Multiple sequence alignment - TraesCS2B01G207900

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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 TraesCS2B01G207900 chr2B 100.000 4470 0 0 1 4470 188713843 188718312 0.000000e+00 8255.0
1 TraesCS2B01G207900 chr2D 90.728 3624 195 57 1 3545 133034161 133037722 0.000000e+00 4700.0
2 TraesCS2B01G207900 chr2D 88.958 480 24 13 3991 4456 133038146 133038610 2.330000e-157 566.0
3 TraesCS2B01G207900 chr2D 91.707 205 15 1 3540 3744 133037783 133037985 2.630000e-72 283.0
4 TraesCS2B01G207900 chr2A 91.742 2337 104 39 1260 3545 140499751 140502049 0.000000e+00 3164.0
5 TraesCS2B01G207900 chr2A 91.134 2346 136 24 1 2300 139984153 139981834 0.000000e+00 3114.0
6 TraesCS2B01G207900 chr2A 93.531 1283 53 10 2293 3545 139981676 139980394 0.000000e+00 1882.0
7 TraesCS2B01G207900 chr2A 92.997 871 50 4 405 1264 140498724 140499594 0.000000e+00 1260.0
8 TraesCS2B01G207900 chr2A 89.099 477 28 11 4005 4468 140504034 140504499 5.020000e-159 571.0
9 TraesCS2B01G207900 chr2A 84.053 602 36 27 3889 4468 139979710 139979147 3.960000e-145 525.0
10 TraesCS2B01G207900 chr2A 86.981 361 35 8 3 360 140497408 140497759 3.240000e-106 396.0
11 TraesCS2B01G207900 chr2A 83.422 374 19 13 1 360 140498368 140498712 1.560000e-79 307.0
12 TraesCS2B01G207900 chr2A 83.425 362 17 21 3540 3898 139980332 139980011 3.380000e-76 296.0
13 TraesCS2B01G207900 chr2A 85.020 247 16 8 3789 4021 140503777 140504016 9.670000e-57 231.0
14 TraesCS2B01G207900 chr2A 97.674 86 2 0 3540 3625 140502111 140502196 1.000000e-31 148.0
15 TraesCS2B01G207900 chr2A 91.071 56 5 0 3689 3744 140502202 140502257 4.790000e-10 76.8
16 TraesCS2B01G207900 chr2A 87.755 49 6 0 157 205 101904535 101904583 1.740000e-04 58.4


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 TraesCS2B01G207900 chr2B 188713843 188718312 4469 False 8255.000000 8255 100.000000 1 4470 1 chr2B.!!$F1 4469
1 TraesCS2B01G207900 chr2D 133034161 133038610 4449 False 1849.666667 4700 90.464333 1 4456 3 chr2D.!!$F1 4455
2 TraesCS2B01G207900 chr2A 139979147 139984153 5006 True 1454.250000 3114 88.035750 1 4468 4 chr2A.!!$R1 4467
3 TraesCS2B01G207900 chr2A 140497408 140504499 7091 False 769.225000 3164 89.750750 1 4468 8 chr2A.!!$F2 4467

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
