Multiple sequence alignment - TraesCS4A01G305700

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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 TraesCS4A01G305700 chr4A 100.000 2711 0 0 1 2711 600919777 600917067 0.000000e+00 5007
1 TraesCS4A01G305700 chr4A 80.864 2733 471 33 1 2704 601309951 601312660 0.000000e+00 2102
2 TraesCS4A01G305700 chr4A 77.188 754 157 14 454 1200 601310852 601311597 2.490000e-115 425
3 TraesCS4A01G305700 chr4B 95.892 2702 99 5 10 2711 4954929 4952240 0.000000e+00 4364
4 TraesCS4A01G305700 chr4B 82.182 1824 298 21 897 2711 6056421 6058226 0.000000e+00 1543
5 TraesCS4A01G305700 chr4B 81.060 1679 291 21 1041 2710 6039750 6041410 0.000000e+00 1314
6 TraesCS4A01G305700 chr4B 81.973 1237 209 14 1 1230 6055957 6057186 0.000000e+00 1037
7 TraesCS4A01G305700 chr4B 83.318 1109 168 10 1 1093 6039271 6040378 0.000000e+00 1007
8 TraesCS4A01G305700 chr4B 76.796 1030 205 25 473 1488 4954322 4953313 5.100000e-152 547
9 TraesCS4A01G305700 chr4B 77.763 769 165 5 472 1237 4954035 4953270 4.090000e-128 468
10 TraesCS4A01G305700 chr4B 80.810 469 75 10 1168 1632 6056405 6056862 1.190000e-93 353
11 TraesCS4A01G305700 chr4D 94.729 2732 111 12 1 2711 3712643 3715362 0.000000e+00 4217
12 TraesCS4A01G305700 chr4D 81.903 1398 227 21 1325 2710 3421116 3419733 0.000000e+00 1157
13 TraesCS4A01G305700 chr4D 83.374 818 111 17 1 798 3421584 3420772 0.000000e+00 734
14 TraesCS4A01G305700 chr4D 77.067 1016 209 18 473 1479 3713280 3714280 5.070000e-157 564
15 TraesCS4A01G305700 chr2D 84.709 1236 180 4 1478 2710 2342127 2343356 0.000000e+00 1227
16 TraesCS4A01G305700 chr2D 77.221 1058 216 19 99 1143 5394727 5395772 1.800000e-166 595
17 TraesCS4A01G305700 chr2D 80.225 622 98 16 1 602 2341649 2342265 6.890000e-121 444
18 TraesCS4A01G305700 chr3B 84.678 1227 179 5 1487 2710 52892608 52891388 0.000000e+00 1216
19 TraesCS4A01G305700 chr3B 79.710 621 103 15 1 602 52893095 52892479 6.940000e-116 427
20 TraesCS4A01G305700 chr2B 78.157 1639 324 27 1083 2710 6058533 6056918 0.000000e+00 1013
21 TraesCS4A01G305700 chr7D 75.882 1928 417 42 734 2641 631685496 631687395 0.000000e+00 941


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 TraesCS4A01G305700 chr4A 600917067 600919777 2710 True 5007.000000 5007 100.000000 1 2711 1 chr4A.!!$R1 2710
