Multiple sequence alignment - TraesCS4A01G381200

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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 TraesCS4A01G381200 chr4A 100.000 2871 0 0 1 2871 658896298 658899168 0.000000e+00 5302.0
1 TraesCS4A01G381200 chr4A 91.964 1008 53 18 911 1901 658343103 658344099 0.000000e+00 1387.0
2 TraesCS4A01G381200 chr4A 88.095 714 72 9 1420 2129 658108879 658108175 0.000000e+00 835.0
3 TraesCS4A01G381200 chr4A 87.955 714 73 9 1420 2129 658069899 658069195 0.000000e+00 830.0
4 TraesCS4A01G381200 chr4A 87.266 267 23 5 584 841 658342669 658342933 7.780000e-76 294.0
5 TraesCS4A01G381200 chr7A 88.132 2334 164 60 3 2262 47899192 47901486 0.000000e+00 2671.0
6 TraesCS4A01G381200 chr7A 89.778 450 46 0 1421 1870 47781102 47780653 6.900000e-161 577.0
7 TraesCS4A01G381200 chr7A 88.450 329 28 7 1874 2200 47780392 47780072 3.470000e-104 388.0
8 TraesCS4A01G381200 chr7A 93.333 75 4 1 2263 2337 47901800 47901873 3.020000e-20 110.0
9 TraesCS4A01G381200 chr7D 88.038 2232 168 56 165 2323 45702574 45704779 0.000000e+00 2551.0
10 TraesCS4A01G381200 chr7D 87.885 487 49 4 1715 2199 45605985 45605507 5.370000e-157 564.0
11 TraesCS4A01G381200 chr7D 91.803 61 4 1 839 898 45703242 45703302 1.830000e-12 84.2
12 TraesCS4A01G381200 chr6A 95.091 550 24 3 2324 2871 556298190 556297642 0.000000e+00 863.0
13 TraesCS4A01G381200 chr6A 94.374 551 27 4 2324 2871 457310981 457311530 0.000000e+00 843.0
14 TraesCS4A01G381200 chr6A 94.182 550 30 2 2324 2871 572769404 572769953 0.000000e+00 837.0
15 TraesCS4A01G381200 chr6B 94.255 557 28 4 2319 2871 591519597 591519041 0.000000e+00 848.0
16 TraesCS4A01G381200 chr6B 94.364 550 29 2 2324 2871 213156724 213156175 0.000000e+00 843.0
17 TraesCS4A01G381200 chr5D 93.907 558 31 3 2317 2871 384697693 384697136 0.000000e+00 839.0
18 TraesCS4A01G381200 chr7B 94.213 553 24 7 2323 2871 746727129 746726581 0.000000e+00 837.0
19 TraesCS4A01G381200 chr1D 94.182 550 28 2 2323 2871 462935622 462936168 0.000000e+00 835.0
20 TraesCS4A01G381200 chr3D 94.000 550 31 2 2324 2871 500829330 500828781 0.000000e+00 832.0
21 TraesCS4A01G381200 chr6D 87.127 536 58 6 1329 1857 9973289 9973820 5.290000e-167 597.0


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 TraesCS4A01G381200 chr4A 658896298 658899168 2870 False 5302.0 5302 100.0000 1 2871 1 chr4A.!!$F1 2870
