Multiple sequence alignment - TraesCS4A01G348900

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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 TraesCS4A01G348900 chr4A 100.000 2616 0 0 1 2616 626012466 626015081 0.000000e+00 4831.0
1 TraesCS4A01G348900 chr4A 90.931 1246 83 5 1 1230 625994673 625995904 0.000000e+00 1648.0
2 TraesCS4A01G348900 chr4A 81.638 1868 294 27 1 1841 626047692 626049537 0.000000e+00 1504.0
3 TraesCS4A01G348900 chr4A 81.210 1703 264 31 2 1660 626020628 626022318 0.000000e+00 1321.0
4 TraesCS4A01G348900 chr4A 84.079 1319 179 13 140 1440 626073389 626074694 0.000000e+00 1243.0
5 TraesCS4A01G348900 chr5B 92.152 1873 106 20 2 1862 684623858 684622015 0.000000e+00 2606.0
6 TraesCS4A01G348900 chr5B 91.411 978 71 3 287 1251 684691932 684690955 0.000000e+00 1328.0
7 TraesCS4A01G348900 chr5B 83.042 973 109 22 745 1717 684630005 684629089 0.000000e+00 832.0
8 TraesCS4A01G348900 chr5B 83.042 973 109 22 745 1717 684643708 684642792 0.000000e+00 832.0
9 TraesCS4A01G348900 chr5B 83.615 769 77 23 1862 2616 684622044 684621311 0.000000e+00 676.0
10 TraesCS4A01G348900 chr5B 81.831 688 97 22 738 1413 684089946 684089275 1.060000e-153 553.0
11 TraesCS4A01G348900 chr5B 76.415 530 104 14 1324 1844 684611139 684610622 1.540000e-67 267.0
12 TraesCS4A01G348900 chr5B 82.500 120 10 5 2109 2223 684628593 684628480 7.710000e-16 95.3
13 TraesCS4A01G348900 chr5D 86.199 2210 199 50 1 2172 543231296 543229155 0.000000e+00 2294.0
14 TraesCS4A01G348900 chr5D 81.774 1871 291 32 1 1844 543215286 543213439 0.000000e+00 1520.0
15 TraesCS4A01G348900 chr5D 81.221 1704 263 28 1 1660 543225206 543223516 0.000000e+00 1321.0
16 TraesCS4A01G348900 chr5D 82.274 1495 193 32 13 1449 543094353 543092873 0.000000e+00 1227.0
17 TraesCS4A01G348900 chr5D 82.065 1472 216 32 6 1450 543069835 543068385 0.000000e+00 1212.0
18 TraesCS4A01G348900 chr5D 93.352 722 47 1 1 721 543237449 543236728 0.000000e+00 1066.0
19 TraesCS4A01G348900 chr5D 83.275 1136 125 28 745 1862 543236629 543235541 0.000000e+00 985.0
20 TraesCS4A01G348900 chr5D 80.664 693 99 26 738 1413 542110171 542109497 3.000000e-139 505.0
21 TraesCS4A01G348900 chr5D 84.500 400 45 13 2225 2613 543229154 543228761 1.900000e-101 379.0
22 TraesCS4A01G348900 chr5D 91.549 71 2 3 2157 2223 543235179 543235109 7.710000e-16 95.3
23 TraesCS4A01G348900 chr4D 78.977 704 71 33 1729 2388 117419191 117419861 2.420000e-110 409.0
24 TraesCS4A01G348900 chr4D 79.860 571 66 24 1862 2388 151095787 151095222 3.180000e-99 372.0
25 TraesCS4A01G348900 chr2B 89.754 244 17 3 1619 1861 585469427 585469191 3.270000e-79 305.0
26 TraesCS4A01G348900 chr2B 78.767 292 44 12 1899 2174 585469193 585468904 2.070000e-41 180.0
