Multiple sequence alignment - TraesCS7A01G023500

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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 TraesCS7A01G023500 chr7A 100.000 2528 0 0 1 2528 9334028 9336555 0.000000e+00 4669.0
1 TraesCS7A01G023500 chr7A 92.386 394 26 4 44 437 612372773 612373162 2.200000e-155 558.0
2 TraesCS7A01G023500 chr7A 90.179 112 10 1 2071 2182 9684414 9684304 7.290000e-31 145.0
3 TraesCS7A01G023500 chr7D 86.256 975 124 5 584 1548 10470019 10469045 0.000000e+00 1050.0
4 TraesCS7A01G023500 chr7D 86.404 787 93 9 584 1357 10478254 10477469 0.000000e+00 848.0
5 TraesCS7A01G023500 chr7D 82.646 582 66 16 1834 2400 10476837 10476276 1.360000e-132 483.0
6 TraesCS7A01G023500 chr7D 78.444 617 116 12 586 1190 10047643 10048254 1.100000e-103 387.0
7 TraesCS7A01G023500 chr7D 91.837 196 12 2 1545 1736 10468999 10468804 1.150000e-68 270.0
8 TraesCS7A01G023500 chr7D 85.938 128 9 5 2276 2400 9349529 9349650 7.340000e-26 128.0
9 TraesCS7A01G023500 chr7D 82.000 150 24 1 2245 2394 10034272 10034418 9.500000e-25 124.0
10 TraesCS7A01G023500 chr4A 86.552 989 86 21 584 1548 729079422 729078457 0.000000e+00 1046.0
11 TraesCS7A01G023500 chr4A 83.662 1114 146 19 585 1677 728428586 728427488 0.000000e+00 1016.0
12 TraesCS7A01G023500 chr4A 82.727 1181 160 23 584 1736 729686356 729687520 0.000000e+00 1011.0
13 TraesCS7A01G023500 chr4A 85.436 975 111 7 584 1548 728832475 728833428 0.000000e+00 985.0
14 TraesCS7A01G023500 chr4A 84.359 959 121 15 585 1517 729862949 729863904 0.000000e+00 913.0
15 TraesCS7A01G023500 chr4A 86.875 800 91 9 585 1372 718926400 718925603 0.000000e+00 883.0
16 TraesCS7A01G023500 chr4A 83.960 798 113 9 586 1369 729528864 729528068 0.000000e+00 750.0
17 TraesCS7A01G023500 chr4A 84.418 584 81 8 5 587 714235354 714234780 1.310000e-157 566.0
18 TraesCS7A01G023500 chr4A 86.969 353 24 9 2194 2525 729865074 729865425 6.600000e-101 377.0
19 TraesCS7A01G023500 chr4A 87.119 295 38 0 1078 1372 730066330 730066036 4.030000e-88 335.0
20 TraesCS7A01G023500 chr4A 80.457 394 55 11 1829 2218 729077496 729077121 5.320000e-72 281.0
21 TraesCS7A01G023500 chr4A 90.863 197 13 4 1545 1736 729078299 729078103 2.490000e-65 259.0
22 TraesCS7A01G023500 chr4A 91.667 144 11 1 1406 1548 729528061 729527918 5.520000e-47 198.0
23 TraesCS7A01G023500 chr4A 86.631 187 12 7 1545 1724 729527876 729527696 7.140000e-46 195.0
24 TraesCS7A01G023500 chr4A 81.188 202 20 6 2245 2446 729717925 729718108 2.030000e-31 147.0
