Multiple sequence alignment - TraesCS3B01G591500

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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 TraesCS3B01G591500 chr3B 100.000 2569 0 0 1 2569 816057784 816060352 0.000000e+00 4745.0
1 TraesCS3B01G591500 chr3B 85.714 1351 122 34 729 2047 592330292 592328981 0.000000e+00 1360.0
2 TraesCS3B01G591500 chr3B 88.175 778 66 17 1295 2050 576053728 576052955 0.000000e+00 904.0
3 TraesCS3B01G591500 chr2B 91.170 1359 81 13 729 2051 54562585 54561230 0.000000e+00 1808.0
4 TraesCS3B01G591500 chr2B 95.018 281 10 4 278 554 54577646 54577366 3.030000e-119 438.0
5 TraesCS3B01G591500 chr2B 94.413 179 10 0 551 729 54563618 54563440 2.520000e-70 276.0
6 TraesCS3B01G591500 chr2B 93.855 179 11 0 551 729 393460481 393460659 1.170000e-68 270.0
7 TraesCS3B01G591500 chr2B 93.333 75 5 0 1 75 703613420 703613494 7.510000e-21 111.0
8 TraesCS3B01G591500 chr5D 90.943 1358 76 19 715 2049 538687309 538688642 0.000000e+00 1783.0
9 TraesCS3B01G591500 chr5D 93.524 525 32 2 2046 2569 549782854 549783377 0.000000e+00 780.0
10 TraesCS3B01G591500 chr5D 92.762 525 33 5 2046 2569 435560820 435560300 0.000000e+00 754.0
11 TraesCS3B01G591500 chr5D 95.018 281 10 4 278 554 538685616 538685896 3.030000e-119 438.0
12 TraesCS3B01G591500 chr5D 96.089 179 7 0 551 729 538686287 538686465 2.500000e-75 292.0
13 TraesCS3B01G591500 chr4D 90.990 1343 75 18 729 2049 145379887 145378569 0.000000e+00 1768.0
14 TraesCS3B01G591500 chr4D 85.975 1369 134 28 729 2048 348041014 348039655 0.000000e+00 1411.0
15 TraesCS3B01G591500 chr4D 93.702 524 32 1 2046 2569 344875944 344876466 0.000000e+00 784.0
16 TraesCS3B01G591500 chr4D 93.834 519 32 0 2046 2564 378291946 378291428 0.000000e+00 782.0
17 TraesCS3B01G591500 chr4D 93.056 288 13 6 278 561 145381002 145380718 5.110000e-112 414.0
18 TraesCS3B01G591500 chr4A 89.814 1345 89 29 729 2051 629935824 629937142 0.000000e+00 1681.0
19 TraesCS3B01G591500 chr4A 95.094 265 12 1 291 554 629925197 629925461 1.420000e-112 416.0
20 TraesCS3B01G591500 chr4A 88.435 294 31 2 1 291 629924824 629925117 4.070000e-93 351.0
21 TraesCS3B01G591500 chr4A 96.648 179 6 0 551 729 629925852 629926030 5.370000e-77 298.0
22 TraesCS3B01G591500 chr1D 92.246 1122 59 16 926 2044 80683871 80684967 0.000000e+00 1565.0
23 TraesCS3B01G591500 chr1D 92.952 525 35 2 2046 2569 461839831 461839308 0.000000e+00 763.0
24 TraesCS3B01G591500 chr1D 92.952 525 32 5 2046 2569 26613112 26612592 0.000000e+00 760.0
25 TraesCS3B01G591500 chr1D 94.662 281 11 4 278 554 80673155 80673435 1.410000e-117 433.0
26 TraesCS3B01G591500 chr1D 96.648 179 6 0 551 729 80673826 80674004 5.370000e-77 298.0
27 TraesCS3B01G591500 chr1D 87.204 211 14 6 715 912 80674847 80675057 7.150000e-56 228.0
