Multiple sequence alignment - TraesCS7A01G098500

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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 TraesCS7A01G098500 chr7A 100.000 3575 0 0 1 3575 60243675 60240101 0.000000e+00 6602
1 TraesCS7A01G098500 chr7A 99.309 3183 21 1 1 3182 60153804 60156986 0.000000e+00 5755
2 TraesCS7A01G098500 chr7A 98.650 2518 34 0 941 3458 120880746 120883263 0.000000e+00 4462
3 TraesCS7A01G098500 chrUn 99.335 3460 22 1 1 3460 86477414 86480872 0.000000e+00 6261
4 TraesCS7A01G098500 chrUn 99.207 2521 19 1 941 3460 186191116 186188596 0.000000e+00 4543
5 TraesCS7A01G098500 chrUn 99.516 1034 5 0 1 1034 221549942 221548909 0.000000e+00 1882
6 TraesCS7A01G098500 chrUn 99.130 1034 9 0 1 1034 186192940 186191907 0.000000e+00 1860
7 TraesCS7A01G098500 chrUn 100.000 116 0 0 3460 3575 365099169 365099054 7.770000e-52 215
8 TraesCS7A01G098500 chrUn 100.000 116 0 0 3460 3575 384414980 384415095 7.770000e-52 215
9 TraesCS7A01G098500 chr1A 99.162 3461 28 1 1 3460 112005548 112002088 0.000000e+00 6229
10 TraesCS7A01G098500 chr7D 99.167 2521 19 2 941 3460 579030033 579032552 0.000000e+00 4538
11 TraesCS7A01G098500 chr7B 99.167 2520 21 0 941 3460 743006363 743008882 0.000000e+00 4538
12 TraesCS7A01G098500 chr7B 98.743 1034 13 0 1 1034 743004538 743005571 0.000000e+00 1838
13 TraesCS7A01G098500 chr7B 100.000 116 0 0 3460 3575 224196924 224196809 7.770000e-52 215
14 TraesCS7A01G098500 chr1D 98.691 2521 28 5 941 3460 212467566 212465050 0.000000e+00 4468
15 TraesCS7A01G098500 chr4B 98.571 2520 34 2 941 3460 209271009 209268492 0.000000e+00 4453
16 TraesCS7A01G098500 chr4B 98.259 1034 18 0 1 1034 209272790 209271757 0.000000e+00 1810
17 TraesCS7A01G098500 chr6D 99.033 1034 10 0 1 1034 458963425 458964458 0.000000e+00 1855
18 TraesCS7A01G098500 chr6D 98.357 1035 15 2 1 1034 425979462 425978429 0.000000e+00 1816
19 TraesCS7A01G098500 chr4A 100.000 117 0 0 3459 3575 576240370 576240486 2.160000e-52 217
20 TraesCS7A01G098500 chr5B 100.000 116 0 0 3460 3575 581426779 581426664 7.770000e-52 215
21 TraesCS7A01G098500 chr2B 100.000 116 0 0 3460 3575 468118512 468118627 7.770000e-52 215
22 TraesCS7A01G098500 chr2B 100.000 116 0 0 3460 3575 468127164 468127279 7.770000e-52 215
23 TraesCS7A01G098500 chr1B 100.000 116 0 0 3460 3575 542363793 542363678 7.770000e-52 215
24 TraesCS7A01G098500 chr1B 100.000 116 0 0 3460 3575 542371919 542371804 7.770000e-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 TraesCS7A01G098500 chr7A 60240101 60243675 3574 True 6602.0 6602 100.0000 1 3575 1 chr7A.!!$R1 3574
