Multiple sequence alignment - TraesCS7B01G491500

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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 TraesCS7B01G491500 chr7B 100.000 2444 0 0 1 2444 744238565 744241008 0.000000e+00 4514.0
1 TraesCS7B01G491500 chr7B 87.519 1955 156 22 493 2423 743999719 743997829 0.000000e+00 2178.0
2 TraesCS7B01G491500 chr7B 87.095 1480 139 29 987 2444 745230145 745231594 0.000000e+00 1628.0
3 TraesCS7B01G491500 chr7B 88.456 1282 138 5 999 2277 744176615 744177889 0.000000e+00 1539.0
4 TraesCS7B01G491500 chr7B 86.932 1255 140 13 999 2248 744248065 744249300 0.000000e+00 1387.0
5 TraesCS7B01G491500 chr7B 85.325 1247 169 7 907 2146 744339477 744338238 0.000000e+00 1277.0
6 TraesCS7B01G491500 chr7B 100.000 174 0 0 1 174 743708439 743708612 3.030000e-84 322.0
7 TraesCS7B01G491500 chr7B 79.241 395 39 21 42 428 744000090 743999731 4.060000e-58 235.0
8 TraesCS7B01G491500 chr7B 96.269 134 2 1 41 174 744268525 744268655 1.470000e-52 217.0
9 TraesCS7B01G491500 chr7B 83.936 249 12 3 562 810 743708924 743709144 1.900000e-51 213.0
10 TraesCS7B01G491500 chr7B 100.000 32 0 0 2246 2277 745231362 745231393 2.620000e-05 60.2
11 TraesCS7B01G491500 chr7D 86.339 1464 177 16 796 2253 632079474 632080920 0.000000e+00 1574.0
12 TraesCS7B01G491500 chr7D 83.960 399 28 16 39 428 632078889 632079260 1.390000e-92 350.0
13 TraesCS7B01G491500 chr7D 93.651 189 7 1 493 676 632079272 632079460 6.660000e-71 278.0
14 TraesCS7B01G491500 chr7D 82.682 179 22 7 2269 2443 632142440 632142613 1.510000e-32 150.0
15 TraesCS7B01G491500 chr7A 85.166 1564 180 30 626 2171 736008715 736007186 0.000000e+00 1555.0
16 TraesCS7B01G491500 chr7A 89.118 1213 117 9 987 2193 735785961 735784758 0.000000e+00 1495.0
17 TraesCS7B01G491500 chr7A 88.474 1206 126 5 999 2201 735960594 735961789 0.000000e+00 1445.0
18 TraesCS7B01G491500 chr7A 90.449 178 14 3 2269 2444 736002122 736001946 5.260000e-57 231.0
19 TraesCS7B01G491500 chr7A 90.173 173 14 2 2274 2444 735961802 735961973 3.160000e-54 222.0
20 TraesCS7B01G491500 chr7A 93.333 150 8 1 2128 2277 736002294 736002147 1.140000e-53 220.0
21 TraesCS7B01G491500 chr2B 92.857 140 7 1 2141 2277 782184584 782184445 1.480000e-47 200.0


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 TraesCS7B01G491500 chr7B 744238565 744241008 2443 False 4514.0 4514 100.000000 1 2444 1 chr7B.!!$F2 2443
1 TraesCS7B01G491500 chr7B 744176615 744177889 1274 False 1539.0 1539 88.456000 999 2277 1 chr7B.!!$F1 1278
2 TraesCS7B01G491500 chr7B 744248065 744249300 1235 False 1387.0 1387 86.932000 999 2248 1 chr7B.!!$F3 1249
3 TraesCS7B01G491500 chr7B 744338238 744339477 1239 True 1277.0 1277 85.325000 907 2146 1 chr7B.!!$R1 1239
