Multiple sequence alignment - TraesCS7A01G325500

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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 TraesCS7A01G325500 chr7A 100.000 2429 0 0 1 2429 473806558 473808986 0.000000e+00 4486.0
1 TraesCS7A01G325500 chr7A 92.459 305 23 0 1121 1425 473674543 473674847 1.030000e-118 436.0
2 TraesCS7A01G325500 chr7A 94.872 39 2 0 540 578 557889946 557889984 7.250000e-06 62.1
3 TraesCS7A01G325500 chr7B 91.765 1773 88 22 632 2369 426833035 426834784 0.000000e+00 2412.0
4 TraesCS7A01G325500 chr7B 91.200 375 31 2 1 373 426817470 426817844 2.150000e-140 508.0
5 TraesCS7A01G325500 chr7B 92.131 305 24 0 1121 1425 426788806 426789110 4.800000e-117 431.0
6 TraesCS7A01G325500 chr7B 83.519 449 52 18 1934 2367 521587088 521587529 1.350000e-107 399.0
7 TraesCS7A01G325500 chr7B 93.939 66 4 0 2364 2429 426834807 426834872 1.540000e-17 100.0
8 TraesCS7A01G325500 chr7D 88.546 1231 72 27 382 1598 412394150 412395325 0.000000e+00 1428.0
9 TraesCS7A01G325500 chr7D 84.194 639 76 19 1748 2367 492211883 492212515 4.470000e-167 597.0
10 TraesCS7A01G325500 chr7D 89.008 373 38 3 3 373 412392922 412393293 2.200000e-125 459.0
11 TraesCS7A01G325500 chr7D 92.787 305 22 0 1121 1425 412235001 412235305 2.220000e-120 442.0
12 TraesCS7A01G325500 chr7D 89.354 263 11 11 2124 2370 412584787 412585048 5.040000e-82 315.0
13 TraesCS7A01G325500 chr7D 88.136 177 14 6 1580 1750 412395468 412395643 1.140000e-48 204.0
14 TraesCS7A01G325500 chr7D 80.147 136 27 0 1753 1888 556322319 556322184 4.270000e-18 102.0
15 TraesCS7A01G325500 chr6D 83.796 648 75 22 1744 2370 439659188 439658550 2.690000e-164 588.0
16 TraesCS7A01G325500 chr2D 83.912 634 77 18 1753 2367 120257159 120257786 1.250000e-162 582.0
17 TraesCS7A01G325500 chr2D 97.368 38 1 0 541 578 586158174 586158137 5.610000e-07 65.8
18 TraesCS7A01G325500 chr4D 83.648 636 73 23 1753 2367 29026168 29026793 9.740000e-159 569.0
19 TraesCS7A01G325500 chr6B 97.436 39 1 0 543 581 15104239 15104277 1.560000e-07 67.6
20 TraesCS7A01G325500 chr6B 97.368 38 1 0 542 579 712536596 712536633 5.610000e-07 65.8
21 TraesCS7A01G325500 chr6B 95.000 40 2 0 540 579 135139511 135139472 2.020000e-06 63.9
22 TraesCS7A01G325500 chr2B 91.667 48 3 1 534 580 622505492 622505445 5.610000e-07 65.8
23 TraesCS7A01G325500 chr1A 97.368 38 1 0 541 578 448907060 448907023 5.610000e-07 65.8
24 TraesCS7A01G325500 chr2A 95.000 40 2 0 540 579 151266659 151266698 2.020000e-06 63.9
