Multiple sequence alignment - TraesCS6A01G200000

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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 TraesCS6A01G200000 chr6A 100.000 2461 0 0 1 2461 321271328 321268868 0.000000e+00 4545
1 TraesCS6A01G200000 chr6A 93.603 938 59 1 1524 2461 140119366 140118430 0.000000e+00 1399
2 TraesCS6A01G200000 chr6A 92.431 938 70 1 1524 2461 129466679 129465743 0.000000e+00 1338
3 TraesCS6A01G200000 chr6A 91.898 938 73 2 1524 2461 140124177 140123243 0.000000e+00 1308
4 TraesCS6A01G200000 chr6A 87.912 364 42 2 623 984 306724933 306725296 6.290000e-116 427
5 TraesCS6A01G200000 chr6A 84.914 232 18 8 389 619 571275940 571275725 4.120000e-53 219
6 TraesCS6A01G200000 chr6D 93.040 977 61 6 6 980 232767159 232766188 0.000000e+00 1421
7 TraesCS6A01G200000 chr6D 94.872 546 25 2 979 1521 275475013 275475558 0.000000e+00 850
8 TraesCS6A01G200000 chr6D 88.411 302 34 1 683 984 232764865 232764565 1.800000e-96 363
9 TraesCS6A01G200000 chr2D 93.319 943 58 3 1524 2461 304701419 304702361 0.000000e+00 1387
10 TraesCS6A01G200000 chr2D 84.615 533 73 6 979 1508 645278970 645279496 2.800000e-144 521
11 TraesCS6A01G200000 chr2D 85.373 335 45 4 623 954 333196084 333195751 6.520000e-91 344
12 TraesCS6A01G200000 chr7A 93.305 941 60 3 1522 2461 595253146 595252208 0.000000e+00 1386
13 TraesCS6A01G200000 chr7A 85.366 533 56 14 979 1507 726501403 726500889 1.300000e-147 532
14 TraesCS6A01G200000 chr7A 84.052 232 21 7 389 619 501096858 501096642 2.480000e-50 209
15 TraesCS6A01G200000 chr5A 92.644 938 69 0 1524 2461 534578751 534579688 0.000000e+00 1351
16 TraesCS6A01G200000 chr5A 90.968 310 24 3 109 416 10037715 10037408 4.900000e-112 414
17 TraesCS6A01G200000 chr5A 88.532 218 24 1 389 605 10036699 10036482 1.880000e-66 263
18 TraesCS6A01G200000 chr3D 92.577 943 65 1 1524 2461 299477124 299478066 0.000000e+00 1349
19 TraesCS6A01G200000 chr3D 92.047 943 70 3 1524 2461 305131417 305130475 0.000000e+00 1321
20 TraesCS6A01G200000 chr2A 92.324 938 72 0 1524 2461 525736673 525737610 0.000000e+00 1334
21 TraesCS6A01G200000 chr2A 95.493 355 13 3 1170 1521 17997773 17998127 4.590000e-157 564
22 TraesCS6A01G200000 chr2A 83.333 228 35 3 391 617 285231783 285232008 8.920000e-50 207
23 TraesCS6A01G200000 chr4B 95.055 546 24 2 979 1521 575521293 575521838 0.000000e+00 856
24 TraesCS6A01G200000 chr1A 94.689 546 26 2 979 1521 64569954 64569409 0.000000e+00 845
25 TraesCS6A01G200000 chr1A 84.045 539 70 10 979 1508 267174855 267175386 2.820000e-139 505