25 TraesCS7A01G023500 chr4A 82.258 186 18 7 1553 1731 729863897 729864074 2.030000e-31 147.0
26 TraesCS7A01G023500 chr4A 83.125 160 18 5 2243 2400 728648842 728648690 1.220000e-28 137.0
27 TraesCS7A01G023500 chr4A 83.125 160 18 5 2243 2400 729823023 729823175 1.220000e-28 137.0
28 TraesCS7A01G023500 chr4A 85.294 136 13 4 2276 2409 728564837 728564707 1.580000e-27 134.0
29 TraesCS7A01G023500 chr4A 82.119 151 18 5 2252 2400 729161338 729161481 1.230000e-23 121.0
30 TraesCS7A01G023500 chr4A 77.132 258 25 12 2194 2449 728425766 728425541 4.420000e-23 119.0
31 TraesCS7A01G023500 chr4A 75.591 254 30 16 1744 1969 729817153 729817402 2.070000e-16 97.1
32 TraesCS7A01G023500 chr1A 92.295 584 42 3 4 587 570373636 570373056 0.000000e+00 826.0
33 TraesCS7A01G023500 chr1A 89.552 335 32 3 4 338 570413280 570412949 3.010000e-114 422.0
34 TraesCS7A01G023500 chr2B 86.271 590 70 8 1 587 75993488 75994069 4.590000e-177 630.0
35 TraesCS7A01G023500 chr2B 85.690 587 73 9 5 587 198314387 198313808 2.150000e-170 608.0
36 TraesCS7A01G023500 chr2B 84.668 587 80 9 4 587 555671367 555670788 6.060000e-161 577.0
37 TraesCS7A01G023500 chr2B 84.237 590 82 9 1 587 30294942 30295523 4.720000e-157 564.0
38 TraesCS7A01G023500 chr5B 85.666 586 73 11 7 586 352382505 352381925 7.730000e-170 606.0
39 TraesCS7A01G023500 chr3B 85.424 590 75 9 1 587 783827712 783828293 1.000000e-168 603.0
40 TraesCS7A01G023500 chr4B 84.694 588 80 8 4 587 393900684 393901265 1.690000e-161 579.0
41 TraesCS7A01G023500 chr1D 84.574 188 14 7 1549 1732 302076453 302076277 3.340000e-39 172.0
42 TraesCS7A01G023500 chrUn 78.723 94 15 4 587 679 8843592 8843503 9.770000e-05 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 TraesCS7A01G023500 chr7A 9334028 9336555 2527 False 4669.000000 4669 100.000000 1 2528 1 chr7A.!!$F1 2527
1 TraesCS7A01G023500 chr7D 10476276 10478254 1978 True 665.500000 848 84.525000 584 2400 2 chr7D.!!$R2 1816
2 TraesCS7A01G023500 chr7D 10468804 10470019 1215 True 660.000000 1050 89.046500 584 1736 2 chr7D.!!$R1 1152
3 TraesCS7A01G023500 chr7D 10047643 10048254 611 False 387.000000 387 78.444000 586 1190 1 chr7D.!!$F3 604
4 TraesCS7A01G023500 chr4A 729686356 729687520 1164 False 1011.000000 1011 82.727000 584 1736 1 chr4A.!!$F3 1152
5 TraesCS7A01G023500 chr4A 728832475 728833428 953 False 985.000000 985 85.436000 584 1548 1 chr4A.!!$F1 964
6 TraesCS7A01G023500 chr4A 718925603 718926400 797 True 883.000000 883 86.875000 585 1372 1 chr4A.!!$R2 787