4 TraesCS7B01G491500 chr7B 743997829 744000090 2261 True 1206.5 2178 83.380000 42 2423 2 chr7B.!!$R2 2381
5 TraesCS7B01G491500 chr7B 745230145 745231594 1449 False 844.1 1628 93.547500 987 2444 2 chr7B.!!$F6 1457
6 TraesCS7B01G491500 chr7B 743708439 743709144 705 False 267.5 322 91.968000 1 810 2 chr7B.!!$F5 809
7 TraesCS7B01G491500 chr7D 632078889 632080920 2031 False 734.0 1574 87.983333 39 2253 3 chr7D.!!$F2 2214
8 TraesCS7B01G491500 chr7A 736007186 736008715 1529 True 1555.0 1555 85.166000 626 2171 1 chr7A.!!$R2 1545
9 TraesCS7B01G491500 chr7A 735784758 735785961 1203 True 1495.0 1495 89.118000 987 2193 1 chr7A.!!$R1 1206
10 TraesCS7B01G491500 chr7A 735960594 735961973 1379 False 833.5 1445 89.323500 999 2444 2 chr7A.!!$F1 1445

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
651 694 0.095935 CTTTGCTTGCTCCATCGACG 59.904 55.0 0.0 0.0 0.0 5.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1631 1700 0.322546 GAGGGTGGTTTTGCCGATCT 60.323 55.0 0.0 0.0 41.21 2.75 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
163 165 5.171695 CGTCTTCTCTAATTACACTTAGCGC 59.828 44.000 0.00 0.00 0.00 5.92
167 169 8.630917 TCTTCTCTAATTACACTTAGCGCTAAT 58.369 33.333 28.85 17.46 0.00 1.73
175 177 8.888579 ATTACACTTAGCGCTAATTAAGTCAT 57.111 30.769 28.85 16.92 37.87 3.06
176 178 6.589830 ACACTTAGCGCTAATTAAGTCATG 57.410 37.500 28.85 16.36 37.87 3.07
177 179 5.006746 ACACTTAGCGCTAATTAAGTCATGC 59.993 40.000 28.85 0.00 37.87 4.06
178 180 5.006649 CACTTAGCGCTAATTAAGTCATGCA 59.993 40.000 28.85 3.39 37.87 3.96
179 181 5.760253 ACTTAGCGCTAATTAAGTCATGCAT 59.240 36.000 28.85 0.00 35.74 3.96
180 182 4.739046 AGCGCTAATTAAGTCATGCATC 57.261 40.909 8.99 0.00 0.00 3.91
181 183 4.384056 AGCGCTAATTAAGTCATGCATCT 58.616 39.130 8.99 0.00 0.00 2.90
182 184 4.818546 AGCGCTAATTAAGTCATGCATCTT 59.181 37.500 8.99 0.39 0.00 2.40
183 185 4.908156 GCGCTAATTAAGTCATGCATCTTG 59.092 41.667 10.17 0.00 0.00 3.02
184 186 4.908156 CGCTAATTAAGTCATGCATCTTGC 59.092 41.667 10.17 4.70 45.29 4.01
185 187 5.277683 CGCTAATTAAGTCATGCATCTTGCT 60.278 40.000 10.17 0.00 45.31 3.91
186 188 6.501781 GCTAATTAAGTCATGCATCTTGCTT 58.498 36.000 10.17 8.31 45.31 3.91
187 189 6.417044 GCTAATTAAGTCATGCATCTTGCTTG 59.583 38.462 10.17 8.59 46.18 4.01
188 190 5.909621 ATTAAGTCATGCATCTTGCTTGT 57.090 34.783 10.17 0.59 45.36 3.16
189 191 3.570926 AAGTCATGCATCTTGCTTGTG 57.429 42.857 13.08 5.04 45.36 3.33
190 192 2.511659 AGTCATGCATCTTGCTTGTGT 58.488 42.857 13.08 2.36 45.36 3.72
191 193 2.486982 AGTCATGCATCTTGCTTGTGTC 59.513 45.455 13.08 7.24 45.36 3.67
192 194 2.486982 GTCATGCATCTTGCTTGTGTCT 59.513 45.455 13.08 0.00 45.36 3.41
