4.017126 GCAGGGCCTCTTATTTTAACACT 58.983 43.478 0.95 0.00 0.00 3.55
585 590 6.039616 AGAATAGATGCGAAAGAAGACACTC 58.960 40.000 0.00 0.00 0.00 3.51
593 598 7.848223 TTGATTCAAGAATAGATGCGAAAGA 57.152 32.000 0.00 0.00 0.00 2.52
663 668 2.351774 CAAAAACGCTGCGCACGA 60.352 55.556 29.62 2.59 0.00 4.35
665 670 2.747507 ATCCCAAAAACGCTGCGCAC 62.748 55.000 23.51 2.45 0.00 5.34
682 687 0.179111 TCACGGTGATGCTTCGGATC 60.179 55.000 6.76 0.00 0.00 3.36
695 700 2.919856 AGCTGCTGTCCTCACGGT 60.920 61.111 0.00 0.00 0.00 4.83
703 708 0.319900 TTCGAGGTTGAGCTGCTGTC 60.320 55.000 7.01 0.00 0.00 3.51
704 709 0.320247 CTTCGAGGTTGAGCTGCTGT 60.320 55.000 7.01 0.00 0.00 4.40
714 719 1.473278 GTCGTGGATCTCTTCGAGGTT 59.527 52.381 0.00 0.00 33.09 3.50
736 741 0.306840 GCTGCACCATCATCGATGTG 59.693 55.000 24.09 19.61 38.28 3.21
737 742 0.179702 AGCTGCACCATCATCGATGT 59.820 50.000 24.09 9.70 38.28 3.06
754 759 1.524165 CTGGCTGAGAGCATGGAGC 60.524 63.158 0.00 0.00 44.75 4.70
778 783 3.887621 TGGTATACTCTGTGGTCTTGC 57.112 47.619 2.25 0.00 0.00 4.01
822 827 2.422479 CCGGTCGTCAGAGAAGTTATCA 59.578 50.000 0.00 0.00 0.00 2.15
894 899 5.470777 TGCATGCAGAAATGATCGATCAATA 59.529 36.000 30.41 9.32 40.69 1.90
1144 1149 1.081774 GCAAACATGCACGCCGTAA 60.082 52.632 0.00 0.00 34.41 3.18
1394 1399 5.833131 TCCCATTTGTTGATTCTATAAGGCC 59.167 40.000 0.00 0.00 0.00 5.19
1786 1818 9.575783 TTAAAGTGACCACAATTAGAACAAAAC 57.424 29.630 2.78 0.00 33.12 2.43
1787 1819 9.575783 GTTAAAGTGACCACAATTAGAACAAAA 57.424 29.630 2.78 0.00 33.12 2.44
2503 2539 4.891756 AGCATCCTGATGACCCTTTTTATG 59.108 41.667 11.23 0.00 41.20 1.90
2552 2588 3.368248 ACATTGCCTTGATGCTAATGGT 58.632 40.909 0.00 0.00 35.72 3.55
2562 2598 4.870426 GTCTTCTCGATTACATTGCCTTGA 59.130 41.667 0.00 0.00 0.00 3.02
2570 2606 9.698309 CAAATATACCTGTCTTCTCGATTACAT 57.302 33.333 0.00 0.00 0.00 2.29
2659 2695 5.640189 TGAAGTACAAGTCTAGCCTGTAC 57.360 43.478 15.52 15.52 36.53 2.90
2748 2784 4.448210 TCTTACAAGGGTCAACTCACAAC 58.552 43.478 0.00 0.00 0.00 3.32
2756 2792 1.968493 ACGCTCTCTTACAAGGGTCAA 59.032 47.619 0.00 0.00 33.90 3.18
2775 2811 0.758734 TCCGTCATGATCCCATCCAC 59.241 55.000 0.00 0.00 0.00 4.02
2842 2879 0.320073 AACGATCGGGCGAGAAACAA 60.320 50.000 20.98 0.00 34.83 2.83
2845 2882 1.447140 CCAACGATCGGGCGAGAAA 60.447 57.895 20.98 0.00 34.83 2.52
2856 3721 5.395768 CCCTCTTTATCTCTCAACCAACGAT 60.396 44.000 0.00 0.00 0.00 3.73
2866 3731 9.839817 AGTTTTTATTAGCCCTCTTTATCTCTC 57.160 33.333 0.00 0.00 0.00 3.20
2874 3739 7.829706 CAGGTTAGAGTTTTTATTAGCCCTCTT 59.170 37.037 0.00 0.00 32.03 2.85
2892 3757 9.569122 GGAATTAAATAATGCCTACAGGTTAGA 57.431 33.333 3.28 0.00 38.21 2.10
2895 3760 7.362234 AGGGAATTAAATAATGCCTACAGGTT 58.638 34.615 9.55 0.00 40.62 3.50