7 TraesCS7A01G023500 chr4A 728425541 728428586 3045 True 567.500000 1016 80.397000 585 2449 2 chr4A.!!$R6 1864
8 TraesCS7A01G023500 chr4A 714234780 714235354 574 True 566.000000 566 84.418000 5 587 1 chr4A.!!$R1 582
9 TraesCS7A01G023500 chr4A 729077121 729079422 2301 True 528.666667 1046 85.957333 584 2218 3 chr4A.!!$R7 1634
10 TraesCS7A01G023500 chr4A 729862949 729865425 2476 False 479.000000 913 84.528667 585 2525 3 chr4A.!!$F7 1940
11 TraesCS7A01G023500 chr4A 729527696 729528864 1168 True 381.000000 750 87.419333 586 1724 3 chr4A.!!$R8 1138
12 TraesCS7A01G023500 chr1A 570373056 570373636 580 True 826.000000 826 92.295000 4 587 1 chr1A.!!$R1 583
13 TraesCS7A01G023500 chr2B 75993488 75994069 581 False 630.000000 630 86.271000 1 587 1 chr2B.!!$F2 586
14 TraesCS7A01G023500 chr2B 198313808 198314387 579 True 608.000000 608 85.690000 5 587 1 chr2B.!!$R1 582
15 TraesCS7A01G023500 chr2B 555670788 555671367 579 True 577.000000 577 84.668000 4 587 1 chr2B.!!$R2 583
16 TraesCS7A01G023500 chr2B 30294942 30295523 581 False 564.000000 564 84.237000 1 587 1 chr2B.!!$F1 586
17 TraesCS7A01G023500 chr5B 352381925 352382505 580 True 606.000000 606 85.666000 7 586 1 chr5B.!!$R1 579
18 TraesCS7A01G023500 chr3B 783827712 783828293 581 False 603.000000 603 85.424000 1 587 1 chr3B.!!$F1 586
19 TraesCS7A01G023500 chr4B 393900684 393901265 581 False 579.000000 579 84.694000 4 587 1 chr4B.!!$F1 583

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
280 289 0.0293 TGCGCACAGTTTTGAAGCTC 59.971 50.0 5.66 0.0 0.0 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1810 4151 0.113776 TACACCGGTCCACCTTCTCT 59.886 55.0 2.59 0.0 0.0 3.1 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
23 24 2.281762 GCGACTACAGCATAAGGAAACG 59.718 50.000 0.00 0.00 34.19 3.60
151 153 3.244457 GCAAACCACTAGACCTAACCAGT 60.244 47.826 0.00 0.00 0.00 4.00
164 166 5.506708 ACCTAACCAGTTCAAGACAAACTT 58.493 37.500 0.00 0.00 34.79 2.66
174 176 6.208599 AGTTCAAGACAAACTTCAACAGGAAA 59.791 34.615 0.00 0.00 41.04 3.13
191 193 8.832521 CAACAGGAAACATAACAGTACTACAAA 58.167 33.333 0.00 0.00 0.00 2.83
203 205 2.740714 CTACAAACGCCCTGCTCGC 61.741 63.158 0.00 0.00 0.00 5.03
230 235 2.239907 AGATACAGGGGAGCAAAAGACC 59.760 50.000 0.00 0.00 0.00 3.85
260 269 1.933115 AATGCGATCCACCAAACGGC 61.933 55.000 0.00 0.00 0.00 5.68
262 271 3.039202 GCGATCCACCAAACGGCTG 62.039 63.158 0.00 0.00 0.00 4.85
