Multiple sequence alignment - TraesCS3B01G137000

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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 TraesCS3B01G137000 chr3B 100.000 4378 0 0 1 4378 120406436 120402059 0.000000e+00 8085.0
1 TraesCS3B01G137000 chr3B 88.843 242 17 5 230 471 120396021 120396252 5.540000e-74 289.0
2 TraesCS3B01G137000 chr3B 77.528 356 48 25 577 916 120396340 120396679 7.480000e-43 185.0
3 TraesCS3B01G137000 chr3B 96.053 76 3 0 1 76 120395793 120395868 1.650000e-24 124.0
4 TraesCS3B01G137000 chr3A 86.976 2027 99 59 572 2492 88188844 88190811 0.000000e+00 2128.0
5 TraesCS3B01G137000 chr3A 92.004 1138 50 16 2581 3684 88190817 88191947 0.000000e+00 1559.0
6 TraesCS3B01G137000 chr3A 86.396 566 31 19 3785 4332 88194759 88195296 1.060000e-160 577.0
7 TraesCS3B01G137000 chr3A 86.996 223 16 8 249 466 88188482 88188696 5.660000e-59 239.0
8 TraesCS3B01G137000 chr3A 84.236 203 20 9 798 998 88200178 88199986 2.080000e-43 187.0
9 TraesCS3B01G137000 chr3A 89.796 147 8 3 3 146 88187239 88187381 9.670000e-42 182.0
10 TraesCS3B01G137000 chr3A 87.407 135 9 4 7 141 88201047 88200921 9.810000e-32 148.0
11 TraesCS3B01G137000 chr3A 83.444 151 9 8 563 702 88200428 88200283 4.600000e-25 126.0
12 TraesCS3B01G137000 chr3D 92.985 1454 51 15 1117 2536 74761080 74759644 0.000000e+00 2073.0
13 TraesCS3B01G137000 chr3D 90.269 1264 46 40 3116 4340 74759290 74758065 0.000000e+00 1581.0
14 TraesCS3B01G137000 chr3D 88.483 1068 48 26 1 1053 74762748 74761741 0.000000e+00 1221.0
15 TraesCS3B01G137000 chr3D 88.323 471 30 9 1 471 74750289 74750734 3.850000e-150 542.0
16 TraesCS3B01G137000 chr3D 94.477 344 16 1 2583 2923 74759635 74759292 1.080000e-145 527.0
17 TraesCS3B01G137000 chr3D 82.609 299 22 18 711 998 74753667 74753946 2.040000e-58 237.0
18 TraesCS3B01G137000 chr1D 75.517 290 55 13 1845 2129 119405042 119404764 1.280000e-25 128.0
19 TraesCS3B01G137000 chr1D 97.143 70 1 1 1500 1568 7591370 7591301 2.770000e-22 117.0
20 TraesCS3B01G137000 chr7D 97.143 70 1 1 1500 1568 151316082 151316013 2.770000e-22 117.0
21 TraesCS3B01G137000 chr7A 91.111 45 1 3 1578 1621 664052277 664052235 1.700000e-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 TraesCS3B01G137000 chr3B 120402059 120406436 4377 True 8085.0 8085 100.0000 1 4378 1 chr3B.!!$R1 4377
1 TraesCS3B01G137000 chr3A 88187239 88195296 8057 False 937.0 2128 88.4336 3 4332 5 chr3A.!!$F1 4329
2 TraesCS3B01G137000 chr3D 74758065 74762748 4683 True 1350.5 2073 91.5535 1 4340 4 chr3D.!!$R1 4339
3 TraesCS3B01G137000 chr3D 74750289 74753946 3657 False 389.5 542 85.4660 1 998 2 chr3D.!!$F1 997

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
991 4818 0.032416 TAGAGTGGTGGTAGGGAGGC 60.032 60.000 0.00 0.0 0.00 4.70 F
1058 4890 0.678048 CCCTAGCTCGCCTGCTTTTT 60.678 55.000 3.39 0.0 43.74 1.94 F
2929 7445 1.086565 AGGGGATGGGGGTGATCAA 59.913 57.895 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
2891 7407 0.107165 GGTTGTAGCTAGCAAGGGGG 60.107 60.0 18.83 0.0 0.00 5.40 R