25 TraesCS7A01G325500 chr3B 97.222 36 1 0 544 579 764295123 764295088 7.250000e-06 62.1


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 TraesCS7A01G325500 chr7A 473806558 473808986 2428 False 4486 4486 100.000000 1 2429 1 chr7A.!!$F2 2428
1 TraesCS7A01G325500 chr7B 426833035 426834872 1837 False 1256 2412 92.852000 632 2429 2 chr7B.!!$F4 1797
2 TraesCS7A01G325500 chr7D 412392922 412395643 2721 False 697 1428 88.563333 3 1750 3 chr7D.!!$F4 1747
3 TraesCS7A01G325500 chr7D 492211883 492212515 632 False 597 597 84.194000 1748 2367 1 chr7D.!!$F3 619
4 TraesCS7A01G325500 chr6D 439658550 439659188 638 True 588 588 83.796000 1744 2370 1 chr6D.!!$R1 626
5 TraesCS7A01G325500 chr2D 120257159 120257786 627 False 582 582 83.912000 1753 2367 1 chr2D.!!$F1 614
6 TraesCS7A01G325500 chr4D 29026168 29026793 625 False 569 569 83.648000 1753 2367 1 chr4D.!!$F1 614

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
306 309 0.033796 TCCTACCTACCACCTCACCG 60.034 60.0 0.0 0.0 0.0 4.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1888 2926 1.002257 TGTCACGCCATGGAAGCAT 60.002 52.632 18.4 0.0 0.0 3.79 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
66 67 7.934120 AGAGGGCAAATCATTATACTCTAACAC 59.066 37.037 0.00 0.00 32.75 3.32
83 84 9.569122 ACTCTAACACTCTTCTTCTATCTATCC 57.431 37.037 0.00 0.00 0.00 2.59
102 103 3.013921 TCCTCCATTGAAATTACGGTGC 58.986 45.455 0.00 0.00 0.00 5.01
118 119 2.572290 GGTGCGGGTATTAGAAGCAAT 58.428 47.619 0.00 0.00 39.67 3.56
119 120 3.735591 GGTGCGGGTATTAGAAGCAATA 58.264 45.455 0.00 0.00 39.67 1.90
179 180 9.110502 AGACCTTATAGCAAAATAAGCAGTAAC 57.889 33.333 7.58 0.00 37.88 2.50
196 197 5.689819 CAGTAACTGCAAAGTGTTGATACC 58.310 41.667 0.00 0.00 36.83 2.73
246 249 7.272037 TGAAAATTTCAAGTCCTAGTTCCAC 57.728 36.000 5.87 0.00 36.59 4.02
247 250 7.060421 TGAAAATTTCAAGTCCTAGTTCCACT 58.940 34.615 5.87 0.00 36.59 4.00
255 258 5.568620 AGTCCTAGTTCCACTTTTGTCAT 57.431 39.130 0.00 0.00 0.00 3.06
260 263 6.042781 TCCTAGTTCCACTTTTGTCATGTAGT 59.957 38.462 0.00 0.00 0.00 2.73
266 269 8.493547 GTTCCACTTTTGTCATGTAGTAACTAC 58.506 37.037 0.00 0.00 37.46 2.73
300 303 3.516700 TGCTTTACTTCCTACCTACCACC 59.483 47.826 0.00 0.00 0.00 4.61
306 309 0.033796 TCCTACCTACCACCTCACCG 60.034 60.000 0.00 0.00 0.00 4.94
312 315 1.204941 CCTACCACCTCACCGAAAGAG 59.795 57.143 0.00 0.00 0.00 2.85
316 319 1.337260 CCACCTCACCGAAAGAGTCAG 60.337 57.143 0.00 0.00 0.00 3.51
317 320 1.613925 CACCTCACCGAAAGAGTCAGA 59.386 52.381 0.00 0.00 0.00 3.27
