Multiple sequence alignment - TraesCS2B01G111300

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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 TraesCS2B01G111300 chr2B 100.000 4570 0 0 1 4570 73270136 73274705 0.000000e+00 8440.0
1 TraesCS2B01G111300 chr2B 83.248 2525 354 36 1230 3692 72722517 72720000 0.000000e+00 2255.0
2 TraesCS2B01G111300 chr2B 83.974 2315 313 25 1313 3582 72973886 72976187 0.000000e+00 2167.0
3 TraesCS2B01G111300 chr2B 81.227 2461 368 53 1203 3590 73803728 73806167 0.000000e+00 1899.0
4 TraesCS2B01G111300 chr2B 82.633 1261 192 10 2383 3624 72919833 72921085 0.000000e+00 1090.0
5 TraesCS2B01G111300 chr2D 96.541 3585 90 13 1004 4570 46187439 46183871 0.000000e+00 5903.0
6 TraesCS2B01G111300 chr2D 84.358 2244 293 24 1384 3582 46180127 46182357 0.000000e+00 2146.0
7 TraesCS2B01G111300 chr2D 80.127 2526 415 55 1107 3581 45818556 45821045 0.000000e+00 1803.0
8 TraesCS2B01G111300 chr2D 78.819 1152 216 24 1223 2358 45806548 45807687 0.000000e+00 750.0
9 TraesCS2B01G111300 chr2D 80.000 150 24 6 4320 4467 507214742 507214597 6.250000e-19 106.0
10 TraesCS2B01G111300 chr2A 83.770 2520 339 41 1241 3695 49071735 49069221 0.000000e+00 2324.0
11 TraesCS2B01G111300 chr2A 83.483 2567 343 34 1075 3582 191636727 191639271 0.000000e+00 2316.0
12 TraesCS2B01G111300 chr2A 80.514 2648 395 74 1025 3624 49498240 49500814 0.000000e+00 1919.0
13 TraesCS2B01G111300 chr2A 83.015 1307 195 19 2383 3669 49271196 49272495 0.000000e+00 1158.0
14 TraesCS2B01G111300 chr2A 79.777 1167 200 18 997 2149 192247762 192248906 0.000000e+00 815.0
15 TraesCS2B01G111300 chr2A 74.274 241 53 8 2123 2358 192248916 192249152 4.870000e-15 93.5
16 TraesCS2B01G111300 chr1B 93.472 1011 40 12 1 999 108839785 108838789 0.000000e+00 1478.0
17 TraesCS2B01G111300 chr1B 83.228 316 35 11 707 1006 48748831 48748518 1.620000e-69 274.0
18 TraesCS2B01G111300 chr7B 92.475 1010 35 21 1 998 173870022 173871002 0.000000e+00 1406.0
19 TraesCS2B01G111300 chr7B 87.407 540 39 11 1 531 627070906 627071425 1.090000e-165 593.0
20 TraesCS2B01G111300 chr7B 76.429 140 27 5 4011 4144 96819965 96819826 2.280000e-08 71.3
21 TraesCS2B01G111300 chr7B 95.000 40 2 0 4214 4253 78323148 78323109 3.820000e-06 63.9
22 TraesCS2B01G111300 chr6A 88.745 542 33 9 1 532 213835245 213835768 4.990000e-179 638.0