2998 7514 0.256464 TCTTCCTCCTCGACTCCTCC 59.744 60.0 0.00 0.0 0.00 4.30 R
4041 11349 0.104934 CCTATACAGGGGGTGGCTCT 60.105 60.0 0.00 0.0 38.41 4.09 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
27 28 6.094881 TGTTTAGCTAGTTAATTGGTGGATGC 59.905 38.462 0.00 0.00 0.00 3.91
154 158 3.564352 GGGGACTGATTGATGGAGGTTTT 60.564 47.826 0.00 0.00 0.00 2.43
155 159 4.089361 GGGACTGATTGATGGAGGTTTTT 58.911 43.478 0.00 0.00 0.00 1.94
225 1152 0.969149 AGAGTGAACCGCTCATGTGA 59.031 50.000 9.76 0.00 42.72 3.58
266 1308 1.339631 TGGTATGGGTTTGAAGGAGCG 60.340 52.381 0.00 0.00 0.00 5.03
267 1309 1.065709 GGTATGGGTTTGAAGGAGCGA 60.066 52.381 0.00 0.00 0.00 4.93
268 1310 2.280628 GTATGGGTTTGAAGGAGCGAG 58.719 52.381 0.00 0.00 0.00 5.03
269 1311 0.984230 ATGGGTTTGAAGGAGCGAGA 59.016 50.000 0.00 0.00 0.00 4.04
270 1312 0.984230 TGGGTTTGAAGGAGCGAGAT 59.016 50.000 0.00 0.00 0.00 2.75
272 1314 1.373570 GGTTTGAAGGAGCGAGATGG 58.626 55.000 0.00 0.00 0.00 3.51
273 1315 1.339151 GGTTTGAAGGAGCGAGATGGT 60.339 52.381 0.00 0.00 0.00 3.55
274 1316 2.093658 GGTTTGAAGGAGCGAGATGGTA 60.094 50.000 0.00 0.00 0.00 3.25
275 1317 2.930682 GTTTGAAGGAGCGAGATGGTAC 59.069 50.000 0.00 0.00 0.00 3.34
439 1490 2.161030 ACTAACCTCCGAGTGAGTGAC 58.839 52.381 0.00 0.00 39.65 3.67
487 1546 4.062293 ACTGCAATTAGCTCAAACGTACA 58.938 39.130 0.00 0.00 45.94 2.90
494 1553 7.960738 GCAATTAGCTCAAACGTACATAAAGAA 59.039 33.333 0.00 0.00 41.15 2.52
495 1554 9.478019 CAATTAGCTCAAACGTACATAAAGAAG 57.522 33.333 0.00 0.00 0.00 2.85
502 1561 9.193133 CTCAAACGTACATAAAGAAGAAGAAGA 57.807 33.333 0.00 0.00 0.00 2.87
503 1562 9.537192 TCAAACGTACATAAAGAAGAAGAAGAA 57.463 29.630 0.00 0.00 0.00 2.52
545 2929 4.576463 CCTAGGTACAATGAATCCAAGCAC 59.424 45.833 0.00 0.00 0.00 4.40
546 2930 4.032960 AGGTACAATGAATCCAAGCACA 57.967 40.909 0.00 0.00 0.00 4.57
547 2931 3.758554 AGGTACAATGAATCCAAGCACAC 59.241 43.478 0.00 0.00 0.00 3.82
548 2932 3.758554 GGTACAATGAATCCAAGCACACT 59.241 43.478 0.00 0.00 0.00 3.55
549 2933 4.142600 GGTACAATGAATCCAAGCACACTC 60.143 45.833 0.00 0.00 0.00 3.51
599 4338 8.303156 CAGTATGAGGAGATGTTAATCCTACAG 58.697 40.741 0.00 0.00 46.12 2.74
618 4363 2.498481 CAGCACCCACATGAATTGGAAT 59.502 45.455 0.00 0.00 36.02 3.01
699 4448 0.583917 GCCTAGCGCAGTATTGAAGC 59.416 55.000 11.47 0.00 37.47 3.86
771 4562 1.135632 GTACAGAGGACGAGCACAGTC 60.136 57.143 0.00 0.00 37.86 3.51
780 4571 4.128643 GGACGAGCACAGTCTACTAGTAT 58.871 47.826 2.33 0.00 38.58 2.12
787 4578 7.652909 CGAGCACAGTCTACTAGTATTACTACT 59.347 40.741 14.47 12.57 41.19 2.57
788 4579 9.979578 GAGCACAGTCTACTAGTATTACTACTA 57.020 37.037 14.47 0.58 39.04 1.82
789 4580 9.762933 AGCACAGTCTACTAGTATTACTACTAC 57.237 37.037 14.47 7.69 39.04 2.73
991 4818 0.032416 TAGAGTGGTGGTAGGGAGGC 60.032 60.000 0.00 0.00 0.00 4.70
1029 4856 2.203195 TTTGGCTGCGACTGTGCT 60.203 55.556 0.00 0.00 35.36 4.40
1058 4890 0.678048 CCCTAGCTCGCCTGCTTTTT 60.678 55.000 3.39 0.00 43.74 1.94
1075 4907 2.411476 TTTTCTCCCCCTCCCTCCGT 62.411 60.000 0.00 0.00 0.00 4.69