193 195 3.057736 GTCATGCATCTTGCTTGTGTCTT 60.058 43.478 13.08 0.00 45.36 3.01
194 196 3.189910 TCATGCATCTTGCTTGTGTCTTC 59.810 43.478 13.08 0.00 45.36 2.87
195 197 1.881973 TGCATCTTGCTTGTGTCTTCC 59.118 47.619 0.75 0.00 45.31 3.46
196 198 2.157738 GCATCTTGCTTGTGTCTTCCT 58.842 47.619 0.00 0.00 40.96 3.36
197 199 2.555757 GCATCTTGCTTGTGTCTTCCTT 59.444 45.455 0.00 0.00 40.96 3.36
205 207 1.507140 TGTGTCTTCCTTGTCCCACT 58.493 50.000 0.00 0.00 0.00 4.00
219 221 4.469657 TGTCCCACTTGCTTAAGTTTCAT 58.530 39.130 4.02 0.00 0.00 2.57
289 303 2.028476 TGGACGTGTTTGGATCCTACTG 60.028 50.000 14.23 10.19 32.06 2.74
290 304 2.232941 GGACGTGTTTGGATCCTACTGA 59.767 50.000 14.23 0.00 0.00 3.41
354 376 6.854496 AAACTGCTACGTTTCAAGAATGTA 57.146 33.333 0.00 0.00 31.87 2.29
406 429 0.392193 AAATGTCAGAGGAGCAGCCG 60.392 55.000 0.00 0.00 43.43 5.52
409 432 2.036414 TCAGAGGAGCAGCCGAGT 59.964 61.111 0.00 0.00 43.43 4.18
433 456 3.393106 GACCGGGCGGGGAGTAAA 61.393 66.667 16.11 0.00 41.60 2.01
434 457 3.381333 GACCGGGCGGGGAGTAAAG 62.381 68.421 16.11 0.00 41.60 1.85
435 458 3.396570 CCGGGCGGGGAGTAAAGT 61.397 66.667 2.59 0.00 0.00 2.66
438 461 0.249741 CGGGCGGGGAGTAAAGTATG 60.250 60.000 0.00 0.00 0.00 2.39
439 462 1.125633 GGGCGGGGAGTAAAGTATGA 58.874 55.000 0.00 0.00 0.00 2.15
440 463 1.697982 GGGCGGGGAGTAAAGTATGAT 59.302 52.381 0.00 0.00 0.00 2.45
441 464 2.550208 GGGCGGGGAGTAAAGTATGATG 60.550 54.545 0.00 0.00 0.00 3.07
442 465 2.550208 GGCGGGGAGTAAAGTATGATGG 60.550 54.545 0.00 0.00 0.00 3.51
443 466 2.367567 GCGGGGAGTAAAGTATGATGGA 59.632 50.000 0.00 0.00 0.00 3.41
444 467 3.555168 GCGGGGAGTAAAGTATGATGGAG 60.555 52.174 0.00 0.00 0.00 3.86
445 468 3.006967 CGGGGAGTAAAGTATGATGGAGG 59.993 52.174 0.00 0.00 0.00 4.30
446 469 3.244596 GGGGAGTAAAGTATGATGGAGGC 60.245 52.174 0.00 0.00 0.00 4.70
447 470 3.555168 GGGAGTAAAGTATGATGGAGGCG 60.555 52.174 0.00 0.00 0.00 5.52
448 471 3.060602 GAGTAAAGTATGATGGAGGCGC 58.939 50.000 0.00 0.00 0.00 6.53
449 472 2.143925 GTAAAGTATGATGGAGGCGCC 58.856 52.381 21.89 21.89 37.10 6.53
450 473 0.532862 AAAGTATGATGGAGGCGCCG 60.533 55.000 23.20 0.00 40.66 6.46
451 474 2.996168 AAGTATGATGGAGGCGCCGC 62.996 60.000 23.29 23.29 40.66 6.53
478 501 2.125106 CCGGCCAGTCTGGTAAGC 60.125 66.667 20.24 5.54 40.46 3.09
479 502 2.662596 CGGCCAGTCTGGTAAGCA 59.337 61.111 20.24 0.00 40.46 3.91
480 503 1.448540 CGGCCAGTCTGGTAAGCAG 60.449 63.158 20.24 2.86 40.46 4.24
481 504 1.888436 CGGCCAGTCTGGTAAGCAGA 61.888 60.000 20.24 0.00 40.46 4.26
482 505 0.107945 GGCCAGTCTGGTAAGCAGAG 60.108 60.000 20.24 0.00 40.46 3.35
483 506 0.898320 GCCAGTCTGGTAAGCAGAGA 59.102 55.000 20.24 0.00 40.46 3.10
484 507 1.134848 GCCAGTCTGGTAAGCAGAGAG 60.135 57.143 20.24 0.00 40.46 3.20
