Multiple sequence alignment - TraesCS2A01G230900

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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 TraesCS2A01G230900 chr2A 100.000 3896 0 0 1 3896 268561646 268557751 0.000000e+00 7195
1 TraesCS2A01G230900 chr2A 88.254 1260 104 14 1 1251 469874874 469876098 0.000000e+00 1467
2 TraesCS2A01G230900 chr2A 91.540 591 32 3 3264 3854 772916182 772916754 0.000000e+00 798
3 TraesCS2A01G230900 chrUn 92.338 3289 204 24 1 3264 93956813 93960078 0.000000e+00 4634
4 TraesCS2A01G230900 chrUn 91.153 633 26 5 3264 3896 93960126 93960728 0.000000e+00 832
5 TraesCS2A01G230900 chrUn 90.328 548 40 6 2728 3264 62124617 62124072 0.000000e+00 706
6 TraesCS2A01G230900 chr1D 92.767 3000 180 15 291 3264 66758269 66761257 0.000000e+00 4303
7 TraesCS2A01G230900 chr1D 91.674 1093 74 6 291 1375 370167315 370168398 0.000000e+00 1498
8 TraesCS2A01G230900 chr7D 93.629 2527 136 3 755 3264 568457403 568459921 0.000000e+00 3751
9 TraesCS2A01G230900 chr7D 95.074 406 18 2 1 406 568456702 568457105 4.250000e-179 638
10 TraesCS2A01G230900 chr3D 93.552 2528 137 5 755 3264 21935227 21937746 0.000000e+00 3742
11 TraesCS2A01G230900 chr3D 95.281 445 20 1 3452 3896 599650391 599650834 0.000000e+00 704
12 TraesCS2A01G230900 chr3D 90.968 465 30 6 291 754 21931000 21931453 1.990000e-172 616
13 TraesCS2A01G230900 chr7A 92.987 2467 135 8 818 3264 727858383 727860831 0.000000e+00 3563
14 TraesCS2A01G230900 chr7A 92.733 633 27 3 3264 3896 727860885 727861498 0.000000e+00 896
15 TraesCS2A01G230900 chr7A 89.764 381 28 4 14 393 659735656 659735286 9.790000e-131 477
16 TraesCS2A01G230900 chr7B 92.732 1706 98 7 1580 3264 123397817 123399517 0.000000e+00 2440
17 TraesCS2A01G230900 chr7B 87.618 1268 124 16 323 1586 123385312 123386550 0.000000e+00 1441
18 TraesCS2A01G230900 chr7B 93.604 641 32 2 3264 3896 123399565 123400204 0.000000e+00 948
19 TraesCS2A01G230900 chr2B 90.350 1658 101 24 1639 3264 71029553 71031183 0.000000e+00 2121
20 TraesCS2A01G230900 chr2B 94.111 866 46 3 1639 2503 398111910 398112771 0.000000e+00 1312
21 TraesCS2A01G230900 chr2B 90.958 929 59 6 2336 3264 60459859 60458956 0.000000e+00 1227
22 TraesCS2A01G230900 chr2B 91.549 852 55 3 2430 3264 12732646 12733497 0.000000e+00 1158
23 TraesCS2A01G230900 chr2B 91.943 633 32 2 3264 3896 71031231 71031844 0.000000e+00 869
24 TraesCS2A01G230900 chr2B 91.785 633 34 3 3264 3896 12733545 12734159 0.000000e+00 865
25 TraesCS2A01G230900 chr2B 92.386 591 30 2 3264 3854 752987104 752986529 0.000000e+00 828
26 TraesCS2A01G230900 chr2B 90.521 633 40 3 3264 3896 398124566 398125178 0.000000e+00 819