657 1635 0.544833 ATGGCCCAATTTGCACCTGA 60.545 50.000 0.00 0.00 0.00 3.86 F
735 1716 0.813184 ATGGCAGTTTCCTGAATGCG 59.187 50.000 0.00 0.00 41.50 4.73 F
1505 2681 2.354203 GCTCTGTCCTAACCCAAGTCAG 60.354 54.545 0.00 0.00 0.00 3.51 F
1759 2935 2.627699 TCCATTTCTTGTTTGTCTGGCC 59.372 45.455 0.00 0.00 0.00 5.36 F
2815 4164 1.542492 CAAATTCAGCAGCTGGAGGT 58.458 50.000 22.62 3.03 31.51 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1479 2655 1.271379 TGGGTTAGGACAGAGCAAAGC 60.271 52.381 0.00 0.0 0.00 3.51 R
1624 2800 2.894763 AGCTGCATTTTTGTCAAGCA 57.105 40.000 1.02 0.0 0.00 3.91 R
2795 4144 0.172803 CCTCCAGCTGCTGAATTTGC 59.827 55.000 30.10 0.0 32.44 3.68 R
3058 4417 0.243907 GCAGTCGTCTTAGTGCTCCA 59.756 55.000 0.00 0.0 41.65 3.86 R
3771 6683 1.073284 TGCAAGTTTAGGACCTGACCC 59.927 52.381 3.53 0.0 0.00 4.46 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
53 54 4.063967 CGCCACCACGCTCCTACA 62.064 66.667 0.00 0.00 0.00 2.74
55 56 3.056458 CCACCACGCTCCTACACA 58.944 61.111 0.00 0.00 0.00 3.72
114 1057 3.890674 GCCCCTGCTCTTACAACG 58.109 61.111 0.00 0.00 33.53 4.10
186 1129 2.124695 GACGCCTCAACCCCCATC 60.125 66.667 0.00 0.00 0.00 3.51
189 1132 4.506255 GCCTCAACCCCCATCCCG 62.506 72.222 0.00 0.00 0.00 5.14
203 1160 4.586235 CCCGCATCCACCCATCCC 62.586 72.222 0.00 0.00 0.00 3.85
326 1296 1.697432 TCACCCATTTCGTCTTGAGGT 59.303 47.619 0.00 0.00 0.00 3.85
327 1297 2.901192 TCACCCATTTCGTCTTGAGGTA 59.099 45.455 0.00 0.00 0.00 3.08
328 1298 3.000727 CACCCATTTCGTCTTGAGGTAC 58.999 50.000 0.00 0.00 0.00 3.34
329 1299 2.268298 CCCATTTCGTCTTGAGGTACG 58.732 52.381 0.00 0.00 40.40 3.67
333 1303 1.229428 TTCGTCTTGAGGTACGACGT 58.771 50.000 16.34 5.52 46.82 4.34
334 1304 1.603802 TTCGTCTTGAGGTACGACGTT 59.396 47.619 5.50 0.00 46.82 3.99
335 1305 1.324718 CGTCTTGAGGTACGACGTTG 58.675 55.000 5.50 0.00 43.82 4.10
339 1313 3.181178 GTCTTGAGGTACGACGTTGTTTC 59.819 47.826 14.93 10.29 0.00 2.78
349 1323 1.234615 ACGTTGTTTCCATCCAGCGG 61.235 55.000 0.00 0.00 39.23 5.52
360 1334 5.617528 TCCATCCAGCGGTTAGTTAAATA 57.382 39.130 0.00 0.00 0.00 1.40
361 1335 6.182507 TCCATCCAGCGGTTAGTTAAATAT 57.817 37.500 0.00 0.00 0.00 1.28
391 1365 4.981054 CACTGAACACATCATCTAGATCCG 59.019 45.833 1.03 0.00 37.44 4.18
395 1369 1.066573 CACATCATCTAGATCCGCCCC 60.067 57.143 1.03 0.00 33.72 5.80
419 1393 1.026718 GGAAGTTGAGCGGTGGATGG 61.027 60.000 0.00 0.00 0.00 3.51