320 323 4.082190 CACCTCACCGAAAGAGTCAGATTA 60.082 45.833 0.00 0.00 0.00 1.75
323 326 4.433615 TCACCGAAAGAGTCAGATTATGC 58.566 43.478 0.00 0.00 0.00 3.14
326 329 4.141620 ACCGAAAGAGTCAGATTATGCCAT 60.142 41.667 0.00 0.00 0.00 4.40
365 368 9.686683 CCCAAAACTATGAATATAATAGGGAGG 57.313 37.037 9.17 6.14 32.81 4.30
373 376 6.327781 TGAATATAATAGGGAGGGCTACACA 58.672 40.000 0.00 0.00 0.00 3.72
374 377 6.790461 TGAATATAATAGGGAGGGCTACACAA 59.210 38.462 0.00 0.00 0.00 3.33
375 378 7.461043 TGAATATAATAGGGAGGGCTACACAAT 59.539 37.037 0.00 0.00 0.00 2.71
376 379 7.830848 ATATAATAGGGAGGGCTACACAATT 57.169 36.000 0.00 0.00 0.00 2.32
377 380 4.439253 AATAGGGAGGGCTACACAATTC 57.561 45.455 0.00 0.00 0.00 2.17
378 381 0.919710 AGGGAGGGCTACACAATTCC 59.080 55.000 0.00 0.00 0.00 3.01
379 382 0.919710 GGGAGGGCTACACAATTCCT 59.080 55.000 0.00 0.00 0.00 3.36
380 383 1.134068 GGGAGGGCTACACAATTCCTC 60.134 57.143 0.00 0.00 42.28 3.71
385 1236 3.330701 AGGGCTACACAATTCCTCTCAAA 59.669 43.478 0.00 0.00 0.00 2.69
387 1238 4.706962 GGGCTACACAATTCCTCTCAAATT 59.293 41.667 0.00 0.00 0.00 1.82
405 1256 7.789273 TCAAATTGTTTGAGTCAATGCAAAT 57.211 28.000 20.10 13.18 44.21 2.32
425 1276 9.597170 TGCAAATTTCTTATATTAATGCAAGCA 57.403 25.926 0.00 0.00 38.22 3.91
431 1282 9.531942 TTTCTTATATTAATGCAAGCACAATGG 57.468 29.630 11.77 3.39 0.00 3.16
437 1288 2.798976 TGCAAGCACAATGGAGAAAC 57.201 45.000 0.00 0.00 0.00 2.78
463 1314 1.693799 AGGGTACACCATTGGGGATT 58.306 50.000 13.12 0.00 43.89 3.01
471 1322 6.608002 GGTACACCATTGGGGATTAAATAACA 59.392 38.462 13.12 0.00 41.15 2.41
478 1329 7.147585 CCATTGGGGATTAAATAACAACCATCA 60.148 37.037 0.00 0.00 40.01 3.07
483 1334 8.097662 GGGGATTAAATAACAACCATCACAAAA 58.902 33.333 0.00 0.00 0.00 2.44
511 1362 9.750783 ATTATATGGGAATCCTCTGAATGAAAG 57.249 33.333 0.00 0.00 0.00 2.62
525 1376 8.682936 TCTGAATGAAAGAGGCCTATTAATTC 57.317 34.615 26.66 26.66 0.00 2.17
534 1385 7.736447 AGAGGCCTATTAATTCAGAAATTCG 57.264 36.000 4.42 0.00 36.49 3.34
537 1388 8.974060 AGGCCTATTAATTCAGAAATTCGTTA 57.026 30.769 1.29 0.00 36.49 3.18
571 1422 8.904099 ACATTCTTATATTTCTTTACGGAGGG 57.096 34.615 0.00 0.00 0.00 4.30
572 1423 8.711170 ACATTCTTATATTTCTTTACGGAGGGA 58.289 33.333 0.00 0.00 0.00 4.20
573 1424 9.209175 CATTCTTATATTTCTTTACGGAGGGAG 57.791 37.037 0.00 0.00 0.00 4.30
574 1425 7.909485 TCTTATATTTCTTTACGGAGGGAGT 57.091 36.000 0.00 0.00 0.00 3.85
575 1426 9.425248 TTCTTATATTTCTTTACGGAGGGAGTA 57.575 33.333 0.00 0.00 0.00 2.59