26 TraesCS6A01G200000 chr1A 90.968 310 26 1 109 416 292890286 292889977 1.360000e-112 416
27 TraesCS6A01G200000 chr1A 90.968 310 25 2 109 416 308351992 308352300 4.900000e-112 414
28 TraesCS6A01G200000 chr6B 95.109 368 14 3 1158 1521 694749 694382 5.900000e-161 577
29 TraesCS6A01G200000 chr6B 90.547 402 33 3 17 416 329471068 329470670 6.030000e-146 527
30 TraesCS6A01G200000 chr6B 84.877 529 71 6 979 1504 487797817 487798339 2.170000e-145 525
31 TraesCS6A01G200000 chr6B 84.121 529 69 10 986 1510 399046518 399046001 4.730000e-137 497
32 TraesCS6A01G200000 chr6B 88.197 305 32 3 633 935 649629625 649629323 6.470000e-96 361
33 TraesCS6A01G200000 chr1B 91.542 402 29 3 17 416 601127531 601127133 1.290000e-152 549
34 TraesCS6A01G200000 chr1B 86.520 319 39 3 623 938 631207890 631207573 5.040000e-92 348
35 TraesCS6A01G200000 chr1B 84.052 232 25 6 391 622 601126270 601126051 1.920000e-51 213
36 TraesCS6A01G200000 chr7B 85.150 532 53 17 979 1504 651196079 651196590 2.800000e-144 521
37 TraesCS6A01G200000 chr7B 83.364 535 78 7 979 1509 149676269 149676796 3.680000e-133 484
38 TraesCS6A01G200000 chr4A 91.290 310 24 2 109 416 216817095 216817403 1.050000e-113 420
39 TraesCS6A01G200000 chr4A 88.991 218 23 1 389 605 216818112 216818329 4.030000e-68 268
40 TraesCS6A01G200000 chr4A 81.761 318 53 4 616 931 312878101 312878415 6.750000e-66 261
41 TraesCS6A01G200000 chr7D 90.968 310 23 4 109 416 287704754 287704448 1.760000e-111 412
42 TraesCS6A01G200000 chr7D 87.156 218 27 1 389 605 287703813 287703596 1.890000e-61 246
43 TraesCS6A01G200000 chr2B 90.000 310 28 2 109 416 63519106 63519414 4.930000e-107 398
44 TraesCS6A01G200000 chr5D 87.461 319 35 3 623 938 97806059 97805743 1.800000e-96 363
45 TraesCS6A01G200000 chr5D 84.932 365 47 6 623 984 168197386 168197027 1.800000e-96 363
46 TraesCS6A01G200000 chr3A 84.503 342 43 8 634 970 81047927 81047591 1.820000e-86 329
47 TraesCS6A01G200000 chr3A 84.914 232 19 7 389 619 425588430 425588646 1.150000e-53 220
48 TraesCS6A01G200000 chr3A 84.483 232 20 7 389 619 91452503 91452719 5.330000e-52 215


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 TraesCS6A01G200000 chr6A 321268868 321271328 2460 True 4545.0 4545 100.0000 1 2461 1 chr6A.!!$R2 2460
1 TraesCS6A01G200000 chr6A 140118430 140124177 5747 True 1353.5 1399 92.7505 1524 2461 2 chr6A.!!$R4 937
2 TraesCS6A01G200000 chr6A 129465743 129466679 936 True 1338.0 1338 92.4310 1524 2461 1 chr6A.!!$R1 937
3 TraesCS6A01G200000 chr6D 232764565 232767159 2594 True 892.0 1421 90.7255 6 984 2 chr6D.!!$R1 978