23 TraesCS2B01G111300 chr6A 83.522 619 64 18 7 608 45066794 45067391 1.120000e-150 544.0
24 TraesCS2B01G111300 chr1A 88.213 526 35 9 16 532 440683916 440683409 1.820000e-168 603.0
25 TraesCS2B01G111300 chr1A 83.962 212 28 5 789 996 99001112 99001321 1.000000e-46 198.0
26 TraesCS2B01G111300 chr4B 86.322 541 42 13 1 531 668875277 668874759 1.110000e-155 560.0
27 TraesCS2B01G111300 chr3D 75.487 359 65 16 4214 4565 435485776 435486118 2.200000e-33 154.0
28 TraesCS2B01G111300 chr3D 75.000 264 47 14 4209 4467 591196943 591197192 2.250000e-18 104.0
29 TraesCS2B01G111300 chr6D 78.926 242 37 11 121 353 93522275 93522039 7.920000e-33 152.0
30 TraesCS2B01G111300 chr1D 79.098 244 33 15 118 350 484108191 484108427 7.920000e-33 152.0
31 TraesCS2B01G111300 chr7D 95.122 41 2 0 4214 4254 439241833 439241793 1.060000e-06 65.8
32 TraesCS2B01G111300 chr5B 95.122 41 2 0 4216 4256 680929702 680929742 1.060000e-06 65.8
33 TraesCS2B01G111300 chr4D 100.000 33 0 0 4218 4250 364810862 364810830 1.370000e-05 62.1
34 TraesCS2B01G111300 chr3B 94.595 37 2 0 4218 4254 117563243 117563207 1.780000e-04 58.4
35 TraesCS2B01G111300 chr3A 90.909 44 2 2 4213 4254 706511765 706511808 1.780000e-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 TraesCS2B01G111300 chr2B 73270136 73274705 4569 False 8440.00 8440 100.0000 1 4570 1 chr2B.!!$F3 4569
1 TraesCS2B01G111300 chr2B 72720000 72722517 2517 True 2255.00 2255 83.2480 1230 3692 1 chr2B.!!$R1 2462
2 TraesCS2B01G111300 chr2B 72973886 72976187 2301 False 2167.00 2167 83.9740 1313 3582 1 chr2B.!!$F2 2269
3 TraesCS2B01G111300 chr2B 73803728 73806167 2439 False 1899.00 1899 81.2270 1203 3590 1 chr2B.!!$F4 2387
4 TraesCS2B01G111300 chr2B 72919833 72921085 1252 False 1090.00 1090 82.6330 2383 3624 1 chr2B.!!$F1 1241
5 TraesCS2B01G111300 chr2D 46183871 46187439 3568 True 5903.00 5903 96.5410 1004 4570 1 chr2D.!!$R1 3566
6 TraesCS2B01G111300 chr2D 46180127 46182357 2230 False 2146.00 2146 84.3580 1384 3582 1 chr2D.!!$F3 2198
7 TraesCS2B01G111300 chr2D 45818556 45821045 2489 False 1803.00 1803 80.1270 1107 3581 1 chr2D.!!$F2 2474
8 TraesCS2B01G111300 chr2D 45806548 45807687 1139 False 750.00 750 78.8190 1223 2358 1 chr2D.!!$F1 1135
9 TraesCS2B01G111300 chr2A 49069221 49071735 2514 True 2324.00 2324 83.7700 1241 3695 1 chr2A.!!$R1 2454
10 TraesCS2B01G111300 chr2A 191636727 191639271 2544 False 2316.00 2316 83.4830 1075 3582 1 chr2A.!!$F3 2507