27 TraesCS2A01G230900 chr2B 85.246 549 50 19 1 546 12707170 12707690 1.590000e-148 536
28 TraesCS2A01G230900 chr2B 92.879 323 17 4 1 323 736899579 736899263 7.620000e-127 464
29 TraesCS2A01G230900 chr2B 94.937 79 3 1 1255 1333 12709209 12709286 5.290000e-24 122
30 TraesCS2A01G230900 chr3A 89.048 1260 91 16 1 1251 718743637 718742416 0.000000e+00 1519
31 TraesCS2A01G230900 chr3A 87.579 636 43 10 1 633 668636530 668637132 0.000000e+00 704
32 TraesCS2A01G230900 chr5D 89.222 1169 86 19 2735 3874 47186337 47185180 0.000000e+00 1424
33 TraesCS2A01G230900 chr1A 87.287 1117 99 15 146 1251 343961983 343963067 0.000000e+00 1236
34 TraesCS2A01G230900 chr1A 90.609 394 32 4 291 679 425126197 425126590 5.770000e-143 518
35 TraesCS2A01G230900 chr5B 92.543 818 56 2 1345 2161 589128209 589127396 0.000000e+00 1168
36 TraesCS2A01G230900 chr5B 91.723 447 35 2 1 447 687950866 687950422 1.540000e-173 619
37 TraesCS2A01G230900 chr1B 94.714 700 33 2 2045 2743 513973487 513974183 0.000000e+00 1085
38 TraesCS2A01G230900 chr1B 90.127 628 37 5 3264 3891 513974711 513975313 0.000000e+00 793
39 TraesCS2A01G230900 chr4A 93.232 591 29 2 3264 3854 712890158 712889579 0.000000e+00 859
40 TraesCS2A01G230900 chr4A 84.557 531 73 7 3361 3891 352466588 352467109 5.770000e-143 518
41 TraesCS2A01G230900 chr3B 91.737 593 33 4 3264 3854 75639183 75638605 0.000000e+00 809
42 TraesCS2A01G230900 chr3B 91.216 592 35 2 3264 3855 484500027 484499453 0.000000e+00 789
43 TraesCS2A01G230900 chr4B 90.205 633 31 12 3264 3896 97762264 97761663 0.000000e+00 797


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 TraesCS2A01G230900 chr2A 268557751 268561646 3895 True 7195.0 7195 100.0000 1 3896 1 chr2A.!!$R1 3895
1 TraesCS2A01G230900 chr2A 469874874 469876098 1224 False 1467.0 1467 88.2540 1 1251 1 chr2A.!!$F1 1250
2 TraesCS2A01G230900 chr2A 772916182 772916754 572 False 798.0 798 91.5400 3264 3854 1 chr2A.!!$F2 590
3 TraesCS2A01G230900 chrUn 93956813 93960728 3915 False 2733.0 4634 91.7455 1 3896 2 chrUn.!!$F1 3895
4 TraesCS2A01G230900 chrUn 62124072 62124617 545 True 706.0 706 90.3280 2728 3264 1 chrUn.!!$R1 536
5 TraesCS2A01G230900 chr1D 66758269 66761257 2988 False 4303.0 4303 92.7670 291 3264 1 chr1D.!!$F1 2973
6 TraesCS2A01G230900 chr1D 370167315 370168398 1083 False 1498.0 1498 91.6740 291 1375 1 chr1D.!!$F2 1084
7 TraesCS2A01G230900 chr7D 568456702 568459921 3219 False 2194.5 3751 94.3515 1 3264 2 chr7D.!!$F1 3263
8 TraesCS2A01G230900 chr3D 21931000 21937746 6746 False 2179.0 3742 92.2600 291 3264 2 chr3D.!!$F2 2973
9 TraesCS2A01G230900 chr7A 727858383 727861498 3115 False 2229.5 3563 92.8600 818 3896 2 chr7A.!!$F1 3078