264 273 3.039202 GATCCACCAAACGGCTGCG 62.039 63.158 0.00 0.00 0.00 5.18
271 280 3.209097 AAACGGCTGCGCACAGTT 61.209 55.556 5.66 13.88 46.30 3.16
280 289 0.029300 TGCGCACAGTTTTGAAGCTC 59.971 50.000 5.66 0.00 0.00 4.09
282 291 1.531149 GCGCACAGTTTTGAAGCTCTA 59.469 47.619 0.30 0.00 0.00 2.43
285 294 4.398247 CGCACAGTTTTGAAGCTCTATTC 58.602 43.478 0.00 0.00 0.00 1.75
297 307 1.748591 GCTCTATTCTGCCTTGGTGGG 60.749 57.143 0.00 0.00 36.00 4.61
303 313 0.253160 TCTGCCTTGGTGGGGTAGAT 60.253 55.000 0.00 0.00 39.88 1.98
315 325 1.557651 GGGTAGATTCAGTTCGTCGC 58.442 55.000 0.00 0.00 0.00 5.19
461 471 7.118101 CACAAGCAGCATAAACCACATTAAAAT 59.882 33.333 0.00 0.00 0.00 1.82
506 516 0.811616 GGTAGCCTGATTGCGACTGG 60.812 60.000 0.00 0.00 37.10 4.00
580 590 4.461081 CCATCGGGAAGGAAAATGTAACAA 59.539 41.667 0.00 0.00 35.59 2.83
614 624 1.899814 ACTTGGAGACGCTGGACATAA 59.100 47.619 0.00 0.00 0.00 1.90
737 747 5.664457 TCGAGAATATGAAATCACTGCACT 58.336 37.500 0.00 0.00 0.00 4.40
794 810 1.557099 TATGGGTCTCAGCGAGTTGT 58.443 50.000 5.66 0.00 0.00 3.32
795 811 0.687354 ATGGGTCTCAGCGAGTTGTT 59.313 50.000 5.66 0.00 0.00 2.83
861 889 5.766174 AGTTGCCAAAAATTGATGCTTTGAT 59.234 32.000 1.89 0.00 32.87 2.57
867 895 6.148811 CCAAAAATTGATGCTTTGATCTGCTT 59.851 34.615 0.00 0.00 32.87 3.91
873 901 4.703093 TGATGCTTTGATCTGCTTCATTGA 59.297 37.500 15.01 0.00 38.07 2.57
915 946 4.996788 ATTTGTTCATCTCTGGCAATCC 57.003 40.909 0.00 0.00 0.00 3.01
929 960 1.202268 GCAATCCTGCTGAATGTGAGC 60.202 52.381 0.00 0.00 45.74 4.26
962 996 4.514441 AGCGCTCATCATCTAATCCTTTTG 59.486 41.667 2.64 0.00 0.00 2.44
1034 1069 2.270352 TGGTTGTGTGGTCTCCATTC 57.730 50.000 0.00 0.00 35.28 2.67
1044 1079 1.078214 TCTCCATTCCCTGCGCTTG 60.078 57.895 9.73 0.76 0.00 4.01
1096 1131 3.009363 TCAGGATGTTCATCTGCTTGGAA 59.991 43.478 11.73 0.00 37.40 3.53
1098 1133 4.219070 CAGGATGTTCATCTGCTTGGAAAA 59.781 41.667 11.73 0.00 0.00 2.29
1261 1296 2.722094 CAGGTGCTATGCCCAGTTTAA 58.278 47.619 0.00 0.00 0.00 1.52
1270 1305 3.569194 TGCCCAGTTTAAGAACACTCA 57.431 42.857 0.00 0.00 38.26 3.41
1276 1311 4.938226 CCAGTTTAAGAACACTCAGGATCC 59.062 45.833 2.48 2.48 38.26 3.36
1277 1312 5.513094 CCAGTTTAAGAACACTCAGGATCCA 60.513 44.000 15.82 0.00 38.26 3.41
1280 1315 3.641434 AAGAACACTCAGGATCCATGG 57.359 47.619 15.82 4.97 0.00 3.66
1369 1404 4.144297 GCATGGGGTCTGCAATAATAAGA 58.856 43.478 0.00 0.00 39.46 2.10
1380 1415 6.929049 TCTGCAATAATAAGAATACGGTGGAG 59.071 38.462 0.00 0.00 0.00 3.86