2898 3763 9.533253 CAAAAGGGAATTAAATAATGCCTACAG 57.467 33.333 9.55 0.00 40.62 2.74
2923 3788 3.197265 CAGCCAACGACATCATACATCA 58.803 45.455 0.00 0.00 0.00 3.07
3029 3916 5.913137 TGTGTTCCAATGAGAAACTTGTT 57.087 34.783 0.00 0.00 0.00 2.83
3143 4030 7.615582 TTTTGTCCTGATATCTTGTGCTTAG 57.384 36.000 3.98 0.00 0.00 2.18
3160 4047 4.191033 TCCATTGTGCATCATTTTGTCC 57.809 40.909 0.00 0.00 0.00 4.02
3166 4053 7.315247 CAAAATGATTCCATTGTGCATCATT 57.685 32.000 2.78 2.78 44.59 2.57
3173 4060 6.503589 AAATGGCAAAATGATTCCATTGTG 57.496 33.333 9.53 4.42 45.56 3.33
3174 4061 6.715718 TGAAAATGGCAAAATGATTCCATTGT 59.284 30.769 9.53 5.27 45.56 2.71
3175 4062 7.147143 TGAAAATGGCAAAATGATTCCATTG 57.853 32.000 9.53 0.00 45.56 2.82
3177 4064 7.612244 TGATTGAAAATGGCAAAATGATTCCAT 59.388 29.630 0.00 0.00 40.77 3.41
3178 4065 6.940867 TGATTGAAAATGGCAAAATGATTCCA 59.059 30.769 0.00 0.00 0.00 3.53
3179 4066 7.380431 TGATTGAAAATGGCAAAATGATTCC 57.620 32.000 0.00 0.00 0.00 3.01
3180 4067 9.849166 AAATGATTGAAAATGGCAAAATGATTC 57.151 25.926 0.00 0.00 0.00 2.52
3181 4068 9.632807 CAAATGATTGAAAATGGCAAAATGATT 57.367 25.926 0.00 0.00 38.94 2.57
3182 4069 8.247562 CCAAATGATTGAAAATGGCAAAATGAT 58.752 29.630 0.00 0.00 38.94 2.45
3183 4070 7.230913 ACCAAATGATTGAAAATGGCAAAATGA 59.769 29.630 0.00 0.00 38.94 2.57
3184 4071 7.371936 ACCAAATGATTGAAAATGGCAAAATG 58.628 30.769 0.00 0.00 38.94 2.32
3185 4072 7.527568 ACCAAATGATTGAAAATGGCAAAAT 57.472 28.000 0.00 0.00 38.94 1.82
3186 4073 6.956202 ACCAAATGATTGAAAATGGCAAAA 57.044 29.167 0.00 0.00 38.94 2.44
3187 4074 6.771749 AGAACCAAATGATTGAAAATGGCAAA 59.228 30.769 0.00 0.00 38.94 3.68
3188 4075 6.297582 AGAACCAAATGATTGAAAATGGCAA 58.702 32.000 0.00 0.00 38.94 4.52
3189 4076 5.867330 AGAACCAAATGATTGAAAATGGCA 58.133 33.333 0.00 0.00 38.94 4.92
3190 4077 6.168389 AGAGAACCAAATGATTGAAAATGGC 58.832 36.000 0.00 0.00 38.94 4.40
3191 4078 9.143631 GTAAGAGAACCAAATGATTGAAAATGG 57.856 33.333 0.00 0.00 38.94 3.16
3192 4079 9.695526 TGTAAGAGAACCAAATGATTGAAAATG 57.304 29.630 0.00 0.00 38.94 2.32
3197 4084 9.695526 CATTTTGTAAGAGAACCAAATGATTGA 57.304 29.630 7.42 0.00 41.52 2.57
3198 4085 9.695526 TCATTTTGTAAGAGAACCAAATGATTG 57.304 29.630 10.45 0.00 42.19 2.67
3201 4088 7.814107 GCATCATTTTGTAAGAGAACCAAATGA 59.186 33.333 14.65 14.65 46.66 2.57
3215 4102 6.035217 CGATTCCATTGTGCATCATTTTGTA 58.965 36.000 0.00 0.00 0.00 2.41
3340 4227 1.730451 GGACTGCTCGGGAGACTAGC 61.730 65.000 0.00 0.00 39.01 3.42
3389 4276 2.683768 GGGCTCAGGAGATTCCTCTTA 58.316 52.381 0.00 0.00 45.66 2.10
3429 4316 2.668457 CCATCGTAGAGGATTTATGCGC 59.332 50.000 0.00 0.00 43.16 6.09
3476 4363 2.252714 GAACTTCTCCTCCACCTCTGT 58.747 52.381 0.00 0.00 0.00 3.41
3491 4378 6.264970 ACCAGAAAAGACTCTACTACGAACTT 59.735 38.462 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.