1 TraesCS4A01G305700 chr4A 601309951 601312660 2709 False 1263.500000 2102 79.026000 1 2704 2 chr4A.!!$F1 2703
2 TraesCS4A01G305700 chr4B 4952240 4954929 2689 True 1793.000000 4364 83.483667 10 2711 3 chr4B.!!$R1 2701
3 TraesCS4A01G305700 chr4B 6039271 6041410 2139 False 1160.500000 1314 82.189000 1 2710 2 chr4B.!!$F1 2709
4 TraesCS4A01G305700 chr4B 6055957 6058226 2269 False 977.666667 1543 81.655000 1 2711 3 chr4B.!!$F2 2710
5 TraesCS4A01G305700 chr4D 3712643 3715362 2719 False 2390.500000 4217 85.898000 1 2711 2 chr4D.!!$F1 2710
6 TraesCS4A01G305700 chr4D 3419733 3421584 1851 True 945.500000 1157 82.638500 1 2710 2 chr4D.!!$R1 2709
7 TraesCS4A01G305700 chr2D 2341649 2343356 1707 False 835.500000 1227 82.467000 1 2710 2 chr2D.!!$F2 2709
8 TraesCS4A01G305700 chr2D 5394727 5395772 1045 False 595.000000 595 77.221000 99 1143 1 chr2D.!!$F1 1044
9 TraesCS4A01G305700 chr3B 52891388 52893095 1707 True 821.500000 1216 82.194000 1 2710 2 chr3B.!!$R1 2709
10 TraesCS4A01G305700 chr2B 6056918 6058533 1615 True 1013.000000 1013 78.157000 1083 2710 1 chr2B.!!$R1 1627
11 TraesCS4A01G305700 chr7D 631685496 631687395 1899 False 941.000000 941 75.882000 734 2641 1 chr7D.!!$F1 1907

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
45 46 0.251165 AATCCTGGGGAAACACCACG 60.251 55.0 0.0 0.0 47.0 4.94 F
1164 2340 0.033504 CAGGTTCCATCCCCGATACG 59.966 60.0 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
1500 2964 0.031616 TGCCCCCTGAAAGTTGGTTT 60.032 50.000 0.00 0.0 0.0 3.27 R
2127 3591 1.537202 GCGAGGCTCAAGTTGAACATT 59.463 47.619 15.95 0.0 0.0 2.71 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
45 46 0.251165 AATCCTGGGGAAACACCACG 60.251 55.000 0.00 0.00 47.00 4.94
267 293 3.790437 CGCCACCTCCTGCTCCAT 61.790 66.667 0.00 0.00 0.00 3.41
275 301 0.822532 CTCCTGCTCCATGGGAATGC 60.823 60.000 13.02 11.89 0.00 3.56
321 347 8.652290 AGACAAATAAAACACCTAGAGAGTCTT 58.348 33.333 0.00 0.00 0.00 3.01
440 466 0.967380 CTCACAGGCCCCATTCCAAC 60.967 60.000 0.00 0.00 0.00 3.77
540 996 6.385033 ACTAGGTTACATCGTGAAACTACAC 58.615 40.000 0.00 0.00 37.42 2.90
769 1369 5.112686 CCAAGCTCACTACCTTGTATCTTC 58.887 45.833 0.00 0.00 37.36 2.87
772 1372 6.155475 AGCTCACTACCTTGTATCTTCATC 57.845 41.667 0.00 0.00 0.00 2.92