485 508 1.480137 CCAGTCTGGTAAGCAGAGAGG 59.520 57.143 11.09 0.00 31.35 3.69
486 509 1.480137 CAGTCTGGTAAGCAGAGAGGG 59.520 57.143 0.00 0.00 0.00 4.30
487 510 0.176910 GTCTGGTAAGCAGAGAGGGC 59.823 60.000 0.00 0.00 0.00 5.19
488 511 1.142748 CTGGTAAGCAGAGAGGGCG 59.857 63.158 0.00 0.00 36.08 6.13
489 512 2.303549 CTGGTAAGCAGAGAGGGCGG 62.304 65.000 0.00 0.00 36.08 6.13
490 513 2.202946 GTAAGCAGAGAGGGCGGC 60.203 66.667 0.00 0.00 36.08 6.53
491 514 3.838271 TAAGCAGAGAGGGCGGCG 61.838 66.667 0.51 0.51 36.08 6.46
569 612 4.286707 TCCAATTCGATACCCTCTTCAGA 58.713 43.478 0.00 0.00 0.00 3.27
640 683 3.284197 AGCTGCTTTGCTTTGCTTG 57.716 47.368 0.00 0.00 40.93 4.01
641 684 0.878961 AGCTGCTTTGCTTTGCTTGC 60.879 50.000 0.00 0.00 40.93 4.01
642 685 0.878961 GCTGCTTTGCTTTGCTTGCT 60.879 50.000 0.00 0.00 0.00 3.91
643 686 1.137513 CTGCTTTGCTTTGCTTGCTC 58.862 50.000 0.00 0.00 0.00 4.26
644 687 0.249573 TGCTTTGCTTTGCTTGCTCC 60.250 50.000 0.00 0.00 0.00 4.70
645 688 0.249573 GCTTTGCTTTGCTTGCTCCA 60.250 50.000 0.00 0.00 0.00 3.86
646 689 1.607251 GCTTTGCTTTGCTTGCTCCAT 60.607 47.619 0.00 0.00 0.00 3.41
647 690 2.334838 CTTTGCTTTGCTTGCTCCATC 58.665 47.619 0.00 0.00 0.00 3.51
648 691 0.241749 TTGCTTTGCTTGCTCCATCG 59.758 50.000 0.00 0.00 0.00 3.84
649 692 0.606130 TGCTTTGCTTGCTCCATCGA 60.606 50.000 0.00 0.00 0.00 3.59
650 693 0.179179 GCTTTGCTTGCTCCATCGAC 60.179 55.000 0.00 0.00 0.00 4.20
651 694 0.095935 CTTTGCTTGCTCCATCGACG 59.904 55.000 0.00 0.00 0.00 5.12
652 695 1.298157 TTTGCTTGCTCCATCGACGG 61.298 55.000 0.00 0.00 0.00 4.79
653 696 2.892425 GCTTGCTCCATCGACGGG 60.892 66.667 0.00 0.00 0.00 5.28
654 697 2.892640 CTTGCTCCATCGACGGGA 59.107 61.111 0.00 2.20 0.00 5.14
655 698 1.218047 CTTGCTCCATCGACGGGAA 59.782 57.895 8.82 0.00 33.11 3.97
656 699 0.179073 CTTGCTCCATCGACGGGAAT 60.179 55.000 8.82 0.00 33.11 3.01
657 700 0.461870 TTGCTCCATCGACGGGAATG 60.462 55.000 8.82 0.54 33.11 2.67
658 701 1.144057 GCTCCATCGACGGGAATGT 59.856 57.895 8.82 0.00 33.11 2.71
659 702 1.154205 GCTCCATCGACGGGAATGTG 61.154 60.000 8.82 0.00 33.11 3.21
660 703 0.459899 CTCCATCGACGGGAATGTGA 59.540 55.000 8.82 0.00 33.11 3.58
661 704 1.069204 CTCCATCGACGGGAATGTGAT 59.931 52.381 8.82 0.00 33.11 3.06
662 705 1.202521 TCCATCGACGGGAATGTGATG 60.203 52.381 0.00 0.00 36.93 3.07
663 706 0.583438 CATCGACGGGAATGTGATGC 59.417 55.000 0.00 0.00 31.15 3.91
664 707 0.465705 ATCGACGGGAATGTGATGCT 59.534 50.000 0.00 0.00 0.00 3.79
665 708 0.249120 TCGACGGGAATGTGATGCTT 59.751 50.000 0.00 0.00 0.00 3.91
666 709 1.086696 CGACGGGAATGTGATGCTTT 58.913 50.000 0.00 0.00 0.00 3.51
667 710 1.202065 CGACGGGAATGTGATGCTTTG 60.202 52.381 0.00 0.00 0.00 2.77