1 TraesCS4A01G381200 chr4A 658342669 658344099 1430 False 840.5 1387 89.6150 584 1901 2 chr4A.!!$F2 1317
2 TraesCS4A01G381200 chr4A 658108175 658108879 704 True 835.0 835 88.0950 1420 2129 1 chr4A.!!$R2 709
3 TraesCS4A01G381200 chr4A 658069195 658069899 704 True 830.0 830 87.9550 1420 2129 1 chr4A.!!$R1 709
4 TraesCS4A01G381200 chr7A 47899192 47901873 2681 False 1390.5 2671 90.7325 3 2337 2 chr7A.!!$F1 2334
5 TraesCS4A01G381200 chr7A 47780072 47781102 1030 True 482.5 577 89.1140 1421 2200 2 chr7A.!!$R1 779
6 TraesCS4A01G381200 chr7D 45702574 45704779 2205 False 1317.6 2551 89.9205 165 2323 2 chr7D.!!$F1 2158
7 TraesCS4A01G381200 chr6A 556297642 556298190 548 True 863.0 863 95.0910 2324 2871 1 chr6A.!!$R1 547
8 TraesCS4A01G381200 chr6A 457310981 457311530 549 False 843.0 843 94.3740 2324 2871 1 chr6A.!!$F1 547
9 TraesCS4A01G381200 chr6A 572769404 572769953 549 False 837.0 837 94.1820 2324 2871 1 chr6A.!!$F2 547
10 TraesCS4A01G381200 chr6B 591519041 591519597 556 True 848.0 848 94.2550 2319 2871 1 chr6B.!!$R2 552
11 TraesCS4A01G381200 chr6B 213156175 213156724 549 True 843.0 843 94.3640 2324 2871 1 chr6B.!!$R1 547
12 TraesCS4A01G381200 chr5D 384697136 384697693 557 True 839.0 839 93.9070 2317 2871 1 chr5D.!!$R1 554
13 TraesCS4A01G381200 chr7B 746726581 746727129 548 True 837.0 837 94.2130 2323 2871 1 chr7B.!!$R1 548
14 TraesCS4A01G381200 chr1D 462935622 462936168 546 False 835.0 835 94.1820 2323 2871 1 chr1D.!!$F1 548
15 TraesCS4A01G381200 chr3D 500828781 500829330 549 True 832.0 832 94.0000 2324 2871 1 chr3D.!!$R1 547
16 TraesCS4A01G381200 chr6D 9973289 9973820 531 False 597.0 597 87.1270 1329 1857 1 chr6D.!!$F1 528


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
775 822 0.040067 GCTTGAACGACTTTGGGCTG 60.04 55.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2355 3159 0.036388 TGATTGCTTGGTCCTCGGAC 60.036 55.0 7.57 7.57 43.87 4.79 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 2.353704 CGAGCAGGTGTTCATACTCCAA 60.354 50.000 0.00 0.00 39.80 3.53
35 36 4.398319 CAGGTGTTCATACTCCAAGGTTT 58.602 43.478 0.00 0.00 39.80 3.27
37 38 4.104102 AGGTGTTCATACTCCAAGGTTTGA 59.896 41.667 0.00 0.00 39.80 2.69
76 77 2.205074 ACACTGAAACAGAAGTGCTCG 58.795 47.619 5.76 0.00 46.28 5.03
