Multiple sequence alignment - TraesCS5D01G285400

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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 TraesCS5D01G285400 chr5D 100.000 2261 0 0 1 2261 386036851 386034591 0.000000e+00 4176.0
1 TraesCS5D01G285400 chr5D 87.287 1290 71 38 339 1583 385979187 385977946 0.000000e+00 1387.0
2 TraesCS5D01G285400 chr5D 92.359 602 34 4 722 1311 386067667 386067066 0.000000e+00 846.0
3 TraesCS5D01G285400 chr5D 91.844 564 31 6 17 578 386100261 386100811 0.000000e+00 773.0
4 TraesCS5D01G285400 chr5D 90.485 536 36 6 788 1311 386058317 386057785 0.000000e+00 693.0
5 TraesCS5D01G285400 chr5D 88.809 554 50 5 1609 2151 386066485 386065933 0.000000e+00 669.0
6 TraesCS5D01G285400 chr5D 87.847 576 34 5 763 1308 386046328 386045759 0.000000e+00 643.0
7 TraesCS5D01G285400 chr5D 84.381 557 62 15 1609 2152 386057129 386056585 7.160000e-145 523.0
8 TraesCS5D01G285400 chr5D 84.335 549 59 12 1609 2150 385977959 385977431 1.550000e-141 512.0
9 TraesCS5D01G285400 chr5D 93.898 295 15 1 198 492 386046615 386046324 2.060000e-120 442.0
10 TraesCS5D01G285400 chr5D 86.408 412 25 15 73 480 386061075 386060691 2.690000e-114 422.0
11 TraesCS5D01G285400 chr5D 89.873 158 11 4 96 253 386046802 386046650 4.930000e-47 198.0
12 TraesCS5D01G285400 chr5A 84.593 1363 93 58 299 1586 487919348 487918028 0.000000e+00 1245.0
13 TraesCS5D01G285400 chr5A 89.028 638 42 11 723 1345 487949249 487948625 0.000000e+00 765.0
14 TraesCS5D01G285400 chr5A 89.241 632 31 8 724 1334 488009150 488008535 0.000000e+00 756.0
15 TraesCS5D01G285400 chr5A 88.312 616 42 14 17 615 488016480 488017082 0.000000e+00 712.0
16 TraesCS5D01G285400 chr5A 87.697 634 43 10 788 1395 487985127 487984503 0.000000e+00 706.0
17 TraesCS5D01G285400 chr5A 84.728 753 41 21 870 1563 487925069 487924332 0.000000e+00 686.0
18 TraesCS5D01G285400 chr5A 88.267 554 51 6 1609 2151 488007951 488007401 0.000000e+00 651.0
19 TraesCS5D01G285400 chr5A 85.091 550 49 16 1611 2152 487983982 487983458 4.280000e-147 531.0
20 TraesCS5D01G285400 chr5A 88.025 476 20 11 75 549 487943404 487942965 1.540000e-146 529.0
21 TraesCS5D01G285400 chr5A 83.681 576 61 12 1609 2153 487947392 487946819 1.550000e-141 512.0
22 TraesCS5D01G285400 chr5A 86.631 374 32 10 1609 1977 487918044 487917684 4.520000e-107 398.0
23 TraesCS5D01G285400 chr5A 87.387 333 25 8 128 458 487985532 487985215 1.280000e-97 366.0
24 TraesCS5D01G285400 chr5A 88.087 277 13 8 17 293 487919649 487919393 6.060000e-81 311.0