576 1427 9.597681 TCTTATATTTCTTTACGGAGGGAGTAT 57.402 33.333 0.00 0.00 0.00 2.12
583 1434 1.998222 ACGGAGGGAGTATAAGGCTC 58.002 55.000 0.00 0.00 0.00 4.70
629 1480 2.514458 TGGAGGAAAATGAGGGAAGC 57.486 50.000 0.00 0.00 0.00 3.86
637 1502 0.613012 AATGAGGGAAGCTGGTTGGC 60.613 55.000 0.00 0.00 0.00 4.52
658 1523 5.383958 GGCGAAACACGTCACAAAATTATA 58.616 37.500 0.00 0.00 46.56 0.98
705 1570 3.002102 CAATGCAAAATACCCCAAGCAC 58.998 45.455 0.00 0.00 34.54 4.40
759 1624 2.022129 CTCCACACGCCTTGTCGAC 61.022 63.158 9.11 9.11 35.67 4.20
777 1642 2.498167 GACATCCATGGTGGCATCTAC 58.502 52.381 12.58 0.00 37.47 2.59
806 1671 3.407967 TGGCACGGATCCCCCTTC 61.408 66.667 6.06 0.00 0.00 3.46
831 1696 1.591594 CTCAGCGTGTGAACGTGGT 60.592 57.895 0.00 0.00 33.60 4.16
847 1712 2.112297 GTCGCTCCAACCCAACCA 59.888 61.111 0.00 0.00 0.00 3.67
852 1717 0.251787 GCTCCAACCCAACCATTCCT 60.252 55.000 0.00 0.00 0.00 3.36
854 1719 1.075374 CTCCAACCCAACCATTCCTCA 59.925 52.381 0.00 0.00 0.00 3.86
875 1740 1.354031 TGTTCAGGATAAGCTGCCCAA 59.646 47.619 0.00 0.00 0.00 4.12
909 1774 1.329906 CTTATTGCCGCTGCTTCTCAG 59.670 52.381 0.70 0.00 45.62 3.35
936 1801 2.028130 AGCTCCAACACTATCCTCTCG 58.972 52.381 0.00 0.00 0.00 4.04
938 1803 2.480416 GCTCCAACACTATCCTCTCGTG 60.480 54.545 0.00 0.00 34.92 4.35
939 1804 2.755655 CTCCAACACTATCCTCTCGTGT 59.244 50.000 0.00 0.00 43.14 4.49
940 1805 2.753452 TCCAACACTATCCTCTCGTGTC 59.247 50.000 0.00 0.00 40.68 3.67
941 1806 2.755655 CCAACACTATCCTCTCGTGTCT 59.244 50.000 0.00 0.00 40.68 3.41
944 1809 2.281517 CACTATCCTCTCGTGTCTCGT 58.718 52.381 0.00 0.00 40.80 4.18
945 1810 2.285756 CACTATCCTCTCGTGTCTCGTC 59.714 54.545 0.00 0.00 40.80 4.20
946 1811 1.523515 CTATCCTCTCGTGTCTCGTCG 59.476 57.143 0.00 0.00 40.80 5.12
947 1812 0.108281 ATCCTCTCGTGTCTCGTCGA 60.108 55.000 0.00 0.00 40.80 4.20
954 1819 0.931702 CGTGTCTCGTCGAGCTATCT 59.068 55.000 17.61 0.00 34.52 1.98
956 1821 1.666700 GTGTCTCGTCGAGCTATCTGT 59.333 52.381 17.61 0.00 0.00 3.41
988 1853 2.107953 CTCCCAAGCTAGCTCGCC 59.892 66.667 19.65 0.00 0.00 5.54
1039 1904 2.927856 TCCGCTTGCCCTTCTCCA 60.928 61.111 0.00 0.00 0.00 3.86
1438 2303 3.005554 CTCACCGCTTGAATTCACTGAT 58.994 45.455 7.89 0.00 32.21 2.90
1491 2356 0.109179 TGTACCATGCACGACGTACC 60.109 55.000 0.00 0.00 31.97 3.34
1499 2364 1.055338 GCACGACGTACCAACTGTAC 58.945 55.000 0.00 0.00 45.31 2.90
1514 2379 5.104527 CCAACTGTACCAGGATATTGAGGAA 60.105 44.000 0.00 0.00 35.51 3.36