83 84 0.753262 ACAGAAGTGCTCGGTGAACT 59.247 50.000 0.00 0.00 30.51 3.01
97 98 0.250295 TGAACTTGCCGAGGAACCTG 60.250 55.000 0.00 0.00 0.00 4.00
98 99 0.955919 GAACTTGCCGAGGAACCTGG 60.956 60.000 0.00 0.00 0.00 4.45
131 136 3.728385 AGTTTAAGGCAGAGGAGCATT 57.272 42.857 0.00 0.00 41.80 3.56
133 138 4.775236 AGTTTAAGGCAGAGGAGCATTAG 58.225 43.478 0.00 0.00 41.11 1.73
134 139 4.471386 AGTTTAAGGCAGAGGAGCATTAGA 59.529 41.667 0.00 0.00 41.11 2.10
137 142 2.406559 AGGCAGAGGAGCATTAGACAT 58.593 47.619 0.00 0.00 35.83 3.06
343 351 1.618345 GGAGGAGAGAGAGGAAGTGCA 60.618 57.143 0.00 0.00 0.00 4.57
383 391 1.705337 CGCTTCATTGCCCGAACGAT 61.705 55.000 0.00 0.00 0.00 3.73
386 394 0.957888 TTCATTGCCCGAACGATGCA 60.958 50.000 0.00 0.00 32.33 3.96
391 399 2.106074 GCCCGAACGATGCACATCA 61.106 57.895 11.00 0.00 37.69 3.07
398 406 4.686091 CCGAACGATGCACATCATAGTAAT 59.314 41.667 11.00 0.00 39.60 1.89
481 489 7.095816 CCCCGAAAGAAATGTGAATGTAAAAAC 60.096 37.037 0.00 0.00 0.00 2.43
489 497 9.180678 GAAATGTGAATGTAAAAACGAGTGAAT 57.819 29.630 0.00 0.00 0.00 2.57
515 523 3.289834 ACGCACCAGCAGCCAAAG 61.290 61.111 0.00 0.00 42.27 2.77
536 544 2.162681 CGGAGCCACAGGAAAAGAATT 58.837 47.619 0.00 0.00 0.00 2.17
674 718 3.194861 CACACATGGAACGACCGATATT 58.805 45.455 0.00 0.00 42.61 1.28
675 719 4.364860 CACACATGGAACGACCGATATTA 58.635 43.478 0.00 0.00 42.61 0.98
770 817 1.758783 GCCTTGCTTGAACGACTTTG 58.241 50.000 0.00 0.00 0.00 2.77
772 819 1.001378 CCTTGCTTGAACGACTTTGGG 60.001 52.381 0.00 0.00 0.00 4.12
775 822 0.040067 GCTTGAACGACTTTGGGCTG 60.040 55.000 0.00 0.00 0.00 4.85
776 823 1.308998 CTTGAACGACTTTGGGCTGT 58.691 50.000 0.00 0.00 0.00 4.40
790 837 1.414919 GGGCTGTATTCCGTATGTGGA 59.585 52.381 0.00 0.00 35.83 4.02
817 870 6.402226 CGTCTAGGTAAAGCAACAGAATTTCC 60.402 42.308 0.00 0.00 0.00 3.13
823 876 1.551883 AGCAACAGAATTTCCATGGCC 59.448 47.619 6.96 0.00 0.00 5.36
830 883 3.069158 CAGAATTTCCATGGCCAAGATCC 59.931 47.826 10.96 0.00 0.00 3.36
890 1030 3.449018 AGTCCGATGATTACAGCTTGACT 59.551 43.478 0.00 0.00 37.36 3.41
899 1067 5.360144 TGATTACAGCTTGACTAGGGAGTAC 59.640 44.000 0.00 0.00 35.45 2.73
1026 1204 3.056304 GCTCGTATTCTCTGATGAAGCC 58.944 50.000 0.00 0.00 0.00 4.35
1268 1452 2.476619 GCATGCATCGACCTGTATACAC 59.523 50.000 14.21 0.00 0.00 2.90
