Multiple sequence alignment - TraesCS4B01G247100

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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 TraesCS4B01G247100 chr4B 100.000 2444 0 0 1 2444 511161337 511163780 0.000000e+00 4514.0
1 TraesCS4B01G247100 chr4B 88.618 123 7 4 707 826 510844630 510844512 2.530000e-30 143.0
2 TraesCS4B01G247100 chr4A 90.086 1392 75 30 109 1447 48529745 48528364 0.000000e+00 1748.0
3 TraesCS4B01G247100 chr4A 89.896 386 21 7 2015 2382 48528037 48527652 4.730000e-132 481.0
4 TraesCS4B01G247100 chr4A 95.374 281 10 1 1542 1822 48528362 48528085 6.200000e-121 444.0
5 TraesCS4B01G247100 chr4A 80.042 481 60 20 722 1190 48891352 48891808 8.430000e-85 324.0
6 TraesCS4B01G247100 chr4A 92.157 102 7 1 1449 1549 712853528 712853629 2.530000e-30 143.0
7 TraesCS4B01G247100 chr4A 95.890 73 3 0 2372 2444 37060111 37060183 4.270000e-23 119.0
8 TraesCS4B01G247100 chr4A 93.506 77 4 1 2 77 48529932 48529856 1.990000e-21 113.0
9 TraesCS4B01G247100 chr4A 93.750 64 4 0 1585 1648 48892036 48892099 2.000000e-16 97.1
10 TraesCS4B01G247100 chr4A 95.833 48 1 1 78 125 48529823 48529777 2.610000e-10 76.8
11 TraesCS4B01G247100 chr4D 90.022 1373 76 26 109 1449 414997354 414998697 0.000000e+00 1720.0
12 TraesCS4B01G247100 chr4D 93.031 947 21 5 1538 2444 414998693 414999634 0.000000e+00 1341.0
13 TraesCS4B01G247100 chr3B 79.679 374 50 11 1588 1936 817524191 817523819 1.880000e-61 246.0
14 TraesCS4B01G247100 chr3A 78.307 378 54 16 1585 1936 740191849 740192224 4.090000e-53 219.0
15 TraesCS4B01G247100 chr3A 88.793 116 11 2 1455 1569 726326430 726326316 9.110000e-30 141.0
16 TraesCS4B01G247100 chr3A 95.062 81 3 1 2364 2444 470095786 470095707 2.550000e-25 126.0
17 TraesCS4B01G247100 chr3A 92.771 83 5 1 2362 2444 79452134 79452215 4.270000e-23 119.0
18 TraesCS4B01G247100 chr7D 97.701 87 2 0 1454 1540 204732456 204732370 1.510000e-32 150.0
19 TraesCS4B01G247100 chr7B 97.701 87 2 0 1454 1540 446149573 446149487 1.510000e-32 150.0
20 TraesCS4B01G247100 chr7B 92.771 83 5 1 2363 2444 162120801 162120883 4.270000e-23 119.0
21 TraesCS4B01G247100 chr2B 95.745 94 3 1 1455 1547 365069385 365069292 1.510000e-32 150.0
22 TraesCS4B01G247100 chr2B 95.455 88 4 0 1455 1542 53970973 53971060 9.110000e-30 141.0