1517 2382 7.931015 ACTGTACCAGGATATTGAGGAATTA 57.069 36.000 0.00 0.00 35.51 1.40
1586 2458 7.220875 GCTTTTGCTTATTAATGCCTAGTGTTC 59.779 37.037 0.00 0.00 43.35 3.18
1629 2661 9.770503 CAAGTAATGAAAAGAGATGAGATTGTG 57.229 33.333 0.00 0.00 0.00 3.33
1652 2684 0.731514 CATGTCTCCGTTACGCGTGT 60.732 55.000 24.59 6.91 39.32 4.49
1675 2707 8.537223 GTGTCTCGCGATTTACTTATGATTTAA 58.463 33.333 10.36 0.00 0.00 1.52
1676 2708 8.537223 TGTCTCGCGATTTACTTATGATTTAAC 58.463 33.333 10.36 0.00 0.00 2.01
1678 2710 8.965172 TCTCGCGATTTACTTATGATTTAACTC 58.035 33.333 10.36 0.00 0.00 3.01
1705 2743 5.310857 ACTCCATCTGGTCCTTTTTAGTCTT 59.689 40.000 0.00 0.00 36.34 3.01
1774 2812 5.063204 GGGTAAATGCACTGCTGATACATA 58.937 41.667 1.98 0.00 0.00 2.29
1880 2918 3.179795 CGGTTCAATTCTCGTATGTAGCG 59.820 47.826 0.00 0.00 0.00 4.26
1888 2926 3.469739 TCTCGTATGTAGCGGTGTATGA 58.530 45.455 0.00 0.00 0.00 2.15
1930 2980 1.215647 GCGTCAGTGACTAGGTGGG 59.784 63.158 20.64 4.84 0.00 4.61
1931 2981 1.890894 CGTCAGTGACTAGGTGGGG 59.109 63.158 20.64 0.00 0.00 4.96
1932 2982 1.597461 GTCAGTGACTAGGTGGGGC 59.403 63.158 16.26 0.00 0.00 5.80
1933 2983 0.905337 GTCAGTGACTAGGTGGGGCT 60.905 60.000 16.26 0.00 0.00 5.19
1934 2984 0.904865 TCAGTGACTAGGTGGGGCTG 60.905 60.000 0.00 0.00 0.00 4.85
1935 2985 1.613630 AGTGACTAGGTGGGGCTGG 60.614 63.158 0.00 0.00 0.00 4.85
1936 2986 1.612442 GTGACTAGGTGGGGCTGGA 60.612 63.158 0.00 0.00 0.00 3.86
1937 2987 1.306141 TGACTAGGTGGGGCTGGAG 60.306 63.158 0.00 0.00 0.00 3.86
2295 3383 8.682128 TTTTGACAGTTTCATAAACAAGTGTC 57.318 30.769 11.35 11.35 43.79 3.67
2406 3524 3.492829 GGTCTAGGGATTTACAAGGCTCG 60.493 52.174 0.00 0.00 0.00 5.03
2418 3536 7.781548 TTTACAAGGCTCGTATTTATCTTCC 57.218 36.000 0.00 0.00 0.00 3.46
2422 3540 5.153950 AGGCTCGTATTTATCTTCCCATC 57.846 43.478 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.416431 GGTGAATGAGATGGTGCTTTGC 60.416 50.000 0.00 0.00 0.00 3.68
1 2 2.821378 TGGTGAATGAGATGGTGCTTTG 59.179 45.455 0.00 0.00 0.00 2.77
6 7 3.508793 AGCTTTTGGTGAATGAGATGGTG 59.491 43.478 0.00 0.00 0.00 4.17
9 10 3.760151 TGGAGCTTTTGGTGAATGAGATG 59.240 43.478 0.00 0.00 0.00 2.90
37 38 7.385894 AGAGTATAATGATTTGCCCTCTCTT 57.614 36.000 0.00 0.00 0.00 2.85
66 67 8.648698 TCAATGGAGGATAGATAGAAGAAGAG 57.351 38.462 0.00 0.00 0.00 2.85
72 73 9.929180 CGTAATTTCAATGGAGGATAGATAGAA 57.071 33.333 0.00 0.00 0.00 2.10
79 80 4.819630 GCACCGTAATTTCAATGGAGGATA 59.180 41.667 0.00 0.00 0.00 2.59
82 83 2.223249 CGCACCGTAATTTCAATGGAGG 60.223 50.000 0.00 0.00 0.00 4.30