1273 1457 4.142049 TGCATCGACCTGTATACACATGAA 60.142 41.667 0.08 0.00 33.14 2.57
1274 1458 4.991056 GCATCGACCTGTATACACATGAAT 59.009 41.667 0.08 0.00 33.14 2.57
1277 1461 7.359264 GCATCGACCTGTATACACATGAATTAC 60.359 40.741 0.08 0.00 33.14 1.89
1278 1480 7.342769 TCGACCTGTATACACATGAATTACT 57.657 36.000 0.08 0.00 33.14 2.24
1279 1481 7.778083 TCGACCTGTATACACATGAATTACTT 58.222 34.615 0.08 0.00 33.14 2.24
1284 1486 9.817809 CCTGTATACACATGAATTACTTGTACT 57.182 33.333 0.08 0.00 35.57 2.73
1291 1493 8.988934 ACACATGAATTACTTGTACTTACACTG 58.011 33.333 0.00 0.00 35.64 3.66
1292 1494 9.203421 CACATGAATTACTTGTACTTACACTGA 57.797 33.333 0.00 0.00 35.64 3.41
1293 1495 9.204570 ACATGAATTACTTGTACTTACACTGAC 57.795 33.333 0.00 0.00 35.64 3.51
1294 1496 7.862741 TGAATTACTTGTACTTACACTGACG 57.137 36.000 0.00 0.00 35.64 4.35
1295 1497 7.428020 TGAATTACTTGTACTTACACTGACGT 58.572 34.615 0.00 0.00 35.64 4.34
1296 1498 8.567104 TGAATTACTTGTACTTACACTGACGTA 58.433 33.333 0.00 0.00 35.64 3.57
1297 1499 8.733857 AATTACTTGTACTTACACTGACGTAC 57.266 34.615 0.00 0.00 35.64 3.67
1298 1500 5.113502 ACTTGTACTTACACTGACGTACC 57.886 43.478 0.00 0.00 35.64 3.34
1299 1501 4.823989 ACTTGTACTTACACTGACGTACCT 59.176 41.667 0.00 0.00 35.64 3.08
1300 1502 5.997746 ACTTGTACTTACACTGACGTACCTA 59.002 40.000 0.00 0.00 35.64 3.08
1301 1503 6.656693 ACTTGTACTTACACTGACGTACCTAT 59.343 38.462 0.00 0.00 35.64 2.57
1302 1504 7.824289 ACTTGTACTTACACTGACGTACCTATA 59.176 37.037 0.00 0.00 35.64 1.31
1303 1505 7.539712 TGTACTTACACTGACGTACCTATAC 57.460 40.000 0.00 0.00 33.17 1.47
1304 1506 7.201522 TTGTACTTACACTGACGTACCTATACG 60.202 40.741 5.36 5.36 46.43 3.06
1323 1525 1.078143 GACAGCTGGGAGGCGAAAT 60.078 57.895 19.93 0.00 37.29 2.17
1325 1527 1.821332 CAGCTGGGAGGCGAAATCC 60.821 63.158 5.57 0.00 37.29 3.01
1366 1574 4.530857 CGGACGACCTGGGCCATC 62.531 72.222 6.72 0.80 0.00 3.51
1634 1842 0.601046 CTTCTTCACGCTCTGCACCA 60.601 55.000 0.00 0.00 0.00 4.17
1810 2018 2.513897 GGGACGCACATGCCCTAC 60.514 66.667 0.00 0.00 38.85 3.18
1813 2021 2.125673 ACGCACATGCCCTACGTC 60.126 61.111 0.00 0.00 37.91 4.34
1928 2398 7.480222 AAAAATATTTATCCTCCCCTCCTGA 57.520 36.000 0.01 0.00 0.00 3.86
1932 2402 1.789523 TATCCTCCCCTCCTGAAACG 58.210 55.000 0.00 0.00 0.00 3.60
1991 2472 6.442513 AAAAGTTCATATAGGAGCTTGTGC 57.557 37.500 15.78 0.00 38.20 4.57
