Multiple sequence alignment - TraesCS3A01G443900

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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 TraesCS3A01G443900 chr3A 100.000 3573 0 0 1 3573 685293624 685290052 0.000000e+00 6599.0
1 TraesCS3A01G443900 chr3A 84.316 1103 123 22 1756 2813 685337425 685336328 0.000000e+00 1033.0
2 TraesCS3A01G443900 chr3A 80.963 914 129 23 1742 2643 685359652 685360532 0.000000e+00 682.0
3 TraesCS3A01G443900 chr3A 92.118 406 26 3 1212 1617 685365479 685365878 5.180000e-158 568.0
4 TraesCS3A01G443900 chr3A 83.361 595 65 17 813 1398 685358965 685359534 1.470000e-143 520.0
5 TraesCS3A01G443900 chr3A 78.543 755 136 17 1879 2622 685780687 685781426 1.160000e-129 473.0
6 TraesCS3A01G443900 chr3A 87.108 287 26 4 1619 1904 685365983 685366259 7.450000e-82 315.0
7 TraesCS3A01G443900 chr3A 78.808 453 69 18 3 446 685357959 685358393 2.720000e-71 279.0
8 TraesCS3A01G443900 chr3A 81.206 282 33 13 64 343 685338376 685338113 3.610000e-50 209.0
9 TraesCS3A01G443900 chr3A 81.347 193 21 9 1324 1515 685292114 685291936 3.720000e-30 143.0
10 TraesCS3A01G443900 chr3A 81.347 193 21 9 1511 1689 685292301 685292110 3.720000e-30 143.0
11 TraesCS3A01G443900 chr3A 79.275 193 25 4 1511 1689 685365591 685365782 1.740000e-23 121.0
12 TraesCS3A01G443900 chr3A 87.850 107 7 3 1324 1430 685365778 685365878 1.740000e-23 121.0
13 TraesCS3A01G443900 chr3A 93.651 63 4 0 2865 2927 685336325 685336263 1.060000e-15 95.3
14 TraesCS3A01G443900 chr3B 97.275 3229 49 14 1 3211 725856118 725852911 0.000000e+00 5439.0
15 TraesCS3A01G443900 chr3B 77.857 700 126 19 1873 2561 726134008 726134689 1.190000e-109 407.0
16 TraesCS3A01G443900 chr3B 90.435 115 6 2 3295 3404 725852222 725852108 2.870000e-31 147.0
17 TraesCS3A01G443900 chr3B 81.347 193 21 9 1324 1515 725854617 725854439 3.720000e-30 143.0
18 TraesCS3A01G443900 chr3B 80.612 196 17 11 1511 1689 725854804 725854613 8.050000e-27 132.0
19 TraesCS3A01G443900 chr3D 85.488 1702 171 41 820 2486 548477210 548475550 0.000000e+00 1705.0
20 TraesCS3A01G443900 chr3D 82.313 2058 218 53 1238 3197 548463310 548461301 0.000000e+00 1650.0
21 TraesCS3A01G443900 chr3D 85.260 943 88 21 2112 3020 548402359 548401434 0.000000e+00 924.0
22 TraesCS3A01G443900 chr3D 82.099 810 105 30 11 801 548464447 548463659 0.000000e+00 656.0
23 TraesCS3A01G443900 chr3D 86.147 462 55 6 818 1279 548481484 548481032 1.150000e-134 490.0
24 TraesCS3A01G443900 chr3D 79.757 741 95 36 11 717 548478028 548477309 1.490000e-133 486.0