27 TraesCS4A01G348900 chr2D 81.414 382 52 12 1863 2227 498401546 498401167 7.080000e-76 294.0
28 TraesCS4A01G348900 chr2D 86.066 244 25 4 1621 1862 498401754 498401518 1.200000e-63 254.0


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 TraesCS4A01G348900 chr4A 626012466 626015081 2615 False 4831.000000 4831 100.000000 1 2616 1 chr4A.!!$F2 2615
1 TraesCS4A01G348900 chr4A 625994673 625995904 1231 False 1648.000000 1648 90.931000 1 1230 1 chr4A.!!$F1 1229
2 TraesCS4A01G348900 chr4A 626047692 626049537 1845 False 1504.000000 1504 81.638000 1 1841 1 chr4A.!!$F4 1840
3 TraesCS4A01G348900 chr4A 626020628 626022318 1690 False 1321.000000 1321 81.210000 2 1660 1 chr4A.!!$F3 1658
4 TraesCS4A01G348900 chr4A 626073389 626074694 1305 False 1243.000000 1243 84.079000 140 1440 1 chr4A.!!$F5 1300
5 TraesCS4A01G348900 chr5B 684621311 684623858 2547 True 1641.000000 2606 87.883500 2 2616 2 chr5B.!!$R5 2614
6 TraesCS4A01G348900 chr5B 684690955 684691932 977 True 1328.000000 1328 91.411000 287 1251 1 chr5B.!!$R4 964
7 TraesCS4A01G348900 chr5B 684642792 684643708 916 True 832.000000 832 83.042000 745 1717 1 chr5B.!!$R3 972
8 TraesCS4A01G348900 chr5B 684089275 684089946 671 True 553.000000 553 81.831000 738 1413 1 chr5B.!!$R1 675
9 TraesCS4A01G348900 chr5B 684628480 684630005 1525 True 463.650000 832 82.771000 745 2223 2 chr5B.!!$R6 1478
10 TraesCS4A01G348900 chr5B 684610622 684611139 517 True 267.000000 267 76.415000 1324 1844 1 chr5B.!!$R2 520
11 TraesCS4A01G348900 chr5D 543213439 543215286 1847 True 1520.000000 1520 81.774000 1 1844 1 chr5D.!!$R4 1843
12 TraesCS4A01G348900 chr5D 543092873 543094353 1480 True 1227.000000 1227 82.274000 13 1449 1 chr5D.!!$R3 1436
13 TraesCS4A01G348900 chr5D 543068385 543069835 1450 True 1212.000000 1212 82.065000 6 1450 1 chr5D.!!$R2 1444
14 TraesCS4A01G348900 chr5D 543223516 543237449 13933 True 1023.383333 2294 86.682667 1 2613 6 chr5D.!!$R5 2612
15 TraesCS4A01G348900 chr5D 542109497 542110171 674 True 505.000000 505 80.664000 738 1413 1 chr5D.!!$R1 675
16 TraesCS4A01G348900 chr4D 117419191 117419861 670 False 409.000000 409 78.977000 1729 2388 1 chr4D.!!$F1 659
17 TraesCS4A01G348900 chr4D 151095222 151095787 565 True 372.000000 372 79.860000 1862 2388 1 chr4D.!!$R1 526
18 TraesCS4A01G348900 chr2B 585468904 585469427 523 True 242.500000 305 84.260500 1619 2174 2 chr2B.!!$R1 555
19 TraesCS4A01G348900 chr2D 498401167 498401754 587 True 274.000000 294 83.740000 1621 2227 2 chr2D.!!$R1 606

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