1992 2473 4.760530 AGTTCATATAGGAGCTTGTGCA 57.239 40.909 0.00 0.00 42.74 4.57
1993 2474 5.301835 AGTTCATATAGGAGCTTGTGCAT 57.698 39.130 0.00 0.00 42.74 3.96
2009 2490 1.805428 GCATTTCCTGTTGGCGGTGT 61.805 55.000 0.00 0.00 0.00 4.16
2070 2554 9.761504 TTCTTAATGAAAATGACATGCTTTCAA 57.238 25.926 15.72 2.55 41.14 2.69
2072 2556 8.537049 TTAATGAAAATGACATGCTTTCAAGG 57.463 30.769 15.72 0.00 41.14 3.61
2073 2557 4.309099 TGAAAATGACATGCTTTCAAGGC 58.691 39.130 11.25 0.00 36.42 4.35
2080 2565 1.614903 CATGCTTTCAAGGCCTGACAA 59.385 47.619 5.69 0.00 32.21 3.18
2129 2614 5.682862 CGCAATAAGCTGCATTAAAACTAGG 59.317 40.000 1.02 0.00 42.77 3.02
2166 2657 4.689612 ACAACAACCACATCAGACTAGT 57.310 40.909 0.00 0.00 0.00 2.57
2182 2673 7.773149 TCAGACTAGTTAGTAAAGCTTCATCC 58.227 38.462 0.00 0.00 36.50 3.51
2213 2704 4.801516 GCTTCTATTCGGAGTTCTGTCTTC 59.198 45.833 0.00 0.00 0.00 2.87
2231 2722 8.234546 TCTGTCTTCACAAAAGTTAGAAAACAC 58.765 33.333 0.00 0.00 32.98 3.32
2348 3152 4.974645 AGAATAAATCCGAGGCATACCA 57.025 40.909 0.00 0.00 39.06 3.25
2351 3155 4.908601 ATAAATCCGAGGCATACCATCA 57.091 40.909 0.00 0.00 39.06 3.07
2355 3159 1.000843 TCCGAGGCATACCATCAATCG 59.999 52.381 0.00 0.00 39.06 3.34
2380 3185 1.202758 AGGACCAAGCAATCACACGAA 60.203 47.619 0.00 0.00 0.00 3.85
2433 3238 0.178873 ATATGGCTACATCCCCGGGT 60.179 55.000 21.85 2.42 38.53 5.28
2452 3258 0.687757 TCTGACTATGGGCGCTCCTT 60.688 55.000 3.94 6.68 36.20 3.36
2456 3262 2.040884 TATGGGCGCTCCTTCCCT 60.041 61.111 3.94 0.00 43.04 4.20
2584 3390 3.759815 ACCCCCGCTATATATGAGAGT 57.240 47.619 0.00 0.00 0.00 3.24
2646 3452 9.515226 ACATCCTATGTAAACACAATACAACTT 57.485 29.630 0.00 0.00 42.78 2.66
2720 3527 3.054361 ACTCCACCTTGGCGAATATTCTT 60.054 43.478 13.45 0.00 37.47 2.52
2723 3530 3.885297 CCACCTTGGCGAATATTCTTCAT 59.115 43.478 13.45 0.00 0.00 2.57
2730 3537 5.924356 TGGCGAATATTCTTCATCACCTTA 58.076 37.500 13.45 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.311322 TGAACACCTGCTCGTTTTTACTG 59.689 43.478 0.00 0.00 0.00 2.74
1 2 3.537580 TGAACACCTGCTCGTTTTTACT 58.462 40.909 0.00 0.00 0.00 2.24
30 31 3.950397 TGGCAATCGAAGTATCAAACCT 58.050 40.909 0.00 0.00 0.00 3.50
35 36 7.384932 CAGTGTAATATGGCAATCGAAGTATCA 59.615 37.037 0.00 0.00 0.00 2.15
37 38 7.441836 TCAGTGTAATATGGCAATCGAAGTAT 58.558 34.615 0.00 0.00 0.00 2.12
