Multiple sequence alignment - TraesCS3A01G515600

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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 TraesCS3A01G515600 chr3A 100.000 2616 0 0 1 2616 733637931 733635316 0.000000e+00 4831.0
1 TraesCS3A01G515600 chr3A 82.822 2020 284 28 29 2015 733725910 733723921 0.000000e+00 1749.0
2 TraesCS3A01G515600 chr3A 84.426 1297 177 15 14 1302 733043818 733045097 0.000000e+00 1253.0
3 TraesCS3A01G515600 chr3A 82.598 408 53 7 1548 1953 733655850 733655459 6.930000e-91 344.0
4 TraesCS3A01G515600 chr3D 94.186 1720 88 8 14 1727 604137497 604135784 0.000000e+00 2612.0
5 TraesCS3A01G515600 chr3D 83.873 1947 274 25 28 1947 604252851 604250918 0.000000e+00 1820.0
6 TraesCS3A01G515600 chr3D 82.957 1948 270 29 35 1958 604143711 604141802 0.000000e+00 1701.0
7 TraesCS3A01G515600 chr3D 82.694 1826 259 28 14 1823 602799163 602797379 0.000000e+00 1568.0
8 TraesCS3A01G515600 chr3D 84.198 1620 225 13 29 1626 603962803 603964413 0.000000e+00 1544.0
9 TraesCS3A01G515600 chr3D 82.699 1630 245 27 18 1632 604124311 604122704 0.000000e+00 1413.0
10 TraesCS3A01G515600 chr3D 81.020 1628 251 34 35 1629 602803813 602802211 0.000000e+00 1242.0
11 TraesCS3A01G515600 chr3D 81.241 1402 246 14 189 1580 604014855 604013461 0.000000e+00 1116.0
12 TraesCS3A01G515600 chr3D 87.268 377 44 4 2213 2587 604135096 604134722 6.690000e-116 427.0
13 TraesCS3A01G515600 chr3D 91.144 271 18 3 1927 2195 604135725 604135459 1.910000e-96 363.0
14 TraesCS3A01G515600 chr3D 92.424 66 4 1 2083 2148 604250845 604250781 2.770000e-15 93.5
15 TraesCS3A01G515600 chr3D 88.333 60 7 0 1838 1897 604135780 604135721 3.610000e-09 73.1
16 TraesCS3A01G515600 chr3B 92.166 1736 89 14 14 1725 811128523 811126811 0.000000e+00 2409.0
17 TraesCS3A01G515600 chr3B 83.519 2154 301 40 28 2143 811141235 811139098 0.000000e+00 1962.0
18 TraesCS3A01G515600 chr3B 82.730 1824 260 27 14 1823 810952588 810954370 0.000000e+00 1572.0
19 TraesCS3A01G515600 chr3B 81.381 1622 249 31 35 1629 810948177 810949772 0.000000e+00 1273.0
20 TraesCS3A01G515600 chr3B 89.024 328 33 2 2246 2573 811126041 811125717 1.130000e-108 403.0
21 TraesCS3A01G515600 chr3B 86.029 136 15 4 1897 2029 811151671 811151537 2.710000e-30 143.0
22 TraesCS3A01G515600 chr3B 88.333 60 7 0 1838 1897 811126805 811126746 3.610000e-09 73.1
23 TraesCS3A01G515600 chr1B 81.400 457 66 14 1572 2015 491066747 491067197 3.200000e-94 355.0


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 TraesCS3A01G515600 chr3A 733635316 733637931 2615 True 4831.000 4831 100.00000 1 2616 1 chr3A.!!$R1 2615
1 TraesCS3A01G515600 chr3A 733723921 733725910 1989 True 1749.000 1749 82.82200 29 2015 1 chr3A.!!$R3 1986
2 TraesCS3A01G515600 chr3A 733043818 733045097 1279 False 1253.000 1253 84.42600 14 1302 1 chr3A.!!$F1 1288