799 1399 4.202609 ACCAATTCTCTGGACATGTTCCTT 60.203 41.667 0.46 0.00 46.10 3.36
836 1436 5.964758 TCTTGTGAATTTGCAAGAGTTGTT 58.035 33.333 16.60 0.00 44.01 2.83
1134 1734 8.672214 ATTTTGAACATTTGTTGCTTCAAAAC 57.328 26.923 16.95 0.02 45.25 2.43
1138 2314 5.544136 ACATTTGTTGCTTCAAAACAACC 57.456 34.783 9.93 0.00 44.81 3.77
1145 2321 3.843999 TGCTTCAAAACAACCAACTCAC 58.156 40.909 0.00 0.00 0.00 3.51
1146 2322 3.256879 TGCTTCAAAACAACCAACTCACA 59.743 39.130 0.00 0.00 0.00 3.58
1164 2340 0.033504 CAGGTTCCATCCCCGATACG 59.966 60.000 0.00 0.00 0.00 3.06
1178 2354 4.082679 CCCCGATACGTTTGGAAATTTGAA 60.083 41.667 0.00 0.00 0.00 2.69
1203 2379 4.895961 AGCTCACTACCTTGTACCTTTTC 58.104 43.478 0.00 0.00 0.00 2.29
1204 2380 4.001652 GCTCACTACCTTGTACCTTTTCC 58.998 47.826 0.00 0.00 0.00 3.13
1213 2389 4.579753 CCTTGTACCTTTTCCGTAACCAAA 59.420 41.667 0.00 0.00 0.00 3.28
1231 2407 3.388024 CCAAATCTCCGGAGATGTTCCTA 59.612 47.826 40.59 17.10 46.75 2.94
1232 2408 4.141711 CCAAATCTCCGGAGATGTTCCTAA 60.142 45.833 40.59 16.35 46.75 2.69
1237 2413 4.962995 TCTCCGGAGATGTTCCTAAAGAAT 59.037 41.667 30.49 0.00 44.41 2.40
1254 2430 6.394345 AAAGAATTAGGATCCTTGGTGAGT 57.606 37.500 22.03 0.43 0.00 3.41
1255 2431 6.394345 AAGAATTAGGATCCTTGGTGAGTT 57.606 37.500 22.03 4.07 0.00 3.01
1259 2435 8.049721 AGAATTAGGATCCTTGGTGAGTTTAAG 58.950 37.037 22.03 0.00 0.00 1.85
1261 2581 5.584551 AGGATCCTTGGTGAGTTTAAGTT 57.415 39.130 9.02 0.00 0.00 2.66
1270 2734 7.497909 CCTTGGTGAGTTTAAGTTTAGAAGACA 59.502 37.037 0.00 0.00 0.00 3.41
1273 2737 7.041372 TGGTGAGTTTAAGTTTAGAAGACATGC 60.041 37.037 0.00 0.00 0.00 4.06
1294 2758 7.602265 ACATGCAACTTTACAAAAACAAACTCT 59.398 29.630 0.00 0.00 0.00 3.24
1341 2805 4.378459 GGAAATTTGACCAAGCTCACTACG 60.378 45.833 0.00 0.00 0.00 3.51
1345 2809 1.411246 TGACCAAGCTCACTACGTTGT 59.589 47.619 0.00 0.00 0.00 3.32
1346 2810 2.624364 TGACCAAGCTCACTACGTTGTA 59.376 45.455 1.45 0.00 0.00 2.41
1352 2816 5.066893 CCAAGCTCACTACGTTGTACCTATA 59.933 44.000 1.45 0.00 0.00 1.31
1353 2817 6.238953 CCAAGCTCACTACGTTGTACCTATAT 60.239 42.308 1.45 0.00 0.00 0.86
1355 2819 6.060136 AGCTCACTACGTTGTACCTATATGA 58.940 40.000 1.45 0.00 0.00 2.15
1363 2827 9.403110 CTACGTTGTACCTATATGATAACCAAC 57.597 37.037 0.00 0.00 0.00 3.77
1365 2829 8.480501 ACGTTGTACCTATATGATAACCAACTT 58.519 33.333 0.00 0.00 0.00 2.66