25 TraesCS3A01G443900 chr3D 80.328 671 68 32 2521 3159 548475548 548474910 1.960000e-122 449.0
26 TraesCS3A01G443900 chr3D 87.003 377 30 11 821 1193 548463670 548463309 1.190000e-109 407.0
27 TraesCS3A01G443900 chr3D 85.882 170 13 3 3340 3509 548399392 548399234 1.710000e-38 171.0
28 TraesCS3A01G443900 chr3D 84.404 109 15 1 39 147 548482723 548482617 4.880000e-19 106.0


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 TraesCS3A01G443900 chr3A 685290052 685293624 3572 True 2295.000000 6599 87.564667 1 3573 3 chr3A.!!$R1 3572
1 TraesCS3A01G443900 chr3A 685357959 685360532 2573 False 493.666667 682 81.044000 3 2643 3 chr3A.!!$F2 2640
2 TraesCS3A01G443900 chr3A 685780687 685781426 739 False 473.000000 473 78.543000 1879 2622 1 chr3A.!!$F1 743
3 TraesCS3A01G443900 chr3A 685336263 685338376 2113 True 445.766667 1033 86.391000 64 2927 3 chr3A.!!$R2 2863
4 TraesCS3A01G443900 chr3A 685365479 685366259 780 False 281.250000 568 86.587750 1212 1904 4 chr3A.!!$F3 692
5 TraesCS3A01G443900 chr3B 725852108 725856118 4010 True 1465.250000 5439 87.417250 1 3404 4 chr3B.!!$R1 3403
6 TraesCS3A01G443900 chr3B 726134008 726134689 681 False 407.000000 407 77.857000 1873 2561 1 chr3B.!!$F1 688
7 TraesCS3A01G443900 chr3D 548461301 548464447 3146 True 904.333333 1650 83.805000 11 3197 3 chr3D.!!$R2 3186
8 TraesCS3A01G443900 chr3D 548474910 548482723 7813 True 647.200000 1705 83.224800 11 3159 5 chr3D.!!$R3 3148
9 TraesCS3A01G443900 chr3D 548399234 548402359 3125 True 547.500000 924 85.571000 2112 3509 2 chr3D.!!$R1 1397

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
904 5924 0.548031 GGCCATGGAATCCTCTGTCA 59.452 55.0 18.4 0.0 0.0 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2856 8267 1.228245 TCAACCAGGCAAGCAGTCC 60.228 57.895 0.0 0.0 0.0 3.85 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
33 4719 4.341235 CACTGATGTCTCGATACCCCTTTA 59.659 45.833 0.00 0.00 0.00 1.85
73 4759 0.976641 TGTGATTCCGAAGAGCAGGT 59.023 50.000 0.00 0.00 0.00 4.00
76 4762 3.197766 TGTGATTCCGAAGAGCAGGTATT 59.802 43.478 0.00 0.00 0.00 1.89
904 5924 0.548031 GGCCATGGAATCCTCTGTCA 59.452 55.000 18.40 0.00 0.00 3.58
1111 6136 5.726980 AAAGCTGGCTAAAATTCATGTGA 57.273 34.783 0.00 0.00 0.00 3.58
1205 6230 4.023707 CGTCAAATTTAGCAGGGATGATCC 60.024 45.833 1.94 1.94 35.23 3.36
1336 6371 5.607477 TCAAGTATAAAGCCTGGTATTCCG 58.393 41.667 0.00 0.00 36.30 4.30
1607 6650 0.894642 CACATGTGCCATGTGGACCA 60.895 55.000 27.35 0.00 44.04 4.02