793 7000 0.681887 TCGTCGGCCCTCAACATCTA 60.682 55.0 0.0 0.0 0.0 1.98 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2406 15005 0.322187 GGGGCTTTGGTCGCTTAGAA 60.322 55.0 0.0 0.0 0.0 2.1 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
81 82 4.922206 TGTCCAATAATGCTTTCACCTCT 58.078 39.130 0.00 0.00 0.00 3.69
135 163 1.364721 CATCACCGTCGTTGCCATAA 58.635 50.000 0.00 0.00 0.00 1.90
486 6668 6.786461 TCTTCCTGGAATGATCAGATATCACT 59.214 38.462 10.03 0.00 34.36 3.41
691 6873 5.390991 GCTTTACACACCTGCATAGAAGAAC 60.391 44.000 0.00 0.00 0.00 3.01
703 6886 7.201626 CCTGCATAGAAGAACTCATTGAGAAAG 60.202 40.741 20.33 0.00 33.32 2.62
743 6950 5.051508 TCGATACCGCGAAAAATAAGTAAGC 60.052 40.000 8.23 0.00 37.35 3.09
793 7000 0.681887 TCGTCGGCCCTCAACATCTA 60.682 55.000 0.00 0.00 0.00 1.98
1294 13642 0.037590 ATGAAAACACCTAGCCCGCA 59.962 50.000 0.00 0.00 0.00 5.69
1332 13680 4.202080 GGTAGTAATGCCATACTCACGTCA 60.202 45.833 2.11 0.00 37.34 4.35
1428 13779 0.179468 TGCCTAAATCCGTAGCCACC 59.821 55.000 0.00 0.00 0.00 4.61
1485 13836 1.444553 GTCGGAACTCTCTGCCACG 60.445 63.158 0.00 0.00 0.00 4.94
1492 13867 1.142748 CTCTCTGCCACGGCCTTAG 59.857 63.158 5.42 0.44 41.09 2.18
1509 13884 4.201822 GCCTTAGCGAAACTGGTAATCAAG 60.202 45.833 0.00 0.00 32.00 3.02
1616 13991 7.664731 GTCTATTATGTAGTAGGGTGCACTAGA 59.335 40.741 17.98 8.05 0.00 2.43
1617 13992 6.651975 ATTATGTAGTAGGGTGCACTAGAC 57.348 41.667 17.98 11.67 0.00 2.59
1626 14001 1.403780 GGTGCACTAGACGTACCAAGG 60.404 57.143 17.98 0.00 38.83 3.61
1676 14052 8.755977 ACTTGAAATTGAAATTCCTGCATAGAT 58.244 29.630 0.00 0.00 0.00 1.98
1820 14227 6.750501 CCATTTGATGAAGTTCTGCATAACTG 59.249 38.462 17.21 3.72 39.62 3.16
1841 14248 5.128499 ACTGTTTCTGGATCACTCCTATGAG 59.872 44.000 0.00 0.00 42.59 2.90
1852 14259 3.320610 CTCCTATGAGTCTCCCTGGAA 57.679 52.381 0.00 0.00 33.70 3.53
1853 14260 3.647636 CTCCTATGAGTCTCCCTGGAAA 58.352 50.000 0.00 0.00 33.70 3.13
1854 14261 3.640967 CTCCTATGAGTCTCCCTGGAAAG 59.359 52.174 0.00 0.00 33.70 2.62
1855 14262 3.272285 TCCTATGAGTCTCCCTGGAAAGA 59.728 47.826 0.00 0.00 0.00 2.52
1856 14263 4.033709 CCTATGAGTCTCCCTGGAAAGAA 58.966 47.826 0.00 0.00 0.00 2.52
1857 14264 4.100808 CCTATGAGTCTCCCTGGAAAGAAG 59.899 50.000 0.00 0.00 0.00 2.85
1858 14265 3.260269 TGAGTCTCCCTGGAAAGAAGA 57.740 47.619 0.00 0.00 0.00 2.87
1859 14266 3.587498 TGAGTCTCCCTGGAAAGAAGAA 58.413 45.455 0.00 0.00 0.00 2.52
1860 14267 3.580458 TGAGTCTCCCTGGAAAGAAGAAG 59.420 47.826 0.00 0.00 0.00 2.85
1878 14285 3.903090 AGAAGCTCCTATGAATCTCCCTG 59.097 47.826 0.00 0.00 0.00 4.45
1955 14362 2.535984 CGGCTGTAGATTTCTAAGCACG 59.464 50.000 16.45 14.19 35.87 5.34
1976 14384 3.496130 CGCTACCTGCATTGATTAAGGAG 59.504 47.826 0.00 0.00 43.06 3.69
2033 14558 2.224281 TGTGTGGTGGACAGAGAATCAC 60.224 50.000 0.00 0.00 37.82 3.06