76 77 1.235281 GGTTCCTCGGCAAGTTCACC 61.235 60.000 0.00 0.00 0.00 4.02
83 84 0.619255 TATCCCAGGTTCCTCGGCAA 60.619 55.000 0.00 0.00 0.00 4.52
97 98 4.272748 GCCTTAAACTTGTGACGATATCCC 59.727 45.833 0.00 0.00 0.00 3.85
98 99 4.873827 TGCCTTAAACTTGTGACGATATCC 59.126 41.667 0.00 0.00 0.00 2.59
131 136 4.340666 TGGCTTTCTTTTTGTGCATGTCTA 59.659 37.500 0.00 0.00 0.00 2.59
133 138 3.456280 TGGCTTTCTTTTTGTGCATGTC 58.544 40.909 0.00 0.00 0.00 3.06
134 139 3.540314 TGGCTTTCTTTTTGTGCATGT 57.460 38.095 0.00 0.00 0.00 3.21
137 142 3.540314 ACATGGCTTTCTTTTTGTGCA 57.460 38.095 0.00 0.00 0.00 4.57
183 188 1.069091 CGATGTGCATGCTGTTGAACA 60.069 47.619 20.33 13.85 39.47 3.18
186 191 1.925415 GCCGATGTGCATGCTGTTGA 61.925 55.000 20.33 0.00 0.00 3.18
343 351 3.385111 CGAGGCCTAGAAACTATCTGGTT 59.615 47.826 4.42 0.00 39.30 3.67
383 391 8.487313 ACTTTTTACGATTACTATGATGTGCA 57.513 30.769 0.00 0.00 0.00 4.57
398 406 5.406175 CCGGTGAATCAACTACTTTTTACGA 59.594 40.000 0.00 0.00 0.00 3.43
455 463 5.637006 TTACATTCACATTTCTTTCGGGG 57.363 39.130 0.00 0.00 0.00 5.73
489 497 2.203139 CTGGTGCGTGGTGAACCA 60.203 61.111 0.00 0.00 45.30 3.67
502 510 4.269523 TCCGCTTTGGCTGCTGGT 62.270 61.111 0.00 0.00 37.80 4.00
515 523 0.889186 TTCTTTTCCTGTGGCTCCGC 60.889 55.000 0.00 0.00 0.00 5.54
617 656 1.323534 GTATAAGCTTGTGCGTGTCGG 59.676 52.381 9.86 0.00 45.42 4.79
674 718 9.872721 TGTTCCACATACGTAATTTAGTCAATA 57.127 29.630 0.00 0.00 0.00 1.90
675 719 8.662141 GTGTTCCACATACGTAATTTAGTCAAT 58.338 33.333 0.00 0.00 34.08 2.57
770 817 1.414919 TCCACATACGGAATACAGCCC 59.585 52.381 0.00 0.00 29.93 5.19
772 819 2.538449 CGTTCCACATACGGAATACAGC 59.462 50.000 0.00 0.00 46.53 4.40
775 822 4.037858 AGACGTTCCACATACGGAATAC 57.962 45.455 0.00 0.00 46.53 1.89
776 823 4.276678 CCTAGACGTTCCACATACGGAATA 59.723 45.833 0.00 0.00 46.53 1.75
790 837 4.595762 TCTGTTGCTTTACCTAGACGTT 57.404 40.909 0.00 0.00 0.00 3.99
817 870 4.891756 AGATTTTAGTGGATCTTGGCCATG 59.108 41.667 6.09 9.88 37.81 3.66
823 876 8.417106 TCTAGCAGTAGATTTTAGTGGATCTTG 58.583 37.037 0.00 0.00 34.60 3.02
890 1030 2.291996 TGCTAGCTGGTTGTACTCCCTA 60.292 50.000 17.23 0.00 0.00 3.53
899 1067 2.543012 CGATGAGAATGCTAGCTGGTTG 59.457 50.000 17.23 0.00 0.00 3.77
1026 1204 2.438434 GGGACGACAATGGCCAGG 60.438 66.667 13.05 8.83 0.00 4.45
1172 1350 3.071206 GCTGCTGGAGGAGGACGA 61.071 66.667 0.00 0.00 33.79 4.20