11 TraesCS2B01G111300 chr2A 49498240 49500814 2574 False 1919.00 1919 80.5140 1025 3624 1 chr2A.!!$F2 2599
12 TraesCS2B01G111300 chr2A 49271196 49272495 1299 False 1158.00 1158 83.0150 2383 3669 1 chr2A.!!$F1 1286
13 TraesCS2B01G111300 chr2A 192247762 192249152 1390 False 454.25 815 77.0255 997 2358 2 chr2A.!!$F4 1361
14 TraesCS2B01G111300 chr1B 108838789 108839785 996 True 1478.00 1478 93.4720 1 999 1 chr1B.!!$R2 998
15 TraesCS2B01G111300 chr7B 173870022 173871002 980 False 1406.00 1406 92.4750 1 998 1 chr7B.!!$F1 997
16 TraesCS2B01G111300 chr7B 627070906 627071425 519 False 593.00 593 87.4070 1 531 1 chr7B.!!$F2 530
17 TraesCS2B01G111300 chr6A 213835245 213835768 523 False 638.00 638 88.7450 1 532 1 chr6A.!!$F2 531
18 TraesCS2B01G111300 chr6A 45066794 45067391 597 False 544.00 544 83.5220 7 608 1 chr6A.!!$F1 601
19 TraesCS2B01G111300 chr1A 440683409 440683916 507 True 603.00 603 88.2130 16 532 1 chr1A.!!$R1 516
20 TraesCS2B01G111300 chr4B 668874759 668875277 518 True 560.00 560 86.3220 1 531 1 chr4B.!!$R1 530

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
714 748 1.003718 GTTTCGACAGGAGGGTGGG 60.004 63.158 0.0 0.0 0.0 4.61 F
2133 2217 0.032678 AGGGATGCGACGATGATGAC 59.967 55.000 0.0 0.0 0.0 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2447 2676 1.547820 ACAGTGCTCATCGTCATGTCT 59.452 47.619 0.0 0.0 0.0 3.41 R
4054 4320 1.207329 GAATTAGACTGCTCCCACGGT 59.793 52.381 0.0 0.0 0.0 4.83 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
25 27 5.507817 CCACATTTAGAGTGCTTTTTGCTGA 60.508 40.000 0.00 0.00 43.37 4.26
126 134 6.127225 GCTAGATCCATCTATATGCTGGAACA 60.127 42.308 0.00 0.00 43.28 3.18
179 187 2.649331 TGCTACTGCCGTCTTAGTTC 57.351 50.000 0.00 0.00 38.71 3.01
207 217 8.811017 TGCTATCATCCCTGTTTTTGATTTTTA 58.189 29.630 0.00 0.00 31.59 1.52
208 218 9.822185 GCTATCATCCCTGTTTTTGATTTTTAT 57.178 29.630 0.00 0.00 31.59 1.40
418 435 2.666272 TTGATTTGTGCTACCACCCA 57.334 45.000 0.00 0.00 41.35 4.51
428 445 3.763897 GTGCTACCACCCATCTTTTTGAT 59.236 43.478 0.00 0.00 35.92 2.57
484 508 7.420800 GGATTGAACCAGCTATTTATTCTGTG 58.579 38.462 0.00 0.00 0.00 3.66
534 558 1.399791 CTTCTTTTCAGAGCGGGATGC 59.600 52.381 0.00 0.00 46.98 3.91
545 569 4.451150 GGGATGCACCAGCGACGA 62.451 66.667 0.00 0.00 46.23 4.20
546 570 3.188786 GGATGCACCAGCGACGAC 61.189 66.667 0.00 0.00 46.23 4.34