3 TraesCS3A01G515600 chr3D 604141802 604143711 1909 True 1701.000 1701 82.95700 35 1958 1 chr3D.!!$R3 1923
4 TraesCS3A01G515600 chr3D 603962803 603964413 1610 False 1544.000 1544 84.19800 29 1626 1 chr3D.!!$F1 1597
5 TraesCS3A01G515600 chr3D 604122704 604124311 1607 True 1413.000 1413 82.69900 18 1632 1 chr3D.!!$R2 1614
6 TraesCS3A01G515600 chr3D 602797379 602803813 6434 True 1405.000 1568 81.85700 14 1823 2 chr3D.!!$R4 1809
7 TraesCS3A01G515600 chr3D 604013461 604014855 1394 True 1116.000 1116 81.24100 189 1580 1 chr3D.!!$R1 1391
8 TraesCS3A01G515600 chr3D 604250781 604252851 2070 True 956.750 1820 88.14850 28 2148 2 chr3D.!!$R6 2120
9 TraesCS3A01G515600 chr3D 604134722 604137497 2775 True 868.775 2612 90.23275 14 2587 4 chr3D.!!$R5 2573
10 TraesCS3A01G515600 chr3B 811139098 811141235 2137 True 1962.000 1962 83.51900 28 2143 1 chr3B.!!$R1 2115
11 TraesCS3A01G515600 chr3B 810948177 810954370 6193 False 1422.500 1572 82.05550 14 1823 2 chr3B.!!$F1 1809
12 TraesCS3A01G515600 chr3B 811125717 811128523 2806 True 961.700 2409 89.84100 14 2573 3 chr3B.!!$R3 2559

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
653 5533 0.323908 CTTGCCCCGGGTATTCCAAA 60.324 55.0 21.85 1.74 34.36 3.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2539 7887 0.03254 TCATCATCTCACCGCCATCG 59.967 55.0 0.0 0.0 0.0 3.84 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
24 4887 6.208644 CCAACAACAGTAGTCCAATCTTTTG 58.791 40.000 0.00 0.00 0.00 2.44
119 4982 9.898152 TGTATCAAATTTGTAGTGATATGTGGA 57.102 29.630 17.47 0.00 36.80 4.02
226 5095 2.038837 GCAACGGGGGAAGCTACAC 61.039 63.158 0.00 0.00 0.00 2.90
227 5096 1.373435 CAACGGGGGAAGCTACACA 59.627 57.895 0.00 0.00 0.00 3.72
280 5155 4.913355 TCCAGAGATAAAGGGCAATATCCA 59.087 41.667 0.00 0.00 30.41 3.41
309 5184 5.553952 CGTTTGAATATCGTAGAAGCGGTTC 60.554 44.000 19.40 19.40 43.58 3.62
610 5490 5.066913 TCTATGGCCATCTGAAGTCTCTA 57.933 43.478 24.80 0.00 0.00 2.43
653 5533 0.323908 CTTGCCCCGGGTATTCCAAA 60.324 55.000 21.85 1.74 34.36 3.28
751 5637 3.585289 TCTGCCCTGTACTGACCAATTTA 59.415 43.478 0.60 0.00 0.00 1.40
794 5680 4.651994 CATCAACCGTCTAAACATTCAGC 58.348 43.478 0.00 0.00 0.00 4.26
934 5827 2.352503 AATTGCGCATGACAAGGAAC 57.647 45.000 12.75 0.00 0.00 3.62
1048 5944 4.133078 GCATTGCTATAGCCTTCTTCTGT 58.867 43.478 21.84 0.00 41.18 3.41
1221 6131 4.272489 TCATTGTTTCAGAATGCCCCTAG 58.728 43.478 0.00 0.00 34.76 3.02
1282 6192 3.621682 AATACTCTCCCTCCCTCGATT 57.378 47.619 0.00 0.00 0.00 3.34
1326 6243 5.748670 TTTATGGCACCTACTCAGTTGTA 57.251 39.130 0.00 0.00 0.00 2.41
1438 6364 4.801330 TCTCATAACGGTCAGTGTGAAT 57.199 40.909 0.00 0.00 30.99 2.57
1512 6438 2.863809 GGAACCTGCTTTGGAAGAAGA 58.136 47.619 0.00 0.00 36.13 2.87
1520 6446 6.176183 CCTGCTTTGGAAGAAGAGAGAATAA 58.824 40.000 0.00 0.00 36.13 1.40