1792 7067 8.380743 AGAAGAATGATATTACGTACTCTCGT 57.619 34.615 0.00 0.00 45.97 4.18
2756 8167 4.589908 GGTTTGTATCCTCCACAAGTGAT 58.410 43.478 0.94 0.00 37.22 3.06
2856 8267 2.286365 TGTCCTGGCTGGGTAAAAAG 57.714 50.000 10.79 0.00 36.20 2.27
2952 8370 7.148086 TGTGAAGTTGTTTGAGATAAGCTTGTT 60.148 33.333 9.86 0.00 0.00 2.83
2994 8412 2.582052 CTGGTTTTGTTCCCAGCTACA 58.418 47.619 0.00 0.00 41.65 2.74
3020 8439 5.954752 AGTAGAGATGGTGATGACTCAAGAA 59.045 40.000 0.00 0.00 31.85 2.52
3021 8440 5.341872 AGAGATGGTGATGACTCAAGAAG 57.658 43.478 0.00 0.00 31.85 2.85
3022 8441 4.776837 AGAGATGGTGATGACTCAAGAAGT 59.223 41.667 0.00 0.00 42.42 3.01
3213 8913 5.980116 GCATGTACGTTGAAGATGAGTAGAT 59.020 40.000 0.00 0.00 0.00 1.98
3228 8943 6.901081 TGAGTAGATAGTATGGTGTGGATG 57.099 41.667 0.00 0.00 0.00 3.51
3237 8952 0.035317 TGGTGTGGATGTCACTCTGC 59.965 55.000 0.00 0.00 46.20 4.26
3267 11126 6.889301 AGATTTAACCATGCCTATGTGATG 57.111 37.500 0.00 0.00 32.21 3.07
3272 11131 4.342862 ACCATGCCTATGTGATGTACTC 57.657 45.455 0.00 0.00 32.21 2.59
3273 11132 3.071602 ACCATGCCTATGTGATGTACTCC 59.928 47.826 0.00 0.00 32.21 3.85
3287 11146 6.801539 GATGTACTCCATCTTTGTCAACAA 57.198 37.500 0.00 0.00 45.50 2.83
3288 11147 7.202016 GATGTACTCCATCTTTGTCAACAAA 57.798 36.000 7.97 7.97 45.50 2.83
3289 11148 7.581213 ATGTACTCCATCTTTGTCAACAAAA 57.419 32.000 9.40 2.42 44.24 2.44
3290 11149 7.397892 TGTACTCCATCTTTGTCAACAAAAA 57.602 32.000 9.40 0.00 44.24 1.94
3435 11298 1.142748 CCAGACGATGGCTGACTCC 59.857 63.158 0.09 0.00 43.83 3.85
3457 11320 1.747355 GCCAGGTGGTCAAAGATCATG 59.253 52.381 0.00 0.00 37.57 3.07
3466 11329 3.003068 GGTCAAAGATCATGGAAGCATCG 59.997 47.826 0.00 0.00 0.00 3.84
3473 11336 1.672363 TCATGGAAGCATCGCATTGAC 59.328 47.619 0.00 0.00 0.00 3.18
3476 11339 1.089481 GGAAGCATCGCATTGACGGA 61.089 55.000 0.00 0.00 0.00 4.69
3477 11340 0.726827 GAAGCATCGCATTGACGGAA 59.273 50.000 0.00 0.00 0.00 4.30
3478 11341 1.331756 GAAGCATCGCATTGACGGAAT 59.668 47.619 0.00 0.00 0.00 3.01
3479 11342 1.382522 AGCATCGCATTGACGGAATT 58.617 45.000 0.00 0.00 0.00 2.17
3489 11352 4.097892 GCATTGACGGAATTAATGGAAGGT 59.902 41.667 0.00 0.00 33.54 3.50
3490 11353 5.298276 GCATTGACGGAATTAATGGAAGGTA 59.702 40.000 0.00 0.00 33.54 3.08
3509 11372 3.195825 GGTACATCCAGTGCTCTGTAACT 59.804 47.826 14.31 0.00 39.82 2.24
3510 11373 4.322801 GGTACATCCAGTGCTCTGTAACTT 60.323 45.833 14.31 0.00 39.82 2.66
3511 11374 4.357918 ACATCCAGTGCTCTGTAACTTT 57.642 40.909 14.31 0.00 39.82 2.66