1077 4909 4.075793 CTCCCCCTCCCTCCGTCA 62.076 72.222 0.00 0.00 0.00 4.35
1078 4910 4.393778 TCCCCCTCCCTCCGTCAC 62.394 72.222 0.00 0.00 0.00 3.67
1082 4914 3.450115 CCTCCCTCCGTCACCGTC 61.450 72.222 0.00 0.00 0.00 4.79
1083 4915 2.361357 CTCCCTCCGTCACCGTCT 60.361 66.667 0.00 0.00 0.00 4.18
1084 4916 2.360852 TCCCTCCGTCACCGTCTC 60.361 66.667 0.00 0.00 0.00 3.36
1085 4917 3.450115 CCCTCCGTCACCGTCTCC 61.450 72.222 0.00 0.00 0.00 3.71
1086 4918 2.361357 CCTCCGTCACCGTCTCCT 60.361 66.667 0.00 0.00 0.00 3.69
1274 5730 4.962836 GGTGCTGGTGCTGGTGCT 62.963 66.667 0.00 0.00 40.48 4.40
1396 5870 4.038080 CCGGTTTCAGGCGGTTGC 62.038 66.667 0.00 0.00 41.71 4.17
2029 6521 3.058160 TTCGTCGGGTCCGTCTCC 61.058 66.667 9.36 0.00 40.74 3.71
2336 6828 5.312079 CCCAGTCTTTCAGTCTCAAGAAAT 58.688 41.667 0.00 0.00 33.69 2.17
2337 6829 5.411053 CCCAGTCTTTCAGTCTCAAGAAATC 59.589 44.000 0.00 0.00 33.69 2.17
2382 6877 9.237846 GAAAGAAAAGAACACAGTTTATCCAAG 57.762 33.333 0.00 0.00 0.00 3.61
2408 6921 6.832520 ATAATTGCGGCATTGTTCCATATA 57.167 33.333 2.28 0.00 0.00 0.86
2416 6929 5.067153 CGGCATTGTTCCATATACTTTTGGA 59.933 40.000 0.00 0.00 40.24 3.53
2420 6933 7.917505 GCATTGTTCCATATACTTTTGGAGAAG 59.082 37.037 0.00 0.00 42.73 2.85
2437 6950 7.645058 TGGAGAAGAAATCTTGTGAAAACTT 57.355 32.000 0.00 0.00 38.96 2.66
2448 6961 7.593875 TCTTGTGAAAACTTGAAACATTTGG 57.406 32.000 0.00 0.00 0.00 3.28
2470 6983 3.749665 TGGCAATCCAAACAGAAAAGG 57.250 42.857 0.00 0.00 39.99 3.11
2473 6986 3.392882 GCAATCCAAACAGAAAAGGTGG 58.607 45.455 0.00 0.00 0.00 4.61
2506 7019 1.888512 ACTGAACGGCATGCTGAATTT 59.111 42.857 32.80 16.75 0.00 1.82
2522 7035 6.608405 TGCTGAATTTACCATCAGATTCCATT 59.392 34.615 6.95 0.00 44.64 3.16
2529 7042 8.830201 TTTACCATCAGATTCCATTGTTTTTG 57.170 30.769 0.00 0.00 0.00 2.44
2531 7044 4.632688 CCATCAGATTCCATTGTTTTTGGC 59.367 41.667 0.00 0.00 34.06 4.52
2536 7049 3.749665 TTCCATTGTTTTTGGCTGGAG 57.250 42.857 0.00 0.00 37.32 3.86
2538 7051 2.892852 TCCATTGTTTTTGGCTGGAGAG 59.107 45.455 0.00 0.00 34.06 3.20
2540 7053 3.512724 CCATTGTTTTTGGCTGGAGAGAT 59.487 43.478 0.00 0.00 0.00 2.75
2541 7054 4.706476 CCATTGTTTTTGGCTGGAGAGATA 59.294 41.667 0.00 0.00 0.00 1.98
2542 7055 5.185635 CCATTGTTTTTGGCTGGAGAGATAA 59.814 40.000 0.00 0.00 0.00 1.75
2543 7056 6.127253 CCATTGTTTTTGGCTGGAGAGATAAT 60.127 38.462 0.00 0.00 0.00 1.28
2544 7057 7.068593 CCATTGTTTTTGGCTGGAGAGATAATA 59.931 37.037 0.00 0.00 0.00 0.98
2545 7058 8.469200 CATTGTTTTTGGCTGGAGAGATAATAA 58.531 33.333 0.00 0.00 0.00 1.40
2546 7059 8.415950 TTGTTTTTGGCTGGAGAGATAATAAA 57.584 30.769 0.00 0.00 0.00 1.40
2547 7060 7.826690 TGTTTTTGGCTGGAGAGATAATAAAC 58.173 34.615 0.00 0.00 0.00 2.01
2548 7061 7.093945 TGTTTTTGGCTGGAGAGATAATAAACC 60.094 37.037 0.00 0.00 0.00 3.27
2549 7062 4.336889 TGGCTGGAGAGATAATAAACCG 57.663 45.455 0.00 0.00 0.00 4.44
2550 7063 3.964688 TGGCTGGAGAGATAATAAACCGA 59.035 43.478 0.00 0.00 0.00 4.69
2551 7064 4.407621 TGGCTGGAGAGATAATAAACCGAA 59.592 41.667 0.00 0.00 0.00 4.30