1606 6532 0.967380 CCAGGGCCAAGGTCATTGTC 60.967 60.000 6.18 0.00 37.17 3.18
1626 6555 6.028146 TGTCACATTTTGATAAGCATGCTT 57.972 33.333 33.70 33.70 36.32 3.91
1629 6558 4.501559 CACATTTTGATAAGCATGCTTCCG 59.498 41.667 35.10 17.19 37.47 4.30
1657 6586 3.397849 TTGCCAATGTAATTTGCTGCA 57.602 38.095 0.00 0.00 44.55 4.41
1690 6622 3.951775 TTGGCTTTGTTTATGCGGATT 57.048 38.095 0.00 0.00 0.00 3.01
1755 6687 4.161565 TGGACGCAAATTATCAGGTAGACT 59.838 41.667 0.00 0.00 0.00 3.24
1757 6689 5.006746 GGACGCAAATTATCAGGTAGACTTG 59.993 44.000 0.00 0.00 0.00 3.16
1761 6693 5.449177 GCAAATTATCAGGTAGACTTGGTGC 60.449 44.000 0.00 0.00 0.00 5.01
1770 6702 2.844122 AGACTTGGTGCGTTTTGTTC 57.156 45.000 0.00 0.00 0.00 3.18
1818 6755 3.311871 GCTATCAGCAAGTGTCTTCCATG 59.688 47.826 0.00 0.00 41.89 3.66
1890 6827 1.604278 GTGCTCTTTTGACCCTGTGTC 59.396 52.381 0.00 0.00 44.72 3.67
1893 6830 2.749800 GCTCTTTTGACCCTGTGTCCTT 60.750 50.000 0.00 0.00 43.78 3.36
1895 6832 3.287222 TCTTTTGACCCTGTGTCCTTTG 58.713 45.455 0.00 0.00 43.78 2.77
1896 6833 2.818751 TTTGACCCTGTGTCCTTTGT 57.181 45.000 0.00 0.00 43.78 2.83
1897 6834 3.935818 TTTGACCCTGTGTCCTTTGTA 57.064 42.857 0.00 0.00 43.78 2.41
1972 6913 2.997485 GGAAGCACCTTCATGTTGTC 57.003 50.000 7.22 0.00 41.77 3.18
2012 6954 2.960819 AGACATCAAGTGTACCTTCGC 58.039 47.619 0.00 0.00 42.36 4.70
2029 6971 4.273235 CCTTCGCATTGTACATTCTGCATA 59.727 41.667 19.42 8.85 34.29 3.14
2062 7012 6.183360 GCATCATAATGAGATCGGAGTAGCTA 60.183 42.308 0.00 0.00 34.61 3.32
2063 7013 6.993786 TCATAATGAGATCGGAGTAGCTAG 57.006 41.667 0.00 0.00 0.00 3.42
2064 7014 5.355630 TCATAATGAGATCGGAGTAGCTAGC 59.644 44.000 6.62 6.62 0.00 3.42
2065 7015 2.940994 TGAGATCGGAGTAGCTAGCT 57.059 50.000 23.12 23.12 0.00 3.32
2072 7022 1.337118 GGAGTAGCTAGCTCATGCCT 58.663 55.000 23.26 10.32 40.80 4.75
2107 7063 7.429636 ACTTTTGGAAATCAAAGCATTCATG 57.570 32.000 0.00 0.00 45.00 3.07
2139 7095 6.739331 TTACATTGGTTTCAGGTTGGAATT 57.261 33.333 0.00 0.00 0.00 2.17
2197 7153 5.659440 AAAAACATGTTGTTCAGACCACT 57.341 34.783 12.82 0.00 40.14 4.00
2198 7154 6.767524 AAAAACATGTTGTTCAGACCACTA 57.232 33.333 12.82 0.00 40.14 2.74
2199 7155 6.377327 AAAACATGTTGTTCAGACCACTAG 57.623 37.500 12.82 0.00 40.14 2.57
2200 7156 3.403038 ACATGTTGTTCAGACCACTAGC 58.597 45.455 0.00 0.00 0.00 3.42
2201 7157 3.071602 ACATGTTGTTCAGACCACTAGCT 59.928 43.478 0.00 0.00 0.00 3.32
2202 7158 3.386768 TGTTGTTCAGACCACTAGCTC 57.613 47.619 0.00 0.00 0.00 4.09
2203 7159 2.288213 TGTTGTTCAGACCACTAGCTCG 60.288 50.000 0.00 0.00 0.00 5.03
2204 7160 0.888619 TGTTCAGACCACTAGCTCGG 59.111 55.000 0.00 0.00 0.00 4.63
2205 7161 0.173708 GTTCAGACCACTAGCTCGGG 59.826 60.000 0.00 0.00 0.00 5.14
2206 7162 0.970937 TTCAGACCACTAGCTCGGGG 60.971 60.000 4.67 4.67 0.00 5.73
2207 7163 2.042843 AGACCACTAGCTCGGGGG 60.043 66.667 11.84 8.89 0.00 5.40