83 84 2.223249 CCGCACCGTAATTTCAATGGAG 60.223 50.000 0.00 0.00 0.00 3.86
151 152 8.664211 ACTGCTTATTTTGCTATAAGGTCTAC 57.336 34.615 12.52 0.00 38.15 2.59
179 180 2.416547 CCTCGGTATCAACACTTTGCAG 59.583 50.000 0.00 0.00 32.17 4.41
186 187 5.048507 GGATTTAGTCCTCGGTATCAACAC 58.951 45.833 0.00 0.00 44.16 3.32
192 193 4.096190 TCTCGGATTTAGTCCTCGGTAT 57.904 45.455 0.00 0.00 45.46 2.73
195 196 3.380637 TCTTTCTCGGATTTAGTCCTCGG 59.619 47.826 0.00 0.00 45.46 4.63
196 197 4.634184 TCTTTCTCGGATTTAGTCCTCG 57.366 45.455 0.00 0.00 45.46 4.63
242 245 7.728148 TGTAGTTACTACATGACAAAAGTGGA 58.272 34.615 19.89 0.00 41.33 4.02
246 249 8.280497 GGTGTTGTAGTTACTACATGACAAAAG 58.720 37.037 23.37 0.00 44.85 2.27
247 250 7.988599 AGGTGTTGTAGTTACTACATGACAAAA 59.011 33.333 23.37 8.60 44.85 2.44
255 258 7.177921 AGCATAGAAGGTGTTGTAGTTACTACA 59.822 37.037 19.89 19.89 44.00 2.74
260 263 8.591072 AGTAAAGCATAGAAGGTGTTGTAGTTA 58.409 33.333 0.00 0.00 0.00 2.24
266 269 5.940470 AGGAAGTAAAGCATAGAAGGTGTTG 59.060 40.000 0.00 0.00 0.00 3.33
277 280 4.163649 GGTGGTAGGTAGGAAGTAAAGCAT 59.836 45.833 0.00 0.00 0.00 3.79
300 303 4.505922 GCATAATCTGACTCTTTCGGTGAG 59.494 45.833 0.00 0.00 37.55 3.51
320 323 9.394767 GTTTTGGGATTCTTAATAAAATGGCAT 57.605 29.630 0.00 0.00 0.00 4.40
348 351 6.965866 TGTGTAGCCCTCCCTATTATATTCAT 59.034 38.462 0.00 0.00 0.00 2.57
350 353 6.869206 TGTGTAGCCCTCCCTATTATATTC 57.131 41.667 0.00 0.00 0.00 1.75
365 368 5.644644 CAATTTGAGAGGAATTGTGTAGCC 58.355 41.667 0.00 0.00 38.85 3.93
385 1236 8.441312 AAGAAATTTGCATTGACTCAAACAAT 57.559 26.923 0.00 0.00 38.30 2.71
405 1256 9.531942 CCATTGTGCTTGCATTAATATAAGAAA 57.468 29.630 12.58 6.09 0.00 2.52
415 1266 4.523943 AGTTTCTCCATTGTGCTTGCATTA 59.476 37.500 0.00 0.00 0.00 1.90
431 1282 4.224370 TGGTGTACCCTATTGGAGTTTCTC 59.776 45.833 0.00 0.00 38.00 2.87
437 1288 3.435026 CCCAATGGTGTACCCTATTGGAG 60.435 52.174 27.39 16.81 45.37 3.86
447 1298 7.648039 TGTTATTTAATCCCCAATGGTGTAC 57.352 36.000 0.00 0.00 34.77 2.90
448 1299 7.124448 GGTTGTTATTTAATCCCCAATGGTGTA 59.876 37.037 0.00 0.00 34.77 2.90
485 1336 9.750783 CTTTCATTCAGAGGATTCCCATATAAT 57.249 33.333 0.00 0.00 33.88 1.28
500 1351 8.274322 TGAATTAATAGGCCTCTTTCATTCAGA 58.726 33.333 22.24 10.18 0.00 3.27
511 1362 7.497925 ACGAATTTCTGAATTAATAGGCCTC 57.502 36.000 9.68 0.00 35.65 4.70
545 1396 9.338622 CCCTCCGTAAAGAAATATAAGAATGTT 57.661 33.333 0.00 0.00 0.00 2.71
548 1399 8.935741 ACTCCCTCCGTAAAGAAATATAAGAAT 58.064 33.333 0.00 0.00 0.00 2.40