10 TraesCS2A01G230900 chr7B 123397817 123400204 2387 False 1694.0 2440 93.1680 1580 3896 2 chr7B.!!$F2 2316
11 TraesCS2A01G230900 chr7B 123385312 123386550 1238 False 1441.0 1441 87.6180 323 1586 1 chr7B.!!$F1 1263
12 TraesCS2A01G230900 chr2B 71029553 71031844 2291 False 1495.0 2121 91.1465 1639 3896 2 chr2B.!!$F5 2257
13 TraesCS2A01G230900 chr2B 398111910 398112771 861 False 1312.0 1312 94.1110 1639 2503 1 chr2B.!!$F1 864
14 TraesCS2A01G230900 chr2B 60458956 60459859 903 True 1227.0 1227 90.9580 2336 3264 1 chr2B.!!$R1 928
15 TraesCS2A01G230900 chr2B 12732646 12734159 1513 False 1011.5 1158 91.6670 2430 3896 2 chr2B.!!$F4 1466
16 TraesCS2A01G230900 chr2B 752986529 752987104 575 True 828.0 828 92.3860 3264 3854 1 chr2B.!!$R3 590
17 TraesCS2A01G230900 chr2B 398124566 398125178 612 False 819.0 819 90.5210 3264 3896 1 chr2B.!!$F2 632
18 TraesCS2A01G230900 chr2B 12707170 12709286 2116 False 329.0 536 90.0915 1 1333 2 chr2B.!!$F3 1332
19 TraesCS2A01G230900 chr3A 718742416 718743637 1221 True 1519.0 1519 89.0480 1 1251 1 chr3A.!!$R1 1250
20 TraesCS2A01G230900 chr3A 668636530 668637132 602 False 704.0 704 87.5790 1 633 1 chr3A.!!$F1 632
21 TraesCS2A01G230900 chr5D 47185180 47186337 1157 True 1424.0 1424 89.2220 2735 3874 1 chr5D.!!$R1 1139
22 TraesCS2A01G230900 chr1A 343961983 343963067 1084 False 1236.0 1236 87.2870 146 1251 1 chr1A.!!$F1 1105
23 TraesCS2A01G230900 chr5B 589127396 589128209 813 True 1168.0 1168 92.5430 1345 2161 1 chr5B.!!$R1 816
24 TraesCS2A01G230900 chr1B 513973487 513975313 1826 False 939.0 1085 92.4205 2045 3891 2 chr1B.!!$F1 1846
25 TraesCS2A01G230900 chr4A 712889579 712890158 579 True 859.0 859 93.2320 3264 3854 1 chr4A.!!$R1 590
26 TraesCS2A01G230900 chr4A 352466588 352467109 521 False 518.0 518 84.5570 3361 3891 1 chr4A.!!$F1 530
27 TraesCS2A01G230900 chr3B 75638605 75639183 578 True 809.0 809 91.7370 3264 3854 1 chr3B.!!$R1 590
28 TraesCS2A01G230900 chr3B 484499453 484500027 574 True 789.0 789 91.2160 3264 3855 1 chr3B.!!$R2 591
29 TraesCS2A01G230900 chr4B 97761663 97762264 601 True 797.0 797 90.2050 3264 3896 1 chr4B.!!$R1 632

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
862 5028 0.107017 CCATAGCACCCTCCAACCTG 60.107 60.0 0.0 0.0 0.0 4.00 F
1689 6302 0.250124 CCAAGACAAGCACACGGGTA 60.250 55.0 0.0 0.0 0.0 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2838 7552 2.119655 GCTTGCATGGAGCTGGAGG 61.120 63.158 0.0 0.0 45.94 4.30 R
2935 7652 1.336755 GCACCACCAGTTTGAACGAAT 59.663 47.619 0.0 0.0 0.00 3.34 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