1368 2832 9.841295 TTGTACCTATATGATAACCAACTTTCC 57.159 33.333 0.00 0.00 0.00 3.13
1372 2836 1.828979 TGATAACCAACTTTCCGGGC 58.171 50.000 0.00 0.00 0.00 6.13
1373 2837 1.074084 TGATAACCAACTTTCCGGGCA 59.926 47.619 0.00 0.00 0.00 5.36
1374 2838 2.291282 TGATAACCAACTTTCCGGGCAT 60.291 45.455 0.00 0.00 0.00 4.40
1375 2839 1.540267 TAACCAACTTTCCGGGCATG 58.460 50.000 0.00 0.00 0.00 4.06
1380 2844 0.898326 AACTTTCCGGGCATGTTCCC 60.898 55.000 0.00 0.00 43.02 3.97
1394 2858 3.294904 TTCCCCGAGAACTAGGGTC 57.705 57.895 16.48 0.00 43.13 4.46
1407 2871 4.348020 ACTAGGGTCCTTGGTGAATCTA 57.652 45.455 0.00 0.00 0.00 1.98
1411 2875 3.777522 AGGGTCCTTGGTGAATCTAGAAG 59.222 47.826 0.00 0.00 0.00 2.85
1412 2876 3.775316 GGGTCCTTGGTGAATCTAGAAGA 59.225 47.826 0.00 0.00 0.00 2.87
1419 2883 6.433847 TTGGTGAATCTAGAAGACTTGGAA 57.566 37.500 0.00 0.00 0.00 3.53
1423 2887 6.592220 GGTGAATCTAGAAGACTTGGAACTTC 59.408 42.308 0.00 0.00 41.64 3.01
1424 2888 7.155328 GTGAATCTAGAAGACTTGGAACTTCA 58.845 38.462 0.00 0.00 43.13 3.02
1426 2890 9.035890 TGAATCTAGAAGACTTGGAACTTCATA 57.964 33.333 0.00 0.00 43.13 2.15
1427 2891 9.528018 GAATCTAGAAGACTTGGAACTTCATAG 57.472 37.037 0.00 0.00 43.13 2.23
1438 2902 7.775561 ACTTGGAACTTCATAGAAACAAACTCT 59.224 33.333 0.00 0.00 0.00 3.24
1440 2904 8.519799 TGGAACTTCATAGAAACAAACTCTTT 57.480 30.769 0.00 0.00 0.00 2.52
1461 2925 0.826062 GTTCCATCCCCAATGCCTTG 59.174 55.000 0.00 0.00 33.71 3.61
1473 2937 2.364970 CAATGCCTTGGGAAACTTGACA 59.635 45.455 0.00 0.00 0.00 3.58
1479 2943 3.132824 CCTTGGGAAACTTGACAAAGCTT 59.867 43.478 0.00 0.00 36.84 3.74
1480 2944 4.340950 CCTTGGGAAACTTGACAAAGCTTA 59.659 41.667 0.00 0.00 36.84 3.09
1485 2949 5.529800 GGGAAACTTGACAAAGCTTACTACA 59.470 40.000 0.00 0.00 36.84 2.74
1489 2953 7.801716 AACTTGACAAAGCTTACTACATTGA 57.198 32.000 0.00 0.00 36.84 2.57
1491 2955 7.639945 ACTTGACAAAGCTTACTACATTGAAC 58.360 34.615 0.00 0.00 36.84 3.18
1492 2956 6.554334 TGACAAAGCTTACTACATTGAACC 57.446 37.500 0.00 0.00 0.00 3.62
1495 2959 7.602644 TGACAAAGCTTACTACATTGAACCTAG 59.397 37.037 0.00 0.00 0.00 3.02
1498 2962 4.409247 AGCTTACTACATTGAACCTAGGGG 59.591 45.833 14.81 0.00 38.88 4.79
1500 2964 3.502051 ACTACATTGAACCTAGGGGGA 57.498 47.619 14.81 0.00 38.76 4.81
1518 2982 0.679505 GAAACCAACTTTCAGGGGGC 59.320 55.000 0.00 0.00 38.58 5.80