549 1400 8.315220 ACTCCCTCCGTAAAGAAATATAAGAA 57.685 34.615 0.00 0.00 0.00 2.52
554 1405 8.813951 CCTTATACTCCCTCCGTAAAGAAATAT 58.186 37.037 0.00 0.00 0.00 1.28
555 1406 7.256083 GCCTTATACTCCCTCCGTAAAGAAATA 60.256 40.741 0.00 0.00 0.00 1.40
556 1407 6.464039 GCCTTATACTCCCTCCGTAAAGAAAT 60.464 42.308 0.00 0.00 0.00 2.17
557 1408 5.163374 GCCTTATACTCCCTCCGTAAAGAAA 60.163 44.000 0.00 0.00 0.00 2.52
558 1409 4.343239 GCCTTATACTCCCTCCGTAAAGAA 59.657 45.833 0.00 0.00 0.00 2.52
559 1410 3.893813 GCCTTATACTCCCTCCGTAAAGA 59.106 47.826 0.00 0.00 0.00 2.52
560 1411 3.896272 AGCCTTATACTCCCTCCGTAAAG 59.104 47.826 0.00 0.00 0.00 1.85
561 1412 3.893813 GAGCCTTATACTCCCTCCGTAAA 59.106 47.826 0.00 0.00 0.00 2.01
562 1413 3.494332 GAGCCTTATACTCCCTCCGTAA 58.506 50.000 0.00 0.00 0.00 3.18
563 1414 2.224967 GGAGCCTTATACTCCCTCCGTA 60.225 54.545 0.00 0.00 46.81 4.02
564 1415 1.480869 GGAGCCTTATACTCCCTCCGT 60.481 57.143 0.00 0.00 46.81 4.69
565 1416 1.258676 GGAGCCTTATACTCCCTCCG 58.741 60.000 0.00 0.00 46.81 4.63
571 1422 5.131308 AGAGAAAAAGGGGAGCCTTATACTC 59.869 44.000 0.00 0.00 0.00 2.59
572 1423 5.040330 AGAGAAAAAGGGGAGCCTTATACT 58.960 41.667 0.00 0.00 0.00 2.12
573 1424 5.375283 AGAGAAAAAGGGGAGCCTTATAC 57.625 43.478 0.00 0.00 0.00 1.47
574 1425 7.707467 ATAAGAGAAAAAGGGGAGCCTTATA 57.293 36.000 0.00 0.00 0.00 0.98
575 1426 4.955693 AAGAGAAAAAGGGGAGCCTTAT 57.044 40.909 0.00 0.00 0.00 1.73
576 1427 7.519347 TTATAAGAGAAAAAGGGGAGCCTTA 57.481 36.000 0.00 0.00 0.00 2.69
606 1457 4.956075 GCTTCCCTCATTTTCCTCCATTTA 59.044 41.667 0.00 0.00 0.00 1.40
615 1466 2.232208 CCAACCAGCTTCCCTCATTTTC 59.768 50.000 0.00 0.00 0.00 2.29
629 1480 1.278637 GACGTGTTTCGCCAACCAG 59.721 57.895 0.00 0.00 44.19 4.00
637 1502 8.648422 TTGATATAATTTTGTGACGTGTTTCG 57.352 30.769 0.00 0.00 46.00 3.46
681 1546 3.679639 GCTTGGGGTATTTTGCATTGAGG 60.680 47.826 0.00 0.00 0.00 3.86
705 1570 0.040157 CATGCGTGGTCTTGGTTGTG 60.040 55.000 0.00 0.00 0.00 3.33
759 1624 1.879372 CGGTAGATGCCACCATGGATG 60.879 57.143 21.47 12.84 40.96 3.51
831 1696 0.608035 GAATGGTTGGGTTGGAGCGA 60.608 55.000 0.00 0.00 0.00 4.93
847 1712 5.374921 CAGCTTATCCTGAACATGAGGAAT 58.625 41.667 5.77 0.00 43.01 3.01
852 1717 2.421952 GGGCAGCTTATCCTGAACATGA 60.422 50.000 0.00 0.00 34.77 3.07
854 1719 1.565759 TGGGCAGCTTATCCTGAACAT 59.434 47.619 0.00 0.00 34.77 2.71
875 1740 1.134788 CAATAAGAAGGCCGGACGAGT 60.135 52.381 5.05 0.00 0.00 4.18