30 31 0.179000 AGATGCTCGTGGATCCAACC 59.821 55.000 18.20 3.83 41.22 3.77
60 61 2.773527 CCCTTCCACACCAACCCCA 61.774 63.158 0.00 0.00 0.00 4.96
88 89 5.242393 CCCTAGATGGTTATTTTGCATCCAG 59.758 44.000 0.00 0.00 0.00 3.86
330 335 4.202574 CAGCCCACCACACACCCA 62.203 66.667 0.00 0.00 0.00 4.51
341 346 1.053424 ACACACCCACACCTCGTTAT 58.947 50.000 0.00 0.00 0.00 1.89
407 412 0.920763 TGGATCCCCATGAACCAGCT 60.921 55.000 9.90 0.00 40.70 4.24
472 488 2.615288 CCCTCCCCTTCCTGGCTT 60.615 66.667 0.00 0.00 0.00 4.35
480 496 0.914644 CCTTCCTGGCTTGAGATCCA 59.085 55.000 0.00 0.00 0.00 3.41
500 516 0.621571 CTCCTCTCCAATCCCACCCA 60.622 60.000 0.00 0.00 0.00 4.51
504 520 3.253061 TCCAATCCCACCCACGCA 61.253 61.111 0.00 0.00 0.00 5.24
522 538 0.966920 CACCACAGTCGAACCCTACT 59.033 55.000 0.00 0.00 0.00 2.57
527 545 1.673665 AGTCGAACCCTACTCGCGT 60.674 57.895 5.77 0.00 36.25 6.01
598 975 2.679716 CCTCTGGGAGGCAAAGGG 59.320 66.667 0.34 0.00 43.29 3.95
599 976 2.234296 CCTCTGGGAGGCAAAGGGT 61.234 63.158 0.34 0.00 43.29 4.34
704 1087 1.219124 GAGCACATCTTCCTCGCCA 59.781 57.895 0.00 0.00 0.00 5.69
751 4894 2.063979 CGGCTCCCCACACCATCTA 61.064 63.158 0.00 0.00 0.00 1.98
763 4911 1.062886 CACCATCTACTCCTCCCCTCA 60.063 57.143 0.00 0.00 0.00 3.86
767 4915 2.298619 TCTACTCCTCCCCTCACCTA 57.701 55.000 0.00 0.00 0.00 3.08
770 4933 1.019650 ACTCCTCCCCTCACCTACAT 58.980 55.000 0.00 0.00 0.00 2.29
862 5028 0.107017 CCATAGCACCCTCCAACCTG 60.107 60.000 0.00 0.00 0.00 4.00
951 5118 4.162690 GCCTCGATTGGGGCGTCT 62.163 66.667 8.49 0.00 38.91 4.18
1036 5203 3.692406 GGAGTCCGGCAAGGTCGT 61.692 66.667 0.00 0.00 41.99 4.34
1038 5205 2.915659 AGTCCGGCAAGGTCGTCA 60.916 61.111 0.00 0.00 41.99 4.35
1073 5240 1.973281 CAACCCCGTCATGCTTGCT 60.973 57.895 0.00 0.00 0.00 3.91
1089 5256 0.735978 TGCTATCGTCCGCACAAGTG 60.736 55.000 0.00 0.00 0.00 3.16
1139 5306 2.603473 CCGAGGAGACCACCACCA 60.603 66.667 0.00 0.00 0.00 4.17
1162 5329 1.273759 TCAAGCAGATGCAGGAGTCT 58.726 50.000 7.68 0.00 45.16 3.24
1181 5348 1.053835 TGGCACTCTCCTGTTCCACA 61.054 55.000 0.00 0.00 28.79 4.17
1240 5408 7.308589 CGTTCTTCCCATTTTACAGAGTTTCAT 60.309 37.037 0.00 0.00 0.00 2.57
1245 5413 9.753674 TTCCCATTTTACAGAGTTTCATATCTT 57.246 29.630 0.00 0.00 0.00 2.40
1270 5883 2.617308 CTCTGTTTCAGCATGGCATAGG 59.383 50.000 0.00 0.00 36.16 2.57
1401 6014 5.065914 TCAGTTAGATTTGTTGAAGCTGCT 58.934 37.500 0.00 0.00 34.28 4.24
1403 6016 6.881065 TCAGTTAGATTTGTTGAAGCTGCTAT 59.119 34.615 0.90 0.00 34.28 2.97
1412 6025 6.915544 TGTTGAAGCTGCTATGAGATTTAG 57.084 37.500 0.90 0.00 0.00 1.85
1418 6031 8.206867 TGAAGCTGCTATGAGATTTAGTTATGT 58.793 33.333 0.90 0.00 0.00 2.29