2051 14576 7.208777 AGAATCACAGCAGTCATGTAAGATAG 58.791 38.462 0.00 0.00 0.00 2.08
2062 14587 4.038522 TCATGTAAGATAGCTGCTCCAGAC 59.961 45.833 4.91 0.00 32.44 3.51
2063 14588 2.359214 TGTAAGATAGCTGCTCCAGACG 59.641 50.000 4.91 0.00 32.44 4.18
2064 14589 0.749649 AAGATAGCTGCTCCAGACGG 59.250 55.000 4.91 0.00 32.44 4.79
2065 14590 0.396417 AGATAGCTGCTCCAGACGGT 60.396 55.000 4.91 0.00 32.44 4.83
2066 14591 0.249238 GATAGCTGCTCCAGACGGTG 60.249 60.000 4.91 0.00 32.44 4.94
2067 14592 0.972983 ATAGCTGCTCCAGACGGTGT 60.973 55.000 4.91 0.00 32.44 4.16
2068 14593 0.323087 TAGCTGCTCCAGACGGTGTA 60.323 55.000 4.91 0.00 32.44 2.90
2069 14594 0.972983 AGCTGCTCCAGACGGTGTAT 60.973 55.000 0.00 0.00 32.44 2.29
2070 14595 0.528684 GCTGCTCCAGACGGTGTATC 60.529 60.000 0.00 0.00 32.44 2.24
2071 14596 1.107114 CTGCTCCAGACGGTGTATCT 58.893 55.000 0.00 0.00 32.44 1.98
2072 14597 0.817654 TGCTCCAGACGGTGTATCTG 59.182 55.000 0.00 0.00 42.79 2.90
2073 14598 0.528684 GCTCCAGACGGTGTATCTGC 60.529 60.000 0.00 0.00 41.97 4.26
2074 14599 0.817654 CTCCAGACGGTGTATCTGCA 59.182 55.000 0.00 0.00 41.97 4.41
2075 14600 0.530744 TCCAGACGGTGTATCTGCAC 59.469 55.000 0.00 0.00 41.97 4.57
2114 14678 5.879223 TGAAAGCAGGAAAAATTCTTTGCAA 59.121 32.000 16.41 0.00 40.30 4.08
2146 14710 4.395854 ACATAAAAATTAACCCGGTCGGAC 59.604 41.667 11.39 0.00 37.50 4.79
2154 14718 1.080298 CCCGGTCGGACAGTGTAAC 60.080 63.158 11.39 0.00 37.50 2.50
2181 14749 0.743688 AACAACGGCAACAGCAATCA 59.256 45.000 0.00 0.00 0.00 2.57
2184 14759 0.743688 AACGGCAACAGCAATCACAA 59.256 45.000 0.00 0.00 0.00 3.33
2214 14789 5.560966 TTAAGTGGCTCGAAATTGAATCC 57.439 39.130 0.00 0.00 0.00 3.01
2223 14798 1.410153 GAAATTGAATCCGCAGCCCAT 59.590 47.619 0.00 0.00 0.00 4.00
2242 14833 3.956199 CCATGCCCATAATCTGAAACACT 59.044 43.478 0.00 0.00 0.00 3.55
2278 14872 1.730064 GCAGTTGCAATTTCAGCATGG 59.270 47.619 0.59 0.00 42.33 3.66
2292 14886 4.529897 TCAGCATGGATAAGCATCAAGTT 58.470 39.130 0.00 0.00 36.16 2.66
2358 14956 1.201429 ACCTCCTGAACCCAGCGAAT 61.201 55.000 0.00 0.00 39.07 3.34
2380 14979 9.207042 CGAATAAAGCGAAATCATCATATCATG 57.793 33.333 0.00 0.00 0.00 3.07
2396 14995 6.865205 TCATATCATGATGTAAAGACAGAGCG 59.135 38.462 18.72 0.00 39.50 5.03
2399 14998 4.399303 TCATGATGTAAAGACAGAGCGAGA 59.601 41.667 0.00 0.00 39.50 4.04
2400 14999 4.991153 TGATGTAAAGACAGAGCGAGAT 57.009 40.909 0.00 0.00 39.50 2.75
2401 15000 4.926244 TGATGTAAAGACAGAGCGAGATC 58.074 43.478 0.00 0.00 39.50 2.75
2402 15001 4.642437 TGATGTAAAGACAGAGCGAGATCT 59.358 41.667 0.00 0.00 39.50 2.75
2403 15002 5.823045 TGATGTAAAGACAGAGCGAGATCTA 59.177 40.000 0.00 0.00 39.50 1.98
2404 15003 6.318900 TGATGTAAAGACAGAGCGAGATCTAA 59.681 38.462 0.00 0.00 39.50 2.10