25 TraesCS5D01G285400 chr5A 79.264 516 53 30 1762 2261 487924110 487923633 6.060000e-81 311.0
26 TraesCS5D01G285400 chr5A 89.756 205 12 5 1386 1586 487947575 487947376 1.040000e-63 254.0
27 TraesCS5D01G285400 chr5A 79.930 284 18 15 560 825 487925343 487925081 2.990000e-39 172.0
28 TraesCS5D01G285400 chr5A 91.089 101 7 1 2163 2261 487946835 487946735 3.920000e-28 135.0
29 TraesCS5D01G285400 chr5B 82.292 1248 94 55 423 1583 463919274 463918067 0.000000e+00 963.0
30 TraesCS5D01G285400 chr5B 92.893 605 33 2 722 1316 463945365 463944761 0.000000e+00 870.0
31 TraesCS5D01G285400 chr5B 90.351 570 39 8 17 584 463969842 463970397 0.000000e+00 734.0
32 TraesCS5D01G285400 chr5B 87.400 627 33 19 734 1345 463912640 463912045 0.000000e+00 678.0
33 TraesCS5D01G285400 chr5B 87.342 553 55 8 1609 2153 463918080 463917535 8.870000e-174 619.0
34 TraesCS5D01G285400 chr5B 86.413 552 55 10 1609 2148 463937268 463936725 9.000000e-164 586.0
35 TraesCS5D01G285400 chr5B 83.932 529 63 12 1637 2150 463911738 463911217 9.390000e-134 486.0
36 TraesCS5D01G285400 chr5B 88.000 400 32 7 96 492 463938350 463937964 2.050000e-125 459.0
37 TraesCS5D01G285400 chr5B 91.463 328 26 2 1609 1935 463944170 463943844 1.230000e-122 449.0
38 TraesCS5D01G285400 chr5B 86.486 296 20 10 138 425 463920885 463920602 7.840000e-80 307.0
39 TraesCS5D01G285400 chr5B 91.099 191 10 2 1396 1586 463911922 463911739 3.730000e-63 252.0
40 TraesCS5D01G285400 chr5B 90.698 129 8 2 1458 1586 463937376 463937252 3.860000e-38 169.0
41 TraesCS5D01G285400 chr5B 80.478 251 19 21 413 642 463912933 463912692 5.000000e-37 165.0
42 TraesCS5D01G285400 chr5B 91.089 101 6 2 2163 2261 463917551 463917452 1.410000e-27 134.0
43 TraesCS5D01G285400 chr5B 93.671 79 3 1 2183 2259 463936723 463936645 1.420000e-22 117.0
44 TraesCS5D01G285400 chr3D 91.176 68 6 0 1609 1676 334161690 334161623 2.390000e-15 93.5


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 TraesCS5D01G285400 chr5D 386034591 386036851 2260 True 4176.000000 4176 100.000000 1 2261 1 chr5D.!!$R1 2260
1 TraesCS5D01G285400 chr5D 385977431 385979187 1756 True 949.500000 1387 85.811000 339 2150 2 chr5D.!!$R2 1811
2 TraesCS5D01G285400 chr5D 386100261 386100811 550 False 773.000000 773 91.844000 17 578 1 chr5D.!!$F1 561
3 TraesCS5D01G285400 chr5D 386065933 386067667 1734 True 757.500000 846 90.584000 722 2151 2 chr5D.!!$R5 1429
4 TraesCS5D01G285400 chr5D 386056585 386061075 4490 True 546.000000 693 87.091333 73 2152 3 chr5D.!!$R4 2079