668 711 0.527565 ACGGGAATGTGATGCTTTGC 59.472 50.000 0.00 0.00 0.00 3.68
669 712 0.813184 CGGGAATGTGATGCTTTGCT 59.187 50.000 0.00 0.00 0.00 3.91
682 725 1.610522 GCTTTGCTTTGCTTCTCTCCA 59.389 47.619 0.00 0.00 0.00 3.86
769 812 1.695597 AATCCCTCCAGGCTCCAGG 60.696 63.158 1.72 1.72 34.51 4.45
783 826 2.528818 CCAGGTCTTCCCCAGCACA 61.529 63.158 0.00 0.00 0.00 4.57
822 868 1.418342 CCGTCCGCTGGTATTTGTCG 61.418 60.000 0.00 0.00 0.00 4.35
825 871 2.701006 CGCTGGTATTTGTCGCCG 59.299 61.111 0.00 0.00 0.00 6.46
869 915 3.067742 GCATCCCATCAATCTCAAAGGTG 59.932 47.826 0.00 0.00 0.00 4.00
891 937 3.041940 ACGTAGTGCCGTGCTTGC 61.042 61.111 0.00 0.00 42.51 4.01
953 999 7.224297 TCTGTCTGCTACTTAAAATTCACCTT 58.776 34.615 0.00 0.00 0.00 3.50
979 1032 8.565896 AATTGTCTCTAATTGTAATCACAGCA 57.434 30.769 0.00 0.00 35.67 4.41
985 1045 6.711277 TCTAATTGTAATCACAGCAGAAGGT 58.289 36.000 0.00 0.00 35.67 3.50
1069 1129 2.540383 AGCAGGTGGTACAAGATGAGA 58.460 47.619 0.00 0.00 44.16 3.27
1158 1224 0.250038 TCCTTGCGGATGCTGATAGC 60.250 55.000 0.00 0.00 43.34 2.97
1265 1331 4.941609 GCTCAAGGCGATGGAGAA 57.058 55.556 0.00 0.00 0.00 2.87
1266 1332 2.687842 GCTCAAGGCGATGGAGAAG 58.312 57.895 0.00 0.00 0.00 2.85
1287 1356 1.924939 TGGGCCATCCTCTGCAGAA 60.925 57.895 18.85 3.88 36.20 3.02
1431 1500 4.081406 CCAACTTCATCAATCTTGGGTCA 58.919 43.478 0.00 0.00 0.00 4.02
1443 1512 3.371034 TCTTGGGTCATACGAGGATTGA 58.629 45.455 0.00 0.00 0.00 2.57
1509 1578 2.108970 GAGACGGTAGGGGACTTTGAT 58.891 52.381 0.00 0.00 43.67 2.57
1631 1700 2.172679 TGCTATCGTAGGTGTTGGTGA 58.827 47.619 0.00 0.00 0.00 4.02
1695 1764 2.762327 GGCAATCCATGGTGAATTCAGT 59.238 45.455 12.58 0.00 0.00 3.41
1743 1812 6.998074 ACCAAAACTTCAGTGATGTTGATCTA 59.002 34.615 21.30 0.00 31.81 1.98
1994 2063 0.548510 GGGGTGAAAGCTATCTGGCT 59.451 55.000 0.00 0.00 45.30 4.75
2003 2072 0.249489 GCTATCTGGCTGTACCACCG 60.249 60.000 0.00 0.00 46.36 4.94
2022 2091 1.803922 TGTCGACACATTAGCGCCG 60.804 57.895 15.76 0.00 0.00 6.46
2041 2110 2.086869 CGGAAGATGCTTGGTCATTGT 58.913 47.619 0.00 0.00 0.00 2.71
2171 2248 5.134725 AGGATGCTCCCAAATTAATGAGT 57.865 39.130 0.00 0.00 37.19 3.41
2292 2402 4.036262 GCCAACAACACTATTTGAGACACA 59.964 41.667 0.00 0.00 0.00 3.72
2298 2408 7.642669 ACAACACTATTTGAGACACATTCAAG 58.357 34.615 0.00 0.00 36.07 3.02
2313 2423 7.458397 ACACATTCAAGGACACCTAGATTTTA 58.542 34.615 0.00 0.00 31.13 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
176 178 2.157738 AGGAAGACACAAGCAAGATGC 58.842 47.619 0.00 0.00 45.46 3.91
177 179 3.567164 ACAAGGAAGACACAAGCAAGATG 59.433 43.478 0.00 0.00 0.00 2.90
178 180 3.817647 GACAAGGAAGACACAAGCAAGAT 59.182 43.478 0.00 0.00 0.00 2.40
179 181 3.206150 GACAAGGAAGACACAAGCAAGA 58.794 45.455 0.00 0.00 0.00 3.02