28 TraesCS3B01G591500 chr7A 87.454 1363 125 27 729 2050 297775883 297774526 0.000000e+00 1528.0
29 TraesCS3B01G591500 chr7A 90.544 423 27 10 1639 2049 211154131 211154552 4.830000e-152 547.0
30 TraesCS3B01G591500 chr7A 82.160 639 58 9 724 1342 302610976 302611578 4.940000e-137 497.0
31 TraesCS3B01G591500 chr7A 87.415 294 32 4 1 291 62734317 62734608 1.470000e-87 333.0
32 TraesCS3B01G591500 chr7A 88.070 285 15 4 729 994 62736462 62736746 1.150000e-83 320.0
33 TraesCS3B01G591500 chr7A 97.207 179 5 0 551 729 62735343 62735521 1.160000e-78 303.0
34 TraesCS3B01G591500 chr7D 86.784 1362 125 17 724 2047 271455138 271456482 0.000000e+00 1467.0
35 TraesCS3B01G591500 chr7D 95.489 266 11 1 290 554 78507345 78507610 8.500000e-115 424.0
36 TraesCS3B01G591500 chr7D 88.926 298 26 3 1 293 78506974 78507269 6.760000e-96 361.0
37 TraesCS3B01G591500 chr7D 95.531 179 8 0 551 729 78508001 78508179 1.160000e-73 287.0
38 TraesCS3B01G591500 chr6A 86.711 1362 131 27 729 2045 571574982 571576338 0.000000e+00 1467.0
39 TraesCS3B01G591500 chr6A 81.138 668 85 24 881 1532 360515955 360515313 4.940000e-137 497.0
40 TraesCS3B01G591500 chr6A 86.232 414 33 15 1657 2050 554477585 554477994 6.570000e-116 427.0
41 TraesCS3B01G591500 chr3D 86.667 1350 132 26 729 2051 339817357 339818685 0.000000e+00 1452.0
42 TraesCS3B01G591500 chr3D 94.847 524 27 0 2046 2569 422964903 422964380 0.000000e+00 819.0
43 TraesCS3B01G591500 chr3D 93.321 524 35 0 2046 2569 20805552 20806075 0.000000e+00 774.0
44 TraesCS3B01G591500 chr3D 92.748 524 38 0 2046 2569 555829702 555830225 0.000000e+00 758.0
45 TraesCS3B01G591500 chr3D 80.375 693 105 15 729 1394 148503613 148502925 4.940000e-137 497.0
46 TraesCS3B01G591500 chr3D 95.531 179 8 0 551 729 339816337 339816515 1.160000e-73 287.0
47 TraesCS3B01G591500 chr4B 86.417 1362 128 35 729 2050 535286465 535287809 0.000000e+00 1437.0
48 TraesCS3B01G591500 chr4B 85.335 1357 128 32 729 2045 449519000 449520325 0.000000e+00 1338.0
49 TraesCS3B01G591500 chr4B 90.945 751 47 12 1308 2053 413506962 413506228 0.000000e+00 990.0
50 TraesCS3B01G591500 chr2D 94.437 791 41 3 945 1732 27769206 27768416 0.000000e+00 1214.0
51 TraesCS3B01G591500 chr2D 81.420 958 147 15 729 1661 641119026 641118075 0.000000e+00 754.0
52 TraesCS3B01G591500 chr2D 95.489 266 11 1 290 554 27770094 27769829 8.500000e-115 424.0
53 TraesCS3B01G591500 chr2D 88.926 298 26 4 1 293 27770465 27770170 6.760000e-96 361.0
54 TraesCS3B01G591500 chr6B 80.917 807 112 25 881 1670 405861747 405862528 1.320000e-167 599.0
55 TraesCS3B01G591500 chr5A 87.083 480 37 15 1576 2046 78449838 78450301 1.050000e-143 520.0
56 TraesCS3B01G591500 chr5A 93.403 288 14 5 278 561 78447896 78448182 3.060000e-114 422.0