1 TraesCS7A01G098500 chr7A 60153804 60156986 3182 False 5755.0 5755 99.3090 1 3182 1 chr7A.!!$F1 3181
2 TraesCS7A01G098500 chr7A 120880746 120883263 2517 False 4462.0 4462 98.6500 941 3458 1 chr7A.!!$F2 2517
3 TraesCS7A01G098500 chrUn 86477414 86480872 3458 False 6261.0 6261 99.3350 1 3460 1 chrUn.!!$F1 3459
4 TraesCS7A01G098500 chrUn 186188596 186192940 4344 True 3201.5 4543 99.1685 1 3460 2 chrUn.!!$R3 3459
5 TraesCS7A01G098500 chrUn 221548909 221549942 1033 True 1882.0 1882 99.5160 1 1034 1 chrUn.!!$R1 1033
6 TraesCS7A01G098500 chr1A 112002088 112005548 3460 True 6229.0 6229 99.1620 1 3460 1 chr1A.!!$R1 3459
7 TraesCS7A01G098500 chr7D 579030033 579032552 2519 False 4538.0 4538 99.1670 941 3460 1 chr7D.!!$F1 2519
8 TraesCS7A01G098500 chr7B 743004538 743008882 4344 False 3188.0 4538 98.9550 1 3460 2 chr7B.!!$F1 3459
9 TraesCS7A01G098500 chr1D 212465050 212467566 2516 True 4468.0 4468 98.6910 941 3460 1 chr1D.!!$R1 2519
10 TraesCS7A01G098500 chr4B 209268492 209272790 4298 True 3131.5 4453 98.4150 1 3460 2 chr4B.!!$R1 3459
11 TraesCS7A01G098500 chr6D 458963425 458964458 1033 False 1855.0 1855 99.0330 1 1034 1 chr6D.!!$F1 1033
12 TraesCS7A01G098500 chr6D 425978429 425979462 1033 True 1816.0 1816 98.3570 1 1034 1 chr6D.!!$R1 1033

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
235 236 4.273148 TCTTTCAGCTGAAACTCTACCC 57.727 45.455 32.86 0.0 38.94 3.69 F
922 924 7.800300 AGTATTAAGGTTCTTCTCTTCCAGT 57.200 36.000 0.00 0.0 0.00 4.00 F
1115 2886 3.195610 ACATGCTTCTCCGTACTGATTCA 59.804 43.478 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
1115 2886 1.278127 CGGGTCGGGCTAATTCCATAT 59.722 52.381 0.0 0.0 0.00 1.78 R
2105 3878 8.070171 GTGCAACCACATAATAAGTATCATGTC 58.930 37.037 0.0 0.0 41.67 3.06 R
3006 4781 7.554118 GGATTCCAAGTGTTCTAATTCATCTCA 59.446 37.037 0.0 0.0 0.00 3.27 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
65 66 9.152595 ACATCTGATCGATATGAATGAAAGATG 57.847 33.333 12.50 13.29 39.87 2.90
235 236 4.273148 TCTTTCAGCTGAAACTCTACCC 57.727 45.455 32.86 0.00 38.94 3.69
922 924 7.800300 AGTATTAAGGTTCTTCTCTTCCAGT 57.200 36.000 0.00 0.00 0.00 4.00
1115 2886 3.195610 ACATGCTTCTCCGTACTGATTCA 59.804 43.478 0.00 0.00 0.00 2.57
1173 2944 7.880160 TGGTGGGAATCATCAACTTTATAAG 57.120 36.000 0.00 0.00 32.74 1.73
1442 3213 3.340814 TTCTGGAGGAGCAGTTGATTC 57.659 47.619 0.00 0.00 0.00 2.52
2105 3878 0.461548 TCTGGGCTAGACATTGCTCG 59.538 55.000 0.00 0.00 31.17 5.03
2791 4566 1.008194 CTGACGGGTCGTTCGTTCA 60.008 57.895 0.00 0.00 41.37 3.18
3006 4781 4.158394 GCATGTTTGATGTGGGTCTGTAAT 59.842 41.667 0.00 0.00 0.00 1.89