1527 6140 7.701539 ATTTTGAGTGAATGTTATGGTGCTA 57.298 32.000 0.00 0.00 0.00 3.49
1548 6161 9.208022 GTGCTATACATATGATGCACTTTAAGA 57.792 33.333 24.54 3.14 44.80 2.10
1630 6243 3.645212 CCAGAGGAGCATCTATCTTTCCA 59.355 47.826 0.00 0.00 30.56 3.53
1677 6290 6.460953 GCAAAGGTCATTTTACTTCCAAGACA 60.461 38.462 0.00 0.00 0.00 3.41
1689 6302 0.250124 CCAAGACAAGCACACGGGTA 60.250 55.000 0.00 0.00 0.00 3.69
2029 6642 5.856156 TGGTTGAAGAATTGAATTGTGCAT 58.144 33.333 0.00 0.00 0.00 3.96
2062 6675 8.453238 TTTGTAGCACTTTGAGGTTGTTATTA 57.547 30.769 0.00 0.00 0.00 0.98
2179 6795 7.500892 TCCATGTTACACTGACACAACTTATTT 59.499 33.333 0.00 0.00 0.00 1.40
2207 6823 6.126409 TGGTCCTTGTCTGATTTAGTTGTTT 58.874 36.000 0.00 0.00 0.00 2.83
2353 6986 3.673902 TGCTGCACTACAATCTGCTTTA 58.326 40.909 0.00 0.00 34.29 1.85
2409 7042 3.077359 ACATTACTGTTGCCTTGAGCTC 58.923 45.455 6.82 6.82 44.23 4.09
2493 7126 6.488683 AGCAAGGCTTGTGTAATTTAGTGTAA 59.511 34.615 26.71 0.00 33.89 2.41
2720 7359 7.544804 ACTCATACACATGCTTATGATCCTA 57.455 36.000 14.29 0.00 34.84 2.94
2770 7484 6.539649 TTACAATAGCAGAGTTGACAACAC 57.460 37.500 20.08 13.88 0.00 3.32
2805 7519 2.606725 CAGCCTCGTTGCTATTCTCTTG 59.393 50.000 1.30 0.00 40.32 3.02
2807 7521 2.605366 GCCTCGTTGCTATTCTCTTGTC 59.395 50.000 0.00 0.00 0.00 3.18
2838 7552 5.062683 CAGTGCTACTGTTATGTGTGTGATC 59.937 44.000 7.80 0.00 41.19 2.92
2909 7624 0.675083 TGGTAAGCGTCTCGTTTCCA 59.325 50.000 0.00 1.46 31.98 3.53
2935 7652 0.563173 CCCCCATCCTCCTCTGTCTA 59.437 60.000 0.00 0.00 0.00 2.59
2986 7703 3.572255 GGGTTTGCTTGTGGATTCTTGTA 59.428 43.478 0.00 0.00 0.00 2.41
2992 7709 4.832266 TGCTTGTGGATTCTTGTATTGGTT 59.168 37.500 0.00 0.00 0.00 3.67
3005 7722 7.777095 TCTTGTATTGGTTGTAGTTTGCTTTT 58.223 30.769 0.00 0.00 0.00 2.27
3011 7728 6.952773 TGGTTGTAGTTTGCTTTTCTATGT 57.047 33.333 0.00 0.00 0.00 2.29
3030 7747 8.630054 TCTATGTGTAAAATGCTGGTACTTTT 57.370 30.769 0.00 0.00 0.00 2.27
3043 7760 5.235850 TGGTACTTTTCTTGCCATGTCTA 57.764 39.130 0.00 0.00 0.00 2.59
3045 7762 5.012664 TGGTACTTTTCTTGCCATGTCTAGA 59.987 40.000 0.00 0.00 0.00 2.43
3058 7775 5.392380 GCCATGTCTAGATCTTGTTTTGGTG 60.392 44.000 0.00 0.00 0.00 4.17
3078 7795 4.459337 GGTGGTAGTTTGCTTTGCTTATCT 59.541 41.667 0.00 0.00 0.00 1.98
3174 7891 4.973168 AGTGTGAGAAAATTAGACCAGCA 58.027 39.130 0.00 0.00 0.00 4.41
3186 7903 2.262423 GACCAGCAGTCCAGTTCTTT 57.738 50.000 0.00 0.00 39.84 2.52
3220 7937 7.167635 GCATTCTTTAAATGAGATGATGTGCTG 59.832 37.037 2.07 0.00 0.00 4.41
3306 8086 8.697507 AAGGTGAACTATCTTCACTGAAATTT 57.302 30.769 11.85 0.00 45.88 1.82
3332 8112 4.828072 ACTATCTTCACTGTTTCTCCCC 57.172 45.455 0.00 0.00 0.00 4.81