180 182 2.291741 GGACAAGGAAGACACAAGCAAG 59.708 50.000 0.00 0.00 0.00 4.01
181 183 2.297701 GGACAAGGAAGACACAAGCAA 58.702 47.619 0.00 0.00 0.00 3.91
182 184 1.476833 GGGACAAGGAAGACACAAGCA 60.477 52.381 0.00 0.00 0.00 3.91
183 185 1.239347 GGGACAAGGAAGACACAAGC 58.761 55.000 0.00 0.00 0.00 4.01
184 186 2.158755 AGTGGGACAAGGAAGACACAAG 60.159 50.000 0.00 0.00 44.16 3.16
185 187 1.843851 AGTGGGACAAGGAAGACACAA 59.156 47.619 0.00 0.00 44.16 3.33
186 188 1.507140 AGTGGGACAAGGAAGACACA 58.493 50.000 0.00 0.00 44.16 3.72
187 189 2.222027 CAAGTGGGACAAGGAAGACAC 58.778 52.381 0.00 0.00 44.16 3.67
188 190 1.476833 GCAAGTGGGACAAGGAAGACA 60.477 52.381 0.00 0.00 44.16 3.41
189 191 1.202818 AGCAAGTGGGACAAGGAAGAC 60.203 52.381 0.00 0.00 44.16 3.01
190 192 1.140312 AGCAAGTGGGACAAGGAAGA 58.860 50.000 0.00 0.00 44.16 2.87
191 193 1.986882 AAGCAAGTGGGACAAGGAAG 58.013 50.000 0.00 0.00 44.16 3.46
192 194 3.117663 ACTTAAGCAAGTGGGACAAGGAA 60.118 43.478 1.29 0.00 43.50 3.36
193 195 2.441750 ACTTAAGCAAGTGGGACAAGGA 59.558 45.455 1.29 0.00 43.50 3.36
194 196 2.863809 ACTTAAGCAAGTGGGACAAGG 58.136 47.619 1.29 0.00 43.50 3.61
195 197 4.338118 TGAAACTTAAGCAAGTGGGACAAG 59.662 41.667 1.29 0.00 44.41 3.16
196 198 4.274147 TGAAACTTAAGCAAGTGGGACAA 58.726 39.130 1.29 0.00 44.41 3.18
197 199 3.892284 TGAAACTTAAGCAAGTGGGACA 58.108 40.909 1.29 0.00 44.41 4.02
205 207 9.762933 AATAAAGCAAAGATGAAACTTAAGCAA 57.237 25.926 1.29 0.00 35.22 3.91
238 241 7.255104 CCATCGCCATTGTATTGTATAACTTGT 60.255 37.037 0.00 0.00 0.00 3.16
289 303 5.767816 ATGGTTACAAAACAAGTCACCTC 57.232 39.130 0.00 0.00 37.34 3.85
290 304 6.538945 AAATGGTTACAAAACAAGTCACCT 57.461 33.333 0.00 0.00 37.34 4.00
428 451 2.224305 GGCGCCTCCATCATACTTTACT 60.224 50.000 22.15 0.00 34.01 2.24
429 452 2.143925 GGCGCCTCCATCATACTTTAC 58.856 52.381 22.15 0.00 34.01 2.01
430 453 1.270094 CGGCGCCTCCATCATACTTTA 60.270 52.381 26.68 0.00 34.01 1.85
431 454 0.532862 CGGCGCCTCCATCATACTTT 60.533 55.000 26.68 0.00 34.01 2.66
432 455 1.069765 CGGCGCCTCCATCATACTT 59.930 57.895 26.68 0.00 34.01 2.24
433 456 2.737180 CGGCGCCTCCATCATACT 59.263 61.111 26.68 0.00 34.01 2.12
434 457 3.044305 GCGGCGCCTCCATCATAC 61.044 66.667 26.68 0.00 34.01 2.39
435 458 4.314440 GGCGGCGCCTCCATCATA 62.314 66.667 41.44 0.00 46.69 2.15
458 481 2.521958 CTTACCAGACTGGCCGGTGG 62.522 65.000 25.51 20.91 42.67 4.61
459 482 1.079127 CTTACCAGACTGGCCGGTG 60.079 63.158 25.51 10.86 42.67 4.94
460 483 2.955881 GCTTACCAGACTGGCCGGT 61.956 63.158 19.82 19.82 42.67 5.28
461 484 2.125106 GCTTACCAGACTGGCCGG 60.125 66.667 21.95 11.02 42.67 6.13
462 485 1.448540 CTGCTTACCAGACTGGCCG 60.449 63.158 21.95 10.79 44.64 6.13