3129 4904 2.366590 TGCCGTTCAGAGATGCTATCAT 59.633 45.455 0.00 0.00 35.17 2.45
3460 5235 0.035439 AACCTGTGGGAATAGCCGTG 60.035 55.000 0.00 0.00 37.63 4.94
3461 5236 1.198759 ACCTGTGGGAATAGCCGTGT 61.199 55.000 0.00 0.00 37.63 4.49
3462 5237 0.462047 CCTGTGGGAATAGCCGTGTC 60.462 60.000 0.00 0.00 37.63 3.67
3463 5238 0.249120 CTGTGGGAATAGCCGTGTCA 59.751 55.000 0.00 0.00 37.63 3.58
3464 5239 0.036765 TGTGGGAATAGCCGTGTCAC 60.037 55.000 0.00 0.00 37.63 3.67
3465 5240 0.036765 GTGGGAATAGCCGTGTCACA 60.037 55.000 3.42 0.00 37.63 3.58
3466 5241 0.908910 TGGGAATAGCCGTGTCACAT 59.091 50.000 3.42 0.00 37.63 3.21
3467 5242 1.134521 TGGGAATAGCCGTGTCACATC 60.135 52.381 3.42 0.00 37.63 3.06
3468 5243 1.583054 GGAATAGCCGTGTCACATCC 58.417 55.000 3.42 0.00 0.00 3.51
3469 5244 1.583054 GAATAGCCGTGTCACATCCC 58.417 55.000 3.42 0.00 0.00 3.85
3470 5245 1.139058 GAATAGCCGTGTCACATCCCT 59.861 52.381 3.42 0.00 0.00 4.20
3471 5246 2.082140 ATAGCCGTGTCACATCCCTA 57.918 50.000 3.42 0.00 0.00 3.53
3472 5247 1.399714 TAGCCGTGTCACATCCCTAG 58.600 55.000 3.42 0.00 0.00 3.02
3473 5248 1.521681 GCCGTGTCACATCCCTAGC 60.522 63.158 3.42 0.00 0.00 3.42
3474 5249 1.961180 GCCGTGTCACATCCCTAGCT 61.961 60.000 3.42 0.00 0.00 3.32
3475 5250 0.537188 CCGTGTCACATCCCTAGCTT 59.463 55.000 3.42 0.00 0.00 3.74
3476 5251 1.471676 CCGTGTCACATCCCTAGCTTC 60.472 57.143 3.42 0.00 0.00 3.86
3477 5252 1.478510 CGTGTCACATCCCTAGCTTCT 59.521 52.381 3.42 0.00 0.00 2.85
3478 5253 2.736719 CGTGTCACATCCCTAGCTTCTG 60.737 54.545 3.42 0.00 0.00 3.02
3479 5254 1.833630 TGTCACATCCCTAGCTTCTGG 59.166 52.381 0.00 0.00 0.00 3.86
3480 5255 0.833287 TCACATCCCTAGCTTCTGGC 59.167 55.000 0.00 0.00 42.19 4.85
3481 5256 0.543277 CACATCCCTAGCTTCTGGCA 59.457 55.000 0.00 0.00 44.79 4.92
3482 5257 1.142465 CACATCCCTAGCTTCTGGCAT 59.858 52.381 0.00 0.00 44.79 4.40
3483 5258 1.849039 ACATCCCTAGCTTCTGGCATT 59.151 47.619 0.00 0.00 44.79 3.56
3484 5259 2.228059 CATCCCTAGCTTCTGGCATTG 58.772 52.381 0.00 0.00 44.79 2.82
3485 5260 0.107017 TCCCTAGCTTCTGGCATTGC 60.107 55.000 0.00 0.00 44.79 3.56
3486 5261 0.394762 CCCTAGCTTCTGGCATTGCA 60.395 55.000 11.39 0.00 44.79 4.08
3487 5262 0.737219 CCTAGCTTCTGGCATTGCAC 59.263 55.000 11.39 0.57 44.79 4.57
3488 5263 1.681166 CCTAGCTTCTGGCATTGCACT 60.681 52.381 11.39 0.50 44.79 4.40
3489 5264 2.420547 CCTAGCTTCTGGCATTGCACTA 60.421 50.000 11.39 1.61 44.79 2.74
3490 5265 1.747709 AGCTTCTGGCATTGCACTAG 58.252 50.000 11.39 5.79 44.79 2.57
3491 5266 1.004044 AGCTTCTGGCATTGCACTAGT 59.996 47.619 11.39 0.00 44.79 2.57