5 TraesCS5D01G285400 chr5D 386045759 386046802 1043 True 427.666667 643 90.539333 96 1308 3 chr5D.!!$R3 1212
6 TraesCS5D01G285400 chr5A 488016480 488017082 602 False 712.000000 712 88.312000 17 615 1 chr5A.!!$F1 598
7 TraesCS5D01G285400 chr5A 488007401 488009150 1749 True 703.500000 756 88.754000 724 2151 2 chr5A.!!$R4 1427
8 TraesCS5D01G285400 chr5A 487983458 487985532 2074 True 534.333333 706 86.725000 128 2152 3 chr5A.!!$R3 2024
9 TraesCS5D01G285400 chr5A 487917684 487925343 7659 True 520.500000 1245 83.872167 17 2261 6 chr5A.!!$R1 2244
10 TraesCS5D01G285400 chr5A 487942965 487949249 6284 True 439.000000 765 88.315800 75 2261 5 chr5A.!!$R2 2186
11 TraesCS5D01G285400 chr5B 463969842 463970397 555 False 734.000000 734 90.351000 17 584 1 chr5B.!!$F1 567
12 TraesCS5D01G285400 chr5B 463943844 463945365 1521 True 659.500000 870 92.178000 722 1935 2 chr5B.!!$R4 1213
13 TraesCS5D01G285400 chr5B 463917452 463920885 3433 True 505.750000 963 86.802250 138 2261 4 chr5B.!!$R2 2123
14 TraesCS5D01G285400 chr5B 463911217 463912933 1716 True 395.250000 678 85.727250 413 2150 4 chr5B.!!$R1 1737
15 TraesCS5D01G285400 chr5B 463936645 463938350 1705 True 332.750000 586 89.695500 96 2259 4 chr5B.!!$R3 2163

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
714 10275 0.251916 TTCCCAGGCGATCGTTGATT 59.748 50.0 17.81 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1786 13010 0.251033 AGCATCAGCAAGACCAAGCA 60.251 50.0 0.0 0.0 45.49 3.91 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
82 5761 2.851104 GAACGTACACGCAGCCAC 59.149 61.111 0.85 0.00 44.43 5.01
83 5762 2.663852 AACGTACACGCAGCCACC 60.664 61.111 0.85 0.00 44.43 4.61
184 5866 1.404843 GAATCCAGGCGGTCTCTACT 58.595 55.000 0.00 0.00 0.00 2.57
185 5867 1.338655 GAATCCAGGCGGTCTCTACTC 59.661 57.143 0.00 0.00 0.00 2.59
186 5868 0.553819 ATCCAGGCGGTCTCTACTCT 59.446 55.000 0.00 0.00 0.00 3.24
187 5869 1.210538 TCCAGGCGGTCTCTACTCTA 58.789 55.000 0.00 0.00 0.00 2.43
190 5872 2.577700 CAGGCGGTCTCTACTCTACAT 58.422 52.381 0.00 0.00 0.00 2.29
193 5875 2.550606 GGCGGTCTCTACTCTACATCAG 59.449 54.545 0.00 0.00 0.00 2.90
195 5877 3.472652 CGGTCTCTACTCTACATCAGCT 58.527 50.000 0.00 0.00 0.00 4.24
196 5878 4.633175 CGGTCTCTACTCTACATCAGCTA 58.367 47.826 0.00 0.00 0.00 3.32
265 6044 1.408127 CCCAATCCTGATGTGCCGTAA 60.408 52.381 0.00 0.00 0.00 3.18
286 6065 4.855715 AATTATTCTCTCGGCTCGATCA 57.144 40.909 0.00 0.00 34.61 2.92
296 6075 2.418976 TCGGCTCGATCATTCCTATACG 59.581 50.000 0.00 0.00 0.00 3.06
642 10201 4.175516 TGCTGCAAGTTCAAGAAAACAAG 58.824 39.130 0.00 0.00 35.30 3.16