2405 15004 5.881447 TGTAAAGACAGAGCGAGATCTAAC 58.119 41.667 0.00 0.00 0.00 2.34
2406 15005 5.648526 TGTAAAGACAGAGCGAGATCTAACT 59.351 40.000 0.00 0.00 0.00 2.24
2407 15006 5.652994 AAAGACAGAGCGAGATCTAACTT 57.347 39.130 0.00 0.00 0.00 2.66
2408 15007 4.893424 AGACAGAGCGAGATCTAACTTC 57.107 45.455 0.00 0.00 0.00 3.01
2409 15008 4.523083 AGACAGAGCGAGATCTAACTTCT 58.477 43.478 0.00 0.00 0.00 2.85
2411 15010 6.116806 AGACAGAGCGAGATCTAACTTCTAA 58.883 40.000 0.00 0.00 0.00 2.10
2412 15011 6.260050 AGACAGAGCGAGATCTAACTTCTAAG 59.740 42.308 0.00 0.00 0.00 2.18
2413 15012 5.212194 CAGAGCGAGATCTAACTTCTAAGC 58.788 45.833 0.00 0.00 0.00 3.09
2414 15013 4.024387 AGAGCGAGATCTAACTTCTAAGCG 60.024 45.833 0.00 0.00 34.25 4.68
2415 15014 3.878103 AGCGAGATCTAACTTCTAAGCGA 59.122 43.478 0.00 0.00 34.25 4.93
2416 15015 3.969981 GCGAGATCTAACTTCTAAGCGAC 59.030 47.826 0.00 0.00 0.00 5.19
2417 15016 4.529446 CGAGATCTAACTTCTAAGCGACC 58.471 47.826 0.00 0.00 0.00 4.79
2418 15017 4.035324 CGAGATCTAACTTCTAAGCGACCA 59.965 45.833 0.00 0.00 0.00 4.02
2419 15018 5.448768 CGAGATCTAACTTCTAAGCGACCAA 60.449 44.000 0.00 0.00 0.00 3.67
2420 15019 6.282199 AGATCTAACTTCTAAGCGACCAAA 57.718 37.500 0.00 0.00 0.00 3.28
2421 15020 6.334202 AGATCTAACTTCTAAGCGACCAAAG 58.666 40.000 0.00 0.00 0.00 2.77
2422 15021 4.243270 TCTAACTTCTAAGCGACCAAAGC 58.757 43.478 0.00 0.00 0.00 3.51
2423 15022 1.809684 ACTTCTAAGCGACCAAAGCC 58.190 50.000 0.00 0.00 34.64 4.35
2424 15023 1.087501 CTTCTAAGCGACCAAAGCCC 58.912 55.000 0.00 0.00 34.64 5.19
2425 15024 0.322187 TTCTAAGCGACCAAAGCCCC 60.322 55.000 0.00 0.00 34.64 5.80
2426 15025 1.749258 CTAAGCGACCAAAGCCCCC 60.749 63.158 0.00 0.00 34.64 5.40
2427 15026 2.198304 CTAAGCGACCAAAGCCCCCT 62.198 60.000 0.00 0.00 34.64 4.79
2428 15027 2.478335 TAAGCGACCAAAGCCCCCTG 62.478 60.000 0.00 0.00 34.64 4.45
2429 15028 4.344865 GCGACCAAAGCCCCCTGA 62.345 66.667 0.00 0.00 0.00 3.86
2430 15029 2.677228 CGACCAAAGCCCCCTGAT 59.323 61.111 0.00 0.00 0.00 2.90
2442 15041 3.139211 AGCCCCCTGATTTTCTCCTAATC 59.861 47.826 0.00 0.00 33.58 1.75
2445 15044 4.202514 CCCCCTGATTTTCTCCTAATCCTC 60.203 50.000 0.00 0.00 32.29 3.71
2450 15051 5.039645 TGATTTTCTCCTAATCCTCCACCT 58.960 41.667 0.00 0.00 32.29 4.00
2461 15062 5.896073 AATCCTCCACCTAATCCTGTAAG 57.104 43.478 0.00 0.00 0.00 2.34
2510 15112 1.338107 TCCGATACATACCCTGCTGG 58.662 55.000 1.89 1.89 41.37 4.85
2515 15117 3.367806 CGATACATACCCTGCTGGAGATG 60.368 52.174 11.88 15.06 37.16 2.90
2516 15118 1.135094 ACATACCCTGCTGGAGATGG 58.865 55.000 20.33 5.35 36.14 3.51
2519 15121 2.871795 TACCCTGCTGGAGATGGCGA 62.872 60.000 11.88 0.00 38.00 5.54