1530 2994 1.306997 AGGGGGCATTCCTCGAGAA 60.307 57.895 15.71 6.89 42.27 2.87
1538 3002 3.383825 GGCATTCCTCGAGAACTAGGTTA 59.616 47.826 15.71 0.00 37.29 2.85
1540 3004 4.098196 GCATTCCTCGAGAACTAGGTTACT 59.902 45.833 15.71 0.00 37.29 2.24
1542 3006 5.640189 TTCCTCGAGAACTAGGTTACTTG 57.360 43.478 15.71 0.00 34.30 3.16
1547 3011 4.828939 TCGAGAACTAGGTTACTTGGTGAA 59.171 41.667 0.00 0.00 0.00 3.18
1553 3017 7.674772 AGAACTAGGTTACTTGGTGAATCTAGT 59.325 37.037 2.45 2.45 38.12 2.57
1563 3027 6.497259 ACTTGGTGAATCTAGTAGACTTGGAA 59.503 38.462 0.85 0.00 0.00 3.53
1567 3031 6.814146 GGTGAATCTAGTAGACTTGGAACTTG 59.186 42.308 0.85 0.00 0.00 3.16
1568 3032 7.309867 GGTGAATCTAGTAGACTTGGAACTTGA 60.310 40.741 0.85 0.00 31.37 3.02
1571 3035 6.971726 TCTAGTAGACTTGGAACTTGACAA 57.028 37.500 0.00 0.00 0.00 3.18
1583 3047 6.696411 TGGAACTTGACAAAAACAAACTCAT 58.304 32.000 0.00 0.00 0.00 2.90
1584 3048 6.589523 TGGAACTTGACAAAAACAAACTCATG 59.410 34.615 0.00 0.00 0.00 3.07
1596 3060 0.324645 AACTCATGGGTTGCATCCCC 60.325 55.000 26.79 20.32 46.48 4.81
1602 3066 2.820845 GGGTTGCATCCCCAATACC 58.179 57.895 20.72 6.48 42.15 2.73
1605 3069 2.466846 GGTTGCATCCCCAATACCTTT 58.533 47.619 2.02 0.00 0.00 3.11
1612 3076 4.898861 GCATCCCCAATACCTTTGGAAATA 59.101 41.667 5.95 0.00 42.06 1.40
1617 3081 5.896678 CCCCAATACCTTTGGAAATATGACA 59.103 40.000 5.95 0.00 42.06 3.58
1625 3089 6.267471 ACCTTTGGAAATATGACAAAGCTCAA 59.733 34.615 15.96 0.00 45.88 3.02
2003 3467 5.586339 TCTTCAGATGCTACGAATCTCAAG 58.414 41.667 0.00 0.00 34.56 3.02
2293 3757 5.453567 ACTTCGCCTTTTAAAGCTGAATT 57.546 34.783 0.00 0.00 0.00 2.17
2302 3766 7.624134 GCCTTTTAAAGCTGAATTGCAATAACC 60.624 37.037 13.39 5.94 34.99 2.85
2329 3793 1.599542 GAAACATCCATGCCGAGCTAC 59.400 52.381 0.00 0.00 0.00 3.58
2418 3885 3.490348 ACTTAGTGGTTTGAGCATGCTT 58.510 40.909 23.61 5.50 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
75 76 2.747460 GCTGGATGCTCGCCACAA 60.747 61.111 0.00 0.00 38.95 3.33
267 293 1.899437 GACCGGAGAGTGCATTCCCA 61.899 60.000 9.46 0.00 0.00 4.37
321 347 2.494073 GTTTGACAAGTCCAACCCAACA 59.506 45.455 6.02 0.00 31.36 3.33
440 466 4.333926 GCTTAGTGCAATTCCCTAGACTTG 59.666 45.833 0.00 0.00 42.31 3.16
540 996 1.996292 TGCTGCTAAGTGCTAACTCG 58.004 50.000 0.00 0.00 43.37 4.18
769 1369 4.503910 TGTCCAGAGAATTGGTTACGATG 58.496 43.478 0.00 0.00 39.35 3.84