645 10204 5.220284 GCTGCAAGTTCAAGAAAACAAGAAC 60.220 40.000 0.00 0.00 40.37 3.01
696 10257 4.404507 CGTGGATCGTTGATTCTTTGTT 57.595 40.909 0.00 0.00 34.52 2.83
697 10258 4.394795 CGTGGATCGTTGATTCTTTGTTC 58.605 43.478 0.00 0.00 34.52 3.18
698 10259 4.669197 CGTGGATCGTTGATTCTTTGTTCC 60.669 45.833 0.00 0.00 34.52 3.62
699 10260 3.756434 TGGATCGTTGATTCTTTGTTCCC 59.244 43.478 0.00 0.00 0.00 3.97
700 10261 3.756434 GGATCGTTGATTCTTTGTTCCCA 59.244 43.478 0.00 0.00 0.00 4.37
701 10262 4.142600 GGATCGTTGATTCTTTGTTCCCAG 60.143 45.833 0.00 0.00 0.00 4.45
704 10265 1.533625 TGATTCTTTGTTCCCAGGCG 58.466 50.000 0.00 0.00 0.00 5.52
707 10268 1.821216 TTCTTTGTTCCCAGGCGATC 58.179 50.000 0.00 0.00 0.00 3.69
708 10269 0.391130 TCTTTGTTCCCAGGCGATCG 60.391 55.000 11.69 11.69 0.00 3.69
709 10270 0.673644 CTTTGTTCCCAGGCGATCGT 60.674 55.000 17.81 0.00 0.00 3.73
712 10273 1.079405 GTTCCCAGGCGATCGTTGA 60.079 57.895 17.81 3.70 0.00 3.18
714 10275 0.251916 TTCCCAGGCGATCGTTGATT 59.748 50.000 17.81 0.00 0.00 2.57
726 10287 4.436050 CGATCGTTGATTCTTTGTTCCCAG 60.436 45.833 7.03 0.00 0.00 4.45
807 10425 7.609097 TCAGAATCTAATTAGCCTCACTGAT 57.391 36.000 7.67 0.00 0.00 2.90
820 10438 3.201290 CTCACTGATCTTTCAATCCCCG 58.799 50.000 0.00 0.00 0.00 5.73
858 10495 1.179152 TACCATTCGAGCGACAAGGA 58.821 50.000 10.23 0.00 0.00 3.36
910 10548 3.423154 GGGCACCGAAGAAGCACG 61.423 66.667 0.00 0.00 40.86 5.34
1242 10946 0.893727 CCAAGTACAACACCCAGGGC 60.894 60.000 4.91 0.00 0.00 5.19
1243 10947 0.893727 CAAGTACAACACCCAGGGCC 60.894 60.000 4.91 0.00 0.00 5.80
1244 10948 2.359478 GTACAACACCCAGGGCCG 60.359 66.667 4.91 0.00 0.00 6.13
1245 10949 3.642503 TACAACACCCAGGGCCGG 61.643 66.667 4.91 0.00 0.00 6.13
1279 10986 5.118990 ACTGATTCATCAATCAAGGTACCG 58.881 41.667 6.18 0.00 46.35 4.02
1451 12612 2.694628 GGCATGCATGTTTCTCCCATTA 59.305 45.455 26.79 0.00 0.00 1.90
1464 12625 7.387397 TGTTTCTCCCATTAAAATGCAAATGTC 59.613 33.333 7.80 0.00 35.08 3.06
1465 12626 6.602410 TCTCCCATTAAAATGCAAATGTCA 57.398 33.333 7.80 0.00 35.08 3.58
1466 12627 7.002250 TCTCCCATTAAAATGCAAATGTCAA 57.998 32.000 7.80 0.00 35.08 3.18
1498 12661 7.231467 AGCCCAGTTCTAAATTTGAGAAGTTA 58.769 34.615 0.00 0.00 34.94 2.24
1537 12705 6.377327 CAAGGTACATCTCTTGTTGTTGTT 57.623 37.500 0.00 0.00 39.87 2.83
1538 12706 6.201517 CAAGGTACATCTCTTGTTGTTGTTG 58.798 40.000 0.00 0.00 39.87 3.33
1569 12741 4.879598 AGGAGCAAAGCTTCTGAATTTTG 58.120 39.130 16.73 16.73 43.77 2.44
1570 12742 4.586001 AGGAGCAAAGCTTCTGAATTTTGA 59.414 37.500 21.66 0.00 43.77 2.69