23 TraesCS4B01G247100 chr1A 94.845 97 3 1 1445 1539 236401199 236401295 1.510000e-32 150.0
24 TraesCS4B01G247100 chr1A 97.333 75 2 0 2370 2444 496439981 496440055 7.090000e-26 128.0
25 TraesCS4B01G247100 chr3D 91.346 104 9 0 1437 1540 386613261 386613364 2.530000e-30 143.0
26 TraesCS4B01G247100 chr7A 87.931 116 11 3 1426 1540 555465313 555465426 1.520000e-27 134.0
27 TraesCS4B01G247100 chr5B 97.222 72 2 0 2373 2444 166379182 166379111 3.300000e-24 122.0
28 TraesCS4B01G247100 chr5D 95.833 72 3 0 2373 2444 139440916 139440987 1.540000e-22 117.0
29 TraesCS4B01G247100 chr2D 92.593 81 5 1 2362 2442 74149838 74149759 5.520000e-22 115.0


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 TraesCS4B01G247100 chr4B 511161337 511163780 2443 False 4514.00 4514 100.0000 1 2444 1 chr4B.!!$F1 2443
1 TraesCS4B01G247100 chr4A 48527652 48529932 2280 True 572.56 1748 92.9390 2 2382 5 chr4A.!!$R1 2380
2 TraesCS4B01G247100 chr4A 48891352 48892099 747 False 210.55 324 86.8960 722 1648 2 chr4A.!!$F3 926
3 TraesCS4B01G247100 chr4D 414997354 414999634 2280 False 1530.50 1720 91.5265 109 2444 2 chr4D.!!$F1 2335

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
170 265 0.037046 GGCTTGCTGGGTTGGATTTG 60.037 55.0 0.0 0.0 0.0 2.32 F
205 300 0.259065 GGAAGGTTTGGGGGAGGATC 59.741 60.0 0.0 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1236 1391 0.462759 GGGAGCAGAAGGATGGTTCG 60.463 60.0 0.00 0.0 0.0 3.95 R
1916 2090 1.300481 TTCCGTGTCACAATTCGCAA 58.700 45.0 3.42 0.0 0.0 4.85 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
59 61 7.337689 TGCAAGAATCACTGCACTATTCTTTAT 59.662 33.333 17.41 2.45 43.85 1.40
68 70 6.070538 ACTGCACTATTCTTTATCTGTGTCCT 60.071 38.462 0.00 0.00 0.00 3.85
87 121 6.495872 GTGTCCTGGGAATGTATAGGTGTATA 59.504 42.308 0.00 0.00 0.00 1.47
144 226 0.247736 AAGGTAGTCTCAGCCTTGCG 59.752 55.000 0.00 0.00 40.71 4.85
169 264 1.194121 GGGCTTGCTGGGTTGGATTT 61.194 55.000 0.00 0.00 0.00 2.17
170 265 0.037046 GGCTTGCTGGGTTGGATTTG 60.037 55.000 0.00 0.00 0.00 2.32
173 268 1.693606 CTTGCTGGGTTGGATTTGGTT 59.306 47.619 0.00 0.00 0.00 3.67
174 269 1.799933 TGCTGGGTTGGATTTGGTTT 58.200 45.000 0.00 0.00 0.00 3.27
188 283 0.324738 TGGTTTGTTGGTTGCTGGGA 60.325 50.000 0.00 0.00 0.00 4.37
205 300 0.259065 GGAAGGTTTGGGGGAGGATC 59.741 60.000 0.00 0.00 0.00 3.36