3492 5267 2.237143 AGCTTCTGGCATTGCACTAGTA 59.763 45.455 11.39 0.00 44.79 1.82
3493 5268 2.352960 GCTTCTGGCATTGCACTAGTAC 59.647 50.000 11.39 0.00 41.35 2.73
3494 5269 3.866651 CTTCTGGCATTGCACTAGTACT 58.133 45.455 11.39 0.00 0.00 2.73
3495 5270 4.680708 GCTTCTGGCATTGCACTAGTACTA 60.681 45.833 11.39 1.89 41.35 1.82
3496 5271 4.655762 TCTGGCATTGCACTAGTACTAG 57.344 45.455 25.30 25.30 39.04 2.57
3497 5272 3.126831 CTGGCATTGCACTAGTACTAGC 58.873 50.000 26.54 16.71 36.66 3.42
3498 5273 2.158957 TGGCATTGCACTAGTACTAGCC 60.159 50.000 26.54 21.00 39.95 3.93
3499 5274 2.103263 GGCATTGCACTAGTACTAGCCT 59.897 50.000 26.54 8.38 36.66 4.58
3500 5275 3.432326 GGCATTGCACTAGTACTAGCCTT 60.432 47.826 26.54 7.67 36.66 4.35
3501 5276 4.192317 GCATTGCACTAGTACTAGCCTTT 58.808 43.478 26.54 7.32 36.66 3.11
3502 5277 4.034510 GCATTGCACTAGTACTAGCCTTTG 59.965 45.833 26.54 18.63 36.66 2.77
3503 5278 3.887621 TGCACTAGTACTAGCCTTTGG 57.112 47.619 26.54 12.16 36.66 3.28
3504 5279 3.170717 TGCACTAGTACTAGCCTTTGGT 58.829 45.455 26.54 6.37 36.66 3.67
3505 5280 3.056107 TGCACTAGTACTAGCCTTTGGTG 60.056 47.826 26.54 17.71 36.66 4.17
3506 5281 3.194968 GCACTAGTACTAGCCTTTGGTGA 59.805 47.826 26.54 0.00 36.66 4.02
3507 5282 4.141914 GCACTAGTACTAGCCTTTGGTGAT 60.142 45.833 26.54 3.47 36.66 3.06
3508 5283 5.352284 CACTAGTACTAGCCTTTGGTGATG 58.648 45.833 26.54 11.53 36.66 3.07
3509 5284 3.268023 AGTACTAGCCTTTGGTGATGC 57.732 47.619 0.00 0.00 0.00 3.91
3510 5285 2.571653 AGTACTAGCCTTTGGTGATGCA 59.428 45.455 0.00 0.00 0.00 3.96
3511 5286 2.814805 ACTAGCCTTTGGTGATGCAT 57.185 45.000 0.00 0.00 0.00 3.96
3512 5287 2.648059 ACTAGCCTTTGGTGATGCATC 58.352 47.619 20.14 20.14 0.00 3.91
3513 5288 2.025981 ACTAGCCTTTGGTGATGCATCA 60.026 45.455 25.42 25.42 0.00 3.07
3514 5289 2.154567 AGCCTTTGGTGATGCATCAT 57.845 45.000 30.89 10.87 39.30 2.45
3515 5290 1.754803 AGCCTTTGGTGATGCATCATG 59.245 47.619 30.89 17.74 39.30 3.07
3516 5291 1.479323 GCCTTTGGTGATGCATCATGT 59.521 47.619 30.89 0.00 39.30 3.21
3517 5292 2.093869 GCCTTTGGTGATGCATCATGTT 60.094 45.455 30.89 0.00 39.30 2.71
3518 5293 3.618019 GCCTTTGGTGATGCATCATGTTT 60.618 43.478 30.89 0.00 39.30 2.83
3519 5294 4.381825 GCCTTTGGTGATGCATCATGTTTA 60.382 41.667 30.89 14.98 39.30 2.01
3520 5295 5.722263 CCTTTGGTGATGCATCATGTTTAA 58.278 37.500 30.89 17.98 39.30 1.52
3521 5296 6.164876 CCTTTGGTGATGCATCATGTTTAAA 58.835 36.000 30.89 22.55 39.30 1.52
3522 5297 6.819649 CCTTTGGTGATGCATCATGTTTAAAT 59.180 34.615 30.89 0.00 39.30 1.40
3523 5298 7.334921 CCTTTGGTGATGCATCATGTTTAAATT 59.665 33.333 30.89 0.00 39.30 1.82