481 1455 3.200593 GCATCTGCTGCCCACGAG 61.201 66.667 0.00 0.00 45.66 4.18
515 1489 8.896744 CCTCTTTAAAATGAGATGCTGTATTGA 58.103 33.333 6.13 0.00 33.39 2.57
533 1511 6.761242 TGTATTGAGTTCATTGCGCTACTATT 59.239 34.615 9.73 0.00 0.00 1.73
543 1521 8.251750 TCATTGCGCTACTATTAAACATATCC 57.748 34.615 9.73 0.00 0.00 2.59
571 1549 7.264373 TCTTTTCTTCTGACAATTGAACCTC 57.736 36.000 13.59 0.00 0.00 3.85
614 1592 2.282290 GCAACTCAATTGTTGTGTGCAC 59.718 45.455 10.75 10.75 46.33 4.57
622 1600 1.318886 TGTTGTGTGCACCCCTGTTG 61.319 55.000 15.69 0.00 0.00 3.33
657 1635 0.544833 ATGGCCCAATTTGCACCTGA 60.545 50.000 0.00 0.00 0.00 3.86
664 1642 1.274167 CAATTTGCACCTGATGGCAGT 59.726 47.619 0.00 0.00 41.68 4.40
665 1643 1.180029 ATTTGCACCTGATGGCAGTC 58.820 50.000 0.00 0.00 41.68 3.51
719 1700 6.347888 GCAACATTTTCCAATCTGACAAATGG 60.348 38.462 7.60 0.00 38.58 3.16
735 1716 0.813184 ATGGCAGTTTCCTGAATGCG 59.187 50.000 0.00 0.00 41.50 4.73
809 1793 6.959639 AAATTATGATCCCGTTATTGCTGT 57.040 33.333 0.00 0.00 0.00 4.40
942 1927 3.645687 ACAGGGTACAACATGCCATTTTT 59.354 39.130 0.00 0.00 33.91 1.94
988 1973 5.815740 CCGCACTTAGCCTTTTCTTATTCTA 59.184 40.000 0.00 0.00 41.38 2.10
1127 2113 9.979270 GTCATGATTTGTTTCTACTGTAGATTG 57.021 33.333 17.60 5.90 34.22 2.67
1205 2192 7.038088 TGCATGATGGTATTGATACTGGACTAT 60.038 37.037 0.00 0.00 33.81 2.12
1210 2197 7.540474 TGGTATTGATACTGGACTATTCTCC 57.460 40.000 1.56 0.00 33.81 3.71
1286 2440 3.088194 CATGGCTGCATGGTATTGAAC 57.912 47.619 0.50 0.00 0.00 3.18
1294 2448 6.239120 GGCTGCATGGTATTGAACTATTGATT 60.239 38.462 0.50 0.00 0.00 2.57
1295 2449 6.639686 GCTGCATGGTATTGAACTATTGATTG 59.360 38.462 0.00 0.00 0.00 2.67
1296 2450 7.469043 GCTGCATGGTATTGAACTATTGATTGA 60.469 37.037 0.00 0.00 0.00 2.57
1297 2451 7.706159 TGCATGGTATTGAACTATTGATTGAC 58.294 34.615 0.00 0.00 0.00 3.18
1298 2452 6.852853 GCATGGTATTGAACTATTGATTGACG 59.147 38.462 0.00 0.00 0.00 4.35
1299 2453 7.467267 GCATGGTATTGAACTATTGATTGACGT 60.467 37.037 0.00 0.00 0.00 4.34
1300 2454 7.302350 TGGTATTGAACTATTGATTGACGTG 57.698 36.000 0.00 0.00 0.00 4.49
1301 2455 6.876789 TGGTATTGAACTATTGATTGACGTGT 59.123 34.615 0.00 0.00 0.00 4.49
1302 2456 7.389330 TGGTATTGAACTATTGATTGACGTGTT 59.611 33.333 0.00 0.00 0.00 3.32
1303 2457 8.875803 GGTATTGAACTATTGATTGACGTGTTA 58.124 33.333 0.00 0.00 0.00 2.41