4 TraesCS6A01G200000 chr6D 275475013 275475558 545 False 850.0 850 94.8720 979 1521 1 chr6D.!!$F1 542
5 TraesCS6A01G200000 chr2D 304701419 304702361 942 False 1387.0 1387 93.3190 1524 2461 1 chr2D.!!$F1 937
6 TraesCS6A01G200000 chr2D 645278970 645279496 526 False 521.0 521 84.6150 979 1508 1 chr2D.!!$F2 529
7 TraesCS6A01G200000 chr7A 595252208 595253146 938 True 1386.0 1386 93.3050 1522 2461 1 chr7A.!!$R2 939
8 TraesCS6A01G200000 chr7A 726500889 726501403 514 True 532.0 532 85.3660 979 1507 1 chr7A.!!$R3 528
9 TraesCS6A01G200000 chr5A 534578751 534579688 937 False 1351.0 1351 92.6440 1524 2461 1 chr5A.!!$F1 937
10 TraesCS6A01G200000 chr5A 10036482 10037715 1233 True 338.5 414 89.7500 109 605 2 chr5A.!!$R1 496
11 TraesCS6A01G200000 chr3D 299477124 299478066 942 False 1349.0 1349 92.5770 1524 2461 1 chr3D.!!$F1 937
12 TraesCS6A01G200000 chr3D 305130475 305131417 942 True 1321.0 1321 92.0470 1524 2461 1 chr3D.!!$R1 937
13 TraesCS6A01G200000 chr2A 525736673 525737610 937 False 1334.0 1334 92.3240 1524 2461 1 chr2A.!!$F3 937
14 TraesCS6A01G200000 chr4B 575521293 575521838 545 False 856.0 856 95.0550 979 1521 1 chr4B.!!$F1 542
15 TraesCS6A01G200000 chr1A 64569409 64569954 545 True 845.0 845 94.6890 979 1521 1 chr1A.!!$R1 542
16 TraesCS6A01G200000 chr1A 267174855 267175386 531 False 505.0 505 84.0450 979 1508 1 chr1A.!!$F1 529
17 TraesCS6A01G200000 chr6B 487797817 487798339 522 False 525.0 525 84.8770 979 1504 1 chr6B.!!$F1 525
18 TraesCS6A01G200000 chr6B 399046001 399046518 517 True 497.0 497 84.1210 986 1510 1 chr6B.!!$R3 524
19 TraesCS6A01G200000 chr1B 601126051 601127531 1480 True 381.0 549 87.7970 17 622 2 chr1B.!!$R2 605
20 TraesCS6A01G200000 chr7B 651196079 651196590 511 False 521.0 521 85.1500 979 1504 1 chr7B.!!$F2 525
21 TraesCS6A01G200000 chr7B 149676269 149676796 527 False 484.0 484 83.3640 979 1509 1 chr7B.!!$F1 530
22 TraesCS6A01G200000 chr4A 216817095 216818329 1234 False 344.0 420 90.1405 109 605 2 chr4A.!!$F2 496
23 TraesCS6A01G200000 chr7D 287703596 287704754 1158 True 329.0 412 89.0620 109 605 2 chr7D.!!$R1 496

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
757 1701 0.024364 CGCAAAAACAACACGCCAAC 59.976 50.0 0.0 0.0 0.0 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2166 8896 0.892755 TTCGCCCAGTACGTCTTGAT 59.107 50.0 0.0 0.0 0.0 2.57 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
39 40 4.994907 AAAACACTAACAAGGGTCCAAC 57.005 40.909 0.00 0.00 0.00 3.77
157 158 4.755123 GTGTCCACTGCTATGTTGTAGTTT 59.245 41.667 0.00 0.00 30.70 2.66
200 201 5.760743 TGTCGTATTCATTTTGACAGAACCA 59.239 36.000 0.00 0.00 34.85 3.67