57 TraesCS3B01G591500 chr5A 96.629 178 6 0 552 729 78448568 78448745 1.930000e-76 296.0
58 TraesCS3B01G591500 chr1A 94.306 281 11 5 278 554 80285026 80284747 2.360000e-115 425.0
59 TraesCS3B01G591500 chr1B 93.443 244 15 1 1801 2043 419975168 419975411 6.760000e-96 361.0
60 TraesCS3B01G591500 chrUn 97.143 35 1 0 1760 1794 288168722 288168756 2.760000e-05 60.2
61 TraesCS3B01G591500 chrUn 97.143 35 1 0 1760 1794 293915055 293915089 2.760000e-05 60.2


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 TraesCS3B01G591500 chr3B 816057784 816060352 2568 False 4745.000000 4745 100.000000 1 2569 1 chr3B.!!$F1 2568
1 TraesCS3B01G591500 chr3B 592328981 592330292 1311 True 1360.000000 1360 85.714000 729 2047 1 chr3B.!!$R2 1318
2 TraesCS3B01G591500 chr3B 576052955 576053728 773 True 904.000000 904 88.175000 1295 2050 1 chr3B.!!$R1 755
3 TraesCS3B01G591500 chr2B 54561230 54563618 2388 True 1042.000000 1808 92.791500 551 2051 2 chr2B.!!$R2 1500
4 TraesCS3B01G591500 chr5D 538685616 538688642 3026 False 837.666667 1783 94.016667 278 2049 3 chr5D.!!$F2 1771
5 TraesCS3B01G591500 chr5D 549782854 549783377 523 False 780.000000 780 93.524000 2046 2569 1 chr5D.!!$F1 523
6 TraesCS3B01G591500 chr5D 435560300 435560820 520 True 754.000000 754 92.762000 2046 2569 1 chr5D.!!$R1 523
7 TraesCS3B01G591500 chr4D 348039655 348041014 1359 True 1411.000000 1411 85.975000 729 2048 1 chr4D.!!$R1 1319
8 TraesCS3B01G591500 chr4D 145378569 145381002 2433 True 1091.000000 1768 92.023000 278 2049 2 chr4D.!!$R3 1771
9 TraesCS3B01G591500 chr4D 344875944 344876466 522 False 784.000000 784 93.702000 2046 2569 1 chr4D.!!$F1 523
10 TraesCS3B01G591500 chr4D 378291428 378291946 518 True 782.000000 782 93.834000 2046 2564 1 chr4D.!!$R2 518
11 TraesCS3B01G591500 chr4A 629935824 629937142 1318 False 1681.000000 1681 89.814000 729 2051 1 chr4A.!!$F1 1322
12 TraesCS3B01G591500 chr4A 629924824 629926030 1206 False 355.000000 416 93.392333 1 729 3 chr4A.!!$F2 728
13 TraesCS3B01G591500 chr1D 80683871 80684967 1096 False 1565.000000 1565 92.246000 926 2044 1 chr1D.!!$F1 1118
14 TraesCS3B01G591500 chr1D 461839308 461839831 523 True 763.000000 763 92.952000 2046 2569 1 chr1D.!!$R2 523
15 TraesCS3B01G591500 chr1D 26612592 26613112 520 True 760.000000 760 92.952000 2046 2569 1 chr1D.!!$R1 523
16 TraesCS3B01G591500 chr1D 80673155 80675057 1902 False 319.666667 433 92.838000 278 912 3 chr1D.!!$F2 634
17 TraesCS3B01G591500 chr7A 297774526 297775883 1357 True 1528.000000 1528 87.454000 729 2050 1 chr7A.!!$R1 1321
18 TraesCS3B01G591500 chr7A 302610976 302611578 602 False 497.000000 497 82.160000 724 1342 1 chr7A.!!$F2 618
19 TraesCS3B01G591500 chr7A 62734317 62736746 2429 False 318.666667 333 90.897333 1 994 3 chr7A.!!$F3 993