2520 15122 2.108566 CCTGCTGGAGATGGCGAG 59.891 66.667 2.92 0.00 34.57 5.03
2521 15123 2.429767 CCTGCTGGAGATGGCGAGA 61.430 63.158 2.92 0.00 34.57 4.04
2544 15146 5.108385 AGAATCGCTCGAAATTTGTTTGT 57.892 34.783 0.00 0.00 0.00 2.83
2568 15170 0.108615 CTCGGCGATTTCAGGTCTGT 60.109 55.000 11.27 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
135 163 2.032071 CGGGTCGGCCTTGTTTCT 59.968 61.111 5.77 0.00 34.45 2.52
486 6668 4.669842 AGCGAGCGCAAGTCAGCA 62.670 61.111 17.68 0.00 44.88 4.41
561 6743 1.755783 CAAGGCTTCCAGGGATGGC 60.756 63.158 16.91 16.91 42.44 4.40
691 6873 3.192212 GGCTTTCACCCTTTCTCAATGAG 59.808 47.826 3.38 3.38 0.00 2.90
703 6886 0.036388 TCGATGTCAGGCTTTCACCC 60.036 55.000 0.00 0.00 0.00 4.61
743 6950 4.832248 TGAGGCTTACATGTCAAAGGTAG 58.168 43.478 0.00 0.00 0.00 3.18
793 7000 3.193691 CGTCAAGTCCATGTTCCTACTCT 59.806 47.826 0.00 0.00 0.00 3.24
1277 13603 1.305930 CCTGCGGGCTAGGTGTTTTC 61.306 60.000 0.00 0.00 0.00 2.29
1303 13651 5.135508 AGTATGGCATTACTACCATCGAC 57.864 43.478 4.78 0.00 43.26 4.20
1304 13652 4.830600 TGAGTATGGCATTACTACCATCGA 59.169 41.667 4.78 0.00 43.26 3.59
1305 13653 4.923871 GTGAGTATGGCATTACTACCATCG 59.076 45.833 4.78 0.00 43.26 3.84
1332 13680 4.506937 AGTTCACTACCTACGAGATCCT 57.493 45.455 0.00 0.00 0.00 3.24
1485 13836 2.103537 TTACCAGTTTCGCTAAGGCC 57.896 50.000 0.00 0.00 34.44 5.19
1492 13867 3.335579 AGGTCTTGATTACCAGTTTCGC 58.664 45.455 0.00 0.00 39.64 4.70
1509 13884 6.016777 CCTTTACAATCTATGGCATCAAGGTC 60.017 42.308 1.65 0.00 0.00 3.85
1616 13991 4.029809 GGCCTGCCCTTGGTACGT 62.030 66.667 0.00 0.00 0.00 3.57
1639 14014 2.086610 ATTTCAAGTGCACCAAGGGT 57.913 45.000 14.63 0.00 35.62 4.34
1676 14052 3.064207 GCGCACGGATGGATTCTTATTA 58.936 45.455 0.30 0.00 0.00 0.98
1841 14248 2.304470 AGCTTCTTCTTTCCAGGGAGAC 59.696 50.000 0.00 0.00 0.00 3.36
1845 14252 1.632920 AGGAGCTTCTTCTTTCCAGGG 59.367 52.381 0.00 0.00 32.02 4.45
1846 14253 4.163078 TCATAGGAGCTTCTTCTTTCCAGG 59.837 45.833 0.00 0.00 32.02 4.45
1847 14254 5.350504 TCATAGGAGCTTCTTCTTTCCAG 57.649 43.478 0.00 0.00 32.02 3.86
1848 14255 5.762179 TTCATAGGAGCTTCTTCTTTCCA 57.238 39.130 0.00 0.00 32.02 3.53
1849 14256 6.591001 AGATTCATAGGAGCTTCTTCTTTCC 58.409 40.000 0.00 0.00 0.00 3.13
1850 14257 6.705825 GGAGATTCATAGGAGCTTCTTCTTTC 59.294 42.308 0.00 0.00 0.00 2.62
1851 14258 6.409120 GGGAGATTCATAGGAGCTTCTTCTTT 60.409 42.308 0.00 0.00 0.00 2.52
1852 14259 5.071653 GGGAGATTCATAGGAGCTTCTTCTT 59.928 44.000 0.00 0.00 0.00 2.52
1853 14260 4.592778 GGGAGATTCATAGGAGCTTCTTCT 59.407 45.833 0.00 0.00 0.00 2.85
1854 14261 4.592778 AGGGAGATTCATAGGAGCTTCTTC 59.407 45.833 0.00 0.00 0.00 2.87
1855 14262 4.347583 CAGGGAGATTCATAGGAGCTTCTT 59.652 45.833 0.00 0.00 0.00 2.52