884 1749 1.064783 GCAGCGGCAATAAGAAGGC 59.935 57.895 3.18 0.00 40.72 4.35
916 1781 2.028130 CGAGAGGATAGTGTTGGAGCT 58.972 52.381 0.00 0.00 0.00 4.09
936 1801 1.666700 ACAGATAGCTCGACGAGACAC 59.333 52.381 28.43 14.69 0.00 3.67
938 1803 2.206750 AGACAGATAGCTCGACGAGAC 58.793 52.381 28.43 18.30 0.00 3.36
939 1804 2.605837 AGACAGATAGCTCGACGAGA 57.394 50.000 28.43 8.96 0.00 4.04
940 1805 2.154198 CGTAGACAGATAGCTCGACGAG 59.846 54.545 20.56 20.56 0.00 4.18
941 1806 2.125685 CGTAGACAGATAGCTCGACGA 58.874 52.381 0.00 0.00 0.00 4.20
944 1809 2.102757 ACTCCGTAGACAGATAGCTCGA 59.897 50.000 0.00 0.00 0.00 4.04
945 1810 2.485903 ACTCCGTAGACAGATAGCTCG 58.514 52.381 0.00 0.00 0.00 5.03
946 1811 4.634199 ACTACTCCGTAGACAGATAGCTC 58.366 47.826 7.94 0.00 38.29 4.09
947 1812 4.693042 ACTACTCCGTAGACAGATAGCT 57.307 45.455 7.94 0.00 38.29 3.32
948 1813 4.690280 GGTACTACTCCGTAGACAGATAGC 59.310 50.000 7.94 0.00 38.29 2.97
949 1814 6.100404 AGGTACTACTCCGTAGACAGATAG 57.900 45.833 7.94 0.00 38.29 2.08
954 1819 3.550437 GGAGGTACTACTCCGTAGACA 57.450 52.381 7.94 0.00 46.81 3.41
999 1864 1.521681 GCTCAGTACGGTGGCCATC 60.522 63.158 9.72 7.61 0.00 3.51
1438 2303 4.201901 GGAAACGGGTCGAACTAAACAAAA 60.202 41.667 0.00 0.00 0.00 2.44
1499 2364 9.799106 ATACTTTGTAATTCCTCAATATCCTGG 57.201 33.333 0.00 0.00 0.00 4.45
1517 2382 8.883731 CAGCAGCAAGTACTAATTATACTTTGT 58.116 33.333 13.28 0.00 40.18 2.83
1629 2661 1.146358 GCGTAACGGAGACATGGAGC 61.146 60.000 0.00 0.00 0.00 4.70
1675 2707 3.697190 AGGACCAGATGGAGTATGAGT 57.303 47.619 5.72 0.00 38.94 3.41
1676 2708 5.365021 AAAAGGACCAGATGGAGTATGAG 57.635 43.478 5.72 0.00 38.94 2.90
1678 2710 6.653989 ACTAAAAAGGACCAGATGGAGTATG 58.346 40.000 5.72 0.00 38.94 2.39
1751 2789 3.278574 TGTATCAGCAGTGCATTTACCC 58.721 45.455 19.20 0.00 0.00 3.69
1880 2918 1.610522 GCCATGGAAGCATCATACACC 59.389 52.381 18.40 0.00 0.00 4.16
1888 2926 1.002257 TGTCACGCCATGGAAGCAT 60.002 52.632 18.40 0.00 0.00 3.79
1931 2981 4.828925 GTCGCTCCAGCCTCCAGC 62.829 72.222 0.00 0.00 44.25 4.85
1932 2982 4.504916 CGTCGCTCCAGCCTCCAG 62.505 72.222 0.00 0.00 37.91 3.86
1935 2985 3.941657 AAAGCGTCGCTCCAGCCTC 62.942 63.158 21.98 0.00 38.25 4.70
1936 2986 3.537206 AAAAGCGTCGCTCCAGCCT 62.537 57.895 21.98 0.00 38.25 4.58
1937 2987 2.617274 AAAAAGCGTCGCTCCAGCC 61.617 57.895 21.98 0.00 38.25 4.85
2167 3239 8.931385 AAATAACTAAAATATGGCAACTGCAG 57.069 30.769 13.48 13.48 44.36 4.41


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

AutoCloner maintained by Alex Coulton.