20 TraesCS3B01G591500 chr7D 271455138 271456482 1344 False 1467.000000 1467 86.784000 724 2047 1 chr7D.!!$F1 1323
21 TraesCS3B01G591500 chr7D 78506974 78508179 1205 False 357.333333 424 93.315333 1 729 3 chr7D.!!$F2 728
22 TraesCS3B01G591500 chr6A 571574982 571576338 1356 False 1467.000000 1467 86.711000 729 2045 1 chr6A.!!$F2 1316
23 TraesCS3B01G591500 chr6A 360515313 360515955 642 True 497.000000 497 81.138000 881 1532 1 chr6A.!!$R1 651
24 TraesCS3B01G591500 chr3D 339816337 339818685 2348 False 869.500000 1452 91.099000 551 2051 2 chr3D.!!$F3 1500
25 TraesCS3B01G591500 chr3D 422964380 422964903 523 True 819.000000 819 94.847000 2046 2569 1 chr3D.!!$R2 523
26 TraesCS3B01G591500 chr3D 20805552 20806075 523 False 774.000000 774 93.321000 2046 2569 1 chr3D.!!$F1 523
27 TraesCS3B01G591500 chr3D 555829702 555830225 523 False 758.000000 758 92.748000 2046 2569 1 chr3D.!!$F2 523
28 TraesCS3B01G591500 chr3D 148502925 148503613 688 True 497.000000 497 80.375000 729 1394 1 chr3D.!!$R1 665
29 TraesCS3B01G591500 chr4B 535286465 535287809 1344 False 1437.000000 1437 86.417000 729 2050 1 chr4B.!!$F2 1321
30 TraesCS3B01G591500 chr4B 449519000 449520325 1325 False 1338.000000 1338 85.335000 729 2045 1 chr4B.!!$F1 1316
31 TraesCS3B01G591500 chr4B 413506228 413506962 734 True 990.000000 990 90.945000 1308 2053 1 chr4B.!!$R1 745
32 TraesCS3B01G591500 chr2D 641118075 641119026 951 True 754.000000 754 81.420000 729 1661 1 chr2D.!!$R1 932
33 TraesCS3B01G591500 chr2D 27768416 27770465 2049 True 666.333333 1214 92.950667 1 1732 3 chr2D.!!$R2 1731
34 TraesCS3B01G591500 chr6B 405861747 405862528 781 False 599.000000 599 80.917000 881 1670 1 chr6B.!!$F1 789
35 TraesCS3B01G591500 chr5A 78447896 78450301 2405 False 412.666667 520 92.371667 278 2046 3 chr5A.!!$F1 1768

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
774 2278 0.106918 ACCGTGCTTGGTTTTCTGGA 60.107 50.0 0.0 0.0 39.99 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2160 3739 0.174845 GGCGTTAATCCTTTTGGGGC 59.825 55.0 0.0 0.0 40.87 5.8 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
22 23 4.521146 TCTCTTTCCTCTCATGATTTGCC 58.479 43.478 0.00 0.00 0.00 4.52
25 26 0.811219 TCCTCTCATGATTTGCCGCG 60.811 55.000 0.00 0.00 0.00 6.46
32 33 0.960364 ATGATTTGCCGCGGAACAGT 60.960 50.000 33.48 10.08 0.00 3.55
38 39 4.003788 CCGCGGAACAGTGGGAGT 62.004 66.667 24.07 0.00 38.09 3.85
85 86 1.091771 TTGCAGAGGAATAGCAGCGC 61.092 55.000 0.00 0.00 39.72 5.92
124 125 0.249676 CTGACAGCAGCATCAGAGGT 59.750 55.000 17.90 0.00 44.32 3.85
133 134 0.321919 GCATCAGAGGTCCAGCACAA 60.322 55.000 0.00 0.00 0.00 3.33
140 141 1.136329 AGGTCCAGCACAACATCCCT 61.136 55.000 0.00 0.00 0.00 4.20