1856 14263 3.903090 CAGGGAGATTCATAGGAGCTTCT 59.097 47.826 0.00 0.00 0.00 2.85
1857 14264 3.007831 CCAGGGAGATTCATAGGAGCTTC 59.992 52.174 0.00 0.00 0.00 3.86
1858 14265 2.978278 CCAGGGAGATTCATAGGAGCTT 59.022 50.000 0.00 0.00 0.00 3.74
1859 14266 2.180973 TCCAGGGAGATTCATAGGAGCT 59.819 50.000 0.00 0.00 0.00 4.09
1860 14267 2.614259 TCCAGGGAGATTCATAGGAGC 58.386 52.381 0.00 0.00 0.00 4.70
1878 14285 2.481009 GCGCCGCTTCTTCTTTCC 59.519 61.111 0.00 0.00 0.00 3.13
1955 14362 3.251972 GCTCCTTAATCAATGCAGGTAGC 59.748 47.826 0.00 0.00 45.96 3.58
1976 14384 3.368236 CGAGGTAGTAAGTTTCTGCTTGC 59.632 47.826 0.00 0.00 0.00 4.01
2033 14558 3.493877 GCAGCTATCTTACATGACTGCTG 59.506 47.826 0.00 9.93 44.25 4.41
2051 14576 0.528684 GATACACCGTCTGGAGCAGC 60.529 60.000 0.00 0.00 39.21 5.25
2062 14587 4.596311 TGCAGTGCAGATACACCG 57.404 55.556 15.37 0.00 41.67 4.94
2103 14632 1.680735 TGTCGCAGGTTGCAAAGAATT 59.319 42.857 0.00 0.00 45.36 2.17
2114 14678 5.336134 GGGTTAATTTTTATGTGTCGCAGGT 60.336 40.000 0.00 0.00 0.00 4.00
2154 14718 3.554524 CTGTTGCCGTTGTTGAATACAG 58.445 45.455 0.00 0.00 38.19 2.74
2181 14749 4.007659 CGAGCCACTTAAATTAGGGTTGT 58.992 43.478 0.00 0.00 30.92 3.32
2184 14759 4.563140 TTCGAGCCACTTAAATTAGGGT 57.437 40.909 0.00 0.00 33.98 4.34
2223 14798 3.355378 CCAGTGTTTCAGATTATGGGCA 58.645 45.455 0.00 0.00 0.00 5.36
2242 14833 2.280797 GCAAGTCACCGTCTGCCA 60.281 61.111 0.00 0.00 0.00 4.92
2267 14861 5.597182 ACTTGATGCTTATCCATGCTGAAAT 59.403 36.000 0.00 0.00 0.00 2.17
2311 14907 4.261741 CCTGTCCAAAGGAACACAAATCTG 60.262 45.833 0.00 0.00 40.02 2.90
2346 14944 1.365699 TCGCTTTATTCGCTGGGTTC 58.634 50.000 0.00 0.00 0.00 3.62
2380 14979 5.181690 AGATCTCGCTCTGTCTTTACATC 57.818 43.478 0.00 0.00 34.37 3.06
2388 14987 4.893424 AGAAGTTAGATCTCGCTCTGTC 57.107 45.455 0.00 0.00 0.00 3.51
2389 14988 5.220970 GCTTAGAAGTTAGATCTCGCTCTGT 60.221 44.000 0.00 0.00 0.00 3.41
2392 14991 4.024725 TCGCTTAGAAGTTAGATCTCGCTC 60.025 45.833 0.00 0.00 0.00 5.03
2393 14992 3.878103 TCGCTTAGAAGTTAGATCTCGCT 59.122 43.478 0.00 0.00 0.00 4.93
2396 14995 5.502153 TGGTCGCTTAGAAGTTAGATCTC 57.498 43.478 0.00 0.00 0.00 2.75
2399 14998 4.870991 GCTTTGGTCGCTTAGAAGTTAGAT 59.129 41.667 0.00 0.00 0.00 1.98
2400 14999 4.243270 GCTTTGGTCGCTTAGAAGTTAGA 58.757 43.478 0.00 0.00 0.00 2.10
2401 15000 3.371285 GGCTTTGGTCGCTTAGAAGTTAG 59.629 47.826 0.00 0.00 0.00 2.34
2402 15001 3.332034 GGCTTTGGTCGCTTAGAAGTTA 58.668 45.455 0.00 0.00 0.00 2.24
2403 15002 2.152016 GGCTTTGGTCGCTTAGAAGTT 58.848 47.619 0.00 0.00 0.00 2.66
2404 15003 1.610886 GGGCTTTGGTCGCTTAGAAGT 60.611 52.381 0.00 0.00 0.00 3.01
2405 15004 1.087501 GGGCTTTGGTCGCTTAGAAG 58.912 55.000 0.00 0.00 0.00 2.85
