Multiple sequence alignment - TraesCS7A01G470200

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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 TraesCS7A01G470200 chr7A 100.000 2355 0 0 1 2355 666591615 666589261 0.000000e+00 4349.0
1 TraesCS7A01G470200 chr7A 100.000 973 0 0 2582 3554 666589034 666588062 0.000000e+00 1797.0
2 TraesCS7A01G470200 chr7A 100.000 471 0 0 3844 4314 666587772 666587302 0.000000e+00 870.0
3 TraesCS7A01G470200 chr7A 88.119 606 40 21 660 1235 666507541 666506938 0.000000e+00 691.0
4 TraesCS7A01G470200 chr7A 78.161 696 116 27 2647 3332 666566209 666565540 1.120000e-110 411.0
5 TraesCS7A01G470200 chr7A 79.266 627 59 30 671 1245 666569158 666568551 5.270000e-99 372.0
6 TraesCS7A01G470200 chr7A 83.255 424 41 14 831 1246 666213695 666213294 3.170000e-96 363.0
7 TraesCS7A01G470200 chr7A 87.879 165 13 4 502 661 666507728 666507566 2.050000e-43 187.0
8 TraesCS7A01G470200 chr7A 88.281 128 13 2 1721 1846 666212677 666212550 7.470000e-33 152.0
9 TraesCS7A01G470200 chr7A 86.111 108 9 5 1542 1646 706897142 706897246 1.270000e-20 111.0
10 TraesCS7A01G470200 chr7A 91.667 72 6 0 2101 2172 666212287 666212216 2.750000e-17 100.0
11 TraesCS7A01G470200 chr7A 92.754 69 5 0 2104 2172 666505941 666505873 2.750000e-17 100.0
12 TraesCS7A01G470200 chr7A 84.314 102 13 3 1541 1641 43176093 43176192 3.550000e-16 97.1
13 TraesCS7A01G470200 chr7B 91.154 1447 69 23 955 2355 637951215 637949782 0.000000e+00 1908.0
14 TraesCS7A01G470200 chr7B 89.479 922 65 8 2647 3537 637949738 637948818 0.000000e+00 1136.0
15 TraesCS7A01G470200 chr7B 95.749 494 16 4 398 890 637960643 637960154 0.000000e+00 791.0
16 TraesCS7A01G470200 chr7B 87.924 472 44 5 3844 4314 637948323 637947864 1.060000e-150 544.0
17 TraesCS7A01G470200 chr7B 78.148 691 111 28 2647 3332 637914752 637914097 1.870000e-108 403.0
18 TraesCS7A01G470200 chr7B 88.356 292 14 6 676 967 637880025 637879754 2.490000e-87 333.0
19 TraesCS7A01G470200 chr7B 91.266 229 8 7 4 225 637961018 637960795 7.010000e-78 302.0
20 TraesCS7A01G470200 chr7B 83.630 281 31 11 505 774 637880594 637880318 2.580000e-62 250.0
21 TraesCS7A01G470200 chr7B 78.338 337 56 9 3007 3332 637822052 637821722 7.320000e-48 202.0
22 TraesCS7A01G470200 chr7B 86.391 169 13 7 1660 1821 637915547 637915382 4.430000e-40 176.0
23 TraesCS7A01G470200 chr7B 88.732 142 7 4 210 344 637960779 637960640 9.600000e-37 165.0
24 TraesCS7A01G470200 chr7B 73.878 490 78 34 1717 2172 637822881 637822408 2.690000e-32 150.0