3387 8167 8.753497 TCTTAGTCTTGATATAACTCTGCAGA 57.247 34.615 17.19 17.19 0.00 4.26
3461 8261 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
3528 8328 7.599171 ACTTTGTTTTAGTGGATATTTTCCCG 58.401 34.615 0.00 0.00 44.77 5.14
3600 8401 3.715628 ACTGTGCTGGTGATGTTTTTC 57.284 42.857 0.00 0.00 0.00 2.29
3605 8406 3.003897 GTGCTGGTGATGTTTTTCCGTTA 59.996 43.478 0.00 0.00 0.00 3.18
3874 8691 2.159382 GCACCTAAAAAGGCTACAGCA 58.841 47.619 3.24 0.00 44.36 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 0.179000 GGTTGGATCCACGAGCATCT 59.821 55.000 15.91 0.00 0.00 2.90
30 31 2.434359 GAAGGGTTGAGGACGGCG 60.434 66.667 4.80 4.80 0.00 6.46
75 76 3.222287 GGGGGCTGGATGCAAAATA 57.778 52.632 0.00 0.00 45.15 1.40
239 242 1.153086 GAGGCCATGAATGACGGCT 60.153 57.895 5.01 0.00 45.50 5.52
407 412 0.179004 AGTGGATTTGGTCGCCAACA 60.179 50.000 10.30 4.16 43.82 3.33
419 424 4.473520 CCAGCGGCGGAGTGGATT 62.474 66.667 9.78 0.00 32.60 3.01
472 488 2.928036 TTGGAGAGGAGTGGATCTCA 57.072 50.000 4.74 0.00 43.11 3.27
480 496 0.621862 GGGTGGGATTGGAGAGGAGT 60.622 60.000 0.00 0.00 0.00 3.85
500 516 2.279918 GGTTCGACTGTGGTGCGT 60.280 61.111 0.00 0.00 0.00 5.24
504 520 1.254954 GAGTAGGGTTCGACTGTGGT 58.745 55.000 0.00 0.00 0.00 4.16
622 1005 2.696526 TAGTGAGGTGGTGGAGAAGT 57.303 50.000 0.00 0.00 0.00 3.01
742 1125 1.019650 AGGGGAGGAGTAGATGGTGT 58.980 55.000 0.00 0.00 0.00 4.16
751 4894 1.019650 ATGTAGGTGAGGGGAGGAGT 58.980 55.000 0.00 0.00 0.00 3.85
763 4911 3.097342 AGGTCGAGTTGGTATGTAGGT 57.903 47.619 0.00 0.00 0.00 3.08
767 4915 1.755380 GCCTAGGTCGAGTTGGTATGT 59.245 52.381 11.31 0.00 0.00 2.29
770 4933 1.471119 CAGCCTAGGTCGAGTTGGTA 58.529 55.000 11.31 0.00 0.00 3.25
1036 5203 3.307906 CGGTGGACTCCGGGTTGA 61.308 66.667 0.00 0.00 45.88 3.18
1073 5240 1.447140 GGCACTTGTGCGGACGATA 60.447 57.895 17.87 0.00 35.24 2.92
1162 5329 1.053835 TGTGGAACAGGAGAGTGCCA 61.054 55.000 0.00 0.00 45.67 4.92
1181 5348 2.224843 TGCTCTTGGTGATGTTGATGGT 60.225 45.455 0.00 0.00 0.00 3.55
1263 5876 5.413833 CCATGTGAATCAATACTCCTATGCC 59.586 44.000 0.00 0.00 0.00 4.40
1436 6049 3.987220 ACAACACGCAATTGCTATTTTCC 59.013 39.130 26.86 0.00 39.32 3.13
1630 6243 4.325972 CAGCAAAATAAAAGCCCCACAAT 58.674 39.130 0.00 0.00 0.00 2.71
1677 6290 2.577700 TCACAATTTACCCGTGTGCTT 58.422 42.857 0.00 0.00 41.93 3.91
1689 6302 9.645128 TGGATACTTCATAATCCATCACAATTT 57.355 29.630 0.00 0.00 45.28 1.82
1764 6377 3.259876 CAGCTACACCACCTACAAACCTA 59.740 47.826 0.00 0.00 0.00 3.08
1767 6380 3.121738 ACAGCTACACCACCTACAAAC 57.878 47.619 0.00 0.00 0.00 2.93
1863 6476 9.195411 GAAATTCTGAATGTAAAAGTTGATGCA 57.805 29.630 3.22 0.00 0.00 3.96
2043 6656 7.145932 ACAGATAATAACAACCTCAAAGTGC 57.854 36.000 0.00 0.00 0.00 4.40