3512 11375 4.718961 ACATCCAGTGCTCTGTAACTTTT 58.281 39.130 14.31 0.00 39.82 2.27
3513 11376 4.516698 ACATCCAGTGCTCTGTAACTTTTG 59.483 41.667 14.31 0.00 39.82 2.44
3514 11377 4.150897 TCCAGTGCTCTGTAACTTTTGT 57.849 40.909 14.31 0.00 39.82 2.83
3515 11378 4.127171 TCCAGTGCTCTGTAACTTTTGTC 58.873 43.478 14.31 0.00 39.82 3.18
3516 11379 3.876914 CCAGTGCTCTGTAACTTTTGTCA 59.123 43.478 14.31 0.00 39.82 3.58
3517 11380 4.335315 CCAGTGCTCTGTAACTTTTGTCAA 59.665 41.667 14.31 0.00 39.82 3.18
3518 11381 5.266242 CAGTGCTCTGTAACTTTTGTCAAC 58.734 41.667 7.63 0.00 36.97 3.18
3519 11382 4.941263 AGTGCTCTGTAACTTTTGTCAACA 59.059 37.500 0.00 0.00 0.00 3.33
3520 11383 5.414454 AGTGCTCTGTAACTTTTGTCAACAA 59.586 36.000 0.00 0.00 30.97 2.83
3521 11384 6.072175 AGTGCTCTGTAACTTTTGTCAACAAA 60.072 34.615 4.24 4.24 43.36 2.83
3522 11385 6.751888 GTGCTCTGTAACTTTTGTCAACAAAT 59.248 34.615 8.98 0.00 44.30 2.32
3523 11386 6.751425 TGCTCTGTAACTTTTGTCAACAAATG 59.249 34.615 15.84 15.84 44.30 2.32
3524 11387 6.972328 GCTCTGTAACTTTTGTCAACAAATGA 59.028 34.615 21.42 4.71 44.30 2.57
3525 11388 7.487829 GCTCTGTAACTTTTGTCAACAAATGAA 59.512 33.333 21.42 10.69 44.30 2.57
3526 11389 8.682128 TCTGTAACTTTTGTCAACAAATGAAC 57.318 30.769 21.42 18.28 44.30 3.18
3527 11390 8.300286 TCTGTAACTTTTGTCAACAAATGAACA 58.700 29.630 21.42 20.49 44.30 3.18
3528 11391 8.994429 TGTAACTTTTGTCAACAAATGAACAT 57.006 26.923 21.42 10.99 44.30 2.71
3529 11392 8.867935 TGTAACTTTTGTCAACAAATGAACATG 58.132 29.630 21.42 0.00 44.30 3.21
3530 11393 9.081997 GTAACTTTTGTCAACAAATGAACATGA 57.918 29.630 21.42 1.78 44.30 3.07
3531 11394 8.721019 AACTTTTGTCAACAAATGAACATGAT 57.279 26.923 21.42 0.00 44.30 2.45
3532 11395 8.133754 ACTTTTGTCAACAAATGAACATGATG 57.866 30.769 21.42 0.00 44.30 3.07
3533 11396 7.980662 ACTTTTGTCAACAAATGAACATGATGA 59.019 29.630 21.42 0.00 44.30 2.92
3534 11397 8.890124 TTTTGTCAACAAATGAACATGATGAT 57.110 26.923 8.98 0.00 44.30 2.45
3535 11398 9.978044 TTTTGTCAACAAATGAACATGATGATA 57.022 25.926 8.98 0.00 44.30 2.15
3536 11399 8.969121 TTGTCAACAAATGAACATGATGATAC 57.031 30.769 0.00 0.00 40.50 2.24
3537 11400 7.537715 TGTCAACAAATGAACATGATGATACC 58.462 34.615 0.00 0.00 40.50 2.73
3538 11401 7.176340 TGTCAACAAATGAACATGATGATACCA 59.824 33.333 0.00 0.00 40.50 3.25
3539 11402 8.028354 GTCAACAAATGAACATGATGATACCAA 58.972 33.333 0.00 0.00 40.50 3.67
3540 11403 8.245491 TCAACAAATGAACATGATGATACCAAG 58.755 33.333 0.00 0.00 34.30 3.61