1571 12743 5.069516 AGGAGCAAAGCTTCTGAATTTTGAA 59.930 36.000 21.66 0.00 43.77 2.69
1572 12744 5.404667 GGAGCAAAGCTTCTGAATTTTGAAG 59.595 40.000 21.66 13.64 39.88 3.02
1573 12745 6.152932 AGCAAAGCTTCTGAATTTTGAAGA 57.847 33.333 21.66 2.45 41.38 2.87
1574 12746 6.756221 AGCAAAGCTTCTGAATTTTGAAGAT 58.244 32.000 21.66 13.16 41.38 2.40
1575 12747 6.867293 AGCAAAGCTTCTGAATTTTGAAGATC 59.133 34.615 21.66 10.31 41.38 2.75
1576 12748 6.090493 GCAAAGCTTCTGAATTTTGAAGATCC 59.910 38.462 21.66 7.17 41.38 3.36
1577 12749 7.376615 CAAAGCTTCTGAATTTTGAAGATCCT 58.623 34.615 19.14 8.72 41.38 3.24
1578 12750 6.512342 AGCTTCTGAATTTTGAAGATCCTG 57.488 37.500 19.14 1.01 41.38 3.86
1579 12751 5.100943 GCTTCTGAATTTTGAAGATCCTGC 58.899 41.667 19.14 5.80 41.38 4.85
1580 12752 5.336213 GCTTCTGAATTTTGAAGATCCTGCA 60.336 40.000 19.14 0.00 41.38 4.41
1581 12753 6.653526 TTCTGAATTTTGAAGATCCTGCAA 57.346 33.333 0.00 0.00 0.00 4.08
1582 12754 6.653526 TCTGAATTTTGAAGATCCTGCAAA 57.346 33.333 0.00 0.00 37.24 3.68
1583 12755 6.684686 TCTGAATTTTGAAGATCCTGCAAAG 58.315 36.000 0.97 0.00 39.77 2.77
1584 12756 6.491062 TCTGAATTTTGAAGATCCTGCAAAGA 59.509 34.615 0.97 0.00 39.77 2.52
1585 12757 6.684686 TGAATTTTGAAGATCCTGCAAAGAG 58.315 36.000 0.97 0.00 39.77 2.85
1586 12758 4.510038 TTTTGAAGATCCTGCAAAGAGC 57.490 40.909 0.97 0.00 39.77 4.09
1587 12759 3.430042 TTGAAGATCCTGCAAAGAGCT 57.570 42.857 0.00 0.00 45.94 4.09
1588 12760 3.430042 TGAAGATCCTGCAAAGAGCTT 57.570 42.857 14.76 14.76 42.38 3.74
1589 12761 3.759581 TGAAGATCCTGCAAAGAGCTTT 58.240 40.909 15.67 3.27 39.92 3.51
1590 12762 3.755378 TGAAGATCCTGCAAAGAGCTTTC 59.245 43.478 15.67 10.64 39.92 2.62
1591 12763 2.720915 AGATCCTGCAAAGAGCTTTCC 58.279 47.619 0.00 0.00 45.94 3.13
1592 12764 2.040813 AGATCCTGCAAAGAGCTTTCCA 59.959 45.455 0.00 0.00 45.94 3.53
1593 12765 2.592102 TCCTGCAAAGAGCTTTCCAT 57.408 45.000 0.00 0.00 45.94 3.41
1594 12766 2.440409 TCCTGCAAAGAGCTTTCCATC 58.560 47.619 0.00 0.00 45.94 3.51
1595 12767 2.165167 CCTGCAAAGAGCTTTCCATCA 58.835 47.619 0.00 0.00 45.94 3.07
1596 12768 2.559668 CCTGCAAAGAGCTTTCCATCAA 59.440 45.455 0.00 0.00 45.94 2.57
1597 12769 3.006110 CCTGCAAAGAGCTTTCCATCAAA 59.994 43.478 0.00 0.00 45.94 2.69
1598 12770 4.501915 CCTGCAAAGAGCTTTCCATCAAAA 60.502 41.667 0.00 0.00 45.94 2.44
1599 12771 5.021033 TGCAAAGAGCTTTCCATCAAAAA 57.979 34.783 0.00 0.00 45.94 1.94
1698 12902 8.932791 GCAAGCATAATTATGTACCGTATAACT 58.067 33.333 23.14 7.87 36.11 2.24
1786 13010 5.852282 AGGTTTGTAAGCAAATCAAGTGT 57.148 34.783 6.18 0.00 45.55 3.55