228 323 6.665695 TCTTTTGACTTTGTAGGGGTTAACT 58.334 36.000 5.42 0.00 0.00 2.24
229 324 7.804147 TCTTTTGACTTTGTAGGGGTTAACTA 58.196 34.615 5.42 0.00 0.00 2.24
258 353 4.642429 TCTTCTCTAAACTGAACAAGCCC 58.358 43.478 0.00 0.00 0.00 5.19
266 361 2.787994 ACTGAACAAGCCCTGAAGATG 58.212 47.619 0.00 0.00 0.00 2.90
268 363 3.327757 ACTGAACAAGCCCTGAAGATGTA 59.672 43.478 0.00 0.00 0.00 2.29
314 412 3.646162 TGGAAAGCTACCAACTCAGAAGA 59.354 43.478 9.68 0.00 34.25 2.87
319 417 2.544685 CTACCAACTCAGAAGATGCGG 58.455 52.381 0.00 0.00 0.00 5.69
320 418 0.687354 ACCAACTCAGAAGATGCGGT 59.313 50.000 0.00 0.00 0.00 5.68
339 438 4.391830 GCGGTTAAGATGTTCATCACTTCA 59.608 41.667 14.05 0.00 32.90 3.02
393 518 2.360475 GACTGGTTGCTGGGAGCC 60.360 66.667 0.00 0.00 41.51 4.70
420 545 1.484240 AGCCAGCCACTAAGATCAGTC 59.516 52.381 0.00 0.00 0.00 3.51
500 646 2.391926 TCAGTTGTAGGGTGTCAGGA 57.608 50.000 0.00 0.00 0.00 3.86
509 655 2.344592 AGGGTGTCAGGAACATGGTTA 58.655 47.619 0.00 0.00 40.80 2.85
696 842 4.124238 CCTTTGGTCTTAAGACAACGACA 58.876 43.478 31.30 19.26 46.47 4.35
710 856 3.731717 ACAACGACAACAACAACAACAAC 59.268 39.130 0.00 0.00 0.00 3.32
711 857 3.627732 ACGACAACAACAACAACAACA 57.372 38.095 0.00 0.00 0.00 3.33
712 858 3.966154 ACGACAACAACAACAACAACAA 58.034 36.364 0.00 0.00 0.00 2.83
719 865 6.128688 ACAACAACAACAACAACAATAACAGC 60.129 34.615 0.00 0.00 0.00 4.40
753 899 2.754472 TGATCACCAGAACAACGAGTG 58.246 47.619 0.00 0.00 0.00 3.51
1150 1305 2.956964 CGATCCTCTCGCCGTTGC 60.957 66.667 0.00 0.00 41.14 4.17
1247 1402 0.395724 GGCCATTCCGAACCATCCTT 60.396 55.000 0.00 0.00 0.00 3.36
1258 1413 0.343372 ACCATCCTTCTGCTCCCCTA 59.657 55.000 0.00 0.00 0.00 3.53
1307 1462 2.011947 CGCCAATGCTGAAGATGAAGA 58.988 47.619 0.00 0.00 34.43 2.87
1313 1468 2.430465 TGCTGAAGATGAAGAGGTTGC 58.570 47.619 0.00 0.00 0.00 4.17
1456 1611 9.709495 AGAAGCAAATCTGATAGAATCTGATAC 57.291 33.333 8.98 4.14 44.11 2.24
1457 1612 9.709495 GAAGCAAATCTGATAGAATCTGATACT 57.291 33.333 8.98 5.79 44.11 2.12
1458 1613 9.709495 AAGCAAATCTGATAGAATCTGATACTC 57.291 33.333 8.98 0.00 44.11 2.59
1459 1614 8.313292 AGCAAATCTGATAGAATCTGATACTCC 58.687 37.037 8.98 1.59 44.11 3.85
1460 1615 7.548780 GCAAATCTGATAGAATCTGATACTCCC 59.451 40.741 8.98 0.00 44.11 4.30