3524 5299 8.618702 TTTGGTGATGCATCATGTTTAAATTT 57.381 26.923 30.89 0.00 39.30 1.82
3525 5300 8.618702 TTGGTGATGCATCATGTTTAAATTTT 57.381 26.923 30.89 0.00 39.30 1.82
3526 5301 8.618702 TGGTGATGCATCATGTTTAAATTTTT 57.381 26.923 30.89 0.00 39.30 1.94
3527 5302 8.504815 TGGTGATGCATCATGTTTAAATTTTTG 58.495 29.630 30.89 0.00 39.30 2.44
3528 5303 7.482428 GGTGATGCATCATGTTTAAATTTTTGC 59.518 33.333 30.89 12.58 39.30 3.68
3529 5304 7.482428 GTGATGCATCATGTTTAAATTTTTGCC 59.518 33.333 30.89 9.19 39.30 4.52
3530 5305 7.390996 TGATGCATCATGTTTAAATTTTTGCCT 59.609 29.630 25.42 0.00 0.00 4.75
3531 5306 8.789825 ATGCATCATGTTTAAATTTTTGCCTA 57.210 26.923 0.00 0.00 0.00 3.93
3532 5307 8.613060 TGCATCATGTTTAAATTTTTGCCTAA 57.387 26.923 0.00 0.00 0.00 2.69
3533 5308 9.060347 TGCATCATGTTTAAATTTTTGCCTAAA 57.940 25.926 0.00 0.00 0.00 1.85
3534 5309 9.890352 GCATCATGTTTAAATTTTTGCCTAAAA 57.110 25.926 0.00 0.00 39.88 1.52
3545 5320 6.890979 TTTTTGCCTAAAATTGAAATGGGG 57.109 33.333 0.00 0.00 35.82 4.96
3546 5321 5.832539 TTTGCCTAAAATTGAAATGGGGA 57.167 34.783 0.00 0.00 0.00 4.81
3547 5322 6.385766 TTTGCCTAAAATTGAAATGGGGAT 57.614 33.333 0.00 0.00 0.00 3.85
3548 5323 5.356291 TGCCTAAAATTGAAATGGGGATG 57.644 39.130 0.00 0.00 0.00 3.51
3549 5324 4.782156 TGCCTAAAATTGAAATGGGGATGT 59.218 37.500 0.00 0.00 0.00 3.06
3550 5325 5.250313 TGCCTAAAATTGAAATGGGGATGTT 59.750 36.000 0.00 0.00 0.00 2.71
3551 5326 5.817296 GCCTAAAATTGAAATGGGGATGTTC 59.183 40.000 0.00 0.00 0.00 3.18
3552 5327 6.576045 GCCTAAAATTGAAATGGGGATGTTCA 60.576 38.462 0.00 0.00 0.00 3.18
3553 5328 7.393216 CCTAAAATTGAAATGGGGATGTTCAA 58.607 34.615 0.98 0.98 43.36 2.69
3554 5329 7.882271 CCTAAAATTGAAATGGGGATGTTCAAA 59.118 33.333 2.52 0.00 42.70 2.69
3555 5330 7.509141 AAAATTGAAATGGGGATGTTCAAAC 57.491 32.000 2.52 0.00 42.70 2.93
3556 5331 4.615588 TTGAAATGGGGATGTTCAAACC 57.384 40.909 0.00 0.00 38.09 3.27
3557 5332 2.903135 TGAAATGGGGATGTTCAAACCC 59.097 45.455 0.00 0.00 43.64 4.11
3558 5333 3.173151 GAAATGGGGATGTTCAAACCCT 58.827 45.455 13.51 0.00 43.72 4.34
3559 5334 4.202727 TGAAATGGGGATGTTCAAACCCTA 60.203 41.667 13.51 10.25 43.72 3.53
3560 5335 3.669939 ATGGGGATGTTCAAACCCTAG 57.330 47.619 13.51 0.00 43.72 3.02
3561 5336 1.005450 TGGGGATGTTCAAACCCTAGC 59.995 52.381 13.51 0.00 43.72 3.42
3562 5337 1.005450 GGGGATGTTCAAACCCTAGCA 59.995 52.381 14.30 0.00 42.86 3.49
3563 5338 2.358195 GGGGATGTTCAAACCCTAGCAT 60.358 50.000 14.30 0.00 42.86 3.79
3564 5339 3.365472 GGGATGTTCAAACCCTAGCATT 58.635 45.455 0.00 0.00 40.39 3.56
3565 5340 4.532834 GGGATGTTCAAACCCTAGCATTA 58.467 43.478 0.00 0.00 40.39 1.90