25 TraesCS7A01G470200 chr7B 84.685 111 12 5 1541 1650 138724974 138724868 5.900000e-19 106.0
26 TraesCS7A01G470200 chr7B 93.651 63 2 2 777 837 637880216 637880154 4.590000e-15 93.5
27 TraesCS7A01G470200 chr7B 93.333 45 1 1 401 443 637824354 637824310 1.000000e-06 65.8
28 TraesCS7A01G470200 chr7D 90.410 1293 80 23 1 1271 575822283 575821013 0.000000e+00 1661.0
29 TraesCS7A01G470200 chr7D 90.729 960 61 3 2621 3552 575819545 575818586 0.000000e+00 1254.0
30 TraesCS7A01G470200 chr7D 92.844 559 27 7 1657 2204 575820548 575819992 0.000000e+00 798.0
31 TraesCS7A01G470200 chr7D 86.005 443 34 11 3873 4314 575818548 575818133 2.370000e-122 449.0
32 TraesCS7A01G470200 chr7D 83.128 486 37 19 777 1246 575692549 575692093 6.720000e-108 401.0
33 TraesCS7A01G470200 chr7D 77.699 704 109 35 2647 3332 575773055 575772382 1.880000e-103 387.0
34 TraesCS7A01G470200 chr7D 88.822 331 14 11 660 967 575744098 575743768 6.770000e-103 385.0
35 TraesCS7A01G470200 chr7D 85.616 292 23 10 955 1235 575743750 575743467 5.460000e-74 289.0
36 TraesCS7A01G470200 chr7D 95.726 117 4 1 2209 2325 575819942 575819827 2.050000e-43 187.0
37 TraesCS7A01G470200 chr7D 84.524 168 15 8 1661 1821 575773816 575773653 5.780000e-34 156.0
38 TraesCS7A01G470200 chr7D 80.660 212 26 7 117 320 575782133 575781929 2.690000e-32 150.0
39 TraesCS7A01G470200 chr7D 86.719 128 15 2 1721 1846 575691571 575691444 1.620000e-29 141.0
40 TraesCS7A01G470200 chr7D 83.448 145 21 2 1741 1885 575742629 575742488 9.730000e-27 132.0
41 TraesCS7A01G470200 chr7D 86.139 101 8 5 3 102 575782278 575782183 2.120000e-18 104.0
42 TraesCS7A01G470200 chr7D 91.667 72 6 0 2101 2172 575691175 575691104 2.750000e-17 100.0
43 TraesCS7A01G470200 chr7D 92.537 67 5 0 2106 2172 575742246 575742180 3.550000e-16 97.1
44 TraesCS7A01G470200 chr7D 95.556 45 0 1 401 443 575708914 575708870 2.150000e-08 71.3
45 TraesCS7A01G470200 chr2B 77.966 708 112 32 2630 3332 296288190 296288858 1.870000e-108 403.0
46 TraesCS7A01G470200 chr2B 86.391 169 13 7 1660 1821 296287408 296287573 4.430000e-40 176.0
47 TraesCS7A01G470200 chr4B 84.821 112 13 4 1541 1650 95880665 95880556 4.560000e-20 110.0
48 TraesCS7A01G470200 chr4B 82.143 112 16 4 1541 1650 654597496 654597387 4.590000e-15 93.5
49 TraesCS7A01G470200 chr4B 100.000 44 0 0 615 658 667945226 667945183 9.940000e-12 82.4
50 TraesCS7A01G470200 chr1A 88.043 92 9 2 1540 1631 16518571 16518482 1.640000e-19 108.0
51 TraesCS7A01G470200 chr5B 84.762 105 12 4 1541 1644 689949241 689949140 7.630000e-18 102.0