141 142 0.962356 GGTCCAGCACAACATCCCTG 60.962 60.000 0.00 0.00 0.00 4.45
201 202 3.242011 TCTGCTGCTGGTCATGGATATA 58.758 45.455 6.69 0.00 0.00 0.86
202 203 3.842436 TCTGCTGCTGGTCATGGATATAT 59.158 43.478 6.69 0.00 0.00 0.86
203 204 3.939592 CTGCTGCTGGTCATGGATATATG 59.060 47.826 0.00 0.00 0.00 1.78
205 206 3.276857 CTGCTGGTCATGGATATATGCC 58.723 50.000 1.35 0.00 0.00 4.40
206 207 2.025981 TGCTGGTCATGGATATATGCCC 60.026 50.000 1.35 0.00 0.00 5.36
207 208 2.910199 CTGGTCATGGATATATGCCCG 58.090 52.381 1.35 0.00 28.80 6.13
208 209 2.501316 CTGGTCATGGATATATGCCCGA 59.499 50.000 1.35 0.00 28.80 5.14
212 213 3.449018 GTCATGGATATATGCCCGAGAGT 59.551 47.826 1.35 0.00 0.00 3.24
213 214 3.701542 TCATGGATATATGCCCGAGAGTC 59.298 47.826 1.35 0.00 0.00 3.36
219 222 5.594725 GGATATATGCCCGAGAGTCATAGAA 59.405 44.000 0.00 0.00 0.00 2.10
227 230 4.545610 CCGAGAGTCATAGAAAGAGATGC 58.454 47.826 0.00 0.00 0.00 3.91
235 238 6.155221 AGTCATAGAAAGAGATGCAGTGGTTA 59.845 38.462 0.00 0.00 0.00 2.85
245 248 4.880120 AGATGCAGTGGTTATTGTGATGAG 59.120 41.667 0.00 0.00 0.00 2.90
254 257 6.009589 TGGTTATTGTGATGAGTCATGGTTT 58.990 36.000 11.20 0.00 36.60 3.27
443 527 6.430000 GCTGTAATAAGGAAAAGAAGACCACA 59.570 38.462 0.00 0.00 0.00 4.17
450 534 5.941788 AGGAAAAGAAGACCACACATTACT 58.058 37.500 0.00 0.00 0.00 2.24
521 606 6.165577 ACCAAAAATATGGCAAAGTGATGTC 58.834 36.000 0.00 0.00 44.75 3.06
575 1055 4.141287 CAGGTGTTACCAAAGATGTGGAA 58.859 43.478 0.00 0.00 41.95 3.53
629 1109 0.244450 AAAATGTGATGGCAGCGGTG 59.756 50.000 10.98 10.98 0.00 4.94
725 2227 0.992802 CTTTAACGCGTGAGAGAGGC 59.007 55.000 14.98 0.00 33.96 4.70
758 2260 2.295909 ACCAATTCCATGACAACAACCG 59.704 45.455 0.00 0.00 0.00 4.44
774 2278 0.106918 ACCGTGCTTGGTTTTCTGGA 60.107 50.000 0.00 0.00 39.99 3.86
778 2282 1.273327 GTGCTTGGTTTTCTGGATGGG 59.727 52.381 0.00 0.00 0.00 4.00
836 2340 3.813443 AGGGATGTGCATCATAGACAAC 58.187 45.455 13.37 0.00 39.54 3.32
912 2426 5.307976 TCTCAAGAAGTGGAGGAAGATTTGA 59.692 40.000 0.00 0.00 0.00 2.69
1050 2587 9.828039 TTTGATGCCATTTATGTTTGCATTATA 57.172 25.926 0.00 0.00 42.33 0.98
1180 2718 0.693092 AAGGGGCGGAATGCTAGGTA 60.693 55.000 0.00 0.00 45.43 3.08
1191 2729 5.500234 GGAATGCTAGGTATGGCAATGATA 58.500 41.667 0.00 0.00 46.84 2.15
1319 2858 5.126061 GGTAAAGCATGTTGTTGATGATCCT 59.874 40.000 0.00 0.00 0.00 3.24
1447 2987 7.839907 TCCAAATTTCCAGATTTTGATGTAGG 58.160 34.615 0.00 0.00 32.81 3.18
1559 3103 6.938698 TGGGTGAGTAGGTATGTTAAGAAA 57.061 37.500 0.00 0.00 0.00 2.52
1602 3148 3.351740 TGTATGGTTGCCAAGTATGTGG 58.648 45.455 0.00 0.00 42.05 4.17
1798 3356 5.783100 ATGTGCACTTTGTTGAAACTTTG 57.217 34.783 19.41 0.00 0.00 2.77
1799 3357 4.626042 TGTGCACTTTGTTGAAACTTTGT 58.374 34.783 19.41 0.00 0.00 2.83