3566 5341 4.953579 GGGATGTTCAAACCCTAGCATTAA 59.046 41.667 0.00 0.00 40.39 1.40
3567 5342 5.420739 GGGATGTTCAAACCCTAGCATTAAA 59.579 40.000 0.00 0.00 40.39 1.52
3568 5343 6.098266 GGGATGTTCAAACCCTAGCATTAAAT 59.902 38.462 0.00 0.00 40.39 1.40
3569 5344 7.203218 GGATGTTCAAACCCTAGCATTAAATC 58.797 38.462 0.00 0.00 0.00 2.17
3570 5345 7.147915 GGATGTTCAAACCCTAGCATTAAATCA 60.148 37.037 0.00 0.00 0.00 2.57
3571 5346 7.531857 TGTTCAAACCCTAGCATTAAATCAA 57.468 32.000 0.00 0.00 0.00 2.57
3572 5347 7.375053 TGTTCAAACCCTAGCATTAAATCAAC 58.625 34.615 0.00 0.00 0.00 3.18
3573 5348 7.232534 TGTTCAAACCCTAGCATTAAATCAACT 59.767 33.333 0.00 0.00 0.00 3.16
3574 5349 7.391148 TCAAACCCTAGCATTAAATCAACTC 57.609 36.000 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 66 2.979240 AGGAGAAGAAAAGACGGATGC 58.021 47.619 0.00 0.00 0.00 3.91
235 236 1.392589 CCGGGGAATCTGAACCATTG 58.607 55.000 0.00 0.00 0.00 2.82
922 924 9.490379 GGAAGAGAAGAACTTGAATACTAAACA 57.510 33.333 0.00 0.00 0.00 2.83
1115 2886 1.278127 CGGGTCGGGCTAATTCCATAT 59.722 52.381 0.00 0.00 0.00 1.78
1173 2944 4.632538 AGCATGAGCCGTTAATAAAACC 57.367 40.909 0.00 0.00 43.56 3.27
1442 3213 9.932699 CTGATAGATGAAGACTAAAAATTGCTG 57.067 33.333 0.00 0.00 0.00 4.41
2105 3878 8.070171 GTGCAACCACATAATAAGTATCATGTC 58.930 37.037 0.00 0.00 41.67 3.06
3006 4781 7.554118 GGATTCCAAGTGTTCTAATTCATCTCA 59.446 37.037 0.00 0.00 0.00 3.27
3129 4904 7.622479 AGGATAACTTGGCTAACTTTCCTACTA 59.378 37.037 0.00 0.00 29.52 1.82
3460 5235 1.474143 GCCAGAAGCTAGGGATGTGAC 60.474 57.143 2.62 0.00 38.99 3.67
3461 5236 0.833287 GCCAGAAGCTAGGGATGTGA 59.167 55.000 2.62 0.00 38.99 3.58
3462 5237 0.543277 TGCCAGAAGCTAGGGATGTG 59.457 55.000 2.62 0.00 44.23 3.21
3463 5238 1.516110 ATGCCAGAAGCTAGGGATGT 58.484 50.000 6.07 0.00 44.23 3.06
3464 5239 2.228059 CAATGCCAGAAGCTAGGGATG 58.772 52.381 7.40 0.52 44.23 3.51
3465 5240 1.478288 GCAATGCCAGAAGCTAGGGAT 60.478 52.381 0.00 2.10 44.23 3.85
3466 5241 0.107017 GCAATGCCAGAAGCTAGGGA 60.107 55.000 0.00 0.00 44.23 4.20
3467 5242 0.394762 TGCAATGCCAGAAGCTAGGG 60.395 55.000 1.53 0.00 44.23 3.53
3468 5243 0.737219 GTGCAATGCCAGAAGCTAGG 59.263 55.000 1.53 0.00 44.23 3.02
3469 5244 1.747709 AGTGCAATGCCAGAAGCTAG 58.252 50.000 1.53 0.00 44.23 3.42
3470 5245 2.237143 ACTAGTGCAATGCCAGAAGCTA 59.763 45.455 1.53 0.00 44.23 3.32
3471 5246 1.004044 ACTAGTGCAATGCCAGAAGCT 59.996 47.619 1.53 0.00 44.23 3.74
3472 5247 1.457346 ACTAGTGCAATGCCAGAAGC 58.543 50.000 1.53 0.00 44.14 3.86
3473 5248 3.866651 AGTACTAGTGCAATGCCAGAAG 58.133 45.455 13.75 0.00 0.00 2.85