1461 1616 8.814931 CAAATCTGATAGAATCTGATACTCCCT 58.185 37.037 8.98 0.00 44.11 4.20
1462 1617 8.593945 AATCTGATAGAATCTGATACTCCCTC 57.406 38.462 8.98 0.00 44.11 4.30
1463 1618 6.489603 TCTGATAGAATCTGATACTCCCTCC 58.510 44.000 0.00 0.00 33.13 4.30
1464 1619 5.257262 TGATAGAATCTGATACTCCCTCCG 58.743 45.833 0.00 0.00 0.00 4.63
1465 1620 3.603965 AGAATCTGATACTCCCTCCGT 57.396 47.619 0.00 0.00 0.00 4.69
1466 1621 4.726035 AGAATCTGATACTCCCTCCGTA 57.274 45.455 0.00 0.00 0.00 4.02
1467 1622 5.063017 AGAATCTGATACTCCCTCCGTAA 57.937 43.478 0.00 0.00 0.00 3.18
1468 1623 5.455872 AGAATCTGATACTCCCTCCGTAAA 58.544 41.667 0.00 0.00 0.00 2.01
1469 1624 5.302313 AGAATCTGATACTCCCTCCGTAAAC 59.698 44.000 0.00 0.00 0.00 2.01
1470 1625 4.246712 TCTGATACTCCCTCCGTAAACT 57.753 45.455 0.00 0.00 0.00 2.66
1471 1626 5.378230 TCTGATACTCCCTCCGTAAACTA 57.622 43.478 0.00 0.00 0.00 2.24
1472 1627 5.759059 TCTGATACTCCCTCCGTAAACTAA 58.241 41.667 0.00 0.00 0.00 2.24
1473 1628 6.371278 TCTGATACTCCCTCCGTAAACTAAT 58.629 40.000 0.00 0.00 0.00 1.73
1474 1629 7.520798 TCTGATACTCCCTCCGTAAACTAATA 58.479 38.462 0.00 0.00 0.00 0.98
1475 1630 8.168725 TCTGATACTCCCTCCGTAAACTAATAT 58.831 37.037 0.00 0.00 0.00 1.28
1476 1631 8.716674 TGATACTCCCTCCGTAAACTAATATT 57.283 34.615 0.00 0.00 0.00 1.28
1477 1632 9.812347 TGATACTCCCTCCGTAAACTAATATTA 57.188 33.333 0.00 0.00 0.00 0.98
1480 1635 8.406730 ACTCCCTCCGTAAACTAATATTAGAG 57.593 38.462 25.83 12.47 34.84 2.43
1481 1636 7.039853 ACTCCCTCCGTAAACTAATATTAGAGC 60.040 40.741 25.83 12.58 34.84 4.09
1482 1637 6.072286 TCCCTCCGTAAACTAATATTAGAGCG 60.072 42.308 25.83 20.56 34.84 5.03
1483 1638 6.294397 CCCTCCGTAAACTAATATTAGAGCGT 60.294 42.308 25.83 11.63 34.84 5.07
1484 1639 7.144000 CCTCCGTAAACTAATATTAGAGCGTT 58.856 38.462 25.83 15.99 34.84 4.84
1485 1640 7.650903 CCTCCGTAAACTAATATTAGAGCGTTT 59.349 37.037 25.83 18.28 34.84 3.60
1486 1641 9.669353 CTCCGTAAACTAATATTAGAGCGTTTA 57.331 33.333 25.83 17.45 34.84 2.01
1487 1642 9.669353 TCCGTAAACTAATATTAGAGCGTTTAG 57.331 33.333 25.83 14.01 34.84 1.85
1488 1643 9.669353 CCGTAAACTAATATTAGAGCGTTTAGA 57.331 33.333 25.83 3.74 34.84 2.10
1534 1689 9.490379 AACGCTCTTATATTAATTTACAGAGGG 57.510 33.333 21.96 21.96 42.53 4.30
1535 1690 8.867097 ACGCTCTTATATTAATTTACAGAGGGA 58.133 33.333 25.54 1.67 40.49 4.20