1216 1394 7.919621 AGAGCTGTTATATACTACCGTGAAAAC 59.080 37.037 0.00 0.00 0.00 2.43
1228 1406 5.866075 CATGCATGCAGAGCTGTTATATAC 58.134 41.667 26.69 0.00 0.00 1.47
1252 1430 7.867909 AGTAATTCATGTGTATACAGGTCGATG 59.132 37.037 5.62 4.46 40.79 3.84
1254 1432 7.342769 AGTAATTCATGTGTATACAGGTCGA 57.657 36.000 5.62 0.00 40.79 4.20
1256 1434 8.718102 ACAAGTAATTCATGTGTATACAGGTC 57.282 34.615 5.62 0.00 40.79 3.85
1257 1435 9.595823 GTACAAGTAATTCATGTGTATACAGGT 57.404 33.333 5.62 0.00 40.79 4.00
1268 1452 8.373256 CGTCAGTGTAAGTACAAGTAATTCATG 58.627 37.037 0.00 0.00 38.04 3.07
1273 1457 7.175641 AGGTACGTCAGTGTAAGTACAAGTAAT 59.824 37.037 19.11 0.00 40.66 1.89
1274 1458 6.486657 AGGTACGTCAGTGTAAGTACAAGTAA 59.513 38.462 19.11 0.00 40.66 2.24
1277 1461 5.368256 AGGTACGTCAGTGTAAGTACAAG 57.632 43.478 19.11 0.00 40.66 3.16
1278 1480 7.201522 CGTATAGGTACGTCAGTGTAAGTACAA 60.202 40.741 19.11 11.58 46.51 2.41
1279 1481 6.255670 CGTATAGGTACGTCAGTGTAAGTACA 59.744 42.308 19.11 7.45 46.51 2.90
1294 1496 1.612463 CCCAGCTGTCCGTATAGGTAC 59.388 57.143 13.81 0.00 41.99 3.34
1295 1497 1.496001 TCCCAGCTGTCCGTATAGGTA 59.504 52.381 13.81 0.00 41.99 3.08
1296 1498 0.260816 TCCCAGCTGTCCGTATAGGT 59.739 55.000 13.81 0.00 41.99 3.08
1297 1499 0.962489 CTCCCAGCTGTCCGTATAGG 59.038 60.000 13.81 3.90 42.97 2.57
1298 1500 0.962489 CCTCCCAGCTGTCCGTATAG 59.038 60.000 13.81 0.00 0.00 1.31
1299 1501 1.113517 GCCTCCCAGCTGTCCGTATA 61.114 60.000 13.81 0.00 0.00 1.47
1300 1502 2.435693 GCCTCCCAGCTGTCCGTAT 61.436 63.158 13.81 0.00 0.00 3.06
1301 1503 3.075005 GCCTCCCAGCTGTCCGTA 61.075 66.667 13.81 0.00 0.00 4.02
1304 1506 2.543067 ATTTCGCCTCCCAGCTGTCC 62.543 60.000 13.81 0.00 0.00 4.02
1305 1507 1.078143 ATTTCGCCTCCCAGCTGTC 60.078 57.895 13.81 0.00 0.00 3.51
1306 1508 1.078143 GATTTCGCCTCCCAGCTGT 60.078 57.895 13.81 0.00 0.00 4.40
1634 1842 2.181021 GTCGTCGACGCCCTTGAT 59.819 61.111 32.19 0.00 39.60 2.57
1908 2378 5.013183 CGTTTCAGGAGGGGAGGATAAATAT 59.987 44.000 0.00 0.00 0.00 1.28
1925 2395 9.000486 TGATATGTAGTAGTATCCTCGTTTCAG 58.000 37.037 0.00 0.00 0.00 3.02
1928 2398 8.687292 TGTGATATGTAGTAGTATCCTCGTTT 57.313 34.615 0.00 0.00 0.00 3.60
1988 2469 1.080569 CCGCCAACAGGAAATGCAC 60.081 57.895 0.00 0.00 0.00 4.57
1989 2470 1.530419 ACCGCCAACAGGAAATGCA 60.530 52.632 0.00 0.00 0.00 3.96