247 248 5.606348 TTAAACCAAAGACACCAAAGCAT 57.394 34.783 0.00 0.00 0.00 3.79
273 274 4.065088 GAGCACACTGAATTGTTGGACTA 58.935 43.478 0.00 0.00 0.00 2.59
277 278 6.040842 AGCACACTGAATTGTTGGACTAAAAT 59.959 34.615 0.00 0.00 0.00 1.82
304 307 4.284178 AGGTAATTCATCTGGCAAGCATT 58.716 39.130 0.00 0.00 0.00 3.56
449 1393 1.901159 TCATGGCAATTTCAAGGGGTG 59.099 47.619 0.00 0.00 0.00 4.61
466 1410 2.501316 GGGTGAAAATCAGGGGGAATTG 59.499 50.000 0.00 0.00 0.00 2.32
497 1441 2.666190 GAGACAACTGCTGCCGCA 60.666 61.111 1.88 1.88 45.60 5.69
521 1465 4.920112 CCCACGGCGTTCACCACA 62.920 66.667 11.19 0.00 0.00 4.17
631 1575 3.349022 GGAACCCCGTCATGATGTAAAA 58.651 45.455 13.81 0.00 0.00 1.52
644 1588 4.232221 TGATGTAAAACGAACCTCGAGAC 58.768 43.478 15.71 0.66 43.74 3.36
647 1591 2.719426 AAAACGAACCTCGAGACGAT 57.281 45.000 24.45 14.98 43.74 3.73
648 1592 1.978542 AAACGAACCTCGAGACGATG 58.021 50.000 24.45 8.46 43.74 3.84
680 1624 3.202706 GGCCCGATCTTTCACGGC 61.203 66.667 0.00 0.00 46.59 5.68
681 1625 2.435938 GCCCGATCTTTCACGGCA 60.436 61.111 0.00 0.00 46.59 5.69
687 1631 2.287308 CCGATCTTTCACGGCACAAAAA 60.287 45.455 0.00 0.00 42.55 1.94
706 1650 1.661341 ATCCATCGCAGCAAGAACTC 58.339 50.000 0.00 0.00 0.00 3.01
707 1651 0.321346 TCCATCGCAGCAAGAACTCA 59.679 50.000 0.00 0.00 0.00 3.41
718 1662 2.664916 CAAGAACTCATTGCGGGTTTG 58.335 47.619 0.00 0.00 0.00 2.93
719 1663 1.981256 AGAACTCATTGCGGGTTTGT 58.019 45.000 0.00 0.00 0.00 2.83
731 1675 3.320541 TGCGGGTTTGTGAAGAAATTCAT 59.679 39.130 0.00 0.00 33.02 2.57
753 1697 0.524604 ACTCCGCAAAAACAACACGC 60.525 50.000 0.00 0.00 0.00 5.34
757 1701 0.024364 CGCAAAAACAACACGCCAAC 59.976 50.000 0.00 0.00 0.00 3.77
768 1712 1.380785 ACGCCAACCCCTCGATCTA 60.381 57.895 0.00 0.00 0.00 1.98
778 1722 6.354130 CAACCCCTCGATCTAAAGGAATAAA 58.646 40.000 7.12 0.00 34.35 1.40
789 1733 6.168389 TCTAAAGGAATAAAGTGGACGAACC 58.832 40.000 0.00 0.00 39.54 3.62
808 1752 5.567623 CGAACCATATAGGCTCAGCTTGTAT 60.568 44.000 0.00 0.00 43.14 2.29
813 1757 6.295518 CCATATAGGCTCAGCTTGTATTCTCA 60.296 42.308 0.00 0.00 0.00 3.27
818 1762 4.509600 GGCTCAGCTTGTATTCTCATACAC 59.490 45.833 0.00 0.00 44.19 2.90
821 1765 5.720202 TCAGCTTGTATTCTCATACACGTT 58.280 37.500 0.00 0.00 44.19 3.99
830 1774 0.940047 TCATACACGTTGCGTCGCAA 60.940 50.000 27.85 27.85 46.80 4.85
843 1787 3.630204 CGCAAGAACTCACACGCT 58.370 55.556 0.00 0.00 43.02 5.07
860 1804 4.857588 ACACGCTAGTAGAGATTTTTGACG 59.142 41.667 8.00 0.00 0.00 4.35
862 1806 5.228220 CACGCTAGTAGAGATTTTTGACGAG 59.772 44.000 8.00 0.00 0.00 4.18