1382 1417 6.704493 TGCAATAATAAGAATACGGTGGAGAC 59.296 38.462 0.00 0.00 0.00 3.36
1394 1429 1.070289 GGTGGAGACGTTGAAAGAGGT 59.930 52.381 0.00 0.00 0.00 3.85
1411 1446 0.169009 GGTCAAGGACGCATTCAAGC 59.831 55.000 0.00 0.00 32.65 4.01
1446 1481 2.032071 CCGAACCGCCCTTCTGTT 59.968 61.111 0.00 0.00 0.00 3.16
1447 1482 2.325082 CCGAACCGCCCTTCTGTTG 61.325 63.158 0.00 0.00 0.00 3.33
1464 1500 9.994432 CCTTCTGTTGAAGTTCATCATTTATAC 57.006 33.333 15.29 5.33 46.07 1.47
1490 1529 5.179368 AGTGTATAATTACCACATGCATCGC 59.821 40.000 15.67 0.00 0.00 4.58
1555 1844 2.570135 CAGCTGATTAAGGAAGGAGCC 58.430 52.381 8.42 0.00 0.00 4.70
1556 1845 1.492599 AGCTGATTAAGGAAGGAGCCC 59.507 52.381 0.00 0.00 0.00 5.19
1689 1995 5.489792 TTCTTGTAATCTGCCTCTCTGTT 57.510 39.130 0.00 0.00 0.00 3.16
1704 2010 5.036117 TCTCTGTTATGGCTTGTAATCCC 57.964 43.478 0.00 0.00 0.00 3.85
1810 4151 1.381327 CGGGAGAAGGCACCTCCTA 60.381 63.158 19.89 0.00 46.94 2.94
1814 4160 1.063567 GGAGAAGGCACCTCCTAGAGA 60.064 57.143 15.30 0.00 46.94 3.10
1832 4214 2.517484 GAAGGTGGACCGGTGTAGCC 62.517 65.000 14.63 7.65 42.08 3.93
1890 4297 5.443185 TTGCTGGAGAAAAGAATTGTCAG 57.557 39.130 0.00 0.00 0.00 3.51
1898 4305 8.359642 TGGAGAAAAGAATTGTCAGGTTAATTG 58.640 33.333 0.00 0.00 0.00 2.32
1899 4306 8.576442 GGAGAAAAGAATTGTCAGGTTAATTGA 58.424 33.333 0.00 0.00 0.00 2.57
1910 4317 7.106890 TGTCAGGTTAATTGATCGTAATCCAA 58.893 34.615 0.00 0.00 0.00 3.53
1917 4324 9.248291 GTTAATTGATCGTAATCCAATGCAAAT 57.752 29.630 0.00 0.00 0.00 2.32
1925 4332 1.246649 TCCAATGCAAATGAGCGTGT 58.753 45.000 4.54 0.00 37.31 4.49
1927 4334 2.161410 TCCAATGCAAATGAGCGTGTAC 59.839 45.455 4.54 0.00 37.31 2.90
1962 4369 9.752961 GTAGAATCTTAGTAATCCCTTCAGAAC 57.247 37.037 0.00 0.00 0.00 3.01
2021 4428 1.941377 TTCTCCATTTGCCCTGCATT 58.059 45.000 0.00 0.00 38.76 3.56
2038 4445 6.101997 CCTGCATTTTTAAGTTCATCCCTTC 58.898 40.000 0.00 0.00 0.00 3.46
2066 4473 1.802960 CTTTGCTGCGATCTCACAACT 59.197 47.619 0.00 0.00 0.00 3.16
2068 4475 0.318120 TGCTGCGATCTCACAACTGA 59.682 50.000 0.00 0.00 0.00 3.41
2069 4476 1.066645 TGCTGCGATCTCACAACTGAT 60.067 47.619 0.00 0.00 0.00 2.90
2152 4562 5.683876 TTTTTCCATTCAACTTGGGTGAA 57.316 34.783 0.40 0.40 34.85 3.18
2154 4564 4.870123 TTCCATTCAACTTGGGTGAATG 57.130 40.909 23.47 23.47 44.87 2.67
2156 4566 2.963432 CATTCAACTTGGGTGAATGGC 58.037 47.619 22.98 0.00 42.85 4.40
2161 4571 3.390639 TCAACTTGGGTGAATGGCAAAAT 59.609 39.130 0.00 0.00 0.00 1.82
2171 4581 5.473039 GTGAATGGCAAAATAGTTGAAGCT 58.527 37.500 0.00 0.00 0.00 3.74