1799 13023 1.027357 CAAGTGTGCTTGGTCTTGCT 58.973 50.000 0.00 0.00 46.17 3.91
1802 13026 1.202855 AGTGTGCTTGGTCTTGCTGAT 60.203 47.619 0.00 0.00 0.00 2.90
1842 13066 7.039313 TCATTGCGTACAGTATTACTCATCT 57.961 36.000 0.00 0.00 0.00 2.90
1884 13120 5.456921 ACATCTGTGATGTAAATCCCCTT 57.543 39.130 10.98 0.00 0.00 3.95
1888 13124 5.751586 TCTGTGATGTAAATCCCCTTTACC 58.248 41.667 5.64 0.00 45.77 2.85
1936 13172 7.885922 TGTGCTTGGTAGAATATTCCTGTTTTA 59.114 33.333 11.92 0.00 0.00 1.52
1939 13182 8.568794 GCTTGGTAGAATATTCCTGTTTTATCC 58.431 37.037 11.92 3.11 0.00 2.59
2081 13336 6.204108 CCTCCGTTTTATTTATTCCGCATAGT 59.796 38.462 0.00 0.00 0.00 2.12
2235 13492 1.937223 TCTTTTCGAACAGCTTTCGCA 59.063 42.857 19.58 10.98 41.30 5.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.618837 CAGAAACTCCCCACGAAGAGA 59.381 52.381 0.00 0.00 34.13 3.10
2 3 0.034896 GCAGAAACTCCCCACGAAGA 59.965 55.000 0.00 0.00 0.00 2.87
3 4 0.035458 AGCAGAAACTCCCCACGAAG 59.965 55.000 0.00 0.00 0.00 3.79
8 9 0.108585 GTCACAGCAGAAACTCCCCA 59.891 55.000 0.00 0.00 0.00 4.96
9 10 0.606673 GGTCACAGCAGAAACTCCCC 60.607 60.000 0.00 0.00 0.00 4.81
10 11 0.398318 AGGTCACAGCAGAAACTCCC 59.602 55.000 0.00 0.00 0.00 4.30
11 12 2.933056 GCTAGGTCACAGCAGAAACTCC 60.933 54.545 0.00 0.00 38.93 3.85
13 14 1.694150 TGCTAGGTCACAGCAGAAACT 59.306 47.619 0.00 0.00 43.90 2.66
84 5763 2.509336 ATGTAGACTGCACGCGGC 60.509 61.111 12.47 12.14 45.13 6.53
184 5866 3.032265 TCCTGGCTTAGCTGATGTAGA 57.968 47.619 3.59 0.00 0.00 2.59
185 5867 4.202295 TGAATCCTGGCTTAGCTGATGTAG 60.202 45.833 3.59 0.00 0.00 2.74
186 5868 3.711190 TGAATCCTGGCTTAGCTGATGTA 59.289 43.478 3.59 0.00 0.00 2.29
187 5869 2.507058 TGAATCCTGGCTTAGCTGATGT 59.493 45.455 3.59 0.00 0.00 3.06
190 5872 2.470990 TCTGAATCCTGGCTTAGCTGA 58.529 47.619 3.59 0.00 0.00 4.26
193 5875 6.890979 AAATATTCTGAATCCTGGCTTAGC 57.109 37.500 6.10 0.00 0.00 3.09
195 5877 8.157476 GGAGTAAATATTCTGAATCCTGGCTTA 58.843 37.037 6.10 0.00 0.00 3.09
196 5878 7.001073 GGAGTAAATATTCTGAATCCTGGCTT 58.999 38.462 6.10 0.00 0.00 4.35
265 6044 4.855715 TGATCGAGCCGAGAGAATAATT 57.144 40.909 0.00 0.00 39.91 1.40
286 6065 1.370064 GGCGGGTGCGTATAGGAAT 59.630 57.895 0.00 0.00 44.10 3.01
642 10201 1.268234 GCATGCATGGCTCGTTAGTTC 60.268 52.381 27.34 2.90 0.00 3.01
645 10204 0.949397 ATGCATGCATGGCTCGTTAG 59.051 50.000 31.74 0.00 35.03 2.34
679 10240 4.142600 CCTGGGAACAAAGAATCAACGATC 60.143 45.833 0.00 0.00 42.06 3.69
680 10241 3.758554 CCTGGGAACAAAGAATCAACGAT 59.241 43.478 0.00 0.00 42.06 3.73