907 1851 2.340809 CGGCCAGAACACACGGTA 59.659 61.111 2.24 0.00 0.00 4.02
912 1856 2.093869 GGCCAGAACACACGGTATCTAA 60.094 50.000 0.00 0.00 0.00 2.10
956 1900 6.662755 ACCATTACATAGACACCACATGATT 58.337 36.000 0.00 0.00 0.00 2.57
966 1910 7.849804 AGACACCACATGATTGACTTTATAC 57.150 36.000 0.00 0.00 0.00 1.47
1011 1968 5.392380 GGACTTGTGCAGAATGTTTATCCAG 60.392 44.000 0.00 0.00 39.31 3.86
1068 2025 0.518636 ATATGGCTGCTAAATGCGCG 59.481 50.000 0.00 0.00 46.63 6.86
1128 2089 3.557228 AGAACTGATCCAGATCCAAGC 57.443 47.619 5.22 0.00 34.48 4.01
1129 2090 3.113824 AGAACTGATCCAGATCCAAGCT 58.886 45.455 5.22 0.00 34.48 3.74
1197 2304 7.131498 AGTTATACTATGCTACTAGTCGCAC 57.869 40.000 22.85 8.86 39.21 5.34
1303 3219 2.641197 GGCTTGAAAGGCCGAAAGA 58.359 52.632 12.21 0.00 45.04 2.52
1459 3376 4.375272 TGTTTGTGCATAACCCAATGTTG 58.625 39.130 10.89 0.00 37.83 3.33
1563 3482 3.737047 CGCTGAGTTAAAGGCCGAATAGA 60.737 47.826 0.00 0.00 0.00 1.98
1576 3495 2.356818 GAATAGACTGCTCGGCGCCT 62.357 60.000 26.68 3.45 38.05 5.52
1602 3521 4.702612 GCGAGGAGAGAATATCTACCATGA 59.297 45.833 0.00 0.00 40.15 3.07
1642 8372 2.009774 CACTGTCCGATGTGAATTCCC 58.990 52.381 2.27 0.00 36.38 3.97
1659 8389 3.300239 TCCCCGAGAAGGAAAACAAAA 57.700 42.857 0.00 0.00 45.00 2.44
1794 8524 6.056236 CCCTTCTTATTACAGGCTAAGTTCC 58.944 44.000 0.00 0.00 0.00 3.62
1814 8544 1.745890 CGATCCGAAGTATGCCCCA 59.254 57.895 0.00 0.00 0.00 4.96
2014 8744 5.104193 AGCTCCACAAAATATCTGGATCTGT 60.104 40.000 0.00 0.00 33.51 3.41
2041 8771 2.660552 CGTCGTTGTCCGGCTGTT 60.661 61.111 0.00 0.00 39.61 3.16
2058 8788 0.598065 GTTGCCGACTGAGCCAATTT 59.402 50.000 0.00 0.00 0.00 1.82
2086 8816 3.636300 AGTTATTTCAGTTTGGTGCAGCA 59.364 39.130 15.99 15.99 0.00 4.41
2098 8828 1.067516 GGTGCAGCAACTTGTTGATGT 59.932 47.619 25.61 5.83 40.20 3.06
2210 8940 0.399454 AGGCCATCGATATTGCAGCT 59.601 50.000 5.01 0.00 0.00 4.24
2223 8953 1.222113 GCAGCTAAGAGTCCACCCC 59.778 63.158 0.00 0.00 0.00 4.95
2254 8984 1.377202 ATCACACGCCGGAGCATTT 60.377 52.632 5.05 0.00 39.83 2.32
2279 9009 1.834822 GGATGTCCTAGAGGGCGCT 60.835 63.158 7.64 1.38 44.44 5.92
2318 9048 6.870965 GTCAGTGCTCGAAGGATATGATATTT 59.129 38.462 0.00 0.00 0.00 1.40
2352 9087 9.751542 TGTACCGAAATTGTAAAAACAATGATT 57.248 25.926 4.62 0.00 39.92 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 3.436243 TGAACTTTGTTGGACCCTTGTT 58.564 40.909 0.00 0.00 0.00 2.83
39 40 6.648192 AGATAGGAGGAACAGATGAACTTTG 58.352 40.000 0.00 0.00 0.00 2.77
157 158 5.591067 ACGACAATAACTTGGTTGGAAAAGA 59.409 36.000 0.00 0.00 36.64 2.52
200 201 4.451096 CGCAAAGTGTGTAGACTTGGTATT 59.549 41.667 0.00 0.00 36.28 1.89