1801 3359 6.216569 TGTGCACTTTGTTGAAACTTTGTTA 58.783 32.000 19.41 0.00 0.00 2.41
1971 3550 3.569194 TTTGCTCCTACCAAACACAGA 57.431 42.857 0.00 0.00 0.00 3.41
2159 3738 0.325933 TGCTATGGTTGCTGCTCTGT 59.674 50.000 0.00 0.00 0.00 3.41
2160 3739 0.731417 GCTATGGTTGCTGCTCTGTG 59.269 55.000 0.00 0.00 0.00 3.66
2176 3755 3.161866 TCTGTGCCCCAAAAGGATTAAC 58.838 45.455 0.00 0.00 38.24 2.01
2182 3761 3.292460 CCCCAAAAGGATTAACGCCATA 58.708 45.455 0.00 0.00 38.24 2.74
2184 3763 5.074115 CCCCAAAAGGATTAACGCCATATA 58.926 41.667 0.00 0.00 38.24 0.86
2192 3771 5.047519 AGGATTAACGCCATATACGCTTAGT 60.048 40.000 0.00 0.00 0.00 2.24
2234 3814 1.072331 TCACCTGCAAACTCCTTCCTC 59.928 52.381 0.00 0.00 0.00 3.71
2273 3853 0.613572 TCCACTGCGACCCATCAGTA 60.614 55.000 0.00 0.00 41.19 2.74
2285 3865 4.884961 ACCCATCAGTAGGTACTCTCAAT 58.115 43.478 0.00 0.00 41.75 2.57
2332 3912 2.713967 GCCATCGCATTGCCTTGGT 61.714 57.895 19.91 0.00 32.07 3.67
2379 3959 5.987347 CGTTTCAACCGTGGTATTATAGGAT 59.013 40.000 0.00 0.00 0.00 3.24
2400 3980 2.040947 TCATACCACATCACCTTGGCAA 59.959 45.455 0.00 0.00 36.20 4.52
2405 3985 3.245229 ACCACATCACCTTGGCAAGAATA 60.245 43.478 28.18 12.65 36.20 1.75
2564 4144 5.118990 GCATGTATCTTCTGCACCTCTAAA 58.881 41.667 0.00 0.00 35.96 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 2.027625 GAACTCCCACTGTTCCGCG 61.028 63.158 0.00 0.0 38.19 6.46
25 26 1.550976 AGATCGAACTCCCACTGTTCC 59.449 52.381 0.00 0.0 40.26 3.62
32 33 2.034878 CAGATCCAGATCGAACTCCCA 58.965 52.381 2.08 0.0 42.48 4.37
38 39 2.897436 CAACTGCAGATCCAGATCGAA 58.103 47.619 23.35 0.0 42.48 3.71
62 63 0.620030 TGCTATTCCTCTGCAAGCCA 59.380 50.000 2.05 0.0 33.48 4.75
92 93 2.350514 GTCAGCCTGCCAGAAGCT 59.649 61.111 0.00 0.0 44.23 3.74
113 114 1.196766 TGTGCTGGACCTCTGATGCT 61.197 55.000 0.00 0.0 0.00 3.79
117 118 1.002430 GATGTTGTGCTGGACCTCTGA 59.998 52.381 0.00 0.0 0.00 3.27
124 125 0.036732 GACAGGGATGTTGTGCTGGA 59.963 55.000 0.00 0.0 0.00 3.86
133 134 4.332683 TTGTACCTAGAGACAGGGATGT 57.667 45.455 0.00 0.0 40.29 3.06
140 141 6.351881 GGGATTGATGTTTGTACCTAGAGACA 60.352 42.308 0.00 0.0 0.00 3.41
141 142 6.049790 GGGATTGATGTTTGTACCTAGAGAC 58.950 44.000 0.00 0.0 0.00 3.36
201 202 3.300388 TCTTTCTATGACTCTCGGGCAT 58.700 45.455 0.00 0.0 46.91 4.40
202 203 2.690497 CTCTTTCTATGACTCTCGGGCA 59.310 50.000 0.00 0.0 37.36 5.36
203 204 2.952978 TCTCTTTCTATGACTCTCGGGC 59.047 50.000 0.00 0.0 0.00 6.13
205 206 4.037327 TGCATCTCTTTCTATGACTCTCGG 59.963 45.833 0.00 0.0 0.00 4.63
206 207 5.180367 TGCATCTCTTTCTATGACTCTCG 57.820 43.478 0.00 0.0 0.00 4.04
207 208 5.978919 CACTGCATCTCTTTCTATGACTCTC 59.021 44.000 0.00 0.0 0.00 3.20
208 209 5.163426 CCACTGCATCTCTTTCTATGACTCT 60.163 44.000 0.00 0.0 0.00 3.24
212 213 5.426689 AACCACTGCATCTCTTTCTATGA 57.573 39.130 0.00 0.0 0.00 2.15