2182 4592 8.939929 CAAAATAGTTGAAGCTGACAGAGATAA 58.060 33.333 6.65 0.00 0.00 1.75
2234 4652 7.013369 GGTGAAGGAAGTCAATACAAAGAGTTT 59.987 37.037 0.00 0.00 0.00 2.66
2272 4690 1.697284 AGAGATCATGCCGTCTGCTA 58.303 50.000 0.00 0.00 42.00 3.49
2287 4705 2.435805 TCTGCTATAGGTTGCTTGGAGG 59.564 50.000 1.04 0.00 0.00 4.30
2337 4756 4.114997 CGGTTGAATGGGGTGCGC 62.115 66.667 0.00 0.00 0.00 6.09
2358 4777 3.181497 GCTTTTCACAGACTGAAACTGCA 60.181 43.478 10.08 0.00 46.56 4.41
2401 4820 3.063452 CACGACAGTTTGTAACAAGTGCT 59.937 43.478 0.00 0.00 0.00 4.40
2429 4851 3.194329 TCGATCTGCAACAATCACTCTCT 59.806 43.478 0.00 0.00 0.00 3.10
2446 4868 4.465660 ACTCTCTGTCAGATGCATGTAACT 59.534 41.667 2.46 0.00 0.00 2.24
2525 4964 6.988580 CCAGCTAGAATCATACACAATCTTGA 59.011 38.462 0.00 0.00 0.00 3.02
2526 4965 7.660617 CCAGCTAGAATCATACACAATCTTGAT 59.339 37.037 0.00 0.00 0.00 2.57
2527 4966 8.496751 CAGCTAGAATCATACACAATCTTGATG 58.503 37.037 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.281762 CGTTTCCTTATGCTGTAGTCGC 59.718 50.000 0.00 0.00 0.00 5.19
23 24 1.192428 TCTCGCCTTACCCCTTTCTC 58.808 55.000 0.00 0.00 0.00 2.87
101 102 2.358322 AGGTGTCATTGGGTTTTCGT 57.642 45.000 0.00 0.00 0.00 3.85
151 153 6.015856 TGTTTCCTGTTGAAGTTTGTCTTGAA 60.016 34.615 0.00 0.00 36.40 2.69
164 166 7.728148 TGTAGTACTGTTATGTTTCCTGTTGA 58.272 34.615 5.39 0.00 0.00 3.18
174 176 4.020839 AGGGCGTTTGTAGTACTGTTATGT 60.021 41.667 5.39 0.00 0.00 2.29
203 205 0.179034 GCTCCCCTGTATCTTGCCTG 60.179 60.000 0.00 0.00 0.00 4.85
210 213 2.644676 GGTCTTTTGCTCCCCTGTATC 58.355 52.381 0.00 0.00 0.00 2.24
212 215 0.696501 GGGTCTTTTGCTCCCCTGTA 59.303 55.000 0.00 0.00 35.52 2.74
242 248 2.406616 GCCGTTTGGTGGATCGCAT 61.407 57.895 0.00 0.00 37.67 4.73
262 271 0.308993 AGAGCTTCAAAACTGTGCGC 59.691 50.000 0.00 0.00 0.00 6.09
264 273 5.388944 CAGAATAGAGCTTCAAAACTGTGC 58.611 41.667 0.00 0.00 0.00 4.57
271 280 4.012374 CCAAGGCAGAATAGAGCTTCAAA 58.988 43.478 0.00 0.00 0.00 2.69
280 289 0.625849 ACCCCACCAAGGCAGAATAG 59.374 55.000 0.00 0.00 35.39 1.73
282 291 0.625849 CTACCCCACCAAGGCAGAAT 59.374 55.000 0.00 0.00 35.39 2.40
285 294 0.625849 AATCTACCCCACCAAGGCAG 59.374 55.000 0.00 0.00 35.39 4.85
297 307 1.557651 GGCGACGAACTGAATCTACC 58.442 55.000 0.00 0.00 0.00 3.18
315 325 0.734889 GATTTGTGCACCTCCATCGG 59.265 55.000 15.69 0.00 0.00 4.18
506 516 3.684305 GCTATTTGTTGGGCAATTTGGAC 59.316 43.478 0.00 0.00 36.89 4.02