1325 2479 9.995003 TGTTAAGATAAAATTGCTGGTTTGATT 57.005 25.926 0.00 0.00 0.00 2.57
1397 2555 7.337938 TGCATGATTATGTTTCTTGAGGTCTA 58.662 34.615 0.00 0.00 36.65 2.59
1476 2651 6.036577 TCAAACTTGAGTTTCTTTTTGGCT 57.963 33.333 6.16 0.00 45.54 4.75
1479 2655 4.672409 ACTTGAGTTTCTTTTTGGCTTCG 58.328 39.130 0.00 0.00 0.00 3.79
1505 2681 2.354203 GCTCTGTCCTAACCCAAGTCAG 60.354 54.545 0.00 0.00 0.00 3.51
1572 2748 4.509616 TGAATGGAGGTACCGTGTTATTG 58.490 43.478 6.18 0.00 42.61 1.90
1678 2854 4.012374 CAGAAGGACAGGCAATACATTGT 58.988 43.478 4.02 0.00 39.88 2.71
1759 2935 2.627699 TCCATTTCTTGTTTGTCTGGCC 59.372 45.455 0.00 0.00 0.00 5.36
1898 3074 5.049818 CCTTGAACTGAAGCTAACTGAACTG 60.050 44.000 0.00 0.00 0.00 3.16
2094 3270 9.321562 AGAGTTTAAAACTTGATTTGACTACGA 57.678 29.630 0.00 0.00 43.03 3.43
2172 3348 8.150945 ACAAAGTTAGAATAGAGAAGCAACTGA 58.849 33.333 0.00 0.00 0.00 3.41
2398 3739 5.591099 GAAGCAAAATGAAGAACCTGAACA 58.409 37.500 0.00 0.00 0.00 3.18
2480 3823 3.425577 AGTTCGTTCGAATACGCCATA 57.574 42.857 10.70 0.00 41.16 2.74
2519 3862 7.363205 ACCAAACAAGTTCAGAAACAAATTG 57.637 32.000 0.00 0.00 37.88 2.32
2586 3935 7.110155 GGGTAATCAAGGATCTGTCTGTTTTA 58.890 38.462 0.00 0.00 0.00 1.52
2593 3942 8.733458 TCAAGGATCTGTCTGTTTTATTGATTG 58.267 33.333 0.00 0.00 0.00 2.67
2815 4164 1.542492 CAAATTCAGCAGCTGGAGGT 58.458 50.000 22.62 3.03 31.51 3.85
3058 4417 4.895297 TCCAAAGAGCAAAGGAAATTGAGT 59.105 37.500 0.00 0.00 31.84 3.41
3185 4544 5.025453 AGCATCCCACCAAAAATGAACTAT 58.975 37.500 0.00 0.00 0.00 2.12
3230 4603 7.847096 TGTTTCATGGTACTGATACACTATGT 58.153 34.615 4.87 0.00 33.84 2.29
3232 4605 9.464714 GTTTCATGGTACTGATACACTATGTAG 57.535 37.037 0.00 0.00 36.14 2.74
3343 4716 5.809562 AGAGTTGTCTAATTGCTCGATTGAG 59.190 40.000 5.50 5.50 45.49 3.02
3385 4758 1.075542 CCGATGCTAGCAACGTTGAA 58.924 50.000 35.35 16.92 39.93 2.69
3557 5000 9.848172 GATGCATTTGTAACTTGTAAAAACTTG 57.152 29.630 0.00 0.00 0.00 3.16
3663 5106 0.675633 AAGTGGCATGAGTTTGGTGC 59.324 50.000 0.00 0.00 38.12 5.01
3692 5135 4.634004 CGTGGTTTGTATGAGAGCCATTTA 59.366 41.667 0.00 0.00 36.71 1.40
3739 5182 6.530019 TTCCAGGATTAGAAAAGAAATGGC 57.470 37.500 0.00 0.00 0.00 4.40
3744 5187 5.946377 AGGATTAGAAAAGAAATGGCGAACT 59.054 36.000 0.00 0.00 0.00 3.01
3745 5188 7.065803 CAGGATTAGAAAAGAAATGGCGAACTA 59.934 37.037 0.00 0.00 0.00 2.24