2228 7529 2.684881 GGAAAGATCCATGTCAACGCAT 59.315 45.455 0.00 0.00 45.79 4.73
2234 7535 7.834068 AAGATCCATGTCAACGCATATATAC 57.166 36.000 0.00 0.00 0.00 1.47
2235 7536 6.935167 AGATCCATGTCAACGCATATATACA 58.065 36.000 0.00 0.00 0.00 2.29
2238 7539 6.389906 TCCATGTCAACGCATATATACAGAG 58.610 40.000 0.00 0.00 0.00 3.35
2241 7542 6.385649 TGTCAACGCATATATACAGAGTGA 57.614 37.500 0.00 0.00 0.00 3.41
2244 7545 7.382218 TGTCAACGCATATATACAGAGTGATTG 59.618 37.037 0.00 0.00 0.00 2.67
2288 7636 2.711009 TGGGATCTCAAGTTGAACACCT 59.289 45.455 7.06 0.00 0.00 4.00
2289 7637 3.244561 TGGGATCTCAAGTTGAACACCTC 60.245 47.826 7.06 5.57 0.00 3.85
2293 7641 0.534203 TCAAGTTGAACACCTCGCCC 60.534 55.000 2.20 0.00 0.00 6.13
2307 7655 1.804326 CGCCCGAGTCGACGAAAAT 60.804 57.895 15.64 0.00 35.09 1.82
2320 7668 7.658261 AGTCGACGAAAATAATATCATCCTCA 58.342 34.615 10.46 0.00 0.00 3.86
2343 7691 0.107017 ATCTGATCCCAACAAGCCGG 60.107 55.000 0.00 0.00 0.00 6.13
2346 7694 0.331278 TGATCCCAACAAGCCGGAAT 59.669 50.000 5.05 0.00 0.00 3.01
2347 7695 0.740737 GATCCCAACAAGCCGGAATG 59.259 55.000 5.05 5.31 0.00 2.67
2359 7707 1.934849 GCCGGAATGGACTTGCAAAAC 60.935 52.381 5.05 0.00 42.00 2.43
2360 7708 1.339610 CCGGAATGGACTTGCAAAACA 59.660 47.619 0.00 0.00 42.00 2.83
2380 7728 3.448660 ACAGCTTGCTAATGAAAATCCCC 59.551 43.478 0.00 0.00 0.00 4.81
2406 7754 2.957006 ACATCTAGACCACCCGTCATAC 59.043 50.000 0.00 0.00 44.66 2.39
2440 7788 1.142667 TGTGTGGACATCTGCCTTGAA 59.857 47.619 0.00 0.00 0.00 2.69
2479 7827 2.300152 TGAAGATGAGACCGCTTGAAGT 59.700 45.455 0.00 0.00 0.00 3.01
2482 7830 1.728971 GATGAGACCGCTTGAAGTGTG 59.271 52.381 4.92 0.00 0.00 3.82
2517 7865 1.081892 CCTCACCATGAGCAACTTCG 58.918 55.000 0.00 0.00 42.98 3.79
2522 7870 1.510623 CATGAGCAACTTCGCACGC 60.511 57.895 0.00 0.00 0.00 5.34
2523 7871 1.960763 ATGAGCAACTTCGCACGCA 60.961 52.632 0.00 0.00 0.00 5.24
2539 7887 3.305110 CACGCAATTCAACAAAGTACCC 58.695 45.455 0.00 0.00 0.00 3.69
2558 7906 0.032540 CGATGGCGGTGAGATGATGA 59.967 55.000 0.00 0.00 0.00 2.92
2561 7909 1.122227 TGGCGGTGAGATGATGATCA 58.878 50.000 0.00 0.00 0.00 2.92
2574 7922 5.862422 ATGATGATCATCTTCTTCCCCAT 57.138 39.130 30.65 14.22 38.60 4.00
2575 7923 5.658198 TGATGATCATCTTCTTCCCCATT 57.342 39.130 30.65 0.00 38.60 3.16
2576 7924 6.768641 TGATGATCATCTTCTTCCCCATTA 57.231 37.500 30.65 8.10 38.60 1.90
2577 7925 7.339177 TGATGATCATCTTCTTCCCCATTAT 57.661 36.000 30.65 0.00 38.60 1.28
2580 7928 9.171877 GATGATCATCTTCTTCCCCATTATTAC 57.828 37.037 25.47 0.00 35.04 1.89
2581 7929 8.280258 TGATCATCTTCTTCCCCATTATTACT 57.720 34.615 0.00 0.00 0.00 2.24
2582 7930 8.378565 TGATCATCTTCTTCCCCATTATTACTC 58.621 37.037 0.00 0.00 0.00 2.59
2583 7931 6.759272 TCATCTTCTTCCCCATTATTACTCG 58.241 40.000 0.00 0.00 0.00 4.18
2584 7932 6.553476 TCATCTTCTTCCCCATTATTACTCGA 59.447 38.462 0.00 0.00 0.00 4.04