772 1372 4.253685 ACATGTCCAGAGAATTGGTTACG 58.746 43.478 0.00 0.00 39.35 3.18
799 1399 9.219603 CAAATTCACAAGATAACCTAGTTCTCA 57.780 33.333 0.00 0.00 0.00 3.27
836 1436 5.184864 CCCACTAATTGGTTGTTATGAAGCA 59.815 40.000 0.00 0.00 45.25 3.91
843 1443 5.063017 TGGAACCCACTAATTGGTTGTTA 57.937 39.130 2.82 0.00 44.70 2.41
1134 1734 2.051334 TGGAACCTGTGAGTTGGTTG 57.949 50.000 1.88 0.00 45.48 3.77
1138 2314 1.614317 GGGGATGGAACCTGTGAGTTG 60.614 57.143 0.00 0.00 0.00 3.16
1145 2321 0.033504 CGTATCGGGGATGGAACCTG 59.966 60.000 0.00 0.00 35.63 4.00
1146 2322 0.398098 ACGTATCGGGGATGGAACCT 60.398 55.000 0.00 0.00 0.00 3.50
1164 2340 5.812127 AGTGAGCTTGTTCAAATTTCCAAAC 59.188 36.000 0.00 0.00 0.00 2.93
1203 2379 1.479323 TCTCCGGAGATTTGGTTACGG 59.521 52.381 30.49 0.53 42.45 4.02
1204 2380 2.953466 TCTCCGGAGATTTGGTTACG 57.047 50.000 30.49 0.76 31.41 3.18
1231 2407 6.394345 ACTCACCAAGGATCCTAATTCTTT 57.606 37.500 16.55 0.00 27.24 2.52
1232 2408 6.394345 AACTCACCAAGGATCCTAATTCTT 57.606 37.500 16.55 0.00 30.16 2.52
1237 2413 6.697641 ACTTAAACTCACCAAGGATCCTAA 57.302 37.500 16.55 0.01 0.00 2.69
1242 2418 8.437575 TCTTCTAAACTTAAACTCACCAAGGAT 58.562 33.333 0.00 0.00 0.00 3.24
1250 2426 8.342634 GTTGCATGTCTTCTAAACTTAAACTCA 58.657 33.333 0.00 0.00 0.00 3.41
1251 2427 8.560374 AGTTGCATGTCTTCTAAACTTAAACTC 58.440 33.333 0.00 0.00 0.00 3.01
1252 2428 8.451908 AGTTGCATGTCTTCTAAACTTAAACT 57.548 30.769 0.00 0.00 0.00 2.66
1253 2429 9.516314 AAAGTTGCATGTCTTCTAAACTTAAAC 57.484 29.630 0.00 0.00 36.98 2.01
1259 2435 8.850454 TTTGTAAAGTTGCATGTCTTCTAAAC 57.150 30.769 0.00 0.00 0.00 2.01
1261 2581 9.296400 GTTTTTGTAAAGTTGCATGTCTTCTAA 57.704 29.630 0.00 0.00 0.00 2.10
1270 2734 8.442384 CAAGAGTTTGTTTTTGTAAAGTTGCAT 58.558 29.630 0.00 0.00 0.00 3.96
1273 2737 7.386573 ACCCAAGAGTTTGTTTTTGTAAAGTTG 59.613 33.333 0.00 0.00 32.21 3.16
1345 2809 7.256404 CCCGGAAAGTTGGTTATCATATAGGTA 60.256 40.741 0.73 0.00 0.00 3.08
1346 2810 6.465321 CCCGGAAAGTTGGTTATCATATAGGT 60.465 42.308 0.73 0.00 0.00 3.08
1352 2816 2.291282 TGCCCGGAAAGTTGGTTATCAT 60.291 45.455 0.73 0.00 0.00 2.45
1353 2817 1.074084 TGCCCGGAAAGTTGGTTATCA 59.926 47.619 0.73 0.00 0.00 2.15
1355 2819 2.099405 CATGCCCGGAAAGTTGGTTAT 58.901 47.619 0.73 0.00 0.00 1.89