681 10242 3.146066 CCTGGGAACAAAGAATCAACGA 58.854 45.455 0.00 0.00 42.06 3.85
682 10243 2.351738 GCCTGGGAACAAAGAATCAACG 60.352 50.000 0.00 0.00 42.06 4.10
683 10244 2.351738 CGCCTGGGAACAAAGAATCAAC 60.352 50.000 0.00 0.00 42.06 3.18
684 10245 1.885887 CGCCTGGGAACAAAGAATCAA 59.114 47.619 0.00 0.00 42.06 2.57
685 10246 1.073125 TCGCCTGGGAACAAAGAATCA 59.927 47.619 0.00 0.00 42.06 2.57
686 10247 1.821216 TCGCCTGGGAACAAAGAATC 58.179 50.000 0.00 0.00 42.06 2.52
687 10248 2.369394 GATCGCCTGGGAACAAAGAAT 58.631 47.619 0.00 0.00 42.06 2.40
688 10249 1.821216 GATCGCCTGGGAACAAAGAA 58.179 50.000 0.00 0.00 42.06 2.52
689 10250 0.391130 CGATCGCCTGGGAACAAAGA 60.391 55.000 0.26 0.00 42.06 2.52
690 10251 0.673644 ACGATCGCCTGGGAACAAAG 60.674 55.000 16.60 0.00 42.06 2.77
693 10254 1.375396 CAACGATCGCCTGGGAACA 60.375 57.895 16.60 0.00 39.59 3.18
694 10255 0.462047 ATCAACGATCGCCTGGGAAC 60.462 55.000 16.60 0.00 0.00 3.62
695 10256 0.251916 AATCAACGATCGCCTGGGAA 59.748 50.000 16.60 0.00 0.00 3.97
696 10257 0.179084 GAATCAACGATCGCCTGGGA 60.179 55.000 16.60 6.14 0.00 4.37
697 10258 0.179073 AGAATCAACGATCGCCTGGG 60.179 55.000 16.60 0.15 0.00 4.45
698 10259 1.656652 AAGAATCAACGATCGCCTGG 58.343 50.000 16.60 2.11 0.00 4.45
699 10260 2.416547 ACAAAGAATCAACGATCGCCTG 59.583 45.455 16.60 13.16 0.00 4.85
700 10261 2.699954 ACAAAGAATCAACGATCGCCT 58.300 42.857 16.60 0.00 0.00 5.52
701 10262 3.417185 GAACAAAGAATCAACGATCGCC 58.583 45.455 16.60 0.00 0.00 5.54
704 10265 4.142600 CCTGGGAACAAAGAATCAACGATC 60.143 45.833 0.00 0.00 42.06 3.69
707 10268 2.351738 GCCTGGGAACAAAGAATCAACG 60.352 50.000 0.00 0.00 42.06 4.10
708 10269 2.351738 CGCCTGGGAACAAAGAATCAAC 60.352 50.000 0.00 0.00 42.06 3.18
709 10270 1.885887 CGCCTGGGAACAAAGAATCAA 59.114 47.619 0.00 0.00 42.06 2.57
712 10273 0.539438 TGCGCCTGGGAACAAAGAAT 60.539 50.000 4.18 0.00 42.06 2.40
714 10275 1.896660 GTGCGCCTGGGAACAAAGA 60.897 57.895 4.18 0.00 42.06 2.52
807 10425 1.220749 CGGCTCGGGGATTGAAAGA 59.779 57.895 0.00 0.00 0.00 2.52
904 10542 0.447801 GTTTGATGATCGCCGTGCTT 59.552 50.000 0.00 0.00 0.00 3.91
910 10548 2.948979 TGGTTATGGTTTGATGATCGCC 59.051 45.455 0.00 0.00 0.00 5.54
1245 10949 0.039618 TGAATCAGTTCCAAGCCCCC 59.960 55.000 0.00 0.00 33.26 5.40
1246 10950 2.027385 GATGAATCAGTTCCAAGCCCC 58.973 52.381 0.00 0.00 33.26 5.80
1247 10951 2.726821 TGATGAATCAGTTCCAAGCCC 58.273 47.619 0.00 0.00 33.26 5.19
1279 10986 1.544246 CAAGGATCCGGTTGGGTTTTC 59.456 52.381 5.98 0.00 37.00 2.29