2585 7933 6.996180 TCTTCTTCCCCATTATTACTCGAT 57.004 37.500 0.00 0.00 0.00 3.59
2586 7934 6.759272 TCTTCTTCCCCATTATTACTCGATG 58.241 40.000 0.00 0.00 0.00 3.84
2588 7936 6.097915 TCTTCCCCATTATTACTCGATGTC 57.902 41.667 0.00 0.00 0.00 3.06
2589 7937 5.600898 TCTTCCCCATTATTACTCGATGTCA 59.399 40.000 0.00 0.00 0.00 3.58
2590 7938 6.270000 TCTTCCCCATTATTACTCGATGTCAT 59.730 38.462 0.00 0.00 0.00 3.06
2591 7939 6.037786 TCCCCATTATTACTCGATGTCATC 57.962 41.667 2.43 2.43 0.00 2.92
2592 7940 5.542251 TCCCCATTATTACTCGATGTCATCA 59.458 40.000 13.22 0.01 0.00 3.07
2593 7941 6.042666 TCCCCATTATTACTCGATGTCATCAA 59.957 38.462 13.22 0.09 0.00 2.57
2594 7942 6.147821 CCCCATTATTACTCGATGTCATCAAC 59.852 42.308 13.22 0.00 0.00 3.18
2595 7943 6.147821 CCCATTATTACTCGATGTCATCAACC 59.852 42.308 13.22 0.00 0.00 3.77
2596 7944 6.931281 CCATTATTACTCGATGTCATCAACCT 59.069 38.462 13.22 0.00 0.00 3.50
2597 7945 7.095481 CCATTATTACTCGATGTCATCAACCTG 60.095 40.741 13.22 0.00 0.00 4.00
2598 7946 5.598416 ATTACTCGATGTCATCAACCTGA 57.402 39.130 13.22 1.04 0.00 3.86
2599 7947 5.598416 TTACTCGATGTCATCAACCTGAT 57.402 39.130 13.22 0.00 37.65 2.90
2600 7948 4.052159 ACTCGATGTCATCAACCTGATC 57.948 45.455 13.22 0.00 34.28 2.92
2601 7949 3.048501 CTCGATGTCATCAACCTGATCG 58.951 50.000 13.22 0.00 34.28 3.69
2602 7950 1.524355 CGATGTCATCAACCTGATCGC 59.476 52.381 13.22 0.00 34.28 4.58
2603 7951 1.869767 GATGTCATCAACCTGATCGCC 59.130 52.381 8.00 0.00 34.28 5.54
2604 7952 0.107703 TGTCATCAACCTGATCGCCC 60.108 55.000 0.00 0.00 34.28 6.13
2605 7953 0.179000 GTCATCAACCTGATCGCCCT 59.821 55.000 0.00 0.00 34.28 5.19
2606 7954 0.465705 TCATCAACCTGATCGCCCTC 59.534 55.000 0.00 0.00 34.28 4.30
2607 7955 0.467384 CATCAACCTGATCGCCCTCT 59.533 55.000 0.00 0.00 34.28 3.69
2608 7956 1.134280 CATCAACCTGATCGCCCTCTT 60.134 52.381 0.00 0.00 34.28 2.85
2609 7957 0.250234 TCAACCTGATCGCCCTCTTG 59.750 55.000 0.00 0.00 0.00 3.02
2610 7958 0.745845 CAACCTGATCGCCCTCTTGG 60.746 60.000 0.00 0.00 37.09 3.61
2611 7959 1.201429 AACCTGATCGCCCTCTTGGT 61.201 55.000 0.00 0.00 36.04 3.67
2612 7960 1.201429 ACCTGATCGCCCTCTTGGTT 61.201 55.000 0.00 0.00 36.04 3.67
2613 7961 0.830648 CCTGATCGCCCTCTTGGTTA 59.169 55.000 0.00 0.00 36.04 2.85
2614 7962 1.209504 CCTGATCGCCCTCTTGGTTAA 59.790 52.381 0.00 0.00 36.04 2.01
2615 7963 2.555199 CTGATCGCCCTCTTGGTTAAG 58.445 52.381 0.00 0.00 36.04 1.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.208644 CAAAAGATTGGACTACTGTTGTTGG 58.791 40.000 0.00 0.00 32.69 3.77
15 16 7.495135 AAATAAACAACAGGCCAAAAGATTG 57.505 32.000 5.01 2.24 36.25 2.67
119 4982 5.297029 GGAGCCTAAATTAGCGTGAATTCTT 59.703 40.000 7.05 0.00 0.00 2.52
169 5038 7.282675 ACTCATTGCTTCAGAATCCAGATTAAG 59.717 37.037 0.00 0.00 0.00 1.85
243 5118 2.041755 TCTCTGGAGGTAGACTGCTCAA 59.958 50.000 0.00 0.00 38.54 3.02