1536 1691 9.360093 CGCTCTTATATTAATTTACAGAGGGAG 57.640 37.037 20.74 5.24 40.49 4.30
1752 1909 1.138568 CCAGAGGGCAGGATGAATCT 58.861 55.000 0.00 0.00 39.69 2.40
1877 2051 0.673644 ACACACGGAGGTAAGCATGC 60.674 55.000 10.51 10.51 0.00 4.06
1906 2080 4.391830 GGAACGTAGCATTGTCAGATGAAA 59.608 41.667 0.00 0.00 0.00 2.69
1916 2090 4.558226 TGTCAGATGAAAGTACCATGCT 57.442 40.909 0.00 0.00 0.00 3.79
1922 2096 2.499197 TGAAAGTACCATGCTTGCGAA 58.501 42.857 0.00 0.00 0.00 4.70
1923 2097 3.081061 TGAAAGTACCATGCTTGCGAAT 58.919 40.909 0.00 0.00 0.00 3.34
1938 2112 2.292016 TGCGAATTGTGACACGGAATTT 59.708 40.909 0.22 0.00 0.00 1.82
1939 2113 2.656422 GCGAATTGTGACACGGAATTTG 59.344 45.455 11.65 11.65 0.00 2.32
1940 2114 3.851838 GCGAATTGTGACACGGAATTTGT 60.852 43.478 15.13 0.00 0.00 2.83
1941 2115 4.286910 CGAATTGTGACACGGAATTTGTT 58.713 39.130 0.22 0.00 0.00 2.83
1942 2116 5.444983 CGAATTGTGACACGGAATTTGTTA 58.555 37.500 0.22 0.00 0.00 2.41
2273 2467 1.901085 CTTCCTCTTCCTCCACCCG 59.099 63.158 0.00 0.00 0.00 5.28
2307 2501 1.694150 CAGGGAGTGAACTTGTCCTCA 59.306 52.381 0.00 0.00 0.00 3.86
2384 2596 5.288015 GCTTAAACTAATACTCCCTCCGAC 58.712 45.833 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.038763 ACGAGGACACTTGTTCAGAACATA 59.961 41.667 16.89 7.29 41.79 2.29
4 5 2.483013 CCACGAGGACACTTGTTCAGAA 60.483 50.000 0.00 0.00 39.36 3.02
10 11 1.000955 CTAAGCCACGAGGACACTTGT 59.999 52.381 1.86 0.00 42.17 3.16
59 61 3.967326 CCTATACATTCCCAGGACACAGA 59.033 47.826 0.00 0.00 0.00 3.41
68 70 7.364149 ACGTTTATACACCTATACATTCCCA 57.636 36.000 0.00 0.00 0.00 4.37
87 121 4.906618 AGATAGGTGGATTCACAACGTTT 58.093 39.130 6.44 0.00 45.32 3.60
151 233 0.037046 CAAATCCAACCCAGCAAGCC 60.037 55.000 0.00 0.00 0.00 4.35
152 234 0.037046 CCAAATCCAACCCAGCAAGC 60.037 55.000 0.00 0.00 0.00 4.01
153 235 1.341080 ACCAAATCCAACCCAGCAAG 58.659 50.000 0.00 0.00 0.00 4.01
154 236 1.799933 AACCAAATCCAACCCAGCAA 58.200 45.000 0.00 0.00 0.00 3.91
155 237 1.415659 CAAACCAAATCCAACCCAGCA 59.584 47.619 0.00 0.00 0.00 4.41
156 238 1.416030 ACAAACCAAATCCAACCCAGC 59.584 47.619 0.00 0.00 0.00 4.85
157 239 3.465871 CAACAAACCAAATCCAACCCAG 58.534 45.455 0.00 0.00 0.00 4.45
158 240 2.171448 CCAACAAACCAAATCCAACCCA 59.829 45.455 0.00 0.00 0.00 4.51
160 242 3.552132 ACCAACAAACCAAATCCAACC 57.448 42.857 0.00 0.00 0.00 3.77