3474 5249 3.981071 AGTACTAGTGCAATGCCAGAA 57.019 42.857 13.75 0.00 0.00 3.02
3475 5250 3.181475 GCTAGTACTAGTGCAATGCCAGA 60.181 47.826 26.76 0.00 35.65 3.86
3476 5251 3.126831 GCTAGTACTAGTGCAATGCCAG 58.873 50.000 26.76 4.38 35.65 4.85
3477 5252 2.158957 GGCTAGTACTAGTGCAATGCCA 60.159 50.000 26.76 0.00 37.91 4.92
3478 5253 2.103263 AGGCTAGTACTAGTGCAATGCC 59.897 50.000 26.76 23.57 38.24 4.40
3479 5254 3.460857 AGGCTAGTACTAGTGCAATGC 57.539 47.619 26.76 14.02 35.65 3.56
3480 5255 4.572389 CCAAAGGCTAGTACTAGTGCAATG 59.428 45.833 26.76 19.07 35.65 2.82
3481 5256 4.225267 ACCAAAGGCTAGTACTAGTGCAAT 59.775 41.667 26.76 10.55 35.65 3.56
3482 5257 3.581332 ACCAAAGGCTAGTACTAGTGCAA 59.419 43.478 26.76 0.00 35.65 4.08
3483 5258 3.056107 CACCAAAGGCTAGTACTAGTGCA 60.056 47.826 26.76 0.00 35.65 4.57
3484 5259 3.194968 TCACCAAAGGCTAGTACTAGTGC 59.805 47.826 26.76 16.60 35.65 4.40
3485 5260 5.352284 CATCACCAAAGGCTAGTACTAGTG 58.648 45.833 26.76 18.05 35.65 2.74
3486 5261 4.141914 GCATCACCAAAGGCTAGTACTAGT 60.142 45.833 26.76 9.19 35.65 2.57
3487 5262 4.141937 TGCATCACCAAAGGCTAGTACTAG 60.142 45.833 23.25 23.25 36.29 2.57
3488 5263 3.772572 TGCATCACCAAAGGCTAGTACTA 59.227 43.478 1.89 1.89 0.00 1.82
3489 5264 2.571653 TGCATCACCAAAGGCTAGTACT 59.428 45.455 0.00 0.00 0.00 2.73
3490 5265 2.985896 TGCATCACCAAAGGCTAGTAC 58.014 47.619 0.00 0.00 0.00 2.73
3491 5266 3.199727 TGATGCATCACCAAAGGCTAGTA 59.800 43.478 25.42 0.00 0.00 1.82
3492 5267 2.025981 TGATGCATCACCAAAGGCTAGT 60.026 45.455 25.42 0.00 0.00 2.57
3493 5268 2.646930 TGATGCATCACCAAAGGCTAG 58.353 47.619 25.42 0.00 0.00 3.42
3494 5269 2.804986 TGATGCATCACCAAAGGCTA 57.195 45.000 25.42 0.00 0.00 3.93
3495 5270 1.754803 CATGATGCATCACCAAAGGCT 59.245 47.619 30.92 10.41 40.03 4.58
3496 5271 1.479323 ACATGATGCATCACCAAAGGC 59.521 47.619 30.92 0.00 40.03 4.35
3497 5272 3.880047 AACATGATGCATCACCAAAGG 57.120 42.857 30.92 17.41 40.03 3.11
3498 5273 7.837202 ATTTAAACATGATGCATCACCAAAG 57.163 32.000 30.92 19.27 40.03 2.77
3499 5274 8.618702 AAATTTAAACATGATGCATCACCAAA 57.381 26.923 30.92 22.77 40.03 3.28
3500 5275 8.618702 AAAATTTAAACATGATGCATCACCAA 57.381 26.923 30.92 16.60 40.03 3.67
3501 5276 8.504815 CAAAAATTTAAACATGATGCATCACCA 58.495 29.630 30.92 10.43 40.03 4.17
3502 5277 7.482428 GCAAAAATTTAAACATGATGCATCACC 59.518 33.333 30.92 4.02 40.03 4.02
3503 5278 7.482428 GGCAAAAATTTAAACATGATGCATCAC 59.518 33.333 30.92 12.20 40.03 3.06
3504 5279 7.390996 AGGCAAAAATTTAAACATGATGCATCA 59.609 29.630 30.47 30.47 41.70 3.07
3505 5280 7.754625 AGGCAAAAATTTAAACATGATGCATC 58.245 30.769 20.14 20.14 33.14 3.91