456 5335 7.506114 TGATAGCTTTCACTACCCGAAATATT 58.494 34.615 2.39 0.00 32.21 1.28
610 5490 3.181445 TGATGGTGCAGTTTTCTAGGTGT 60.181 43.478 0.00 0.00 0.00 4.16
653 5533 3.648545 AGGTCAGTTAGGCTCTTGAAACT 59.351 43.478 0.00 0.00 32.52 2.66
910 5803 3.058450 CCTTGTCATGCGCAATTTGAAA 58.942 40.909 17.11 6.15 0.00 2.69
914 5807 2.676076 GTTCCTTGTCATGCGCAATTT 58.324 42.857 17.11 0.00 0.00 1.82
934 5827 2.159476 CCAATGACTTCTTGACATGGCG 60.159 50.000 0.00 0.00 31.89 5.69
1025 5921 3.501445 CAGAAGAAGGCTATAGCAATGCC 59.499 47.826 25.53 9.39 46.42 4.40
1048 5944 4.040339 TGGCAACACAGATTAGACAGAAGA 59.960 41.667 0.00 0.00 46.17 2.87
1079 5988 3.744660 CCTTTGATAGATACTGCACCCC 58.255 50.000 0.00 0.00 0.00 4.95
1080 5989 3.142174 GCCTTTGATAGATACTGCACCC 58.858 50.000 0.00 0.00 0.00 4.61
1221 6131 4.096984 CCCACATATCAAGCTTCTTCAACC 59.903 45.833 0.00 0.00 0.00 3.77
1326 6243 9.125026 CAGGGTAACTCTGCATATATTTTTCTT 57.875 33.333 0.00 0.00 0.00 2.52
1410 6336 3.116300 CTGACCGTTATGAGATGGTTCG 58.884 50.000 0.00 0.00 39.02 3.95
1438 6364 1.377229 GTCCACACCCCGGAAATCA 59.623 57.895 0.73 0.00 33.29 2.57
1494 6420 3.392616 TCTCTCTTCTTCCAAAGCAGGTT 59.607 43.478 0.00 0.00 0.00 3.50
1512 6438 5.843019 TTCACCCTTCCACTTTATTCTCT 57.157 39.130 0.00 0.00 0.00 3.10
1520 6446 2.447047 AGTCCATTTCACCCTTCCACTT 59.553 45.455 0.00 0.00 0.00 3.16
1567 6493 4.459089 GACACCCTCGGCAGAGCC 62.459 72.222 8.52 0.00 46.75 4.70
1606 6532 4.501559 CGGAAGCATGCTTATCAAAATGTG 59.498 41.667 32.02 9.60 36.26 3.21
1632 6561 5.581874 GCAGCAAATTACATTGGCAAATAGT 59.418 36.000 3.01 6.29 41.75 2.12
1634 6563 5.485620 TGCAGCAAATTACATTGGCAAATA 58.514 33.333 3.01 0.00 41.75 1.40
1635 6564 4.325119 TGCAGCAAATTACATTGGCAAAT 58.675 34.783 3.01 0.00 41.75 2.32
1755 6687 2.724977 TGTTGAACAAAACGCACCAA 57.275 40.000 0.00 0.00 32.47 3.67
1757 6689 2.215363 CGAATGTTGAACAAAACGCACC 59.785 45.455 0.62 0.00 32.47 5.01
1761 6693 2.786578 CCACCGAATGTTGAACAAAACG 59.213 45.455 0.62 8.45 32.47 3.60
1770 6702 2.762535 AGTACTCCCACCGAATGTTG 57.237 50.000 0.00 0.00 0.00 3.33
1811 6747 1.890876 TCCGGTGTTTCACATGGAAG 58.109 50.000 0.00 0.00 37.45 3.46
1818 6755 2.604614 GCAGTGATTTCCGGTGTTTCAC 60.605 50.000 16.41 16.41 37.54 3.18
1825 6762 1.675641 GGCAGCAGTGATTTCCGGT 60.676 57.895 0.00 0.00 0.00 5.28
1829 6766 2.097825 AGGAATGGCAGCAGTGATTTC 58.902 47.619 0.00 0.00 0.00 2.17
1833 6770 0.401356 TTGAGGAATGGCAGCAGTGA 59.599 50.000 0.00 0.00 0.00 3.41
1881 6818 2.062636 ACCATACAAAGGACACAGGGT 58.937 47.619 0.00 0.00 0.00 4.34
1890 6827 4.855340 ACCAGGAATGTACCATACAAAGG 58.145 43.478 0.00 0.00 42.76 3.11
1893 6830 5.249780 ACAACCAGGAATGTACCATACAA 57.750 39.130 0.00 0.00 42.76 2.41
1895 6832 3.869246 CGACAACCAGGAATGTACCATAC 59.131 47.826 0.00 0.00 0.00 2.39
1896 6833 3.680475 GCGACAACCAGGAATGTACCATA 60.680 47.826 0.00 0.00 0.00 2.74