52 TraesCS7A01G470200 chr6B 84.466 103 13 3 1541 1641 4262059 4262160 9.870000e-17 99.0
53 TraesCS7A01G470200 chrUn 90.278 72 7 0 2101 2172 86902815 86902886 1.280000e-15 95.3
54 TraesCS7A01G470200 chr4D 85.714 91 10 3 2267 2355 115540755 115540844 4.590000e-15 93.5
55 TraesCS7A01G470200 chr4A 100.000 29 0 0 3963 3991 501637258 501637286 2.000000e-03 54.7


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 TraesCS7A01G470200 chr7A 666587302 666591615 4313 True 2338.666667 4349 100.000000 1 4314 3 chr7A.!!$R4 4313
1 TraesCS7A01G470200 chr7A 666565540 666569158 3618 True 391.500000 411 78.713500 671 3332 2 chr7A.!!$R3 2661
2 TraesCS7A01G470200 chr7A 666505873 666507728 1855 True 326.000000 691 89.584000 502 2172 3 chr7A.!!$R2 1670
3 TraesCS7A01G470200 chr7A 666212216 666213695 1479 True 205.000000 363 87.734333 831 2172 3 chr7A.!!$R1 1341
4 TraesCS7A01G470200 chr7B 637947864 637951215 3351 True 1196.000000 1908 89.519000 955 4314 3 chr7B.!!$R5 3359
5 TraesCS7A01G470200 chr7B 637960154 637961018 864 True 419.333333 791 91.915667 4 890 3 chr7B.!!$R6 886
6 TraesCS7A01G470200 chr7B 637914097 637915547 1450 True 289.500000 403 82.269500 1660 3332 2 chr7B.!!$R4 1672
7 TraesCS7A01G470200 chr7B 637879754 637880594 840 True 225.500000 333 88.545667 505 967 3 chr7B.!!$R3 462
8 TraesCS7A01G470200 chr7D 575818133 575822283 4150 True 869.800000 1661 91.142800 1 4314 5 chr7D.!!$R6 4313
9 TraesCS7A01G470200 chr7D 575772382 575773816 1434 True 271.500000 387 81.111500 1661 3332 2 chr7D.!!$R4 1671
10 TraesCS7A01G470200 chr7D 575742180 575744098 1918 True 225.775000 385 87.605750 660 2172 4 chr7D.!!$R3 1512
11 TraesCS7A01G470200 chr7D 575691104 575692549 1445 True 214.000000 401 87.171333 777 2172 3 chr7D.!!$R2 1395
12 TraesCS7A01G470200 chr2B 296287408 296288858 1450 False 289.500000 403 82.178500 1660 3332 2 chr2B.!!$F1 1672

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
317 363 0.867753 ATCGACATCTCAACGAGCGC 60.868 55.000 0.00 0.0 39.31 5.92 F
1134 1734 0.614979 AGAGGTGTCCGGCAGTACAT 60.615 55.000 0.00 0.0 0.00 2.29 F
1785 4280 0.401356 TCAGCTGATGGGCACAAAGA 59.599 50.000 13.74 0.0 34.17 2.52 F
1885 4592 1.285667 ACCCCATGCATCAGTGAATCA 59.714 47.619 0.00 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1259 1868 1.478631 ACCTCTGAGATGCATCGTCA 58.521 50.000 20.67 20.56 0.00 4.35 R
2332 5140 0.031616 TATTTTCATGGGGGTGGGCC 60.032 55.000 0.00 0.00 0.00 5.80 R
2606 5414 0.309922 CCTAGACGCGCCGAAGAATA 59.690 55.000 5.73 0.00 0.00 1.75 R