1990 2471 1.080569 CACCGCCAACAGGAAATGC 60.081 57.895 0.00 0.00 0.00 3.56
1991 2472 0.673437 AACACCGCCAACAGGAAATG 59.327 50.000 0.00 0.00 0.00 2.32
1992 2473 1.408969 AAACACCGCCAACAGGAAAT 58.591 45.000 0.00 0.00 0.00 2.17
1993 2474 1.134965 CAAAACACCGCCAACAGGAAA 60.135 47.619 0.00 0.00 0.00 3.13
2009 2490 7.841915 TGCTCGAATGACAGATATTACAAAA 57.158 32.000 0.00 0.00 0.00 2.44
2067 2551 3.897239 TCTTTTCTTTGTCAGGCCTTGA 58.103 40.909 0.00 0.71 0.00 3.02
2068 2552 4.654091 TTCTTTTCTTTGTCAGGCCTTG 57.346 40.909 0.00 0.00 0.00 3.61
2070 2554 4.502087 GCATTTCTTTTCTTTGTCAGGCCT 60.502 41.667 0.00 0.00 0.00 5.19
2072 2556 3.742882 GGCATTTCTTTTCTTTGTCAGGC 59.257 43.478 0.00 0.00 0.00 4.85
2073 2557 4.746611 GTGGCATTTCTTTTCTTTGTCAGG 59.253 41.667 0.00 0.00 0.00 3.86
2080 2565 6.409524 TTGAGATGTGGCATTTCTTTTCTT 57.590 33.333 0.00 0.00 0.00 2.52
2129 2614 6.183360 TGGTTGTTGTACAGAAAATCAAGGTC 60.183 38.462 0.00 0.00 0.00 3.85
2166 2657 4.159693 TCGCAGAGGATGAAGCTTTACTAA 59.840 41.667 0.00 0.00 0.00 2.24
2213 2704 5.650543 AGCAGGTGTTTTCTAACTTTTGTG 58.349 37.500 0.00 0.00 35.24 3.33
2231 2722 0.445436 GTCAGCACGAATGAAGCAGG 59.555 55.000 0.00 0.00 0.00 4.85
2271 3075 7.661847 ACAACTTGCCTATGAATATTAGCCTAC 59.338 37.037 0.00 0.00 0.00 3.18
2348 3152 1.137086 CTTGGTCCTCGGACGATTGAT 59.863 52.381 9.81 0.00 45.41 2.57
2351 3155 1.218316 GCTTGGTCCTCGGACGATT 59.782 57.895 9.81 0.00 45.41 3.34
2355 3159 0.036388 TGATTGCTTGGTCCTCGGAC 60.036 55.000 7.57 7.57 43.87 4.79
2380 3185 2.234300 AACAAATCTCGGTGTCGTGT 57.766 45.000 0.00 0.00 37.69 4.49
2433 3238 0.687757 AAGGAGCGCCCATAGTCAGA 60.688 55.000 15.92 0.00 37.41 3.27
2452 3258 0.981183 ATTGTAGCGGTGTCAAGGGA 59.019 50.000 0.00 0.00 0.00 4.20
2456 3262 1.999048 CGGTATTGTAGCGGTGTCAA 58.001 50.000 0.00 3.35 45.08 3.18
2584 3390 5.728937 AGTAGGACACTTGTATCCTAGGA 57.271 43.478 15.46 15.46 46.10 2.94
2646 3452 6.955851 ACAAGGTAGGTTACAGTTGGACTATA 59.044 38.462 0.00 0.00 31.85 1.31
2720 3527 6.095300 ACGCATTGATGAATTTAAGGTGATGA 59.905 34.615 0.00 0.00 0.00 2.92
2723 3530 5.414144 TGACGCATTGATGAATTTAAGGTGA 59.586 36.000 0.00 0.00 0.00 4.02
2730 3537 6.700960 TGAAAGTTTGACGCATTGATGAATTT 59.299 30.769 0.00 0.00 0.00 1.82



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

AutoCloner maintained by Alex Coulton.