2552 7065 4.750598 GGCTGGAGAGATAATAAACCGAAC 59.249 45.833 0.00 0.00 0.00 3.95
2553 7066 5.357257 GCTGGAGAGATAATAAACCGAACA 58.643 41.667 0.00 0.00 0.00 3.18
2554 7067 5.992217 GCTGGAGAGATAATAAACCGAACAT 59.008 40.000 0.00 0.00 0.00 2.71
2555 7068 6.146347 GCTGGAGAGATAATAAACCGAACATC 59.854 42.308 0.00 0.00 0.00 3.06
2556 7069 7.119709 TGGAGAGATAATAAACCGAACATCA 57.880 36.000 0.00 0.00 0.00 3.07
2557 7070 7.561251 TGGAGAGATAATAAACCGAACATCAA 58.439 34.615 0.00 0.00 0.00 2.57
2558 7071 8.044309 TGGAGAGATAATAAACCGAACATCAAA 58.956 33.333 0.00 0.00 0.00 2.69
2559 7072 8.336080 GGAGAGATAATAAACCGAACATCAAAC 58.664 37.037 0.00 0.00 0.00 2.93
2560 7073 9.099454 GAGAGATAATAAACCGAACATCAAACT 57.901 33.333 0.00 0.00 0.00 2.66
2561 7074 8.883731 AGAGATAATAAACCGAACATCAAACTG 58.116 33.333 0.00 0.00 0.00 3.16
2562 7075 8.561738 AGATAATAAACCGAACATCAAACTGT 57.438 30.769 0.00 0.00 0.00 3.55
2563 7076 8.665685 AGATAATAAACCGAACATCAAACTGTC 58.334 33.333 0.00 0.00 0.00 3.51
2564 7077 3.982576 AAACCGAACATCAAACTGTCC 57.017 42.857 0.00 0.00 0.00 4.02
2565 7078 2.631160 ACCGAACATCAAACTGTCCA 57.369 45.000 0.00 0.00 0.00 4.02
2566 7079 3.140325 ACCGAACATCAAACTGTCCAT 57.860 42.857 0.00 0.00 0.00 3.41
2567 7080 3.486383 ACCGAACATCAAACTGTCCATT 58.514 40.909 0.00 0.00 0.00 3.16
2568 7081 3.502211 ACCGAACATCAAACTGTCCATTC 59.498 43.478 0.00 0.00 0.00 2.67
2569 7082 3.501828 CCGAACATCAAACTGTCCATTCA 59.498 43.478 0.00 0.00 0.00 2.57
2570 7083 4.156556 CCGAACATCAAACTGTCCATTCAT 59.843 41.667 0.00 0.00 0.00 2.57
2571 7084 5.327091 CGAACATCAAACTGTCCATTCATC 58.673 41.667 0.00 0.00 0.00 2.92
2572 7085 5.644644 GAACATCAAACTGTCCATTCATCC 58.355 41.667 0.00 0.00 0.00 3.51
2573 7086 3.691118 ACATCAAACTGTCCATTCATCCG 59.309 43.478 0.00 0.00 0.00 4.18
2574 7087 3.694043 TCAAACTGTCCATTCATCCGA 57.306 42.857 0.00 0.00 0.00 4.55
2575 7088 4.220693 TCAAACTGTCCATTCATCCGAT 57.779 40.909 0.00 0.00 0.00 4.18
2576 7089 4.588899 TCAAACTGTCCATTCATCCGATT 58.411 39.130 0.00 0.00 0.00 3.34
2577 7090 4.635765 TCAAACTGTCCATTCATCCGATTC 59.364 41.667 0.00 0.00 0.00 2.52
2578 7091 3.199880 ACTGTCCATTCATCCGATTCC 57.800 47.619 0.00 0.00 0.00 3.01
2579 7092 2.505407 ACTGTCCATTCATCCGATTCCA 59.495 45.455 0.00 0.00 0.00 3.53
2595 7108 4.033358 CGATTCCATACAGCAACTGTTCTC 59.967 45.833 5.44 0.00 42.59 2.87
2638 7154 9.055248 CAGAAAGAAATTCATACTAAGCAAACG 57.945 33.333 0.00 0.00 40.72 3.60
2667 7183 1.333619 GTGTGTCAACATTTCAGCGGT 59.666 47.619 0.00 0.00 38.92 5.68
2842 7358 3.606662 CCGAGACGATGGCCCGAT 61.607 66.667 8.49 0.00 0.00 4.18
2849 7365 2.845550 CGATGGCCCGATCGAGACA 61.846 63.158 18.66 13.48 46.72 3.41
2891 7407 1.655697 CGCGCACGCACTCATTTTTC 61.656 55.000 16.04 0.00 42.06 2.29
2929 7445 1.086565 AGGGGATGGGGGTGATCAA 59.913 57.895 0.00 0.00 0.00 2.57
2930 7446 1.230212 GGGGATGGGGGTGATCAAC 59.770 63.158 0.73 0.73 0.00 3.18
2998 7514 4.227538 CTGTTTTTGATTCAGCAGCTGAG 58.772 43.478 24.15 9.27 41.75 3.35
3009 7525 2.003658 GCAGCTGAGGAGGAGTCGAG 62.004 65.000 20.43 0.00 0.00 4.04