161 243 3.064682 GCAACCAACAAACCAAATCCAAC 59.935 43.478 0.00 0.00 0.00 3.77
169 264 0.324738 TCCCAGCAACCAACAAACCA 60.325 50.000 0.00 0.00 0.00 3.67
170 265 0.827368 TTCCCAGCAACCAACAAACC 59.173 50.000 0.00 0.00 0.00 3.27
173 268 0.032615 ACCTTCCCAGCAACCAACAA 60.033 50.000 0.00 0.00 0.00 2.83
174 269 0.032615 AACCTTCCCAGCAACCAACA 60.033 50.000 0.00 0.00 0.00 3.33
188 283 1.773541 AAGATCCTCCCCCAAACCTT 58.226 50.000 0.00 0.00 0.00 3.50
205 300 6.954487 AGTTAACCCCTACAAAGTCAAAAG 57.046 37.500 0.88 0.00 0.00 2.27
228 323 6.657966 TGTTCAGTTTAGAGAAGATCGAGGTA 59.342 38.462 0.00 0.00 0.00 3.08
229 324 5.477291 TGTTCAGTTTAGAGAAGATCGAGGT 59.523 40.000 0.00 0.00 0.00 3.85
234 329 5.352846 GGGCTTGTTCAGTTTAGAGAAGATC 59.647 44.000 0.00 0.00 0.00 2.75
238 333 4.102524 TCAGGGCTTGTTCAGTTTAGAGAA 59.897 41.667 0.00 0.00 0.00 2.87
258 353 9.254133 CATTGTTAGTCTGGTATACATCTTCAG 57.746 37.037 5.01 2.67 0.00 3.02
266 361 9.998106 ATGGAATACATTGTTAGTCTGGTATAC 57.002 33.333 0.00 0.00 35.97 1.47
268 363 7.939039 CCATGGAATACATTGTTAGTCTGGTAT 59.061 37.037 5.56 0.00 37.84 2.73
287 382 3.073798 TGAGTTGGTAGCTTTCCATGGAA 59.926 43.478 23.63 23.63 34.75 3.53
289 384 3.012518 CTGAGTTGGTAGCTTTCCATGG 58.987 50.000 4.97 4.97 34.75 3.66
314 412 4.517285 AGTGATGAACATCTTAACCGCAT 58.483 39.130 14.50 0.00 38.60 4.73
319 417 7.148507 CCAGTCTGAAGTGATGAACATCTTAAC 60.149 40.741 14.50 6.13 38.60 2.01
320 418 6.875726 CCAGTCTGAAGTGATGAACATCTTAA 59.124 38.462 14.50 0.00 38.60 1.85
372 497 1.340017 GCTCCCAGCAACCAGTCATTA 60.340 52.381 0.00 0.00 41.89 1.90
374 499 1.001641 GCTCCCAGCAACCAGTCAT 60.002 57.895 0.00 0.00 41.89 3.06
393 518 0.037326 TTAGTGGCTGGCTTCTCACG 60.037 55.000 2.00 0.00 35.50 4.35
500 646 3.838317 TGGAGTCAGTAGCTAACCATGTT 59.162 43.478 0.00 0.00 0.00 2.71
509 655 3.055530 CCAGTTTCATGGAGTCAGTAGCT 60.056 47.826 0.00 0.00 43.57 3.32
578 724 1.299541 CAGCGACTGGTCAGTTGTTT 58.700 50.000 16.92 6.12 43.25 2.83
683 829 5.608676 TGTTGTTGTTGTCGTTGTCTTAA 57.391 34.783 0.00 0.00 0.00 1.85
696 842 5.928839 TGCTGTTATTGTTGTTGTTGTTGTT 59.071 32.000 0.00 0.00 0.00 2.83
710 856 5.437289 TCACTTGTTTCCTGCTGTTATTG 57.563 39.130 0.00 0.00 0.00 1.90
711 857 5.769662 TCATCACTTGTTTCCTGCTGTTATT 59.230 36.000 0.00 0.00 0.00 1.40