3446 6337 1.975407 CTCAGCAGGGTGGCAAAGG 60.975 63.158 0.00 0.00 35.83 3.11 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
130 135 8.905850 CAGCAATGGCCATATATACATATTCAA 58.094 33.333 21.15 0.00 42.56 2.69
263 302 8.307483 TCCTACTTCTCTGACTGAATTTAAGTG 58.693 37.037 0.00 0.00 0.00 3.16
264 303 8.091449 CCTACTTCTCTGACTGAATTTAAGTGT 58.909 37.037 0.00 0.00 0.00 3.55
317 363 0.867753 ATCGACATCTCAACGAGCGC 60.868 55.000 0.00 0.00 39.31 5.92
411 458 7.274603 ACGGATGGAGTACTATAGTTTTCTC 57.725 40.000 11.40 15.05 0.00 2.87
459 506 5.465724 ACGGAGAGTGTGACAGAAAATAAAC 59.534 40.000 0.00 0.00 0.00 2.01
523 572 4.516698 ACGTTGAACAAGCTTGAATCTCAT 59.483 37.500 32.50 10.16 0.00 2.90
1016 1608 4.582869 AGAAGCATCATCAGCTGTGTTTA 58.417 39.130 14.67 0.00 42.53 2.01
1120 1720 3.012274 TGAGAGGATTTGAGAGGAGAGGT 59.988 47.826 0.00 0.00 0.00 3.85
1134 1734 0.614979 AGAGGTGTCCGGCAGTACAT 60.615 55.000 0.00 0.00 0.00 2.29
1387 2663 1.163420 TCACAACCGCGTGCTTGATT 61.163 50.000 10.84 0.00 36.80 2.57
1395 2671 1.992667 CGCGTGCTTGATTTCTCTGTA 59.007 47.619 0.00 0.00 0.00 2.74
1521 3830 2.034104 TCTGCCATTCATCTGTGCTC 57.966 50.000 0.00 0.00 0.00 4.26
1522 3831 1.558294 TCTGCCATTCATCTGTGCTCT 59.442 47.619 0.00 0.00 0.00 4.09
1523 3832 1.941294 CTGCCATTCATCTGTGCTCTC 59.059 52.381 0.00 0.00 0.00 3.20
1524 3833 0.935898 GCCATTCATCTGTGCTCTCG 59.064 55.000 0.00 0.00 0.00 4.04
1525 3834 1.472201 GCCATTCATCTGTGCTCTCGA 60.472 52.381 0.00 0.00 0.00 4.04
1526 3835 2.471818 CCATTCATCTGTGCTCTCGAG 58.528 52.381 5.93 5.93 0.00 4.04
1539 3863 1.531578 CTCTCGAGTCTCGTCACAACA 59.468 52.381 21.15 0.00 41.35 3.33
1561 3885 4.729227 TTTTTGAGGGAAACAACAGGAC 57.271 40.909 0.00 0.00 0.00 3.85
1785 4280 0.401356 TCAGCTGATGGGCACAAAGA 59.599 50.000 13.74 0.00 34.17 2.52
1838 4512 3.386078 TCCAGATGTACAGATCAAGCTCC 59.614 47.826 0.33 0.00 0.00 4.70
1885 4592 1.285667 ACCCCATGCATCAGTGAATCA 59.714 47.619 0.00 0.00 0.00 2.57
1900 4607 6.820152 TCAGTGAATCATCGTCAAGATCATTT 59.180 34.615 0.00 0.00 37.52 2.32
1958 4695 4.227197 ACAGGATCGACATTCCCTCTTAT 58.773 43.478 0.00 0.00 33.45 1.73
2251 5056 5.966636 TGATTGTGTACATCGAGTAATGC 57.033 39.130 0.00 0.00 33.72 3.56
2274 5082 4.481368 ACTCACACAGACTGGTTGTTAA 57.519 40.909 7.51 0.00 0.00 2.01
2332 5140 1.347062 GAGATTAGGAGGGAGGCAGG 58.653 60.000 0.00 0.00 0.00 4.85
2606 5414 5.193679 GGGTAATTAGTGTTCAGATGCCTT 58.806 41.667 0.00 0.00 0.00 4.35
2607 5415 6.354130 GGGTAATTAGTGTTCAGATGCCTTA 58.646 40.000 0.00 0.00 0.00 2.69
2608 5416 6.998673 GGGTAATTAGTGTTCAGATGCCTTAT 59.001 38.462 0.00 0.00 0.00 1.73