3035 7551 3.178540 AAGGAGCGGCGTTCTTGGT 62.179 57.895 22.65 0.00 0.00 3.67
3064 7580 0.856982 TCACTTGTGGGGGTTGGATT 59.143 50.000 0.64 0.00 0.00 3.01
3104 7623 3.490348 AGCTGCTGTCATTTTTACCAGT 58.510 40.909 0.00 0.00 0.00 4.00
3388 7934 2.309755 TGCTTTGGGTCATCTCCATTCT 59.690 45.455 0.00 0.00 33.82 2.40
3435 7987 2.839975 AGCAGCACTGATGATGATGAG 58.160 47.619 0.81 0.00 45.46 2.90
3436 7988 2.434702 AGCAGCACTGATGATGATGAGA 59.565 45.455 0.81 0.00 45.46 3.27
3452 8011 1.816224 TGAGAACGACGATGATGGACA 59.184 47.619 0.00 0.00 0.00 4.02
3529 8089 9.660180 CTTACTAGAACTAAAGGCATCTTTTCT 57.340 33.333 0.00 0.00 42.61 2.52
3554 8114 1.568118 GGCCTACCAAACCCTAGCCA 61.568 60.000 0.00 0.00 38.79 4.75
3563 8123 0.327576 AACCCTAGCCATAGCCAGGT 60.328 55.000 0.00 0.00 45.62 4.00
3594 8154 0.900421 TGCTGTGAGATGACTCCAGG 59.100 55.000 0.00 0.00 41.99 4.45
3628 8188 1.495579 AACTCATGCCCAGCTCCAGT 61.496 55.000 0.00 0.00 0.00 4.00
3717 11011 1.896220 TGGCCTGTGTGAAAGATGAC 58.104 50.000 3.32 0.00 0.00 3.06
3718 11012 1.142667 TGGCCTGTGTGAAAGATGACA 59.857 47.619 3.32 0.00 0.00 3.58
3719 11013 1.537202 GGCCTGTGTGAAAGATGACAC 59.463 52.381 0.00 0.00 42.40 3.67
3720 11014 1.195448 GCCTGTGTGAAAGATGACACG 59.805 52.381 0.00 0.00 44.55 4.49
3721 11015 1.195448 CCTGTGTGAAAGATGACACGC 59.805 52.381 0.00 0.00 44.55 5.34
3722 11016 0.858583 TGTGTGAAAGATGACACGCG 59.141 50.000 3.53 3.53 46.28 6.01
3723 11017 0.451135 GTGTGAAAGATGACACGCGC 60.451 55.000 5.73 0.00 39.52 6.86
3724 11018 1.225475 GTGAAAGATGACACGCGCG 60.225 57.895 30.96 30.96 0.00 6.86
3725 11019 2.276058 GAAAGATGACACGCGCGC 60.276 61.111 32.58 23.91 0.00 6.86
3746 11040 2.108976 CGCACACACACACTCCCT 59.891 61.111 0.00 0.00 0.00 4.20
3747 11041 1.956170 CGCACACACACACTCCCTC 60.956 63.158 0.00 0.00 0.00 4.30
3748 11042 1.447643 GCACACACACACTCCCTCT 59.552 57.895 0.00 0.00 0.00 3.69
3749 11043 0.601311 GCACACACACACTCCCTCTC 60.601 60.000 0.00 0.00 0.00 3.20
3780 11078 2.791383 TCAAGGCATTTGAAACGGTG 57.209 45.000 0.86 0.00 42.69 4.94
3781 11079 1.339610 TCAAGGCATTTGAAACGGTGG 59.660 47.619 0.86 0.00 42.69 4.61
3782 11080 1.068434 CAAGGCATTTGAAACGGTGGT 59.932 47.619 0.00 0.00 39.21 4.16
3783 11081 1.408969 AGGCATTTGAAACGGTGGTT 58.591 45.000 0.00 0.00 38.22 3.67
3787 11085 2.862140 GCATTTGAAACGGTGGTTCTGG 60.862 50.000 0.00 0.00 34.62 3.86
3799 11097 2.510012 TTCTGGCGCATGAGCTCG 60.510 61.111 21.06 12.04 39.10 5.03
3854 11152 0.304705 GCGTTGTGAGTTGTGACTGG 59.695 55.000 0.00 0.00 35.88 4.00
3856 11154 1.378531 GTTGTGAGTTGTGACTGGCA 58.621 50.000 0.00 0.00 35.88 4.92
3858 11156 0.829990 TGTGAGTTGTGACTGGCAGA 59.170 50.000 23.66 0.00 35.88 4.26
3859 11157 1.202568 TGTGAGTTGTGACTGGCAGAG 60.203 52.381 23.66 0.00 35.88 3.35
3860 11158 0.394192 TGAGTTGTGACTGGCAGAGG 59.606 55.000 23.66 0.00 35.88 3.69
3861 11159 0.952984 GAGTTGTGACTGGCAGAGGC 60.953 60.000 23.66 10.49 35.88 4.70
3907 11212 4.744795 AAGAGTCGCTGAAATCTATGGT 57.255 40.909 0.00 0.00 0.00 3.55
3934 11239 2.337749 GATCAGATCGGGTGCGTCGT 62.338 60.000 0.00 0.00 0.00 4.34