712 858 5.316167 TCATCACTTGTTTCCTGCTGTTAT 58.684 37.500 0.00 0.00 0.00 1.89
719 865 4.074259 TGGTGATCATCACTTGTTTCCTG 58.926 43.478 17.46 0.00 46.19 3.86
753 899 7.478322 AGCAAACATATGACAGATTGAACATC 58.522 34.615 10.38 0.00 0.00 3.06
845 992 8.853345 CATTTTATGTTTTACAGACTGCACATC 58.147 33.333 1.25 0.00 0.00 3.06
993 1148 2.291843 GATGAGGCACATCGTCGTG 58.708 57.895 9.14 3.10 44.46 4.35
1232 1387 1.561542 AGCAGAAGGATGGTTCGGAAT 59.438 47.619 0.00 0.00 0.00 3.01
1236 1391 0.462759 GGGAGCAGAAGGATGGTTCG 60.463 60.000 0.00 0.00 0.00 3.95
1313 1468 4.688419 CAAACAGCAGCGCCGTGG 62.688 66.667 2.29 0.00 0.00 4.94
1423 1578 8.571461 TTCTATCAGATTTGCTTCTGTTGATT 57.429 30.769 10.35 0.00 43.02 2.57
1448 1603 4.805744 AGTTTACGGAGGGAGTATCAGAT 58.194 43.478 0.00 0.00 36.25 2.90
1449 1604 4.246712 AGTTTACGGAGGGAGTATCAGA 57.753 45.455 0.00 0.00 36.25 3.27
1450 1605 6.651975 ATTAGTTTACGGAGGGAGTATCAG 57.348 41.667 0.00 0.00 36.25 2.90
1451 1606 8.716674 AATATTAGTTTACGGAGGGAGTATCA 57.283 34.615 0.00 0.00 36.25 2.15
1454 1609 9.512588 CTCTAATATTAGTTTACGGAGGGAGTA 57.487 37.037 19.58 0.00 32.61 2.59
1455 1610 7.039853 GCTCTAATATTAGTTTACGGAGGGAGT 60.040 40.741 19.58 0.00 32.61 3.85
1456 1611 7.314393 GCTCTAATATTAGTTTACGGAGGGAG 58.686 42.308 19.58 8.43 32.61 4.30
1457 1612 6.072286 CGCTCTAATATTAGTTTACGGAGGGA 60.072 42.308 19.58 0.00 34.63 4.20
1458 1613 6.091437 CGCTCTAATATTAGTTTACGGAGGG 58.909 44.000 19.58 12.99 32.61 4.30
1459 1614 6.675987 ACGCTCTAATATTAGTTTACGGAGG 58.324 40.000 19.58 7.21 32.61 4.30
1460 1615 8.571461 AAACGCTCTAATATTAGTTTACGGAG 57.429 34.615 19.58 10.64 31.14 4.63
1461 1616 9.669353 CTAAACGCTCTAATATTAGTTTACGGA 57.331 33.333 19.58 9.69 34.29 4.69
1462 1617 9.669353 TCTAAACGCTCTAATATTAGTTTACGG 57.331 33.333 19.58 9.02 34.29 4.02
1508 1663 9.490379 CCCTCTGTAAATTAATATAAGAGCGTT 57.510 33.333 9.98 0.00 0.00 4.84
1509 1664 8.867097 TCCCTCTGTAAATTAATATAAGAGCGT 58.133 33.333 9.98 0.00 0.00 5.07
1510 1665 9.360093 CTCCCTCTGTAAATTAATATAAGAGCG 57.640 37.037 9.98 4.77 0.00 5.03
1518 1673 9.275572 ACCTTGTACTCCCTCTGTAAATTAATA 57.724 33.333 0.00 0.00 0.00 0.98
1519 1674 8.159229 ACCTTGTACTCCCTCTGTAAATTAAT 57.841 34.615 0.00 0.00 0.00 1.40
1520 1675 7.563724 ACCTTGTACTCCCTCTGTAAATTAA 57.436 36.000 0.00 0.00 0.00 1.40