3541 11404 7.707624 ACAAATGAACATGATGATACCAAGT 57.292 32.000 0.00 0.00 0.00 3.16
3542 11405 7.765307 ACAAATGAACATGATGATACCAAGTC 58.235 34.615 0.00 0.00 0.00 3.01
3543 11406 7.613022 ACAAATGAACATGATGATACCAAGTCT 59.387 33.333 0.00 0.00 0.00 3.24
3544 11407 7.798596 AATGAACATGATGATACCAAGTCTC 57.201 36.000 0.00 0.00 0.00 3.36
3545 11408 6.550938 TGAACATGATGATACCAAGTCTCT 57.449 37.500 0.00 0.00 0.00 3.10
3546 11409 6.577103 TGAACATGATGATACCAAGTCTCTC 58.423 40.000 0.00 0.00 0.00 3.20
3547 11410 5.543507 ACATGATGATACCAAGTCTCTCC 57.456 43.478 0.00 0.00 0.00 3.71
3548 11411 5.215069 ACATGATGATACCAAGTCTCTCCT 58.785 41.667 0.00 0.00 0.00 3.69
3549 11412 5.070180 ACATGATGATACCAAGTCTCTCCTG 59.930 44.000 0.00 0.00 0.00 3.86
3550 11413 4.614475 TGATGATACCAAGTCTCTCCTGT 58.386 43.478 0.00 0.00 0.00 4.00
3551 11414 5.026121 TGATGATACCAAGTCTCTCCTGTT 58.974 41.667 0.00 0.00 0.00 3.16
3552 11415 4.808414 TGATACCAAGTCTCTCCTGTTG 57.192 45.455 0.00 0.00 0.00 3.33
3553 11416 3.515502 TGATACCAAGTCTCTCCTGTTGG 59.484 47.826 0.00 0.00 44.34 3.77
3554 11417 1.807814 ACCAAGTCTCTCCTGTTGGT 58.192 50.000 0.00 0.00 46.32 3.67
3555 11418 2.175878 CCAAGTCTCTCCTGTTGGTG 57.824 55.000 0.00 0.00 35.65 4.17
3556 11419 1.694150 CCAAGTCTCTCCTGTTGGTGA 59.306 52.381 0.00 0.00 35.65 4.02
3557 11420 2.104792 CCAAGTCTCTCCTGTTGGTGAA 59.895 50.000 0.00 0.00 35.69 3.18
3558 11421 3.134458 CAAGTCTCTCCTGTTGGTGAAC 58.866 50.000 0.00 0.00 35.69 3.18
3559 11422 1.341531 AGTCTCTCCTGTTGGTGAACG 59.658 52.381 0.00 0.00 35.69 3.95
3560 11423 1.068741 GTCTCTCCTGTTGGTGAACGT 59.931 52.381 0.00 0.00 35.69 3.99
3561 11424 1.068588 TCTCTCCTGTTGGTGAACGTG 59.931 52.381 0.00 0.00 35.69 4.49
3562 11425 1.068588 CTCTCCTGTTGGTGAACGTGA 59.931 52.381 0.00 0.00 35.69 4.35
3563 11426 1.691976 TCTCCTGTTGGTGAACGTGAT 59.308 47.619 0.00 0.00 34.49 3.06
3564 11427 2.894765 TCTCCTGTTGGTGAACGTGATA 59.105 45.455 0.00 0.00 34.49 2.15
3565 11428 3.513912 TCTCCTGTTGGTGAACGTGATAT 59.486 43.478 0.00 0.00 34.49 1.63
3566 11429 3.857052 TCCTGTTGGTGAACGTGATATC 58.143 45.455 0.00 0.00 34.49 1.63
3567 11430 2.603110 CCTGTTGGTGAACGTGATATCG 59.397 50.000 0.00 0.00 34.49 2.92
3568 11431 2.603110 CTGTTGGTGAACGTGATATCGG 59.397 50.000 0.00 0.00 34.49 4.18
3569 11432 2.231721 TGTTGGTGAACGTGATATCGGA 59.768 45.455 0.00 0.00 34.49 4.55
3570 11433 3.255725 GTTGGTGAACGTGATATCGGAA 58.744 45.455 0.00 0.00 34.94 4.30
3571 11434 3.812156 TGGTGAACGTGATATCGGAAT 57.188 42.857 0.00 0.00 34.94 3.01