2610 5418 8.560374 GGTAATTAGTGTTCAGATGCCTTATTC 58.440 37.037 0.00 0.00 0.00 1.75
2611 5419 9.331282 GTAATTAGTGTTCAGATGCCTTATTCT 57.669 33.333 0.00 0.00 0.00 2.40
2613 5421 7.849804 TTAGTGTTCAGATGCCTTATTCTTC 57.150 36.000 0.00 0.00 0.00 2.87
2614 5422 4.872691 AGTGTTCAGATGCCTTATTCTTCG 59.127 41.667 0.00 0.00 0.00 3.79
2615 5423 4.034510 GTGTTCAGATGCCTTATTCTTCGG 59.965 45.833 0.00 0.00 0.00 4.30
2616 5424 2.838736 TCAGATGCCTTATTCTTCGGC 58.161 47.619 0.00 0.00 44.02 5.54
2617 5425 1.528586 CAGATGCCTTATTCTTCGGCG 59.471 52.381 0.00 0.00 46.67 6.46
2618 5426 0.235926 GATGCCTTATTCTTCGGCGC 59.764 55.000 0.00 0.00 46.67 6.53
2619 5427 1.498865 ATGCCTTATTCTTCGGCGCG 61.499 55.000 0.00 0.00 46.67 6.86
2704 5513 8.193953 TGCAGAGATCAGGTGTAATTGATATA 57.806 34.615 0.00 0.00 34.33 0.86
2762 5571 8.807667 AAAAAGCTAGAGACAAACATGAATTG 57.192 30.769 0.00 7.08 0.00 2.32
3026 5911 0.386476 ACGTTGTTGTAGGCGACTGA 59.614 50.000 0.00 0.00 43.88 3.41
3034 5919 0.818296 GTAGGCGACTGACTGGTCAT 59.182 55.000 0.00 0.00 43.88 3.06
3036 5921 2.103042 GGCGACTGACTGGTCATGC 61.103 63.158 3.80 8.56 39.13 4.06
3172 6058 3.924013 ATGACCACCGAGGAGGCCA 62.924 63.158 5.01 1.11 46.52 5.36
3197 6083 1.774217 TGGCAAGGGGTCAAGGAGT 60.774 57.895 0.00 0.00 0.00 3.85
3198 6084 1.303643 GGCAAGGGGTCAAGGAGTG 60.304 63.158 0.00 0.00 0.00 3.51
3301 6187 6.463614 GCTCTGATGTGTTATCCATAACCTCT 60.464 42.308 6.94 0.00 41.41 3.69
3397 6284 7.771183 TCAATAGAAATGTGGGTTGCTTTATC 58.229 34.615 0.00 0.00 0.00 1.75
3435 6326 4.350368 TTGGTCTAGTTGATGAACTGCA 57.650 40.909 7.92 0.00 42.66 4.41
3436 6327 4.350368 TGGTCTAGTTGATGAACTGCAA 57.650 40.909 7.92 0.00 42.66 4.08
3446 6337 0.459489 TGAACTGCAACACCTTTGCC 59.541 50.000 6.53 0.00 44.32 4.52
3471 6362 1.522355 CACCCTGCTGAGCATACCG 60.522 63.158 7.94 0.00 38.13 4.02
3491 6382 5.048507 ACCGGAATCGCTAATCTTCTTAAC 58.951 41.667 9.46 0.00 34.56 2.01
3501 6392 7.979537 TCGCTAATCTTCTTAACTGCAAGATTA 59.020 33.333 12.08 12.08 42.48 1.75
3530 6421 8.325787 TCCTTTCTGACCAAGTATTATTTAGCA 58.674 33.333 0.00 0.00 0.00 3.49
3548 6439 8.937634 ATTTAGCATGAAGTTGAATTTCATCC 57.062 30.769 12.23 4.76 41.91 3.51
3552 6443 7.713750 AGCATGAAGTTGAATTTCATCCTATG 58.286 34.615 12.23 5.09 41.91 2.23
3931 7010 4.862574 TCATGGTAGTTTCGACAAAGATCG 59.137 41.667 0.00 0.00 43.63 3.69
4024 7103 2.359981 GACCCAAAACCTATAGGGGC 57.640 55.000 22.91 2.94 45.83 5.80
4080 7160 2.978156 AATCATGAAGTGGTGGTGGT 57.022 45.000 0.00 0.00 0.00 4.16
4088 7168 0.112995 AGTGGTGGTGGTGCATTCAT 59.887 50.000 0.00 0.00 0.00 2.57