1897 6834 2.939640 GCGACAACCAGGAATGTACCAT 60.940 50.000 0.00 0.00 0.00 3.55
1916 6856 7.017645 GCTTCTTATGGACACATATATTTGCG 58.982 38.462 0.00 0.00 39.22 4.85
1972 6913 7.430992 TGTCTTTGATTCTCATCTTGTTGAG 57.569 36.000 3.10 3.10 43.70 3.02
2001 6943 4.630069 AGAATGTACAATGCGAAGGTACAC 59.370 41.667 11.81 2.92 46.96 2.90
2041 6984 5.356751 AGCTAGCTACTCCGATCTCATTATG 59.643 44.000 17.69 0.00 0.00 1.90
2062 7012 0.035630 GACTGGTTCAGGCATGAGCT 60.036 55.000 14.83 0.00 39.71 4.09
2063 7013 0.035630 AGACTGGTTCAGGCATGAGC 60.036 55.000 6.67 6.67 42.99 4.26
2064 7014 2.499289 AGTAGACTGGTTCAGGCATGAG 59.501 50.000 0.00 0.00 42.99 2.90
2065 7015 2.540383 AGTAGACTGGTTCAGGCATGA 58.460 47.619 0.00 0.00 42.99 3.07
2072 7022 6.361433 TGATTTCCAAAAGTAGACTGGTTCA 58.639 36.000 0.00 0.00 0.00 3.18
2107 7063 6.015434 ACCTGAAACCAATGTAAACCAATCTC 60.015 38.462 0.00 0.00 0.00 2.75
2185 7141 0.888619 CCGAGCTAGTGGTCTGAACA 59.111 55.000 0.00 0.00 38.45 3.18
2204 7160 2.379005 GTTGACATGGATCTTTCCCCC 58.621 52.381 0.00 0.00 41.83 5.40
2205 7161 2.017049 CGTTGACATGGATCTTTCCCC 58.983 52.381 0.00 0.00 41.83 4.81
2206 7162 1.401905 GCGTTGACATGGATCTTTCCC 59.598 52.381 0.00 0.00 41.83 3.97
2207 7163 2.083774 TGCGTTGACATGGATCTTTCC 58.916 47.619 0.00 0.00 42.94 3.13
2208 7164 5.679734 ATATGCGTTGACATGGATCTTTC 57.320 39.130 0.00 0.00 0.00 2.62
2209 7165 7.877612 TGTATATATGCGTTGACATGGATCTTT 59.122 33.333 0.00 0.00 0.00 2.52
2210 7166 7.386059 TGTATATATGCGTTGACATGGATCTT 58.614 34.615 0.00 0.00 0.00 2.40
2211 7167 6.935167 TGTATATATGCGTTGACATGGATCT 58.065 36.000 0.00 0.00 0.00 2.75
2221 7522 6.367149 AGCAATCACTCTGTATATATGCGTTG 59.633 38.462 0.00 0.00 36.45 4.10
2225 7526 6.169094 ACCAGCAATCACTCTGTATATATGC 58.831 40.000 0.00 0.00 0.00 3.14
2228 7529 7.710907 GTCAAACCAGCAATCACTCTGTATATA 59.289 37.037 0.00 0.00 0.00 0.86
2234 7535 3.144506 AGTCAAACCAGCAATCACTCTG 58.855 45.455 0.00 0.00 0.00 3.35
2235 7536 3.406764 GAGTCAAACCAGCAATCACTCT 58.593 45.455 0.00 0.00 0.00 3.24
2238 7539 1.873591 ACGAGTCAAACCAGCAATCAC 59.126 47.619 0.00 0.00 0.00 3.06
2241 7542 5.938125 AGTATTAACGAGTCAAACCAGCAAT 59.062 36.000 0.00 0.00 0.00 3.56
2244 7545 5.857822 AAGTATTAACGAGTCAAACCAGC 57.142 39.130 0.00 0.00 0.00 4.85
2288 7636 2.203972 ATTTTCGTCGACTCGGGCGA 62.204 55.000 14.70 12.59 34.53 5.54
2289 7637 0.523968 TATTTTCGTCGACTCGGGCG 60.524 55.000 14.70 0.00 0.00 6.13
2293 7641 6.802348 AGGATGATATTATTTTCGTCGACTCG 59.198 38.462 14.70 0.84 0.00 4.18
2320 7668 3.885297 CGGCTTGTTGGGATCAGATAAAT 59.115 43.478 0.00 0.00 0.00 1.40
2328 7676 0.740737 CATTCCGGCTTGTTGGGATC 59.259 55.000 0.00 0.00 0.00 3.36
2329 7677 0.684153 CCATTCCGGCTTGTTGGGAT 60.684 55.000 0.00 0.00 0.00 3.85
2343 7691 3.375782 AGCTGTTTTGCAAGTCCATTC 57.624 42.857 0.00 0.00 34.99 2.67
2346 7694 2.582728 CAAGCTGTTTTGCAAGTCCA 57.417 45.000 0.00 0.00 34.99 4.02