3746 5189 7.775561 AGGATTAGAAAAGAAATGGCGAACTAT 59.224 33.333 0.00 0.00 0.00 2.12
3747 5190 8.406297 GGATTAGAAAAGAAATGGCGAACTATT 58.594 33.333 0.00 0.00 0.00 1.73
3749 5192 9.788960 ATTAGAAAAGAAATGGCGAACTATTTC 57.211 29.630 6.74 6.74 41.38 2.17
3750 5193 6.621613 AGAAAAGAAATGGCGAACTATTTCC 58.378 36.000 10.19 0.00 41.79 3.13
3753 5196 5.567138 AGAAATGGCGAACTATTTCCTTG 57.433 39.130 10.19 0.00 41.79 3.61
3770 6682 6.633500 TTCCTTGTGAAATAAGTCCACTTG 57.367 37.500 2.01 0.00 37.40 3.16
3771 6683 5.070001 TCCTTGTGAAATAAGTCCACTTGG 58.930 41.667 2.01 0.00 37.40 3.61
3773 6685 3.761897 TGTGAAATAAGTCCACTTGGGG 58.238 45.455 2.01 0.00 37.40 4.96
3774 6686 3.139397 TGTGAAATAAGTCCACTTGGGGT 59.861 43.478 2.01 0.00 37.40 4.95
3776 6688 3.396276 TGAAATAAGTCCACTTGGGGTCA 59.604 43.478 2.01 0.00 37.40 4.02
3779 6691 0.697854 AAGTCCACTTGGGGTCAGGT 60.698 55.000 0.00 0.00 37.22 4.00
3781 6693 1.846124 TCCACTTGGGGTCAGGTCC 60.846 63.158 0.00 0.00 37.22 4.46
3783 6695 0.546747 CCACTTGGGGTCAGGTCCTA 60.547 60.000 0.00 0.00 30.32 2.94
3784 6696 1.358152 CACTTGGGGTCAGGTCCTAA 58.642 55.000 0.00 0.00 30.32 2.69
3787 6705 1.985895 CTTGGGGTCAGGTCCTAAACT 59.014 52.381 0.00 0.00 0.00 2.66
3802 6723 8.718656 AGGTCCTAAACTTGCATATTTCTAGAT 58.281 33.333 0.00 0.00 0.00 1.98
3851 6772 2.732844 TGCTCATATGGGCATGAACA 57.267 45.000 26.48 2.13 34.59 3.18
3948 7189 8.943002 TCTAAAAATAGCTTAACAGGCAAGTAC 58.057 33.333 0.00 0.00 0.00 2.73
4024 7305 5.404946 CCTAAACTTGCAGACATTCCAATG 58.595 41.667 0.00 0.00 42.10 2.82
4029 7310 4.460382 ACTTGCAGACATTCCAATGGTAAG 59.540 41.667 0.00 4.43 40.70 2.34
4056 7339 9.981114 AATTTAGTTTCAGTTATCCCACAAAAG 57.019 29.630 0.00 0.00 0.00 2.27
4120 7412 1.283736 CAGAACATACGCCGGGTAAC 58.716 55.000 2.18 0.00 34.09 2.50
4163 7457 2.858622 TTGCGAGGCAAGAAGGATG 58.141 52.632 0.00 0.00 43.99 3.51
4164 7458 0.036732 TTGCGAGGCAAGAAGGATGT 59.963 50.000 0.00 0.00 43.99 3.06
4165 7459 0.391661 TGCGAGGCAAGAAGGATGTC 60.392 55.000 0.00 0.00 34.76 3.06
4322 7645 3.048600 TCGATCCATTCCTTCCTTCCAT 58.951 45.455 0.00 0.00 0.00 3.41
4346 7669 2.493675 CTCTCAACTCATCGGAACTCCA 59.506 50.000 0.00 0.00 35.14 3.86
4448 7771 1.005867 TTTCTCGACCCCGGTTTCG 60.006 57.895 14.26 14.26 36.55 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
140 1083 2.480610 CCGCTAAGGTACGGGCGTA 61.481 63.158 15.22 0.00 45.74 4.42