547 571 3.545481 GATGCACCAGCGACGACG 61.545 66.667 2.12 2.12 46.23 5.12
595 629 1.068474 CAGTTGACGGGATTGACGAC 58.932 55.000 0.00 0.00 34.93 4.34
678 712 2.359107 TCGAGCTGCAAAGGCCTG 60.359 61.111 5.69 0.00 40.13 4.85
679 713 3.437795 CGAGCTGCAAAGGCCTGG 61.438 66.667 5.69 2.38 40.13 4.45
680 714 3.756727 GAGCTGCAAAGGCCTGGC 61.757 66.667 20.01 20.01 40.13 4.85
714 748 1.003718 GTTTCGACAGGAGGGTGGG 60.004 63.158 0.00 0.00 0.00 4.61
754 788 1.153823 CGGGAGGCTACTGTTGACG 60.154 63.158 0.00 0.00 0.00 4.35
806 840 3.393970 CGAGGCAAGCCAGAGGGA 61.394 66.667 14.40 0.00 38.92 4.20
902 936 2.668279 CGAAGGAAGAAAACATTGCGGG 60.668 50.000 0.00 0.00 0.00 6.13
903 937 2.286365 AGGAAGAAAACATTGCGGGA 57.714 45.000 0.00 0.00 0.00 5.14
904 938 2.807676 AGGAAGAAAACATTGCGGGAT 58.192 42.857 0.00 0.00 0.00 3.85
906 940 2.755103 GGAAGAAAACATTGCGGGATCT 59.245 45.455 0.00 0.00 0.00 2.75
907 941 3.428045 GGAAGAAAACATTGCGGGATCTG 60.428 47.826 0.00 0.00 0.00 2.90
999 1033 1.419107 GCGCTTAGTGGTCGCCTTAC 61.419 60.000 0.00 0.00 42.71 2.34
1000 1034 0.108992 CGCTTAGTGGTCGCCTTACA 60.109 55.000 0.00 0.00 0.00 2.41
1001 1035 1.470979 CGCTTAGTGGTCGCCTTACAT 60.471 52.381 0.00 0.00 0.00 2.29
1046 1080 1.314730 TTCCGTCTTTGGAAACCAGC 58.685 50.000 0.00 0.00 44.86 4.85
1047 1081 0.536460 TCCGTCTTTGGAAACCAGCC 60.536 55.000 0.00 0.00 34.30 4.85
1048 1082 1.574428 CGTCTTTGGAAACCAGCCG 59.426 57.895 0.00 0.00 33.81 5.52
1049 1083 1.852067 CGTCTTTGGAAACCAGCCGG 61.852 60.000 0.00 0.00 33.81 6.13
1095 1129 0.038526 ATCGCGAACCAAAGACGTCT 60.039 50.000 15.24 13.58 0.00 4.18
1096 1130 0.592637 TCGCGAACCAAAGACGTCTA 59.407 50.000 20.39 0.00 0.00 2.59
1097 1131 0.982673 CGCGAACCAAAGACGTCTAG 59.017 55.000 20.39 14.41 0.00 2.43
1099 1133 2.731341 CGCGAACCAAAGACGTCTAGAT 60.731 50.000 20.39 5.51 0.00 1.98
1100 1134 2.599082 GCGAACCAAAGACGTCTAGATG 59.401 50.000 20.39 17.26 0.00 2.90
1101 1135 3.179830 CGAACCAAAGACGTCTAGATGG 58.820 50.000 29.26 29.26 33.29 3.51
1102 1136 3.119602 CGAACCAAAGACGTCTAGATGGA 60.120 47.826 33.96 0.00 32.18 3.41
1103 1137 4.425520 GAACCAAAGACGTCTAGATGGAG 58.574 47.826 33.96 18.94 32.18 3.86
1199 1249 6.036517 CCAAAAAGAGATCGTTATCCAGAGTG 59.963 42.308 0.00 0.00 31.98 3.51
1247 1297 1.282157 AGAACCCTACTTCATGGCCAC 59.718 52.381 8.16 0.00 0.00 5.01
1297 1350 1.076632 AACGGGACAAGCAAACCCA 60.077 52.632 0.00 0.00 43.40 4.51