247 248 5.008613 GTCCAACAATTCAGTGTGCTCTTAA 59.991 40.000 0.00 0.00 0.00 1.85
277 278 7.917003 TGCTTGCCAGATGAATTACCTATATA 58.083 34.615 0.00 0.00 0.00 0.86
304 307 2.307392 TGCCATAGCAGGTTAGTTTCCA 59.693 45.455 0.00 0.00 46.52 3.53
328 331 9.941325 TTGGCAATTTTTGTATCTATTGATGTT 57.059 25.926 0.00 0.00 34.32 2.71
333 336 7.830940 TGCTTGGCAATTTTTGTATCTATTG 57.169 32.000 0.00 0.00 34.76 1.90
449 1393 2.470990 AGGCAATTCCCCCTGATTTTC 58.529 47.619 0.00 0.00 34.51 2.29
466 1410 0.691078 TGTCTCCATCCCCTACAGGC 60.691 60.000 0.00 0.00 0.00 4.85
631 1575 0.959372 ACCATCGTCTCGAGGTTCGT 60.959 55.000 13.56 0.00 41.35 3.85
644 1588 1.373748 AACAACGGACCGACCATCG 60.374 57.895 23.38 4.25 40.07 3.84
647 1591 2.109387 CCAACAACGGACCGACCA 59.891 61.111 23.38 0.00 38.90 4.02
648 1592 3.351416 GCCAACAACGGACCGACC 61.351 66.667 23.38 0.00 0.00 4.79
679 1623 0.994263 GCTGCGATGGATTTTTGTGC 59.006 50.000 0.00 0.00 0.00 4.57
680 1624 2.350899 TGCTGCGATGGATTTTTGTG 57.649 45.000 0.00 0.00 0.00 3.33
681 1625 2.557924 TCTTGCTGCGATGGATTTTTGT 59.442 40.909 0.00 0.00 0.00 2.83
687 1631 1.065926 TGAGTTCTTGCTGCGATGGAT 60.066 47.619 0.00 0.00 0.00 3.41
706 1650 2.791383 TTCTTCACAAACCCGCAATG 57.209 45.000 0.00 0.00 0.00 2.82
707 1651 4.202202 TGAATTTCTTCACAAACCCGCAAT 60.202 37.500 0.00 0.00 36.46 3.56
718 1662 5.938322 TGCGGAGTTTATGAATTTCTTCAC 58.062 37.500 0.00 0.00 43.92 3.18
719 1663 6.567687 TTGCGGAGTTTATGAATTTCTTCA 57.432 33.333 0.00 0.00 45.15 3.02
731 1675 3.427243 CGTGTTGTTTTTGCGGAGTTTA 58.573 40.909 0.00 0.00 0.00 2.01
753 1697 2.116238 TCCTTTAGATCGAGGGGTTGG 58.884 52.381 11.37 0.00 33.73 3.77
757 1701 5.992217 CACTTTATTCCTTTAGATCGAGGGG 59.008 44.000 11.37 3.11 33.73 4.79
768 1712 4.721132 TGGTTCGTCCACTTTATTCCTTT 58.279 39.130 0.00 0.00 41.93 3.11
789 1733 6.695429 TGAGAATACAAGCTGAGCCTATATG 58.305 40.000 0.00 0.00 0.00 1.78
792 1736 5.822132 ATGAGAATACAAGCTGAGCCTAT 57.178 39.130 0.00 0.00 0.00 2.57
797 1741 5.344066 ACGTGTATGAGAATACAAGCTGAG 58.656 41.667 10.43 0.00 39.16 3.35
808 1752 1.333115 CGACGCAACGTGTATGAGAA 58.667 50.000 0.00 0.00 41.37 2.87
813 1757 0.665068 TCTTGCGACGCAACGTGTAT 60.665 50.000 30.11 0.00 43.99 2.29
818 1762 1.154836 GAGTTCTTGCGACGCAACG 60.155 57.895 30.11 23.83 43.99 4.10
821 1765 1.227118 TGTGAGTTCTTGCGACGCA 60.227 52.632 20.50 20.50 36.47 5.24
830 1774 3.940319 TCTCTACTAGCGTGTGAGTTCT 58.060 45.455 0.00 0.00 0.00 3.01
843 1787 7.893658 AGAAACCTCGTCAAAAATCTCTACTA 58.106 34.615 0.00 0.00 0.00 1.82
860 1804 7.254488 GCCATTATTCGAGTTTAGAGAAACCTC 60.254 40.741 0.00 0.00 45.21 3.85