3572 11435 4.922471 TGGTGAACGTGATATCGGAATA 57.078 40.909 0.00 0.00 34.94 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 4704 3.099141 ACGGTTTAAAGGGGTATCGAGA 58.901 45.455 0.00 0.00 0.00 4.04
33 4719 4.250305 AGAGGGCGCACACGGTTT 62.250 61.111 14.57 0.00 40.57 3.27
73 4759 9.489084 GCACTTGTATATAGAACCATCACAATA 57.511 33.333 0.00 0.00 0.00 1.90
76 4762 6.761242 GTGCACTTGTATATAGAACCATCACA 59.239 38.462 10.32 0.00 0.00 3.58
362 5133 1.630244 GCACAACGGCTAGCTGTCTG 61.630 60.000 28.87 26.41 33.90 3.51
904 5924 6.892658 TGTCATACAAAAGGTAAACATGCT 57.107 33.333 0.00 0.00 35.14 3.79
1205 6230 2.019984 GCTCCAAAGTAATGGCTCTGG 58.980 52.381 0.00 0.00 40.46 3.86
1206 6231 2.681848 CTGCTCCAAAGTAATGGCTCTG 59.318 50.000 0.00 0.00 40.46 3.35
1207 6232 2.356535 CCTGCTCCAAAGTAATGGCTCT 60.357 50.000 0.00 0.00 40.46 4.09
1208 6233 2.019984 CCTGCTCCAAAGTAATGGCTC 58.980 52.381 0.00 0.00 40.46 4.70
1209 6234 1.355720 ACCTGCTCCAAAGTAATGGCT 59.644 47.619 0.00 0.00 40.46 4.75
1210 6235 1.474077 CACCTGCTCCAAAGTAATGGC 59.526 52.381 0.00 0.00 40.46 4.40
1336 6371 7.203255 ACAGTGTTGAATACTTTTAAGAGGC 57.797 36.000 0.00 0.00 0.00 4.70
1735 6904 6.042143 CGATATTGTGAAATGAAAAAGGGGG 58.958 40.000 0.00 0.00 0.00 5.40
1792 7067 9.739276 AAGAGATAAGTGGTTGAAATACATGAA 57.261 29.630 0.00 0.00 0.00 2.57
2827 8238 2.619849 CCAGCCAGGACATCAACAGAAT 60.620 50.000 0.00 0.00 41.22 2.40
2828 8239 1.271543 CCAGCCAGGACATCAACAGAA 60.272 52.381 0.00 0.00 41.22 3.02
2831 8242 1.379916 CCCAGCCAGGACATCAACA 59.620 57.895 0.00 0.00 41.22 3.33
2856 8267 1.228245 TCAACCAGGCAAGCAGTCC 60.228 57.895 0.00 0.00 0.00 3.85
2994 8412 6.438741 TCTTGAGTCATCACCATCTCTACTTT 59.561 38.462 0.00 0.00 34.35 2.66
3020 8439 4.707448 ACTGGACAGATACGAATCTTGACT 59.293 41.667 6.29 0.00 40.65 3.41
3021 8440 5.000012 ACTGGACAGATACGAATCTTGAC 58.000 43.478 6.29 0.00 40.65 3.18
3022 8441 5.067413 GGTACTGGACAGATACGAATCTTGA 59.933 44.000 6.29 0.00 40.65 3.02
3023 8442 5.067936 AGGTACTGGACAGATACGAATCTTG 59.932 44.000 6.29 0.00 37.63 3.02
3024 8443 5.202004 AGGTACTGGACAGATACGAATCTT 58.798 41.667 6.29 0.00 37.63 2.40
3026 8445 5.335035 GCTAGGTACTGGACAGATACGAATC 60.335 48.000 6.29 0.00 40.33 2.52
3027 8446 4.519730 GCTAGGTACTGGACAGATACGAAT 59.480 45.833 6.29 0.00 40.33 3.34
3028 8447 3.881688 GCTAGGTACTGGACAGATACGAA 59.118 47.826 6.29 0.00 40.33 3.85
3029 8448 3.118149 TGCTAGGTACTGGACAGATACGA 60.118 47.826 6.29 0.00 40.33 3.43
3030 8449 3.003482 GTGCTAGGTACTGGACAGATACG 59.997 52.174 6.29 0.00 40.33 3.06
3031 8450 4.208746 AGTGCTAGGTACTGGACAGATAC 58.791 47.826 6.29 5.19 40.33 2.24