580 590 4.757149 GTCTCCAAGTAAACAAGCTCATGT 59.243 41.667 0.00 0.00 34.24 3.21
637 647 8.103305 GGCAAATGAACTATATCTGAAGGGATA 58.897 37.037 0.00 0.00 33.45 2.59
794 810 3.726557 ATGCAGTTCCCTCAGATTGAA 57.273 42.857 0.00 0.00 0.00 2.69
795 811 4.164796 ACATATGCAGTTCCCTCAGATTGA 59.835 41.667 1.58 0.00 0.00 2.57
848 876 5.854010 ATGAAGCAGATCAAAGCATCAAT 57.146 34.783 13.87 4.22 41.09 2.57
867 895 8.862325 TTCAAGGTTATAGAGCTTTTCAATGA 57.138 30.769 0.00 0.00 43.27 2.57
896 924 3.349927 CAGGATTGCCAGAGATGAACAA 58.650 45.455 0.00 0.00 36.29 2.83
918 949 1.602851 GCTGGCTATGCTCACATTCAG 59.397 52.381 0.00 0.00 37.74 3.02
922 953 0.818445 GCTGCTGGCTATGCTCACAT 60.818 55.000 0.00 0.00 40.49 3.21
929 960 1.566882 GATGAGCGCTGCTGGCTATG 61.567 60.000 18.48 0.00 41.72 2.23
948 982 9.674824 GCTCAATATGTTCAAAAGGATTAGATG 57.325 33.333 0.00 0.00 0.00 2.90
962 996 5.453587 GCAATTCAAGACGCTCAATATGTTC 59.546 40.000 0.00 0.00 0.00 3.18
1044 1079 5.639506 TGTCTCTTCAACATACAGCTTAAGC 59.360 40.000 20.09 20.09 42.49 3.09
1096 1131 1.636003 GTGGATGAGGGAGGGAAGTTT 59.364 52.381 0.00 0.00 0.00 2.66
1098 1133 0.621862 GGTGGATGAGGGAGGGAAGT 60.622 60.000 0.00 0.00 0.00 3.01
1111 1146 1.833630 TGCTCTGAATTCGAGGTGGAT 59.166 47.619 20.96 0.00 0.00 3.41
1261 1296 1.842562 CCCATGGATCCTGAGTGTTCT 59.157 52.381 15.22 0.00 0.00 3.01
1270 1305 0.990282 CAGTGGGACCCATGGATCCT 60.990 60.000 25.33 1.66 35.28 3.24
1369 1404 3.006110 TCTTTCAACGTCTCCACCGTATT 59.994 43.478 0.00 0.00 37.61 1.89
1380 1415 2.801111 GTCCTTGACCTCTTTCAACGTC 59.199 50.000 0.00 0.00 32.02 4.34
1382 1417 1.792949 CGTCCTTGACCTCTTTCAACG 59.207 52.381 0.00 0.00 32.02 4.10
1394 1429 1.159285 CTGCTTGAATGCGTCCTTGA 58.841 50.000 0.00 0.00 35.36 3.02
1464 1500 6.347644 CGATGCATGTGGTAATTATACACTGG 60.348 42.308 2.46 13.22 33.45 4.00
1555 1844 1.722011 AAGTTAGACATTCGTGGCGG 58.278 50.000 0.00 0.00 0.00 6.13
1556 1845 3.424433 GGAAAAGTTAGACATTCGTGGCG 60.424 47.826 0.00 0.00 0.00 5.69
1689 1995 4.285775 TGATCATCGGGATTACAAGCCATA 59.714 41.667 0.00 0.00 36.00 2.74
1704 2010 7.142306 AGGAGCATTCATTTATTGATCATCG 57.858 36.000 0.00 0.00 33.34 3.84
1810 4151 0.113776 TACACCGGTCCACCTTCTCT 59.886 55.000 2.59 0.00 0.00 3.10
1814 4160 2.590114 GGCTACACCGGTCCACCTT 61.590 63.158 2.59 0.00 0.00 3.50
1832 4214 3.584406 TCTTCTCTCAAAGGAGCTTCG 57.416 47.619 0.00 0.00 41.13 3.79
1871 4273 7.510549 TTAACCTGACAATTCTTTTCTCCAG 57.489 36.000 0.00 0.00 0.00 3.86
1890 4297 6.734137 TGCATTGGATTACGATCAATTAACC 58.266 36.000 0.00 0.00 33.77 2.85