862 1806 6.238402 GGCCATTATTCGAGTTTAGAGAAACC 60.238 42.308 0.00 0.00 45.21 3.27
894 1838 8.818141 ATATGAATTAGATACCGTGTGTTCTG 57.182 34.615 0.00 0.00 0.00 3.02
946 1890 7.445402 GGCTATGTATAAAGTCAATCATGTGGT 59.555 37.037 0.00 0.00 0.00 4.16
956 1900 6.808321 AGGACTTGGCTATGTATAAAGTCA 57.192 37.500 13.92 0.00 45.46 3.41
1068 2025 0.597118 CATCTCGTGCTAGCTGCTCC 60.597 60.000 17.23 0.00 43.37 4.70
1128 2089 4.184629 CTGAGGAGTTACCCAAATTCGAG 58.815 47.826 0.00 0.00 40.05 4.04
1129 2090 3.581332 ACTGAGGAGTTACCCAAATTCGA 59.419 43.478 0.00 0.00 40.05 3.71
1193 2300 6.573725 GTCTTAGTTTGAAAATACTGTGTGCG 59.426 38.462 0.00 0.00 0.00 5.34
1270 2693 6.154363 CCTTTCAAGCCCCTCATTATGTTTTA 59.846 38.462 0.00 0.00 0.00 1.52
1298 3214 7.494298 GTCTTCTCCTTGACCTTCATATCTTTC 59.506 40.741 0.00 0.00 0.00 2.62
1303 3219 5.396213 GCAGTCTTCTCCTTGACCTTCATAT 60.396 44.000 0.00 0.00 34.02 1.78
1359 3275 9.882996 CTTTTTCTTCTTTGTTTTTGCTTTCTT 57.117 25.926 0.00 0.00 0.00 2.52
1445 3362 8.690203 TCTTATACCATCAACATTGGGTTATG 57.310 34.615 0.00 0.00 37.72 1.90
1541 3460 1.369625 ATTCGGCCTTTAACTCAGCG 58.630 50.000 0.00 0.00 0.00 5.18
1576 3495 3.821600 GGTAGATATTCTCTCCTCGCACA 59.178 47.826 0.00 0.00 35.28 4.57
1602 3521 1.084370 GCATCCTTTAGCTCACGCGT 61.084 55.000 5.58 5.58 42.32 6.01
1642 8372 7.307337 CCATTTTGATTTTGTTTTCCTTCTCGG 60.307 37.037 0.00 0.00 0.00 4.63
1652 8382 5.550290 AGATCGGCCATTTTGATTTTGTTT 58.450 33.333 2.24 0.00 0.00 2.83
1659 8389 2.213499 GTCGAGATCGGCCATTTTGAT 58.787 47.619 2.24 0.00 38.15 2.57
1794 8524 2.022129 GGGCATACTTCGGATCGCG 61.022 63.158 0.00 0.00 0.00 5.87
1988 8718 5.619220 GATCCAGATATTTTGTGGAGCTCT 58.381 41.667 14.64 0.00 43.61 4.09
2014 8744 2.060326 GACAACGACGTCCTTCATGA 57.940 50.000 10.58 0.00 0.00 3.07
2041 8771 1.298157 CGAAATTGGCTCAGTCGGCA 61.298 55.000 0.00 0.00 37.72 5.69
2058 8788 6.428465 TGCACCAAACTGAAATAACTATTCGA 59.572 34.615 0.00 0.00 0.00 3.71
2086 8816 1.333619 GCGACACCACATCAACAAGTT 59.666 47.619 0.00 0.00 0.00 2.66
2166 8896 0.892755 TTCGCCCAGTACGTCTTGAT 59.107 50.000 0.00 0.00 0.00 2.57
2210 8940 2.039951 CCCCGGGGTGGACTCTTA 59.960 66.667 33.25 0.00 42.00 2.10
2223 8953 2.438434 GTGATGGTCCTTGCCCCG 60.438 66.667 0.00 0.00 0.00 5.73
2254 8984 3.054361 GCCCTCTAGGACATCCTCAAAAA 60.054 47.826 2.97 0.00 44.77 1.94
2279 9009 1.751351 CACTGACCCTCTATCAAGCGA 59.249 52.381 0.00 0.00 0.00 4.93
2318 9048 7.731882 TTTACAATTTCGGTACAATCACTCA 57.268 32.000 0.00 0.00 0.00 3.41
2372 9107 2.035961 GAGGAACCAAAACTTTCAGGCC 59.964 50.000 0.00 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.