1460 1526 1.360931 TTCGCTGATACGTCGTCGGA 61.361 55.000 0.00 0.00 41.85 4.55
1461 1527 1.061411 CGCTGATACGTCGTCGGAA 59.939 57.895 0.00 0.00 41.85 4.30
1850 1928 1.299773 CCGATGGCGAGCTCTTCTC 60.300 63.158 12.85 2.53 40.82 2.87
1994 2072 3.323691 GGCAGGTTTAATTTTGTGGTCCT 59.676 43.478 0.00 0.00 0.00 3.85
2064 2142 2.690497 TGAAGTTTGCGGTGAATTTGGA 59.310 40.909 0.00 0.00 0.00 3.53
2133 2217 0.032678 AGGGATGCGACGATGATGAC 59.967 55.000 0.00 0.00 0.00 3.06
2339 2521 5.736358 GTCTCCAACGAAGTAAGTATGTACG 59.264 44.000 0.00 0.00 45.00 3.67
2891 3138 3.077359 CACTGGTCTCAAAGGATTGTCC 58.923 50.000 0.00 0.00 37.79 4.02
2952 3199 1.915228 GCAGGATCTACCCCAAGCA 59.085 57.895 0.00 0.00 40.05 3.91
3276 3527 2.877168 GAGAATGGTGATGCATCAGTCC 59.123 50.000 29.38 25.85 39.94 3.85
3313 3564 3.884037 AAGGTCTCAGATGGTTTGGTT 57.116 42.857 0.00 0.00 0.00 3.67
3378 3630 1.466167 GCAATGCTCTGATTGTCGTGT 59.534 47.619 0.00 0.00 35.98 4.49
3676 3938 3.934457 AGGGCCTAAACATTTTTGTCG 57.066 42.857 2.82 0.00 0.00 4.35
3800 4062 6.226787 CCTCTCCTTCGTATAGCAATGAAAT 58.773 40.000 0.00 0.00 0.00 2.17
3897 4162 3.846423 AATGTGTAAATGCGATGCACA 57.154 38.095 8.95 8.95 43.04 4.57
3907 4172 5.459110 AATGCGATGCACATTGATTTTTC 57.541 34.783 1.90 0.00 43.04 2.29
3910 4175 3.676873 GCGATGCACATTGATTTTTCCCT 60.677 43.478 1.90 0.00 0.00 4.20
3954 4219 9.413048 GGATATTAGGTAGAATATTATCTGCGC 57.587 37.037 0.00 0.00 33.14 6.09
4038 4303 8.874744 TTTGGTATGATATTGATTGCATGTTG 57.125 30.769 0.00 0.00 0.00 3.33
4054 4320 4.413969 CATGTTGAATATGTTTGCGCTCA 58.586 39.130 9.73 5.93 0.00 4.26
4059 4325 0.726827 ATATGTTTGCGCTCACCGTG 59.273 50.000 9.73 0.00 39.71 4.94
4086 4352 5.295292 AGCAGTCTAATTCATTGGATTGACG 59.705 40.000 11.17 4.87 37.23 4.35
4093 4359 3.804518 TCATTGGATTGACGTCGTTTG 57.195 42.857 11.62 1.98 0.00 2.93
4246 4513 2.131972 TGATAAGTGTCACACGTGTGC 58.868 47.619 37.70 31.18 45.25 4.57
4259 4526 0.738389 CGTGTGCCACAAAGGAGTTT 59.262 50.000 0.00 0.00 41.22 2.66
4268 4535 1.341080 CAAAGGAGTTTGGCCCACAT 58.659 50.000 0.00 0.00 39.63 3.21
4343 4611 7.867403 TGTCAGCTGGAATCTTTTTGTATTTTC 59.133 33.333 15.13 0.00 0.00 2.29
4397 4665 8.970691 AAAGAATCCGATTAAAATTCTGTGTG 57.029 30.769 0.00 0.00 39.17 3.82
4398 4666 7.687941 AGAATCCGATTAAAATTCTGTGTGT 57.312 32.000 0.00 0.00 38.11 3.72
4418 4686 5.195379 GTGTACCATTAAATTCATCGCGAC 58.805 41.667 12.93 0.00 0.00 5.19