2359 7707 3.448301 TGGGGATTTTCATTAGCAAGCTG 59.552 43.478 4.53 0.00 0.00 4.24
2360 7708 3.711863 TGGGGATTTTCATTAGCAAGCT 58.288 40.909 0.00 0.00 0.00 3.74
2380 7728 1.069204 CGGGTGGTCTAGATGTCCATG 59.931 57.143 4.03 0.00 36.35 3.66
2385 7733 2.160721 ATGACGGGTGGTCTAGATGT 57.839 50.000 0.00 0.00 46.24 3.06
2424 7772 2.236146 ACGTATTCAAGGCAGATGTCCA 59.764 45.455 0.00 0.00 0.00 4.02
2463 7811 1.070758 ACACACTTCAAGCGGTCTCAT 59.929 47.619 0.00 0.00 0.00 2.90
2464 7812 0.464036 ACACACTTCAAGCGGTCTCA 59.536 50.000 0.00 0.00 0.00 3.27
2497 7845 0.807496 GAAGTTGCTCATGGTGAGGC 59.193 55.000 8.85 2.65 44.43 4.70
2517 7865 2.724174 GGTACTTTGTTGAATTGCGTGC 59.276 45.455 0.00 0.00 0.00 5.34
2522 7870 4.732784 CCATCGGGTACTTTGTTGAATTG 58.267 43.478 0.00 0.00 0.00 2.32
2523 7871 3.192633 GCCATCGGGTACTTTGTTGAATT 59.807 43.478 0.00 0.00 36.17 2.17
2539 7887 0.032540 TCATCATCTCACCGCCATCG 59.967 55.000 0.00 0.00 0.00 3.84
2558 7906 7.235606 TCGAGTAATAATGGGGAAGAAGATGAT 59.764 37.037 0.00 0.00 0.00 2.45
2561 7909 6.996180 TCGAGTAATAATGGGGAAGAAGAT 57.004 37.500 0.00 0.00 0.00 2.40
2573 7921 7.726216 TCAGGTTGATGACATCGAGTAATAAT 58.274 34.615 10.79 0.00 0.00 1.28
2574 7922 7.107639 TCAGGTTGATGACATCGAGTAATAA 57.892 36.000 10.79 0.00 0.00 1.40
2575 7923 6.709018 TCAGGTTGATGACATCGAGTAATA 57.291 37.500 10.79 0.00 0.00 0.98
2576 7924 5.598416 TCAGGTTGATGACATCGAGTAAT 57.402 39.130 10.79 0.00 0.00 1.89
2577 7925 5.592054 GATCAGGTTGATGACATCGAGTAA 58.408 41.667 10.79 0.00 37.20 2.24
2580 7928 3.048501 CGATCAGGTTGATGACATCGAG 58.951 50.000 10.79 0.00 37.20 4.04
2581 7929 2.799562 GCGATCAGGTTGATGACATCGA 60.800 50.000 10.79 6.11 37.20 3.59
2582 7930 1.524355 GCGATCAGGTTGATGACATCG 59.476 52.381 10.79 0.00 37.20 3.84
2583 7931 1.869767 GGCGATCAGGTTGATGACATC 59.130 52.381 8.59 8.59 37.20 3.06
2584 7932 1.475751 GGGCGATCAGGTTGATGACAT 60.476 52.381 0.00 0.00 37.20 3.06
2585 7933 0.107703 GGGCGATCAGGTTGATGACA 60.108 55.000 0.00 0.00 37.20 3.58
2586 7934 0.179000 AGGGCGATCAGGTTGATGAC 59.821 55.000 0.00 0.00 37.20 3.06
2588 7936 0.467384 AGAGGGCGATCAGGTTGATG 59.533 55.000 0.00 0.00 37.20 3.07
2589 7937 1.134280 CAAGAGGGCGATCAGGTTGAT 60.134 52.381 0.00 0.00 40.34 2.57
2590 7938 0.250234 CAAGAGGGCGATCAGGTTGA 59.750 55.000 0.00 0.00 0.00 3.18
2591 7939 0.745845 CCAAGAGGGCGATCAGGTTG 60.746 60.000 0.00 0.00 0.00 3.77
2592 7940 1.201429 ACCAAGAGGGCGATCAGGTT 61.201 55.000 0.00 0.00 42.05 3.50
2593 7941 1.201429 AACCAAGAGGGCGATCAGGT 61.201 55.000 0.00 0.00 42.05 4.00
2594 7942 0.830648 TAACCAAGAGGGCGATCAGG 59.169 55.000 0.00 0.00 42.05 3.86
2595 7943 2.555199 CTTAACCAAGAGGGCGATCAG 58.445 52.381 0.00 0.00 42.05 2.90
2596 7944 2.691409 CTTAACCAAGAGGGCGATCA 57.309 50.000 0.00 0.00 42.05 2.92


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

AutoCloner maintained by Alex Coulton.