463 486 0.107945 CTCTGCTTACCAGACTGGCC 60.108 60.000 21.95 8.11 45.44 5.36
464 487 0.898320 TCTCTGCTTACCAGACTGGC 59.102 55.000 21.95 7.92 45.44 4.85
465 488 1.480137 CCTCTCTGCTTACCAGACTGG 59.520 57.143 20.45 20.45 45.44 4.00
466 489 1.480137 CCCTCTCTGCTTACCAGACTG 59.520 57.143 0.00 0.00 45.44 3.51
467 490 1.859302 CCCTCTCTGCTTACCAGACT 58.141 55.000 0.00 0.00 45.44 3.24
468 491 0.176910 GCCCTCTCTGCTTACCAGAC 59.823 60.000 0.00 0.00 45.44 3.51
470 493 1.142748 CGCCCTCTCTGCTTACCAG 59.857 63.158 0.00 0.00 43.17 4.00
471 494 2.359169 CCGCCCTCTCTGCTTACCA 61.359 63.158 0.00 0.00 0.00 3.25
472 495 2.501610 CCGCCCTCTCTGCTTACC 59.498 66.667 0.00 0.00 0.00 2.85
473 496 2.202946 GCCGCCCTCTCTGCTTAC 60.203 66.667 0.00 0.00 0.00 2.34
474 497 3.838271 CGCCGCCCTCTCTGCTTA 61.838 66.667 0.00 0.00 0.00 3.09
523 546 6.588719 TTGGACATAACTTTTCCTTGATGG 57.411 37.500 0.00 0.00 37.10 3.51
540 563 3.458118 AGGGTATCGAATTGGATTGGACA 59.542 43.478 8.34 0.00 29.74 4.02
569 612 4.859304 TTGACAAAGCAAATCAGCTGAT 57.141 36.364 23.75 23.75 45.89 2.90
577 620 9.247861 AGGAGTAGATTATTTGACAAAGCAAAT 57.752 29.630 6.77 6.27 46.79 2.32
640 683 1.144057 ACATTCCCGTCGATGGAGC 59.856 57.895 25.65 0.00 32.37 4.70
641 684 0.459899 TCACATTCCCGTCGATGGAG 59.540 55.000 25.65 14.74 32.37 3.86
642 685 1.119684 ATCACATTCCCGTCGATGGA 58.880 50.000 25.65 13.80 0.00 3.41
643 686 1.220529 CATCACATTCCCGTCGATGG 58.779 55.000 17.27 17.27 31.80 3.51
644 687 0.583438 GCATCACATTCCCGTCGATG 59.417 55.000 0.00 0.00 37.20 3.84
645 688 0.465705 AGCATCACATTCCCGTCGAT 59.534 50.000 0.00 0.00 0.00 3.59
646 689 0.249120 AAGCATCACATTCCCGTCGA 59.751 50.000 0.00 0.00 0.00 4.20
647 690 1.086696 AAAGCATCACATTCCCGTCG 58.913 50.000 0.00 0.00 0.00 5.12
648 691 1.468054 GCAAAGCATCACATTCCCGTC 60.468 52.381 0.00 0.00 0.00 4.79
649 692 0.527565 GCAAAGCATCACATTCCCGT 59.472 50.000 0.00 0.00 0.00 5.28
650 693 0.813184 AGCAAAGCATCACATTCCCG 59.187 50.000 0.00 0.00 0.00 5.14
651 694 2.997986 CAAAGCAAAGCATCACATTCCC 59.002 45.455 0.00 0.00 0.00 3.97
652 695 2.414138 GCAAAGCAAAGCATCACATTCC 59.586 45.455 0.00 0.00 0.00 3.01
653 696 3.323243 AGCAAAGCAAAGCATCACATTC 58.677 40.909 0.00 0.00 0.00 2.67
654 697 3.396260 AGCAAAGCAAAGCATCACATT 57.604 38.095 0.00 0.00 0.00 2.71
655 698 3.006537 AGAAGCAAAGCAAAGCATCACAT 59.993 39.130 0.00 0.00 31.40 3.21
656 699 2.363038 AGAAGCAAAGCAAAGCATCACA 59.637 40.909 0.00 0.00 31.40 3.58
657 700 2.985139 GAGAAGCAAAGCAAAGCATCAC 59.015 45.455 0.00 0.00 31.40 3.06
658 701 2.889045 AGAGAAGCAAAGCAAAGCATCA 59.111 40.909 0.00 0.00 31.40 3.07
659 702 3.500014 GAGAGAAGCAAAGCAAAGCATC 58.500 45.455 0.00 0.00 0.00 3.91
660 703 2.230750 GGAGAGAAGCAAAGCAAAGCAT 59.769 45.455 0.00 0.00 0.00 3.79