213 214 7.281774 ACAATAACCACTGCATCTCTTTCTATG 59.718 37.037 0.00 0.0 0.00 2.23
219 222 4.910195 TCACAATAACCACTGCATCTCTT 58.090 39.130 0.00 0.0 0.00 2.85
227 230 5.065602 CCATGACTCATCACAATAACCACTG 59.934 44.000 0.00 0.0 37.79 3.66
443 527 3.641046 TGCATTGGCCCATAAGTAATGT 58.359 40.909 0.00 0.0 40.13 2.71
450 534 3.372897 TCTTTCATGCATTGGCCCATAA 58.627 40.909 0.00 0.0 40.13 1.90
521 606 9.360093 TCAAACCTTAACATGTTTTTACACAAG 57.640 29.630 17.78 11.7 32.60 3.16
575 1055 4.324267 CCTTCCTACCACGAAAAGAATGT 58.676 43.478 0.00 0.0 0.00 2.71
629 1109 2.030946 CGTGAAGCGGAGATCAAAATCC 59.969 50.000 0.00 0.0 36.85 3.01
707 1187 0.601558 AGCCTCTCTCACGCGTTAAA 59.398 50.000 10.22 0.0 0.00 1.52
758 2260 1.273327 CCCATCCAGAAAACCAAGCAC 59.727 52.381 0.00 0.0 0.00 4.40
778 2282 1.471684 CTCTTCCCATCAGCAACAAGC 59.528 52.381 0.00 0.0 46.19 4.01
836 2340 2.659291 GCTCGTTCAAAACAGTAGCACG 60.659 50.000 0.00 0.0 0.00 5.34
912 2426 5.550403 TCCACTTAAATTGTCTACCCTTCCT 59.450 40.000 0.00 0.0 0.00 3.36
1168 2705 3.754965 TCATTGCCATACCTAGCATTCC 58.245 45.455 0.00 0.0 39.11 3.01
1191 2729 9.695526 CTCATCTTCGAGATCAATAGAAAGAAT 57.304 33.333 0.00 0.0 31.32 2.40
1261 2799 1.228862 GGTGGTGCTTTGGGGTCAT 60.229 57.895 0.00 0.0 0.00 3.06
1319 2858 6.897966 ACCCATCTTTGAGAGTGATAACTAGA 59.102 38.462 0.00 0.0 0.00 2.43
1602 3148 5.163854 GCACTACAACCATACATGTCAAGTC 60.164 44.000 0.00 0.0 0.00 3.01
1681 3231 4.397420 AGCCATACATGTCAAGTTCACAA 58.603 39.130 0.00 0.0 0.00 3.33
1971 3550 1.847328 GGAACGGGTCCATTCCATTT 58.153 50.000 7.34 0.0 46.97 2.32
2000 3579 2.819608 CTGTCGTGGAATGGAATGGTTT 59.180 45.455 0.00 0.0 0.00 3.27
2070 3649 5.698832 CATGAAGCGGAAGTTCATTGTAAA 58.301 37.500 5.01 0.0 41.69 2.01
2074 3653 2.523015 GCATGAAGCGGAAGTTCATTG 58.477 47.619 5.01 0.0 41.69 2.82
2159 3738 0.892063 GCGTTAATCCTTTTGGGGCA 59.108 50.000 0.00 0.0 40.87 5.36
2160 3739 0.174845 GGCGTTAATCCTTTTGGGGC 59.825 55.000 0.00 0.0 40.87 5.80
2176 3755 2.717580 TGGACTAAGCGTATATGGCG 57.282 50.000 0.00 0.0 35.00 5.69
2182 3761 4.142093 ACGTATGGTTTGGACTAAGCGTAT 60.142 41.667 0.00 0.0 32.37 3.06
2184 3763 2.028748 ACGTATGGTTTGGACTAAGCGT 60.029 45.455 0.00 0.0 0.00 5.07
2192 3771 2.156098 GCAAGGAACGTATGGTTTGGA 58.844 47.619 0.00 0.0 39.50 3.53
2273 3853 6.271159 AGAAAGACAGGAAATTGAGAGTACCT 59.729 38.462 0.00 0.0 0.00 3.08
2379 3959 1.632920 TGCCAAGGTGATGTGGTATGA 59.367 47.619 0.00 0.0 37.23 2.15
2400 3980 2.158549 GCCCCAGGAAGAAGCATATTCT 60.159 50.000 0.00 0.0 0.00 2.40
2405 3985 1.000396 GTGCCCCAGGAAGAAGCAT 60.000 57.895 0.00 0.0 35.62 3.79
2492 4072 2.277084 GGTGAGTACGCGGATTTGAAT 58.723 47.619 12.47 0.0 0.00 2.57


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

AutoCloner maintained by Alex Coulton.