1898 4305 4.913924 GCTCATTTGCATTGGATTACGATC 59.086 41.667 0.00 0.00 0.00 3.69
1899 4306 4.555313 CGCTCATTTGCATTGGATTACGAT 60.555 41.667 0.00 0.00 0.00 3.73
1900 4307 3.242706 CGCTCATTTGCATTGGATTACGA 60.243 43.478 0.00 0.00 0.00 3.43
1910 4317 2.551887 TGTTGTACACGCTCATTTGCAT 59.448 40.909 0.00 0.00 0.00 3.96
1927 4334 9.522804 GGATTACTAAGATTCTACTCTGTGTTG 57.477 37.037 0.00 0.00 0.00 3.33
1940 4347 9.268282 TGTAGTTCTGAAGGGATTACTAAGATT 57.732 33.333 0.00 0.00 0.00 2.40
1978 4385 9.500864 GAAAATAGTTTCTGCTCTCATCATTTC 57.499 33.333 8.36 0.00 40.11 2.17
2007 4414 5.469421 TGAACTTAAAAATGCAGGGCAAATG 59.531 36.000 0.00 0.00 43.62 2.32
2021 4428 8.002459 AGTACAAAGGAAGGGATGAACTTAAAA 58.998 33.333 0.00 0.00 0.00 1.52
2038 4445 2.744202 AGATCGCAGCAAAGTACAAAGG 59.256 45.455 0.00 0.00 0.00 3.11
2066 4473 3.820467 AGGCGATGTTTCAACTGAAATCA 59.180 39.130 8.07 8.47 44.69 2.57
2068 4475 5.957842 TTAGGCGATGTTTCAACTGAAAT 57.042 34.783 8.07 0.00 44.69 2.17
2069 4476 5.759506 TTTAGGCGATGTTTCAACTGAAA 57.240 34.783 0.69 0.69 41.29 2.69
2077 4484 5.796350 TTCTAGCTTTTAGGCGATGTTTC 57.204 39.130 0.00 0.00 37.29 2.78
2152 4562 4.523943 TGTCAGCTTCAACTATTTTGCCAT 59.476 37.500 0.00 0.00 0.00 4.40
2154 4564 4.216257 TCTGTCAGCTTCAACTATTTTGCC 59.784 41.667 0.00 0.00 0.00 4.52
2156 4566 6.791887 TCTCTGTCAGCTTCAACTATTTTG 57.208 37.500 0.00 0.00 0.00 2.44
2161 4571 6.590234 TGTTATCTCTGTCAGCTTCAACTA 57.410 37.500 0.00 0.00 0.00 2.24
2171 4581 4.532126 ACCCAAGTCATGTTATCTCTGTCA 59.468 41.667 0.00 0.00 0.00 3.58
2182 4592 1.032014 GCACAACACCCAAGTCATGT 58.968 50.000 0.00 0.00 0.00 3.21
2234 4652 8.487028 TGATCTCTACAACACTCTGTCTCTATA 58.513 37.037 0.00 0.00 0.00 1.31
2272 4690 2.684927 GCATGTCCTCCAAGCAACCTAT 60.685 50.000 0.00 0.00 37.70 2.57
2333 4752 1.662517 TTCAGTCTGTGAAAAGCGCA 58.337 45.000 11.47 0.00 42.49 6.09
2358 4777 4.788679 TGATCCAATGCAGATCATGAAGT 58.211 39.130 11.87 0.00 43.96 3.01
2401 4820 2.097680 TTGTTGCAGATCGATGCTGA 57.902 45.000 21.53 6.37 46.63 4.26
2429 4851 4.541973 AGACAGTTACATGCATCTGACA 57.458 40.909 17.39 0.00 0.00 3.58
2466 4889 4.008330 CTGCTCATTCTGGTCAATCTGTT 58.992 43.478 0.00 0.00 0.00 3.16
2468 4891 3.870274 TCTGCTCATTCTGGTCAATCTG 58.130 45.455 0.00 0.00 0.00 2.90
2475 4898 1.554160 CAGTCCTCTGCTCATTCTGGT 59.446 52.381 0.00 0.00 34.79 4.00
2476 4899 1.829849 TCAGTCCTCTGCTCATTCTGG 59.170 52.381 0.00 0.00 41.10 3.86


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

AutoCloner maintained by Alex Coulton.