661 704 1.610522 GGAGAGAAGCAAAGCAAAGCA 59.389 47.619 0.00 0.00 0.00 3.91
662 705 1.610522 TGGAGAGAAGCAAAGCAAAGC 59.389 47.619 0.00 0.00 0.00 3.51
663 706 2.030451 GGTGGAGAGAAGCAAAGCAAAG 60.030 50.000 0.00 0.00 0.00 2.77
664 707 1.956477 GGTGGAGAGAAGCAAAGCAAA 59.044 47.619 0.00 0.00 0.00 3.68
665 708 1.143684 AGGTGGAGAGAAGCAAAGCAA 59.856 47.619 0.00 0.00 0.00 3.91
666 709 0.767375 AGGTGGAGAGAAGCAAAGCA 59.233 50.000 0.00 0.00 0.00 3.91
667 710 1.163554 CAGGTGGAGAGAAGCAAAGC 58.836 55.000 0.00 0.00 0.00 3.51
668 711 2.847327 TCAGGTGGAGAGAAGCAAAG 57.153 50.000 0.00 0.00 0.00 2.77
669 712 3.063510 CATCAGGTGGAGAGAAGCAAA 57.936 47.619 0.00 0.00 0.00 3.68
769 812 2.360475 GGCTGTGCTGGGGAAGAC 60.360 66.667 0.00 0.00 0.00 3.01
869 915 2.431942 CACGGCACTACGTCACCC 60.432 66.667 0.00 0.00 46.75 4.61
883 929 1.425412 AACTAACTACCGCAAGCACG 58.575 50.000 0.00 0.00 0.00 5.34
891 937 7.704789 AAACTTGAACACTAACTAACTACCG 57.295 36.000 0.00 0.00 0.00 4.02
953 999 9.665719 TGCTGTGATTACAATTAGAGACAATTA 57.334 29.630 0.00 0.00 36.14 1.40
985 1045 0.961019 GCCATTGGTCAACTTGCTGA 59.039 50.000 4.26 0.00 0.00 4.26
1095 1161 2.494073 GTCTCCCAACTTGTCGATCTCT 59.506 50.000 0.00 0.00 0.00 3.10
1158 1224 2.069273 GTCTTGTCGGTGATGTTCCTG 58.931 52.381 0.00 0.00 0.00 3.86
1257 1323 2.514824 GGCCCACGCTTCTCCATC 60.515 66.667 0.00 0.00 34.44 3.51
1264 1330 3.011517 AGAGGATGGCCCACGCTT 61.012 61.111 0.00 0.00 37.41 4.68
1265 1331 3.790437 CAGAGGATGGCCCACGCT 61.790 66.667 0.00 0.00 37.41 5.07
1409 1478 4.081406 TGACCCAAGATTGATGAAGTTGG 58.919 43.478 2.79 2.79 37.92 3.77
1431 1500 3.321968 TGCTGCTATGTCAATCCTCGTAT 59.678 43.478 0.00 0.00 0.00 3.06
1509 1578 0.828022 ATCCAACAATAGCGGACCGA 59.172 50.000 20.50 0.00 0.00 4.69
1631 1700 0.322546 GAGGGTGGTTTTGCCGATCT 60.323 55.000 0.00 0.00 41.21 2.75
1743 1812 0.467384 CGATGATGGCCCTTCTCAGT 59.533 55.000 0.00 0.00 0.00 3.41
1938 2007 1.096416 CTCTGGTAGTGACGAGGACC 58.904 60.000 0.00 0.00 32.55 4.46
1994 2063 1.359833 GTGTCGACACGGTGGTACA 59.640 57.895 31.03 10.26 37.10 2.90
2003 2072 1.708027 GGCGCTAATGTGTCGACAC 59.292 57.895 36.01 36.01 46.59 3.67
2022 2091 3.507233 TGAACAATGACCAAGCATCTTCC 59.493 43.478 0.00 0.00 0.00 3.46
2041 2110 4.689612 AAGTACAGACCTGCTTCTTGAA 57.310 40.909 0.00 0.00 0.00 2.69
2229 2307 9.515226 TCTTAGCCTTACAAAATTACTGACAAT 57.485 29.630 0.00 0.00 0.00 2.71
2282 2392 3.882888 GGTGTCCTTGAATGTGTCTCAAA 59.117 43.478 0.00 0.00 32.57 2.69
2403 2515 8.426489 ACTGAGTATTCACAAAAGGTTACACTA 58.574 33.333 0.00 0.00 0.00 2.74
2404 2516 7.280356 ACTGAGTATTCACAAAAGGTTACACT 58.720 34.615 0.00 0.00 0.00 3.55
2406 2518 7.506114 AGACTGAGTATTCACAAAAGGTTACA 58.494 34.615 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.