141 1084 3.830192 CCGCTAAGGTACGGGCGT 61.830 66.667 15.22 0.00 45.74 5.68
184 1127 2.833913 GGATGGGTGGATGCGGGAT 61.834 63.158 0.00 0.00 0.00 3.85
186 1129 4.586235 GGGATGGGTGGATGCGGG 62.586 72.222 0.00 0.00 0.00 6.13
189 1132 2.123726 GTGGGGATGGGTGGATGC 60.124 66.667 0.00 0.00 0.00 3.91
335 1305 2.109425 ACTAACCGCTGGATGGAAAC 57.891 50.000 1.50 0.00 0.00 2.78
339 1313 7.972832 TTATATTTAACTAACCGCTGGATGG 57.027 36.000 1.50 0.00 0.00 3.51
360 1334 6.666678 AGATGATGTGTTCAGTGGGATTTAT 58.333 36.000 0.00 0.00 37.89 1.40
361 1335 6.065976 AGATGATGTGTTCAGTGGGATTTA 57.934 37.500 0.00 0.00 37.89 1.40
419 1393 0.320697 ACCACCTACTTGCTCGGTTC 59.679 55.000 0.00 0.00 0.00 3.62
481 1455 7.629437 GCATCTCATTTTAAAGAGGAAGGAACC 60.629 40.741 5.02 0.00 32.76 3.62
494 1468 9.230122 TGAACTCAATACAGCATCTCATTTTAA 57.770 29.630 0.00 0.00 0.00 1.52
515 1489 6.978343 TGTTTAATAGTAGCGCAATGAACT 57.022 33.333 11.47 7.38 0.00 3.01
543 1521 9.617975 GGTTCAATTGTCAGAAGAAAAGATAAG 57.382 33.333 5.13 0.00 0.00 1.73
571 1549 4.676924 GCAAATCGAGAAAAGTCACCTTTG 59.323 41.667 0.00 0.00 40.01 2.77
614 1592 5.476091 TGTTAATTTTAAGCCAACAGGGG 57.524 39.130 0.00 0.00 37.04 4.79
622 1600 5.249420 TGGGCCATTTGTTAATTTTAAGCC 58.751 37.500 0.00 0.00 35.92 4.35
657 1635 1.610522 GCAAGTTGAACAGACTGCCAT 59.389 47.619 7.16 0.00 0.00 4.40
664 1642 2.803133 CGACCAGAGCAAGTTGAACAGA 60.803 50.000 7.16 0.00 0.00 3.41
665 1643 1.528586 CGACCAGAGCAAGTTGAACAG 59.471 52.381 7.16 0.00 0.00 3.16
942 1927 3.004629 GTCATTGGCGCCATAAATCATCA 59.995 43.478 33.25 12.77 0.00 3.07
1086 2071 4.371624 TCATGACAGGGATGTTCAAACT 57.628 40.909 0.00 0.00 0.00 2.66
1135 2121 7.859598 TCAATACCAACAAACAATGCATTTTC 58.140 30.769 9.83 0.00 0.00 2.29
1188 2175 7.540474 TGGGAGAATAGTCCAGTATCAATAC 57.460 40.000 0.00 0.00 38.52 1.89
1205 2192 4.760530 ATCAGAACGATCAATGGGAGAA 57.239 40.909 0.00 0.00 0.00 2.87
1210 2197 7.388776 ACATACCATTATCAGAACGATCAATGG 59.611 37.037 16.25 16.25 42.94 3.16
1294 2448 6.205853 ACCAGCAATTTTATCTTAACACGTCA 59.794 34.615 0.00 0.00 0.00 4.35
1295 2449 6.608610 ACCAGCAATTTTATCTTAACACGTC 58.391 36.000 0.00 0.00 0.00 4.34
1296 2450 6.569179 ACCAGCAATTTTATCTTAACACGT 57.431 33.333 0.00 0.00 0.00 4.49
1297 2451 7.593273 TCAAACCAGCAATTTTATCTTAACACG 59.407 33.333 0.00 0.00 0.00 4.49
1298 2452 8.810652 TCAAACCAGCAATTTTATCTTAACAC 57.189 30.769 0.00 0.00 0.00 3.32