1363 2827 3.603365 GGGAACATGCCCGGAAAG 58.397 61.111 0.73 0.00 38.58 2.62
1380 2844 0.824759 CCAAGGACCCTAGTTCTCGG 59.175 60.000 0.00 0.00 26.58 4.63
1382 2846 2.537143 TCACCAAGGACCCTAGTTCTC 58.463 52.381 0.00 0.00 26.58 2.87
1392 2856 5.669164 AGTCTTCTAGATTCACCAAGGAC 57.331 43.478 0.00 0.00 0.00 3.85
1393 2857 5.046304 CCAAGTCTTCTAGATTCACCAAGGA 60.046 44.000 0.00 0.00 0.00 3.36
1394 2858 5.046304 TCCAAGTCTTCTAGATTCACCAAGG 60.046 44.000 0.00 0.00 0.00 3.61
1407 2871 7.509546 TGTTTCTATGAAGTTCCAAGTCTTCT 58.490 34.615 0.00 0.00 40.20 2.85
1411 2875 7.931275 AGTTTGTTTCTATGAAGTTCCAAGTC 58.069 34.615 0.00 0.00 0.00 3.01
1412 2876 7.775561 AGAGTTTGTTTCTATGAAGTTCCAAGT 59.224 33.333 0.00 0.00 0.00 3.16
1419 2883 7.881775 ACCAAAGAGTTTGTTTCTATGAAGT 57.118 32.000 0.00 0.00 38.98 3.01
1423 2887 7.038154 TGGAACCAAAGAGTTTGTTTCTATG 57.962 36.000 8.86 0.00 40.56 2.23
1424 2888 7.039714 GGATGGAACCAAAGAGTTTGTTTCTAT 60.040 37.037 7.82 7.82 42.72 1.98
1426 2890 5.069119 GGATGGAACCAAAGAGTTTGTTTCT 59.931 40.000 8.86 0.00 40.56 2.52
1427 2891 5.289595 GGATGGAACCAAAGAGTTTGTTTC 58.710 41.667 0.00 2.09 40.17 2.78
1440 2904 1.001503 GGCATTGGGGATGGAACCA 59.998 57.895 0.00 0.00 36.21 3.67
1461 2925 5.529800 TGTAGTAAGCTTTGTCAAGTTTCCC 59.470 40.000 3.20 0.00 35.30 3.97
1467 2931 7.041098 AGGTTCAATGTAGTAAGCTTTGTCAAG 60.041 37.037 3.20 0.00 0.00 3.02
1473 2937 6.415573 CCCTAGGTTCAATGTAGTAAGCTTT 58.584 40.000 3.20 0.00 33.37 3.51
1479 2943 4.630382 TCCCCCTAGGTTCAATGTAGTA 57.370 45.455 8.29 0.00 36.75 1.82
1480 2944 3.502051 TCCCCCTAGGTTCAATGTAGT 57.498 47.619 8.29 0.00 36.75 2.73
1485 2949 2.364190 TGGTTTCCCCCTAGGTTCAAT 58.636 47.619 8.29 0.00 36.75 2.57
1489 2953 1.842699 AGTTGGTTTCCCCCTAGGTT 58.157 50.000 8.29 0.00 36.75 3.50
1491 2955 2.109304 TGAAAGTTGGTTTCCCCCTAGG 59.891 50.000 0.06 0.06 43.63 3.02
1492 2956 3.421844 CTGAAAGTTGGTTTCCCCCTAG 58.578 50.000 0.00 0.00 43.63 3.02
1495 2959 1.338107 CCTGAAAGTTGGTTTCCCCC 58.662 55.000 0.00 0.00 43.63 5.40
1498 2962 1.338107 CCCCCTGAAAGTTGGTTTCC 58.662 55.000 0.00 0.00 43.63 3.13
1500 2964 0.031616 TGCCCCCTGAAAGTTGGTTT 60.032 50.000 0.00 0.00 0.00 3.27
1512 2976 1.306997 TTCTCGAGGAATGCCCCCT 60.307 57.895 13.56 0.00 36.57 4.79
1515 2979 1.069358 CCTAGTTCTCGAGGAATGCCC 59.931 57.143 13.56 0.00 38.48 5.36
1516 2980 1.757699 ACCTAGTTCTCGAGGAATGCC 59.242 52.381 13.56 0.00 38.48 4.40