3032 8451 4.521536 AGTGCTAGGTACTGGACAGATA 57.478 45.455 6.29 0.00 40.33 1.98
3033 8452 3.390175 AGTGCTAGGTACTGGACAGAT 57.610 47.619 6.29 0.00 40.33 2.90
3034 8453 2.901338 AGTGCTAGGTACTGGACAGA 57.099 50.000 6.29 0.00 40.33 3.41
3035 8454 3.006967 ACAAAGTGCTAGGTACTGGACAG 59.993 47.826 0.00 0.00 40.33 3.51
3228 8943 7.764443 TGGTTAAATCTTACATAGCAGAGTGAC 59.236 37.037 0.00 0.00 0.00 3.67
3237 8952 9.507329 ACATAGGCATGGTTAAATCTTACATAG 57.493 33.333 0.00 0.00 36.39 2.23
3289 11148 4.226168 CCTCCAGGGAGTAGATCACTTTTT 59.774 45.833 14.00 0.00 39.23 1.94
3290 11149 3.777522 CCTCCAGGGAGTAGATCACTTTT 59.222 47.826 14.00 0.00 39.23 2.27
3291 11150 3.379452 CCTCCAGGGAGTAGATCACTTT 58.621 50.000 14.00 0.00 39.23 2.66
3292 11151 3.039252 CCTCCAGGGAGTAGATCACTT 57.961 52.381 14.00 0.00 39.23 3.16
3293 11152 2.765689 CCTCCAGGGAGTAGATCACT 57.234 55.000 14.00 0.00 45.03 3.41
3406 11269 1.107114 ATCGTCTGGAACATCGCTCT 58.893 50.000 0.00 0.00 38.20 4.09
3435 11298 1.002134 ATCTTTGACCACCTGGCCG 60.002 57.895 0.00 0.00 39.32 6.13
3457 11320 1.089481 TCCGTCAATGCGATGCTTCC 61.089 55.000 0.00 0.00 0.00 3.46
3466 11329 4.097892 ACCTTCCATTAATTCCGTCAATGC 59.902 41.667 0.00 0.00 0.00 3.56
3473 11336 5.373222 TGGATGTACCTTCCATTAATTCCG 58.627 41.667 9.90 0.00 38.35 4.30
3476 11339 5.594317 GCACTGGATGTACCTTCCATTAATT 59.406 40.000 13.40 0.00 42.26 1.40
3477 11340 5.103940 AGCACTGGATGTACCTTCCATTAAT 60.104 40.000 13.40 1.38 42.26 1.40
3478 11341 4.227300 AGCACTGGATGTACCTTCCATTAA 59.773 41.667 13.40 0.00 42.26 1.40
3479 11342 3.780294 AGCACTGGATGTACCTTCCATTA 59.220 43.478 13.40 0.00 42.26 1.90
3511 11374 8.028354 GGTATCATCATGTTCATTTGTTGACAA 58.972 33.333 0.00 0.00 32.84 3.18
3512 11375 7.176340 TGGTATCATCATGTTCATTTGTTGACA 59.824 33.333 0.00 0.00 32.84 3.58
3513 11376 7.537715 TGGTATCATCATGTTCATTTGTTGAC 58.462 34.615 0.00 0.00 32.84 3.18
3514 11377 7.700022 TGGTATCATCATGTTCATTTGTTGA 57.300 32.000 0.00 0.00 0.00 3.18
3515 11378 8.030692 ACTTGGTATCATCATGTTCATTTGTTG 58.969 33.333 0.00 0.00 0.00 3.33
3516 11379 8.125978 ACTTGGTATCATCATGTTCATTTGTT 57.874 30.769 0.00 0.00 0.00 2.83
3517 11380 7.613022 AGACTTGGTATCATCATGTTCATTTGT 59.387 33.333 0.00 0.00 0.00 2.83
3518 11381 7.993101 AGACTTGGTATCATCATGTTCATTTG 58.007 34.615 0.00 0.00 0.00 2.32
3519 11382 8.051535 AGAGACTTGGTATCATCATGTTCATTT 58.948 33.333 0.00 0.00 0.00 2.32
3520 11383 7.571919 AGAGACTTGGTATCATCATGTTCATT 58.428 34.615 0.00 0.00 0.00 2.57