4092 7172 2.025510 TGGTGGTGGTGCATTCATCATA 60.026 45.455 8.80 0.87 35.49 2.15
4133 7213 4.873827 TGGCTTAAACTCGTAATGGCTTAG 59.126 41.667 0.00 0.00 0.00 2.18
4137 7217 6.313164 GCTTAAACTCGTAATGGCTTAGACTT 59.687 38.462 0.00 0.00 0.00 3.01
4160 7240 5.083122 TCAAATGGCCAAGTATTTTCCTGA 58.917 37.500 10.96 0.00 0.00 3.86
4161 7241 5.047377 TCAAATGGCCAAGTATTTTCCTGAC 60.047 40.000 10.96 0.00 0.00 3.51
4162 7242 2.432444 TGGCCAAGTATTTTCCTGACG 58.568 47.619 0.61 0.00 0.00 4.35
4163 7243 2.224670 TGGCCAAGTATTTTCCTGACGT 60.225 45.455 0.61 0.00 0.00 4.34
4164 7244 2.161609 GGCCAAGTATTTTCCTGACGTG 59.838 50.000 0.00 0.00 0.00 4.49
4165 7245 2.161609 GCCAAGTATTTTCCTGACGTGG 59.838 50.000 0.00 2.37 43.19 4.94
4166 7246 3.408634 CCAAGTATTTTCCTGACGTGGT 58.591 45.455 0.00 0.00 37.77 4.16
4167 7247 3.435671 CCAAGTATTTTCCTGACGTGGTC 59.564 47.826 0.00 0.00 37.77 4.02
4168 7248 3.329929 AGTATTTTCCTGACGTGGTCC 57.670 47.619 0.00 0.00 0.00 4.46
4187 7267 1.382522 CACGTGGATCCCTTGAATGG 58.617 55.000 9.90 0.00 0.00 3.16
4197 7277 2.580322 TCCCTTGAATGGCAATCCTACA 59.420 45.455 0.00 0.00 35.59 2.74
4242 7322 7.889873 TCTGGAAATCTTTGGTTAAAGTTCA 57.110 32.000 0.00 0.00 43.04 3.18
4251 7331 9.865321 ATCTTTGGTTAAAGTTCATGATGAATG 57.135 29.630 11.46 0.00 43.04 2.67
4258 7338 4.847365 AGTTCATGATGAATGTCGTTCG 57.153 40.909 11.46 0.00 38.79 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
62 63 7.871853 AGCATGTGGAAACGTATATATTTTCC 58.128 34.615 21.45 21.45 45.85 3.13
130 135 4.846779 AACCAAACGCATGTAGTGAATT 57.153 36.364 0.00 0.00 0.00 2.17
263 302 6.303496 CGTAGAGTTGACTGCATTCGATATAC 59.697 42.308 0.00 1.65 0.00 1.47
264 303 6.017357 ACGTAGAGTTGACTGCATTCGATATA 60.017 38.462 0.00 0.00 0.00 0.86
265 304 5.215903 CGTAGAGTTGACTGCATTCGATAT 58.784 41.667 0.00 0.00 0.00 1.63
273 312 1.875514 ACGTACGTAGAGTTGACTGCA 59.124 47.619 21.41 0.00 0.00 4.41
317 363 1.382522 AGCAACATTCGTATGGCCTG 58.617 50.000 3.32 0.00 36.01 4.85
361 407 6.150474 CCAAAATAAGTGACCCGACTTTGTAT 59.850 38.462 0.00 0.00 37.38 2.29
411 458 4.143389 CGCTAGGTTTGACAAACTTACTCG 60.143 45.833 25.92 21.04 41.14 4.18
459 506 3.861569 AGAAAAGAAAACGTCTCAGCG 57.138 42.857 0.00 0.00 34.56 5.18
523 572 4.478699 CAAGACGTTGTCCACTTCGTATA 58.521 43.478 0.00 0.00 36.67 1.47
1016 1608 3.850173 TCCCAAACCCAAGCTTCTAGTAT 59.150 43.478 0.00 0.00 0.00 2.12
1120 1720 2.889617 CGGATGTACTGCCGGACA 59.110 61.111 5.05 0.00 43.67 4.02
1258 1867 1.827344 ACCTCTGAGATGCATCGTCAA 59.173 47.619 20.67 13.01 0.00 3.18