1518 2982 5.838531 AGTAACCTAGTTCTCGAGGAATG 57.161 43.478 13.56 0.00 38.48 2.67
1530 2994 8.334734 TCTACTAGATTCACCAAGTAACCTAGT 58.665 37.037 0.00 0.00 38.98 2.57
1538 3002 6.017192 TCCAAGTCTACTAGATTCACCAAGT 58.983 40.000 0.00 0.00 0.00 3.16
1540 3004 6.497259 AGTTCCAAGTCTACTAGATTCACCAA 59.503 38.462 0.00 0.00 0.00 3.67
1542 3006 6.532988 AGTTCCAAGTCTACTAGATTCACC 57.467 41.667 0.00 0.00 0.00 4.02
1547 3011 7.540474 TTGTCAAGTTCCAAGTCTACTAGAT 57.460 36.000 0.00 0.00 0.00 1.98
1553 3017 7.455641 TTGTTTTTGTCAAGTTCCAAGTCTA 57.544 32.000 0.00 0.00 0.00 2.59
1563 3027 5.046663 ACCCATGAGTTTGTTTTTGTCAAGT 60.047 36.000 0.00 0.00 0.00 3.16
1567 3031 4.033932 GCAACCCATGAGTTTGTTTTTGTC 59.966 41.667 0.00 0.00 0.00 3.18
1568 3032 3.938334 GCAACCCATGAGTTTGTTTTTGT 59.062 39.130 0.00 0.00 0.00 2.83
1571 3035 3.902881 TGCAACCCATGAGTTTGTTTT 57.097 38.095 0.00 0.00 0.00 2.43
1589 3053 2.452600 TCCAAAGGTATTGGGGATGC 57.547 50.000 7.33 0.00 39.96 3.91
1596 3060 8.411318 GCTTTGTCATATTTCCAAAGGTATTG 57.589 34.615 15.21 0.00 43.23 1.90
1602 3066 9.294030 GTATTGAGCTTTGTCATATTTCCAAAG 57.706 33.333 11.52 11.52 44.90 2.77
1605 3069 7.118723 AGGTATTGAGCTTTGTCATATTTCCA 58.881 34.615 0.00 0.00 0.00 3.53
1612 3076 7.349598 AGGAATAAGGTATTGAGCTTTGTCAT 58.650 34.615 0.00 0.00 40.54 3.06
1617 3081 9.920946 TCATTAAGGAATAAGGTATTGAGCTTT 57.079 29.630 0.00 0.00 40.54 3.51
1706 3170 9.401058 CAGAGAGATTGTTACCCTCAAATTAAT 57.599 33.333 0.00 0.00 0.00 1.40
1707 3171 7.829211 CCAGAGAGATTGTTACCCTCAAATTAA 59.171 37.037 0.00 0.00 0.00 1.40
1708 3172 7.037586 ACCAGAGAGATTGTTACCCTCAAATTA 60.038 37.037 0.00 0.00 0.00 1.40
2125 3589 3.550842 GCGAGGCTCAAGTTGAACATTTT 60.551 43.478 15.95 0.00 0.00 1.82
2126 3590 2.030805 GCGAGGCTCAAGTTGAACATTT 60.031 45.455 15.95 0.00 0.00 2.32
2127 3591 1.537202 GCGAGGCTCAAGTTGAACATT 59.463 47.619 15.95 0.00 0.00 2.71
2293 3757 5.827797 GGATGTTTCCTATGAGGTTATTGCA 59.172 40.000 0.00 0.00 39.14 4.08
2302 3766 2.810274 CGGCATGGATGTTTCCTATGAG 59.190 50.000 0.00 0.00 43.07 2.90
2329 3793 2.964123 CGTATAAATTGCGCAATGACCG 59.036 45.455 34.48 25.36 0.00 4.79
2507 3974 6.201591 ACTGGCCCTTCCAATTCATTATAAA 58.798 36.000 0.00 0.00 46.01 1.40


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

AutoCloner maintained by Alex Coulton.