2406 15005 0.322187 GGGGCTTTGGTCGCTTAGAA 60.322 55.000 0.00 0.00 0.00 2.10
2407 15006 1.298667 GGGGCTTTGGTCGCTTAGA 59.701 57.895 0.00 0.00 0.00 2.10
2408 15007 1.749258 GGGGGCTTTGGTCGCTTAG 60.749 63.158 0.00 0.00 0.00 2.18
2409 15008 2.228480 AGGGGGCTTTGGTCGCTTA 61.228 57.895 0.00 0.00 0.00 3.09
2411 15010 4.351054 CAGGGGGCTTTGGTCGCT 62.351 66.667 0.00 0.00 0.00 4.93
2412 15011 3.645268 ATCAGGGGGCTTTGGTCGC 62.645 63.158 0.00 0.00 0.00 5.19
2413 15012 0.611896 AAATCAGGGGGCTTTGGTCG 60.612 55.000 0.00 0.00 0.00 4.79
2414 15013 1.550524 GAAAATCAGGGGGCTTTGGTC 59.449 52.381 0.00 0.00 0.00 4.02
2415 15014 1.149923 AGAAAATCAGGGGGCTTTGGT 59.850 47.619 0.00 0.00 0.00 3.67
2416 15015 1.827344 GAGAAAATCAGGGGGCTTTGG 59.173 52.381 0.00 0.00 0.00 3.28
2417 15016 1.827344 GGAGAAAATCAGGGGGCTTTG 59.173 52.381 0.00 0.00 0.00 2.77
2418 15017 1.718801 AGGAGAAAATCAGGGGGCTTT 59.281 47.619 0.00 0.00 0.00 3.51
2419 15018 1.387119 AGGAGAAAATCAGGGGGCTT 58.613 50.000 0.00 0.00 0.00 4.35
2420 15019 2.286935 TAGGAGAAAATCAGGGGGCT 57.713 50.000 0.00 0.00 0.00 5.19
2421 15020 3.491342 GATTAGGAGAAAATCAGGGGGC 58.509 50.000 0.00 0.00 34.21 5.80
2422 15021 3.724209 AGGATTAGGAGAAAATCAGGGGG 59.276 47.826 0.00 0.00 35.46 5.40
2423 15022 4.202514 GGAGGATTAGGAGAAAATCAGGGG 60.203 50.000 0.00 0.00 35.46 4.79
2424 15023 4.413520 TGGAGGATTAGGAGAAAATCAGGG 59.586 45.833 0.00 0.00 35.46 4.45
2425 15024 5.372373 GTGGAGGATTAGGAGAAAATCAGG 58.628 45.833 0.00 0.00 35.46 3.86
2426 15025 5.131809 AGGTGGAGGATTAGGAGAAAATCAG 59.868 44.000 0.00 0.00 35.46 2.90
2427 15026 5.039645 AGGTGGAGGATTAGGAGAAAATCA 58.960 41.667 0.00 0.00 35.46 2.57
2428 15027 5.638530 AGGTGGAGGATTAGGAGAAAATC 57.361 43.478 0.00 0.00 33.44 2.17
2429 15028 7.202232 GGATTAGGTGGAGGATTAGGAGAAAAT 60.202 40.741 0.00 0.00 0.00 1.82
2430 15029 6.101296 GGATTAGGTGGAGGATTAGGAGAAAA 59.899 42.308 0.00 0.00 0.00 2.29
2442 15041 3.654273 TCCTTACAGGATTAGGTGGAGG 58.346 50.000 0.00 0.00 40.06 4.30
2461 15062 1.134907 TCGAGCACCTACGGAAAATCC 60.135 52.381 0.00 0.00 0.00 3.01
2468 15069 1.135083 ACTGATTTCGAGCACCTACGG 60.135 52.381 0.00 0.00 0.00 4.02
2470 15071 4.745620 GGATTACTGATTTCGAGCACCTAC 59.254 45.833 0.00 0.00 0.00 3.18
2519 15121 5.613358 AACAAATTTCGAGCGATTCTTCT 57.387 34.783 0.00 0.00 0.00 2.85
2520 15122 5.625311 ACAAACAAATTTCGAGCGATTCTTC 59.375 36.000 0.00 0.00 0.00 2.87
2521 15123 5.399301 CACAAACAAATTTCGAGCGATTCTT 59.601 36.000 0.00 0.00 0.00 2.52
2544 15146 1.298157 CCTGAAATCGCCGAGCAACA 61.298 55.000 0.00 0.00 0.00 3.33
2581 15183 7.653767 AGTTAAATACTGCGCCTATGTTATC 57.346 36.000 4.18 0.00 35.19 1.75


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

AutoCloner maintained by Alex Coulton.