1259 1868 1.478631 ACCTCTGAGATGCATCGTCA 58.521 50.000 20.67 20.56 0.00 4.35
1260 1869 3.932545 ATACCTCTGAGATGCATCGTC 57.067 47.619 20.67 17.49 0.00 4.20
1264 1873 7.492077 TGATCATAATACCTCTGAGATGCAT 57.508 36.000 6.17 0.00 0.00 3.96
1410 2686 6.945218 TGCCAAAGTGAGCCAATATTAAATT 58.055 32.000 0.00 0.00 0.00 1.82
1411 2687 6.543430 TGCCAAAGTGAGCCAATATTAAAT 57.457 33.333 0.00 0.00 0.00 1.40
1436 2712 2.029844 GCAGGTCCGCTGTCACTTC 61.030 63.158 0.00 0.00 0.00 3.01
1521 3830 2.620779 ATGTTGTGACGAGACTCGAG 57.379 50.000 30.56 11.84 43.74 4.04
1522 3831 3.364889 AAATGTTGTGACGAGACTCGA 57.635 42.857 30.56 7.04 43.74 4.04
1523 3832 4.026062 TCAAAAATGTTGTGACGAGACTCG 60.026 41.667 22.97 22.97 46.93 4.18
1524 3833 5.403897 TCAAAAATGTTGTGACGAGACTC 57.596 39.130 0.00 0.00 0.00 3.36
1525 3834 4.273480 CCTCAAAAATGTTGTGACGAGACT 59.727 41.667 0.00 0.00 0.00 3.24
1526 3835 4.527564 CCTCAAAAATGTTGTGACGAGAC 58.472 43.478 0.00 0.00 0.00 3.36
1539 3863 4.962362 AGTCCTGTTGTTTCCCTCAAAAAT 59.038 37.500 0.00 0.00 0.00 1.82
1561 3885 7.975866 AAATCAATAAAAATACGCAGCAGAG 57.024 32.000 0.00 0.00 0.00 3.35
1785 4280 7.925483 GCTTTTGATGTGAGATATACTGACTCT 59.075 37.037 0.00 0.00 33.98 3.24
1849 4529 4.645921 GTGGGTTGTTGCCGCTGC 62.646 66.667 0.00 0.00 38.26 5.25
1854 4534 2.203773 ATGGGGTGGGTTGTTGCC 60.204 61.111 0.00 0.00 0.00 4.52
1885 4592 5.407691 CCATCGATGAAATGATCTTGACGAT 59.592 40.000 26.86 0.00 38.22 3.73
1931 4665 2.223923 GGGAATGTCGATCCTGTCTGAG 60.224 54.545 3.65 0.00 37.14 3.35
1958 4695 3.334751 CCGCGACGAAACACAGCA 61.335 61.111 8.23 0.00 0.00 4.41
2084 4837 4.313282 TGCACAATGAGATAGCTAGCATC 58.687 43.478 18.83 16.65 0.00 3.91
2251 5056 3.735237 ACAACCAGTCTGTGTGAGTAG 57.265 47.619 6.94 0.00 0.00 2.57
2261 5069 5.073144 TCCTTGAATCCTTAACAACCAGTCT 59.927 40.000 0.00 0.00 0.00 3.24
2274 5082 7.062957 CCACCTAATTACAATCCTTGAATCCT 58.937 38.462 0.00 0.00 0.00 3.24
2332 5140 0.031616 TATTTTCATGGGGGTGGGCC 60.032 55.000 0.00 0.00 0.00 5.80
2584 5392 8.451908 AATAAGGCATCTGAACACTAATTACC 57.548 34.615 0.00 0.00 0.00 2.85
2585 5393 9.331282 AGAATAAGGCATCTGAACACTAATTAC 57.669 33.333 0.00 0.00 0.00 1.89
2593 5401 4.191544 CCGAAGAATAAGGCATCTGAACA 58.808 43.478 0.00 0.00 0.00 3.18
2606 5414 0.309922 CCTAGACGCGCCGAAGAATA 59.690 55.000 5.73 0.00 0.00 1.75
2607 5415 1.065928 CCTAGACGCGCCGAAGAAT 59.934 57.895 5.73 0.00 0.00 2.40
2608 5416 1.381928 ATCCTAGACGCGCCGAAGAA 61.382 55.000 5.73 0.00 0.00 2.52
2610 5418 0.309922 TAATCCTAGACGCGCCGAAG 59.690 55.000 5.73 0.00 0.00 3.79