1299 2453 9.995003 AATCAAACCAGCAATTTTATCTTAACA 57.005 25.926 0.00 0.00 0.00 2.41
1303 2457 9.211485 CTTCAATCAAACCAGCAATTTTATCTT 57.789 29.630 0.00 0.00 0.00 2.40
1356 2510 5.281693 TCATGCAAAATTACGACTGACTG 57.718 39.130 0.00 0.00 0.00 3.51
1476 2651 2.413837 GTTAGGACAGAGCAAAGCGAA 58.586 47.619 0.00 0.00 0.00 4.70
1479 2655 1.271379 TGGGTTAGGACAGAGCAAAGC 60.271 52.381 0.00 0.00 0.00 3.51
1572 2748 5.241728 ACTCAGTGAAGGGTTAAAGCAAATC 59.758 40.000 0.00 0.00 0.00 2.17
1624 2800 2.894763 AGCTGCATTTTTGTCAAGCA 57.105 40.000 1.02 0.00 0.00 3.91
1678 2854 3.254166 GCTCAGCTCAGTTTCCAATTTCA 59.746 43.478 0.00 0.00 0.00 2.69
1759 2935 8.028938 ACTGCTTAAGTAATAAGGTTTGCAATG 58.971 33.333 0.00 0.00 41.19 2.82
1798 2974 3.754965 TCCTGCAAATAGTCTGCACTTT 58.245 40.909 0.00 0.00 44.67 2.66
1898 3074 6.234177 TCTCACTCTTTCAGGAAATTTCTCC 58.766 40.000 17.42 3.01 35.51 3.71
2094 3270 4.280174 AGCATCAAACAGTCTTTGCTCAAT 59.720 37.500 0.00 0.00 35.66 2.57
2202 3378 5.925397 CCTCAAGATGATCAATAGTCTTCCG 59.075 44.000 0.00 0.00 0.00 4.30
2374 3715 4.488126 TCAGGTTCTTCATTTTGCTTCG 57.512 40.909 0.00 0.00 0.00 3.79
2519 3862 8.856490 AAATTCCATAGCGATATGTTCAAAAC 57.144 30.769 18.62 0.00 0.00 2.43
2593 3942 9.788960 GAAATGGGAAAGTTATACTGAAATCAC 57.211 33.333 0.00 0.00 0.00 3.06
2795 4144 0.172803 CCTCCAGCTGCTGAATTTGC 59.827 55.000 30.10 0.00 32.44 3.68
2835 4184 6.094186 GGTGCAGTTTGGAACCAAAATAAAAA 59.906 34.615 18.67 3.93 45.86 1.94
2840 4189 2.503356 TGGTGCAGTTTGGAACCAAAAT 59.497 40.909 18.67 15.57 45.86 1.82
3025 4384 2.334977 TGCTCTTTGGAGACCTGGTTA 58.665 47.619 0.00 0.00 41.86 2.85
3058 4417 0.243907 GCAGTCGTCTTAGTGCTCCA 59.756 55.000 0.00 0.00 41.65 3.86
3185 4544 5.899120 ACAACTAGTATCGAGCAGAAGAA 57.101 39.130 0.00 0.00 0.00 2.52
3230 4603 5.840693 TCAATCTCTACAATGGAGGCATCTA 59.159 40.000 0.00 0.00 0.00 1.98
3232 4605 4.965814 TCAATCTCTACAATGGAGGCATC 58.034 43.478 0.00 0.00 0.00 3.91
3385 4758 2.576615 GCTTGGTTCTCTGGTGTTTCT 58.423 47.619 0.00 0.00 0.00 2.52
3484 4860 7.336679 AGAATTATATACAGCAACTGCACACAA 59.663 33.333 4.22 0.00 45.16 3.33
3557 5000 6.870965 AGGCTGAATCTGACACGATAAATATC 59.129 38.462 0.00 0.00 0.00 1.63
3663 5106 3.567530 TCTCATACAAACCACGTGTACG 58.432 45.455 15.65 2.43 46.33 3.67
3692 5135 7.902920 ATATGTTTCCAAACCTATTGCAGAT 57.097 32.000 0.00 0.00 38.11 2.90