3935 11240 2.337749 ATCAGATCGGGTGCGTCGTC 62.338 60.000 0.00 0.00 0.00 4.20
4165 11473 1.839994 CTGATGGGTGAGTGGTATGGT 59.160 52.381 0.00 0.00 0.00 3.55
4262 11575 4.324991 GCGGTGGTTTCGGGAGGT 62.325 66.667 0.00 0.00 0.00 3.85
4299 11620 2.301577 CGTGAGGATGAGGAGGAAAC 57.698 55.000 0.00 0.00 0.00 2.78
4300 11621 1.469940 CGTGAGGATGAGGAGGAAACG 60.470 57.143 0.00 0.00 0.00 3.60
4301 11622 1.134670 GTGAGGATGAGGAGGAAACGG 60.135 57.143 0.00 0.00 0.00 4.44
4353 11674 2.458620 AGGGTACTCCTACTGTTGAGC 58.541 52.381 1.40 0.00 45.98 4.26
4354 11675 2.176889 GGGTACTCCTACTGTTGAGCA 58.823 52.381 6.87 0.00 31.65 4.26
4355 11676 2.565834 GGGTACTCCTACTGTTGAGCAA 59.434 50.000 6.87 0.00 31.65 3.91
4356 11677 3.007614 GGGTACTCCTACTGTTGAGCAAA 59.992 47.826 6.87 0.00 31.65 3.68
4357 11678 4.323562 GGGTACTCCTACTGTTGAGCAAAT 60.324 45.833 6.87 0.00 31.65 2.32
4358 11679 5.105064 GGGTACTCCTACTGTTGAGCAAATA 60.105 44.000 6.87 0.00 31.65 1.40
4359 11680 6.043411 GGTACTCCTACTGTTGAGCAAATAG 58.957 44.000 6.87 0.00 33.42 1.73
4360 11681 5.091261 ACTCCTACTGTTGAGCAAATAGG 57.909 43.478 6.87 8.88 37.36 2.57
4361 11682 4.532521 ACTCCTACTGTTGAGCAAATAGGT 59.467 41.667 12.50 0.00 37.33 3.08
4362 11683 5.720041 ACTCCTACTGTTGAGCAAATAGGTA 59.280 40.000 12.50 0.00 37.33 3.08
4363 11684 6.212791 ACTCCTACTGTTGAGCAAATAGGTAA 59.787 38.462 12.50 0.57 37.33 2.85
4364 11685 7.092846 ACTCCTACTGTTGAGCAAATAGGTAAT 60.093 37.037 12.50 2.81 37.33 1.89
4365 11686 7.630082 TCCTACTGTTGAGCAAATAGGTAATT 58.370 34.615 12.50 0.00 37.33 1.40
4366 11687 8.107095 TCCTACTGTTGAGCAAATAGGTAATTT 58.893 33.333 12.50 0.00 38.36 1.82
4367 11688 8.398665 CCTACTGTTGAGCAAATAGGTAATTTC 58.601 37.037 0.00 0.00 35.54 2.17
4368 11689 9.167311 CTACTGTTGAGCAAATAGGTAATTTCT 57.833 33.333 0.00 0.00 35.54 2.52
4369 11690 8.045176 ACTGTTGAGCAAATAGGTAATTTCTC 57.955 34.615 0.00 0.00 35.54 2.87
4370 11691 7.072177 TGTTGAGCAAATAGGTAATTTCTCG 57.928 36.000 0.00 0.00 35.54 4.04
4371 11692 6.876789 TGTTGAGCAAATAGGTAATTTCTCGA 59.123 34.615 0.00 0.00 35.54 4.04
4372 11693 7.552687 TGTTGAGCAAATAGGTAATTTCTCGAT 59.447 33.333 0.00 0.00 35.54 3.59
4373 11694 8.398665 GTTGAGCAAATAGGTAATTTCTCGATT 58.601 33.333 0.00 0.00 35.54 3.34
4374 11695 9.607988 TTGAGCAAATAGGTAATTTCTCGATTA 57.392 29.630 0.00 0.00 35.54 1.75
4375 11696 9.607988 TGAGCAAATAGGTAATTTCTCGATTAA 57.392 29.630 0.00 0.00 35.54 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 1.910580 ATCGCCCCCACCTAACAGTG 61.911 60.000 0.00 0.00 37.51 3.66
190 194 6.595716 GGTTCACTCTATGCAAATACACTTCT 59.404 38.462 0.00 0.00 0.00 2.85
225 1152 5.047377 ACCATTAAAATCGCCACAGTTCAAT 60.047 36.000 0.00 0.00 0.00 2.57
266 1308 6.183360 ACAGTCATACAGTCATGTACCATCTC 60.183 42.308 0.00 0.00 44.51 2.75
267 1309 5.658634 ACAGTCATACAGTCATGTACCATCT 59.341 40.000 0.00 0.00 44.51 2.90
268 1310 5.907207 ACAGTCATACAGTCATGTACCATC 58.093 41.667 0.00 0.00 44.51 3.51
269 1311 5.939764 ACAGTCATACAGTCATGTACCAT 57.060 39.130 0.00 0.00 44.51 3.55