3521 11384 7.134362 AGAGACTTGGTATCATCATGTTCAT 57.866 36.000 0.00 0.00 0.00 2.57
3522 11385 6.407412 GGAGAGACTTGGTATCATCATGTTCA 60.407 42.308 0.00 0.00 0.00 3.18
3523 11386 5.988561 GGAGAGACTTGGTATCATCATGTTC 59.011 44.000 0.00 0.00 0.00 3.18
3524 11387 5.664908 AGGAGAGACTTGGTATCATCATGTT 59.335 40.000 0.00 0.00 0.00 2.71
3525 11388 5.070180 CAGGAGAGACTTGGTATCATCATGT 59.930 44.000 0.00 0.00 0.00 3.21
3526 11389 5.070180 ACAGGAGAGACTTGGTATCATCATG 59.930 44.000 0.00 0.00 0.00 3.07
3527 11390 5.215069 ACAGGAGAGACTTGGTATCATCAT 58.785 41.667 0.00 0.00 0.00 2.45
3528 11391 4.614475 ACAGGAGAGACTTGGTATCATCA 58.386 43.478 0.00 0.00 0.00 3.07
3529 11392 5.355596 CAACAGGAGAGACTTGGTATCATC 58.644 45.833 0.00 0.00 0.00 2.92
3530 11393 4.163078 CCAACAGGAGAGACTTGGTATCAT 59.837 45.833 0.00 0.00 0.00 2.45
3531 11394 3.515502 CCAACAGGAGAGACTTGGTATCA 59.484 47.826 0.00 0.00 0.00 2.15
3532 11395 3.515901 ACCAACAGGAGAGACTTGGTATC 59.484 47.826 0.00 0.00 43.73 2.24
3533 11396 3.261897 CACCAACAGGAGAGACTTGGTAT 59.738 47.826 0.71 0.00 43.72 2.73
3534 11397 2.632996 CACCAACAGGAGAGACTTGGTA 59.367 50.000 0.71 0.00 43.72 3.25
3535 11398 1.417890 CACCAACAGGAGAGACTTGGT 59.582 52.381 0.00 0.00 45.95 3.67
3536 11399 1.694150 TCACCAACAGGAGAGACTTGG 59.306 52.381 0.00 0.00 39.35 3.61
3537 11400 3.134458 GTTCACCAACAGGAGAGACTTG 58.866 50.000 0.00 0.00 32.14 3.16
3538 11401 2.224066 CGTTCACCAACAGGAGAGACTT 60.224 50.000 0.00 0.00 32.14 3.01
3539 11402 1.341531 CGTTCACCAACAGGAGAGACT 59.658 52.381 0.00 0.00 32.14 3.24
3540 11403 1.068741 ACGTTCACCAACAGGAGAGAC 59.931 52.381 0.00 0.00 32.14 3.36
3541 11404 1.068588 CACGTTCACCAACAGGAGAGA 59.931 52.381 0.00 0.00 32.14 3.10
3542 11405 1.068588 TCACGTTCACCAACAGGAGAG 59.931 52.381 0.00 0.00 32.14 3.20
3543 11406 1.116308 TCACGTTCACCAACAGGAGA 58.884 50.000 0.00 0.00 32.14 3.71
3544 11407 2.169832 ATCACGTTCACCAACAGGAG 57.830 50.000 0.00 0.00 32.14 3.69
3545 11408 3.674955 CGATATCACGTTCACCAACAGGA 60.675 47.826 3.12 0.00 32.14 3.86
3546 11409 2.603110 CGATATCACGTTCACCAACAGG 59.397 50.000 3.12 0.00 32.14 4.00
3547 11410 2.603110 CCGATATCACGTTCACCAACAG 59.397 50.000 3.12 0.00 32.14 3.16
3548 11411 2.231721 TCCGATATCACGTTCACCAACA 59.768 45.455 3.12 0.00 32.14 3.33
3549 11412 2.883574 TCCGATATCACGTTCACCAAC 58.116 47.619 3.12 0.00 0.00 3.77
3550 11413 3.596310 TTCCGATATCACGTTCACCAA 57.404 42.857 3.12 0.00 0.00 3.67
3551 11414 3.812156 ATTCCGATATCACGTTCACCA 57.188 42.857 3.12 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.