3506 5281 7.690952 AGGCAAAAATTTAAACATGATGCAT 57.309 28.000 0.00 0.00 33.14 3.96
3507 5282 8.613060 TTAGGCAAAAATTTAAACATGATGCA 57.387 26.923 0.00 0.00 33.14 3.96
3508 5283 9.890352 TTTTAGGCAAAAATTTAAACATGATGC 57.110 25.926 0.00 0.00 32.05 3.91
3522 5297 6.605119 TCCCCATTTCAATTTTAGGCAAAAA 58.395 32.000 0.00 0.00 41.21 1.94
3523 5298 6.192970 TCCCCATTTCAATTTTAGGCAAAA 57.807 33.333 0.00 0.00 38.00 2.44
3524 5299 5.832539 TCCCCATTTCAATTTTAGGCAAA 57.167 34.783 0.00 0.00 0.00 3.68
3525 5300 5.250313 ACATCCCCATTTCAATTTTAGGCAA 59.750 36.000 0.00 0.00 0.00 4.52
3526 5301 4.782156 ACATCCCCATTTCAATTTTAGGCA 59.218 37.500 0.00 0.00 0.00 4.75
3527 5302 5.357742 ACATCCCCATTTCAATTTTAGGC 57.642 39.130 0.00 0.00 0.00 3.93
3528 5303 6.945218 TGAACATCCCCATTTCAATTTTAGG 58.055 36.000 0.00 0.00 0.00 2.69
3529 5304 8.720562 GTTTGAACATCCCCATTTCAATTTTAG 58.279 33.333 0.00 0.00 38.65 1.85
3530 5305 7.663493 GGTTTGAACATCCCCATTTCAATTTTA 59.337 33.333 0.00 0.00 38.65 1.52
3531 5306 6.489700 GGTTTGAACATCCCCATTTCAATTTT 59.510 34.615 0.00 0.00 38.65 1.82
3532 5307 6.003326 GGTTTGAACATCCCCATTTCAATTT 58.997 36.000 0.00 0.00 38.65 1.82
3533 5308 5.514659 GGGTTTGAACATCCCCATTTCAATT 60.515 40.000 0.00 0.00 38.65 2.32
3534 5309 4.019411 GGGTTTGAACATCCCCATTTCAAT 60.019 41.667 0.00 0.00 38.65 2.57
3535 5310 3.326297 GGGTTTGAACATCCCCATTTCAA 59.674 43.478 0.00 0.00 37.44 2.69
3536 5311 2.903135 GGGTTTGAACATCCCCATTTCA 59.097 45.455 0.00 0.00 37.09 2.69
3537 5312 3.173151 AGGGTTTGAACATCCCCATTTC 58.827 45.455 10.47 0.00 41.95 2.17
3538 5313 3.274281 AGGGTTTGAACATCCCCATTT 57.726 42.857 10.47 0.00 41.95 2.32
3539 5314 3.881713 GCTAGGGTTTGAACATCCCCATT 60.882 47.826 10.47 0.00 41.95 3.16
3540 5315 2.358195 GCTAGGGTTTGAACATCCCCAT 60.358 50.000 10.47 0.00 41.95 4.00
3541 5316 1.005450 GCTAGGGTTTGAACATCCCCA 59.995 52.381 10.47 0.12 41.95 4.96
3542 5317 1.005450 TGCTAGGGTTTGAACATCCCC 59.995 52.381 10.30 6.59 41.95 4.81
3543 5318 2.507407 TGCTAGGGTTTGAACATCCC 57.493 50.000 0.00 0.00 41.36 3.85
3544 5319 6.524101 TTTAATGCTAGGGTTTGAACATCC 57.476 37.500 0.00 0.00 0.00 3.51
3545 5320 7.771183 TGATTTAATGCTAGGGTTTGAACATC 58.229 34.615 0.00 0.00 0.00 3.06
3546 5321 7.716799 TGATTTAATGCTAGGGTTTGAACAT 57.283 32.000 0.00 0.00 0.00 2.71
3547 5322 7.232534 AGTTGATTTAATGCTAGGGTTTGAACA 59.767 33.333 0.00 0.00 0.00 3.18
3548 5323 7.602753 AGTTGATTTAATGCTAGGGTTTGAAC 58.397 34.615 0.00 0.00 0.00 3.18
3549 5324 7.775053 AGTTGATTTAATGCTAGGGTTTGAA 57.225 32.000 0.00 0.00 0.00 2.69
3550 5325 7.391148 GAGTTGATTTAATGCTAGGGTTTGA 57.609 36.000 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.