2611 5419 0.956633 ATAATCCTAGACGCGCCGAA 59.043 50.000 5.73 0.00 0.00 4.30
2613 5421 1.060713 CAATAATCCTAGACGCGCCG 58.939 55.000 5.73 0.00 0.00 6.46
2614 5422 2.150397 ACAATAATCCTAGACGCGCC 57.850 50.000 5.73 0.00 0.00 6.53
2615 5423 2.864343 ACAACAATAATCCTAGACGCGC 59.136 45.455 5.73 0.00 0.00 6.86
2616 5424 5.038683 TGTACAACAATAATCCTAGACGCG 58.961 41.667 3.53 3.53 0.00 6.01
2617 5425 6.924060 AGATGTACAACAATAATCCTAGACGC 59.076 38.462 0.00 0.00 0.00 5.19
2618 5426 8.873215 AAGATGTACAACAATAATCCTAGACG 57.127 34.615 0.00 0.00 0.00 4.18
2658 5467 1.202371 TCAACACGACGTCAAGAGCTT 60.202 47.619 17.16 0.00 0.00 3.74
2804 5613 5.964958 TTTGCTTCCTCTAGATTTGTTGG 57.035 39.130 0.00 0.00 0.00 3.77
2849 5658 6.874134 GCATGTATAGTGGATGGTAAGTAAGG 59.126 42.308 0.00 0.00 0.00 2.69
3172 6058 3.628646 GACCCCTTGCCAGCACGAT 62.629 63.158 0.00 0.00 0.00 3.73
3397 6284 3.074412 ACCAAAGGATTAGTCAACTGCG 58.926 45.455 0.00 0.00 0.00 5.18
3446 6337 1.975407 CTCAGCAGGGTGGCAAAGG 60.975 63.158 0.00 0.00 35.83 3.11
3471 6362 5.523916 TGCAGTTAAGAAGATTAGCGATTCC 59.476 40.000 0.00 0.00 0.00 3.01
3491 6382 5.123027 GGTCAGAAAGGAACTAATCTTGCAG 59.877 44.000 0.00 0.00 38.49 4.41
3952 7031 9.146984 CGGTATTTCTTCTTGTTGTCTATTGTA 57.853 33.333 0.00 0.00 0.00 2.41
3955 7034 9.449719 AATCGGTATTTCTTCTTGTTGTCTATT 57.550 29.630 0.00 0.00 0.00 1.73
4019 7098 0.032615 TTTTAATGATGCCCGCCCCT 60.033 50.000 0.00 0.00 0.00 4.79
4024 7103 2.654863 AGGAGGTTTTAATGATGCCCG 58.345 47.619 0.00 0.00 0.00 6.13
4080 7160 4.136051 TGAGGCGAATTATGATGAATGCA 58.864 39.130 0.00 0.00 0.00 3.96
4088 7168 5.527214 CCATAACACTTGAGGCGAATTATGA 59.473 40.000 0.00 0.00 32.68 2.15
4092 7172 2.423538 GCCATAACACTTGAGGCGAATT 59.576 45.455 0.00 0.00 35.42 2.17
4133 7213 5.869344 GGAAAATACTTGGCCATTTGAAGTC 59.131 40.000 6.09 0.00 32.27 3.01
4137 7217 5.047377 GTCAGGAAAATACTTGGCCATTTGA 60.047 40.000 6.09 0.00 0.00 2.69
4167 7247 1.382522 CATTCAAGGGATCCACGTGG 58.617 55.000 29.26 29.26 0.00 4.94
4168 7248 1.382522 CCATTCAAGGGATCCACGTG 58.617 55.000 15.23 9.08 0.00 4.49
4197 7277 2.059756 TTTGGATTCTGGACCCTCCT 57.940 50.000 0.00 0.00 37.46 3.69
4234 7314 6.672118 GCGAACGACATTCATCATGAACTTTA 60.672 38.462 0.98 0.00 39.45 1.85
4242 7322 1.935873 CCAGCGAACGACATTCATCAT 59.064 47.619 0.00 0.00 37.12 2.45
4251 7331 2.032377 TCAAATTTGACCAGCGAACGAC 60.032 45.455 16.91 0.00 31.01 4.34
4258 7338 3.084786 ACTAGCCTCAAATTTGACCAGC 58.915 45.455 16.91 18.00 32.90 4.85


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

AutoCloner maintained by Alex Coulton.