4432 4700 4.206404 TCATCGCGACGAGATATTCAAAAC 59.794 41.667 12.93 0.00 39.91 2.43
4434 4702 4.912214 TCGCGACGAGATATTCAAAACTA 58.088 39.130 3.71 0.00 0.00 2.24
4441 4709 8.202049 CGACGAGATATTCAAAACTAGATTTCG 58.798 37.037 0.00 0.00 0.00 3.46
4470 4738 2.630158 TGTTTCGACGACTTTTTGGGA 58.370 42.857 0.00 0.00 0.00 4.37
4542 4810 9.941325 ACAATGAAGTTGCCATCATTTATTTTA 57.059 25.926 0.00 0.00 42.12 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 27 1.416030 AGCAAAATTTGGGAGCGGTTT 59.584 42.857 7.89 0.00 0.00 3.27
126 134 3.005367 CCGTGGTAGCAAAACTTGGAATT 59.995 43.478 0.00 0.00 0.00 2.17
179 187 5.902613 TCAAAAACAGGGATGATAGCAAG 57.097 39.130 0.00 0.00 0.00 4.01
312 329 7.658575 AGATGGATCCAACAAAACAAATCAAAG 59.341 33.333 20.67 0.00 0.00 2.77
484 508 3.453424 ACAAAACAAATCGCTGGTTTCC 58.547 40.909 0.00 0.00 33.92 3.13
551 575 4.961511 TCGTCGCTGGTGCACCAC 62.962 66.667 34.74 26.91 42.01 4.16
552 576 4.961511 GTCGTCGCTGGTGCACCA 62.962 66.667 35.49 35.49 45.30 4.17
652 686 1.796190 TTGCAGCTCGACGAGTGTCT 61.796 55.000 24.80 11.69 43.21 3.41
661 695 2.359107 CAGGCCTTTGCAGCTCGA 60.359 61.111 0.00 0.00 40.13 4.04
662 696 3.437795 CCAGGCCTTTGCAGCTCG 61.438 66.667 0.00 0.00 40.13 5.03
678 712 1.094785 ACAAATATGTCCAGTGCGCC 58.905 50.000 4.18 0.00 33.41 6.53
679 713 2.919666 AACAAATATGTCCAGTGCGC 57.080 45.000 0.00 0.00 39.40 6.09
680 714 3.124466 TCGAAACAAATATGTCCAGTGCG 59.876 43.478 0.00 0.00 39.40 5.34
800 834 1.208293 GGCAGATCGAAGTTTCCCTCT 59.792 52.381 0.00 0.00 0.00 3.69
806 840 1.611673 CCCACTGGCAGATCGAAGTTT 60.612 52.381 23.66 0.00 0.00 2.66
856 890 2.539688 CAGGAAACAAAAGAAAAGCCGC 59.460 45.455 0.00 0.00 0.00 6.53
861 895 3.193691 TCGCCACAGGAAACAAAAGAAAA 59.806 39.130 0.00 0.00 0.00 2.29
902 936 0.938637 CACAGCCGCTCGATCAGATC 60.939 60.000 0.00 0.00 0.00 2.75
903 937 1.067084 CACAGCCGCTCGATCAGAT 59.933 57.895 0.00 0.00 0.00 2.90
904 938 2.491621 CACAGCCGCTCGATCAGA 59.508 61.111 0.00 0.00 0.00 3.27
906 940 2.426406 ATCCACAGCCGCTCGATCA 61.426 57.895 0.00 0.00 0.00 2.92
907 941 1.953138 CATCCACAGCCGCTCGATC 60.953 63.158 0.00 0.00 0.00 3.69
999 1033 3.495193 CGCTTCAACCAAACAGATCATG 58.505 45.455 0.00 0.00 0.00 3.07
1000 1034 2.489329 CCGCTTCAACCAAACAGATCAT 59.511 45.455 0.00 0.00 0.00 2.45
1001 1035 1.879380 CCGCTTCAACCAAACAGATCA 59.121 47.619 0.00 0.00 0.00 2.92
1095 1129 3.952323 CCGTCAGGAACTTACTCCATCTA 59.048 47.826 0.00 0.00 41.02 1.98