3745 5188 7.255942 CCAAGTGGACTTATTTCACAAGGAAAT 60.256 37.037 7.37 7.37 46.56 2.17
3746 5189 6.040391 CCAAGTGGACTTATTTCACAAGGAAA 59.960 38.462 0.00 0.00 43.01 3.13
3747 5190 5.534654 CCAAGTGGACTTATTTCACAAGGAA 59.465 40.000 0.00 0.00 37.39 3.36
3749 5192 4.218417 CCCAAGTGGACTTATTTCACAAGG 59.782 45.833 0.00 0.00 37.39 3.61
3750 5193 4.218417 CCCCAAGTGGACTTATTTCACAAG 59.782 45.833 0.00 0.00 37.39 3.16
3753 5196 3.756963 GACCCCAAGTGGACTTATTTCAC 59.243 47.826 0.00 0.00 37.39 3.18
3763 6675 1.846124 GGACCTGACCCCAAGTGGA 60.846 63.158 0.00 0.00 37.39 4.02
3767 6679 1.985895 AGTTTAGGACCTGACCCCAAG 59.014 52.381 3.53 0.00 0.00 3.61
3769 6681 1.702957 CAAGTTTAGGACCTGACCCCA 59.297 52.381 3.53 0.00 0.00 4.96
3770 6682 1.613520 GCAAGTTTAGGACCTGACCCC 60.614 57.143 3.53 0.00 0.00 4.95
3771 6683 1.073284 TGCAAGTTTAGGACCTGACCC 59.927 52.381 3.53 0.00 0.00 4.46
3773 6685 6.599638 AGAAATATGCAAGTTTAGGACCTGAC 59.400 38.462 3.53 2.88 0.00 3.51
3774 6686 6.721318 AGAAATATGCAAGTTTAGGACCTGA 58.279 36.000 3.53 0.00 0.00 3.86
3776 6688 8.090788 TCTAGAAATATGCAAGTTTAGGACCT 57.909 34.615 0.00 0.00 0.00 3.85
3810 6731 4.952071 TCAAACATCATCAAAAAGGCCA 57.048 36.364 5.01 0.00 0.00 5.36
3851 6772 6.366332 GCATTATTCGATCACTCCTACGATTT 59.634 38.462 0.00 0.00 34.85 2.17
4024 7305 9.457436 TGGGATAACTGAAACTAAATTCTTACC 57.543 33.333 0.00 0.00 0.00 2.85
4029 7310 9.974980 TTTTGTGGGATAACTGAAACTAAATTC 57.025 29.630 0.00 0.00 0.00 2.17
4120 7412 5.070001 TCGCATTTTTATAATCCCCTCTGG 58.930 41.667 0.00 0.00 0.00 3.86
4122 7414 7.661040 CAAATCGCATTTTTATAATCCCCTCT 58.339 34.615 0.00 0.00 0.00 3.69
4125 7417 5.118510 CGCAAATCGCATTTTTATAATCCCC 59.881 40.000 0.00 0.00 42.60 4.81
4126 7418 5.918011 TCGCAAATCGCATTTTTATAATCCC 59.082 36.000 0.00 0.00 42.60 3.85
4127 7419 6.088085 CCTCGCAAATCGCATTTTTATAATCC 59.912 38.462 0.00 0.00 42.60 3.01
4162 7456 2.548707 GGACAGTTGCAGATGACAGACA 60.549 50.000 7.19 0.00 0.00 3.41
4163 7457 2.072298 GGACAGTTGCAGATGACAGAC 58.928 52.381 7.19 0.00 0.00 3.51
4164 7458 1.973515 AGGACAGTTGCAGATGACAGA 59.026 47.619 7.19 0.00 0.00 3.41
4165 7459 2.074576 CAGGACAGTTGCAGATGACAG 58.925 52.381 7.19 0.00 0.00 3.51
4322 7645 3.691575 AGTTCCGATGAGTTGAGAGAGA 58.308 45.455 0.00 0.00 0.00 3.10


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

AutoCloner maintained by Alex Coulton.