1451 12612 7.280652 GGGCTACATTATTGACATTTGCATTTT 59.719 33.333 0.00 0.00 0.00 1.82
1464 12625 9.520204 CAAATTTAGAACTGGGCTACATTATTG 57.480 33.333 0.00 0.00 0.00 1.90
1465 12626 9.474313 TCAAATTTAGAACTGGGCTACATTATT 57.526 29.630 0.00 0.00 0.00 1.40
1466 12627 9.125026 CTCAAATTTAGAACTGGGCTACATTAT 57.875 33.333 0.00 0.00 0.00 1.28
1567 12739 3.430042 AGCTCTTTGCAGGATCTTCAA 57.570 42.857 0.00 0.00 45.94 2.69
1569 12741 3.128415 GGAAAGCTCTTTGCAGGATCTTC 59.872 47.826 8.66 4.73 45.94 2.87
1570 12742 3.087781 GGAAAGCTCTTTGCAGGATCTT 58.912 45.455 8.66 0.00 45.94 2.40
1571 12743 2.040813 TGGAAAGCTCTTTGCAGGATCT 59.959 45.455 11.64 0.00 44.10 2.75
1572 12744 2.440409 TGGAAAGCTCTTTGCAGGATC 58.560 47.619 11.64 0.00 44.10 3.36
1573 12745 2.592102 TGGAAAGCTCTTTGCAGGAT 57.408 45.000 11.64 0.00 44.10 3.24
1597 12769 5.495926 TGCAGGATCTTCTCTCTCTTTTT 57.504 39.130 0.00 0.00 0.00 1.94
1598 12770 5.495926 TTGCAGGATCTTCTCTCTCTTTT 57.504 39.130 0.00 0.00 0.00 2.27
1599 12771 5.221803 TGTTTGCAGGATCTTCTCTCTCTTT 60.222 40.000 0.00 0.00 0.00 2.52
1600 12772 4.285517 TGTTTGCAGGATCTTCTCTCTCTT 59.714 41.667 0.00 0.00 0.00 2.85
1601 12773 3.837146 TGTTTGCAGGATCTTCTCTCTCT 59.163 43.478 0.00 0.00 0.00 3.10
1602 12774 4.183101 CTGTTTGCAGGATCTTCTCTCTC 58.817 47.826 0.00 0.00 39.01 3.20
1603 12775 4.205065 CTGTTTGCAGGATCTTCTCTCT 57.795 45.455 0.00 0.00 39.01 3.10
1698 12902 2.969821 ACCAAGTGCCCACAATCTTA 57.030 45.000 0.82 0.00 0.00 2.10
1786 13010 0.251033 AGCATCAGCAAGACCAAGCA 60.251 50.000 0.00 0.00 45.49 3.91
1799 13023 6.753279 GCAATGAAAAATACAAGCTAGCATCA 59.247 34.615 18.83 7.01 0.00 3.07
1802 13026 5.094812 CGCAATGAAAAATACAAGCTAGCA 58.905 37.500 18.83 0.00 0.00 3.49
1884 13120 7.502696 AGTTCATAAACACTACACACAGGTAA 58.497 34.615 0.00 0.00 37.88 2.85
1888 13124 7.125755 CACAAGTTCATAAACACTACACACAG 58.874 38.462 0.00 0.00 37.88 3.66
1936 13172 3.645212 ACATCCGAGTCATGAAGATGGAT 59.355 43.478 21.13 17.02 38.89 3.41
1939 13182 5.812127 TGTAAACATCCGAGTCATGAAGATG 59.188 40.000 17.93 17.93 40.12 2.90
1947 13190 6.032956 AGTGTAATGTAAACATCCGAGTCA 57.967 37.500 0.00 0.00 35.10 3.41
1994 13240 6.875726 CACATCTACTCCATCTTTGTCAGAAA 59.124 38.462 0.00 0.00 34.16 2.52
2041 13291 2.560105 ACGGAGGGAGTACACAAGTTAC 59.440 50.000 0.00 0.00 0.00 2.50
2175 13432 9.814899 TCATGTTTTCACTTCATACATTTTTGT 57.185 25.926 0.00 0.00 0.00 2.83
2180 13437 9.467258 CAACTTCATGTTTTCACTTCATACATT 57.533 29.630 0.00 0.00 36.63 2.71
2235 13492 8.908786 TCGCTCTTATGGAAATTTATTGAGAT 57.091 30.769 0.00 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.