2123 6739 9.717942 CCCAAACTGAATATATTTCCAAAACAA 57.282 29.630 0.00 0.00 0.00 2.83
2153 6769 4.415881 AGTTGTGTCAGTGTAACATGGA 57.584 40.909 0.00 0.00 41.43 3.41
2179 6795 5.690865 ACTAAATCAGACAAGGACCAAACA 58.309 37.500 0.00 0.00 0.00 2.83
2207 6823 3.453717 CAGGGGAGATGAAGACAAGATGA 59.546 47.826 0.00 0.00 0.00 2.92
2331 6964 2.414994 AGCAGATTGTAGTGCAGCAT 57.585 45.000 0.00 0.00 42.47 3.79
2375 7008 7.651704 GGCAACAGTAATGTCAACTTAACATTT 59.348 33.333 6.78 0.00 43.08 2.32
2409 7042 8.307483 CCAGGATCTATGTTAGTAAGTGTATGG 58.693 40.741 0.00 0.00 0.00 2.74
2493 7126 9.768662 AAATTTCAGTTGAAACTAAAGATGCAT 57.231 25.926 9.29 0.00 45.55 3.96
2566 7203 6.821665 GGCTCCATTTGTAACTACAATACTCA 59.178 38.462 3.25 0.00 44.72 3.41
2770 7484 2.793585 CGAGGCTGCATTACAAATGCTG 60.794 50.000 21.43 20.99 44.79 4.41
2838 7552 2.119655 GCTTGCATGGAGCTGGAGG 61.120 63.158 0.00 0.00 45.94 4.30
2935 7652 1.336755 GCACCACCAGTTTGAACGAAT 59.663 47.619 0.00 0.00 0.00 3.34
2986 7703 7.867403 CACATAGAAAAGCAAACTACAACCAAT 59.133 33.333 0.00 0.00 0.00 3.16
3005 7722 8.630054 AAAAGTACCAGCATTTTACACATAGA 57.370 30.769 0.00 0.00 0.00 1.98
3011 7728 6.212955 GCAAGAAAAGTACCAGCATTTTACA 58.787 36.000 0.00 0.00 0.00 2.41
3030 7747 5.426689 AACAAGATCTAGACATGGCAAGA 57.573 39.130 0.00 0.00 0.00 3.02
3043 7760 5.221244 GCAAACTACCACCAAAACAAGATCT 60.221 40.000 0.00 0.00 0.00 2.75
3045 7762 4.649218 AGCAAACTACCACCAAAACAAGAT 59.351 37.500 0.00 0.00 0.00 2.40
3058 7775 6.986904 ACTAGATAAGCAAAGCAAACTACC 57.013 37.500 0.00 0.00 0.00 3.18
3078 7795 5.453339 GCTGGCCAATTGACTGATACTACTA 60.453 44.000 7.01 0.00 0.00 1.82
3174 7891 3.181440 TGCATTCAGGAAAGAACTGGACT 60.181 43.478 0.00 0.00 36.62 3.85
3186 7903 7.943079 TCTCATTTAAAGAATGCATTCAGGA 57.057 32.000 34.59 21.67 39.23 3.86
3220 7937 9.250624 CTTGTTTATAGTAAGTAGCATGTCTCC 57.749 37.037 0.00 0.00 0.00 3.71
3306 8086 7.310485 GGGGAGAAACAGTGAAGATAGTTCTTA 60.310 40.741 0.00 0.00 42.34 2.10
3332 8112 3.818787 GGGTGAGGCAATGCAGCG 61.819 66.667 7.79 0.00 33.56 5.18
3387 8167 9.793259 TTGAAAGTAACTCCAGATTCAAGTAAT 57.207 29.630 0.00 0.00 33.32 1.89
3461 8261 6.554334 TTACTACAAATTTGCTCACTGGAC 57.446 37.500 18.12 0.00 0.00 4.02
3526 8326 7.036220 ACTATATGTCAAAAGAGAACTGACGG 58.964 38.462 0.00 0.00 41.94 4.79
3600 8401 4.644685 AGGTTCAAATGATCCCATTAACGG 59.355 41.667 6.85 0.00 41.84 4.44
3605 8406 4.335735 TCCAGGTTCAAATGATCCCATT 57.664 40.909 6.85 0.00 44.38 3.16
3727 8541 7.224557 GGAATACAAGTTTGTTGTCAAAGCAAT 59.775 33.333 2.46 0.00 43.04 3.56
3821 8637 8.237267 ACTTTAAGCATAGAAAATTGGAGAACG 58.763 33.333 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.