270 1312 5.949952 ACTACAGTCATACAGTCATGTACCA 59.050 40.000 0.00 0.00 44.51 3.25
272 1314 6.095021 TCCACTACAGTCATACAGTCATGTAC 59.905 42.308 0.00 0.00 44.51 2.90
273 1315 6.184789 TCCACTACAGTCATACAGTCATGTA 58.815 40.000 0.00 0.00 45.73 2.29
274 1316 5.016831 TCCACTACAGTCATACAGTCATGT 58.983 41.667 0.00 0.00 43.76 3.21
275 1317 5.126222 ACTCCACTACAGTCATACAGTCATG 59.874 44.000 0.00 0.00 0.00 3.07
276 1318 5.265191 ACTCCACTACAGTCATACAGTCAT 58.735 41.667 0.00 0.00 0.00 3.06
277 1319 4.663334 ACTCCACTACAGTCATACAGTCA 58.337 43.478 0.00 0.00 0.00 3.41
278 1320 5.646793 TGTACTCCACTACAGTCATACAGTC 59.353 44.000 0.00 0.00 0.00 3.51
279 1321 5.567430 TGTACTCCACTACAGTCATACAGT 58.433 41.667 0.00 0.00 0.00 3.55
280 1322 6.151312 ACTTGTACTCCACTACAGTCATACAG 59.849 42.308 0.00 0.00 0.00 2.74
281 1323 6.008331 ACTTGTACTCCACTACAGTCATACA 58.992 40.000 0.00 0.00 0.00 2.29
282 1324 6.512342 ACTTGTACTCCACTACAGTCATAC 57.488 41.667 0.00 0.00 0.00 2.39
283 1325 8.683615 CATTACTTGTACTCCACTACAGTCATA 58.316 37.037 0.00 0.00 0.00 2.15
352 1399 2.796031 CGAGTCAGTCCGCTAGTACTAG 59.204 54.545 23.25 23.25 36.29 2.57
353 1400 2.819115 CGAGTCAGTCCGCTAGTACTA 58.181 52.381 1.89 1.89 0.00 1.82
354 1401 1.654317 CGAGTCAGTCCGCTAGTACT 58.346 55.000 0.00 0.00 0.00 2.73
439 1490 0.674581 TCACTCGCTCCATGCCAAAG 60.675 55.000 0.00 0.00 38.78 2.77
590 4329 1.915489 TCATGTGGGTGCTGTAGGATT 59.085 47.619 0.00 0.00 0.00 3.01
599 4338 3.615224 AATTCCAATTCATGTGGGTGC 57.385 42.857 1.29 0.00 36.73 5.01
618 4363 1.067985 TGATTTCGTACACGGCGGTAA 60.068 47.619 13.24 0.00 40.29 2.85
699 4448 0.665835 CTTCCAGAGGAGGACGATCG 59.334 60.000 14.88 14.88 37.42 3.69
780 4571 5.183530 TGCCCTCTGTACTGTAGTAGTAA 57.816 43.478 0.00 0.00 43.24 2.24
787 4578 1.945354 GCGCTGCCCTCTGTACTGTA 61.945 60.000 0.00 0.00 0.00 2.74
788 4579 2.973899 CGCTGCCCTCTGTACTGT 59.026 61.111 0.00 0.00 0.00 3.55
789 4580 2.510238 GCGCTGCCCTCTGTACTG 60.510 66.667 0.00 0.00 0.00 2.74
796 4587 1.589716 ATTTTCACAGCGCTGCCCTC 61.590 55.000 36.28 0.00 0.00 4.30
991 4818 0.523546 CGCACTGTACTGCTCCTACG 60.524 60.000 5.66 0.00 34.77 3.51
1029 4856 3.028098 AGCTAGGGGACGGAGGGA 61.028 66.667 0.00 0.00 0.00 4.20
1058 4890 3.281787 ACGGAGGGAGGGGGAGAA 61.282 66.667 0.00 0.00 0.00 2.87
1075 4907 0.323542 GAAGAGGGAGGAGACGGTGA 60.324 60.000 0.00 0.00 0.00 4.02
1077 4909 0.336737 ATGAAGAGGGAGGAGACGGT 59.663 55.000 0.00 0.00 0.00 4.83
1078 4910 1.036707 GATGAAGAGGGAGGAGACGG 58.963 60.000 0.00 0.00 0.00 4.79
1079 4911 1.407258 GTGATGAAGAGGGAGGAGACG 59.593 57.143 0.00 0.00 0.00 4.18
1080 4912 2.693074 GAGTGATGAAGAGGGAGGAGAC 59.307 54.545 0.00 0.00 0.00 3.36
1081 4913 2.358721 GGAGTGATGAAGAGGGAGGAGA 60.359 54.545 0.00 0.00 0.00 3.71
1082 4914 2.038659 GGAGTGATGAAGAGGGAGGAG 58.961 57.143 0.00 0.00 0.00 3.69
1083 4915 1.343478 GGGAGTGATGAAGAGGGAGGA 60.343 57.143 0.00 0.00 0.00 3.71
1084 4916 1.127343 GGGAGTGATGAAGAGGGAGG 58.873 60.000 0.00 0.00 0.00 4.30
1085 4917 1.127343 GGGGAGTGATGAAGAGGGAG 58.873 60.000 0.00 0.00 0.00 4.30