1521 1676 7.343833 CCTACCTTGTACTCCCTCTGTAAATTA 59.656 40.741 0.00 0.00 0.00 1.40
1522 1677 6.156429 CCTACCTTGTACTCCCTCTGTAAATT 59.844 42.308 0.00 0.00 0.00 1.82
1523 1678 5.661759 CCTACCTTGTACTCCCTCTGTAAAT 59.338 44.000 0.00 0.00 0.00 1.40
1524 1679 5.021458 CCTACCTTGTACTCCCTCTGTAAA 58.979 45.833 0.00 0.00 0.00 2.01
1525 1680 4.293102 TCCTACCTTGTACTCCCTCTGTAA 59.707 45.833 0.00 0.00 0.00 2.41
1526 1681 3.854389 TCCTACCTTGTACTCCCTCTGTA 59.146 47.826 0.00 0.00 0.00 2.74
1527 1682 2.653366 TCCTACCTTGTACTCCCTCTGT 59.347 50.000 0.00 0.00 0.00 3.41
1528 1683 3.383698 TCCTACCTTGTACTCCCTCTG 57.616 52.381 0.00 0.00 0.00 3.35
1529 1684 3.077088 TGTTCCTACCTTGTACTCCCTCT 59.923 47.826 0.00 0.00 0.00 3.69
1530 1685 3.438183 TGTTCCTACCTTGTACTCCCTC 58.562 50.000 0.00 0.00 0.00 4.30
1531 1686 3.555117 TGTTCCTACCTTGTACTCCCT 57.445 47.619 0.00 0.00 0.00 4.20
1532 1687 4.224370 TCAATGTTCCTACCTTGTACTCCC 59.776 45.833 0.00 0.00 33.30 4.30
1533 1688 5.416271 TCAATGTTCCTACCTTGTACTCC 57.584 43.478 0.00 0.00 33.30 3.85
1534 1689 7.923414 ATTTCAATGTTCCTACCTTGTACTC 57.077 36.000 0.00 0.00 33.30 2.59
1535 1690 9.802039 TTTATTTCAATGTTCCTACCTTGTACT 57.198 29.630 0.00 0.00 33.30 2.73
1538 1693 9.758651 GTTTTTATTTCAATGTTCCTACCTTGT 57.241 29.630 0.00 0.00 33.30 3.16
1539 1694 9.203421 GGTTTTTATTTCAATGTTCCTACCTTG 57.797 33.333 0.00 0.00 32.94 3.61
1540 1695 8.929487 TGGTTTTTATTTCAATGTTCCTACCTT 58.071 29.630 0.00 0.00 0.00 3.50
1561 1716 7.536159 AGTAGTAACTAGTAGCAGTTGGTTT 57.464 36.000 0.00 0.00 39.12 3.27
1752 1909 4.282195 CCCACCAAATTAAGTTGTGGCTTA 59.718 41.667 21.52 0.00 34.27 3.09
1877 2051 4.242475 TGACAATGCTACGTTCCTACTTG 58.758 43.478 0.00 0.00 0.00 3.16
1906 2080 2.162208 CACAATTCGCAAGCATGGTACT 59.838 45.455 0.00 0.00 37.18 2.73
1916 2090 1.300481 TTCCGTGTCACAATTCGCAA 58.700 45.000 3.42 0.00 0.00 4.85
1922 2096 6.325919 ACATAACAAATTCCGTGTCACAAT 57.674 33.333 3.42 0.00 0.00 2.71
1923 2097 5.759506 ACATAACAAATTCCGTGTCACAA 57.240 34.783 3.42 0.00 0.00 3.33
2273 2467 2.202987 CCTGCTGGCATCGAGGAC 60.203 66.667 0.00 0.00 0.00 3.85
2307 2501 1.561643 TCTTCTGCAGGAATCCTCGT 58.438 50.000 15.13 0.00 33.01 4.18
2384 2596 3.915437 AACTGCGACACTTATTTTGGG 57.085 42.857 0.00 0.00 0.00 4.12


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

AutoCloner maintained by Alex Coulton.