1096 1130 2.761208 CCGTCAGGAACTTACTCCATCT 59.239 50.000 0.00 0.00 41.02 2.90
1097 1131 2.758979 TCCGTCAGGAACTTACTCCATC 59.241 50.000 0.00 0.00 45.12 3.51
1099 1133 2.297698 TCCGTCAGGAACTTACTCCA 57.702 50.000 0.00 0.00 45.12 3.86
1188 1238 0.175760 GCGTCTGGCACTCTGGATAA 59.824 55.000 0.00 0.00 42.87 1.75
1297 1350 2.879462 GAACGGCGCGACGAAGAT 60.879 61.111 44.35 23.76 37.61 2.40
1460 1526 0.103208 GAGAGCGATCACGATGGGTT 59.897 55.000 2.38 0.00 42.66 4.11
1461 1527 1.736586 GAGAGCGATCACGATGGGT 59.263 57.895 2.38 0.00 42.66 4.51
2064 2142 2.803956 TCCAGAGACACGGTGTAGATT 58.196 47.619 14.74 0.22 0.00 2.40
2224 2348 7.970102 TCTAAACCACCTCACAAATACTACTT 58.030 34.615 0.00 0.00 0.00 2.24
2447 2676 1.547820 ACAGTGCTCATCGTCATGTCT 59.452 47.619 0.00 0.00 0.00 3.41
2891 3138 1.170290 AACCCGGCACCGAAGAAAAG 61.170 55.000 11.42 0.00 42.83 2.27
2952 3199 6.882610 TGTCTTTATCATGACAACTTTGCT 57.117 33.333 0.00 0.00 39.82 3.91
3276 3527 4.932200 AGACCTTTCTAGCTTGAACATTCG 59.068 41.667 10.23 0.00 0.00 3.34
3313 3564 1.280133 CCTCCATCTCTTGCAACTCCA 59.720 52.381 0.00 0.00 0.00 3.86
3676 3938 8.626526 TCCCAAGATACTTTTTAGTTGTTTCAC 58.373 33.333 0.00 0.00 0.00 3.18
3800 4062 3.638160 GACGGTCCATACCTGGTGTATAA 59.362 47.826 10.23 0.00 44.35 0.98
4038 4303 1.396996 ACGGTGAGCGCAAACATATTC 59.603 47.619 11.47 0.00 0.00 1.75
4054 4320 1.207329 GAATTAGACTGCTCCCACGGT 59.793 52.381 0.00 0.00 0.00 4.83
4059 4325 4.156455 TCCAATGAATTAGACTGCTCCC 57.844 45.455 0.00 0.00 0.00 4.30
4086 4352 3.689649 ACTAATCTTGCCCATCAAACGAC 59.310 43.478 0.00 0.00 33.65 4.34
4093 4359 7.177392 AGGCATATTTAACTAATCTTGCCCATC 59.823 37.037 15.26 0.00 46.68 3.51
4246 4513 0.758685 TGGGCCAAACTCCTTTGTGG 60.759 55.000 2.13 0.00 35.84 4.17
4395 4663 9.784821 CTCGTCGCGATGAATTTAATGGTACAC 62.785 44.444 29.24 2.25 36.60 2.90
4397 4665 4.207635 TCGTCGCGATGAATTTAATGGTAC 59.792 41.667 27.85 0.75 0.00 3.34
4398 4666 4.361420 TCGTCGCGATGAATTTAATGGTA 58.639 39.130 27.85 1.01 0.00 3.25
4434 4702 7.646526 TCGTCGAAACATATCAATACGAAATCT 59.353 33.333 0.00 0.00 35.43 2.40
4441 4709 8.985694 CAAAAAGTCGTCGAAACATATCAATAC 58.014 33.333 0.00 0.00 0.00 1.89
4470 4738 7.246171 ACTATAGACATGGTGACTTTTGACT 57.754 36.000 6.78 0.00 0.00 3.41
4480 4748 8.867112 ACAATTTACGTACTATAGACATGGTG 57.133 34.615 6.78 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.