1086 4918 0.326618 GGGGGAGTGATGAAGAGGGA 60.327 60.000 0.00 0.00 0.00 4.20
1270 5726 4.996434 AGCAGTCACCGCCAGCAC 62.996 66.667 0.00 0.00 0.00 4.40
1271 5727 4.254709 AAGCAGTCACCGCCAGCA 62.255 61.111 0.00 0.00 0.00 4.41
1272 5728 3.730761 CAAGCAGTCACCGCCAGC 61.731 66.667 0.00 0.00 0.00 4.85
1273 5729 3.730761 GCAAGCAGTCACCGCCAG 61.731 66.667 0.00 0.00 0.00 4.85
1502 5994 2.279784 GAGCCCGATGAAGAGCCG 60.280 66.667 0.00 0.00 0.00 5.52
2271 6763 1.827681 GTTCCCTTCCAGCTTCTTCC 58.172 55.000 0.00 0.00 0.00 3.46
2363 6856 6.655078 ATTGCTTGGATAAACTGTGTTCTT 57.345 33.333 0.00 0.00 0.00 2.52
2364 6857 7.759489 TTATTGCTTGGATAAACTGTGTTCT 57.241 32.000 0.00 0.00 0.00 3.01
2365 6858 8.863049 CAATTATTGCTTGGATAAACTGTGTTC 58.137 33.333 0.00 0.00 0.00 3.18
2366 6859 8.761575 CAATTATTGCTTGGATAAACTGTGTT 57.238 30.769 0.00 0.00 0.00 3.32
2382 6877 4.228356 TGGAACAATGCCGCAATTATTGC 61.228 43.478 18.91 18.91 45.43 3.56
2408 6921 7.645058 TTCACAAGATTTCTTCTCCAAAAGT 57.355 32.000 0.00 0.00 33.11 2.66
2416 6929 9.358872 GTTTCAAGTTTTCACAAGATTTCTTCT 57.641 29.630 0.00 0.00 33.11 2.85
2437 6950 3.135348 TGGATTGCCAACCAAATGTTTCA 59.865 39.130 0.00 0.00 42.49 2.69
2464 6977 3.740115 TCAAGTAGTGCTCCACCTTTTC 58.260 45.455 0.00 0.00 34.49 2.29
2467 6980 2.706190 AGTTCAAGTAGTGCTCCACCTT 59.294 45.455 0.00 0.00 34.49 3.50
2468 6981 2.037772 CAGTTCAAGTAGTGCTCCACCT 59.962 50.000 0.00 0.00 34.49 4.00
2469 6982 2.037251 TCAGTTCAAGTAGTGCTCCACC 59.963 50.000 0.00 0.00 34.49 4.61
2470 6983 3.386768 TCAGTTCAAGTAGTGCTCCAC 57.613 47.619 0.00 0.00 34.10 4.02
2473 6986 2.731976 CCGTTCAGTTCAAGTAGTGCTC 59.268 50.000 0.00 0.00 0.00 4.26
2506 7019 6.574073 GCCAAAAACAATGGAATCTGATGGTA 60.574 38.462 0.00 0.00 40.56 3.25
2522 7035 7.093945 GGTTTATTATCTCTCCAGCCAAAAACA 60.094 37.037 0.00 0.00 0.00 2.83
2529 7042 4.602340 TCGGTTTATTATCTCTCCAGCC 57.398 45.455 0.00 0.00 0.00 4.85
2531 7044 7.210174 TGATGTTCGGTTTATTATCTCTCCAG 58.790 38.462 0.00 0.00 0.00 3.86
2536 7049 8.665685 ACAGTTTGATGTTCGGTTTATTATCTC 58.334 33.333 0.00 0.00 0.00 2.75
2538 7051 7.908601 GGACAGTTTGATGTTCGGTTTATTATC 59.091 37.037 0.00 0.00 32.25 1.75
2540 7053 6.711194 TGGACAGTTTGATGTTCGGTTTATTA 59.289 34.615 0.00 0.00 30.63 0.98
2541 7054 5.533154 TGGACAGTTTGATGTTCGGTTTATT 59.467 36.000 0.00 0.00 30.63 1.40
2542 7055 5.067273 TGGACAGTTTGATGTTCGGTTTAT 58.933 37.500 0.00 0.00 30.63 1.40
2543 7056 4.452825 TGGACAGTTTGATGTTCGGTTTA 58.547 39.130 0.00 0.00 30.63 2.01
2544 7057 3.283751 TGGACAGTTTGATGTTCGGTTT 58.716 40.909 0.00 0.00 30.63 3.27
2545 7058 2.925724 TGGACAGTTTGATGTTCGGTT 58.074 42.857 0.00 0.00 30.63 4.44
2546 7059 2.631160 TGGACAGTTTGATGTTCGGT 57.369 45.000 0.00 0.00 30.63 4.69
2547 7060 3.501828 TGAATGGACAGTTTGATGTTCGG 59.498 43.478 0.00 0.00 30.63 4.30
2548 7061 4.747540 TGAATGGACAGTTTGATGTTCG 57.252 40.909 0.00 0.00 30.63 3.95
2549 7062 5.644644 GGATGAATGGACAGTTTGATGTTC 58.355 41.667 0.00 0.00 32.25 3.18
2550 7063 4.156556 CGGATGAATGGACAGTTTGATGTT 59.843 41.667 0.00 0.00 32.25 2.71
2551 7064 3.691118 CGGATGAATGGACAGTTTGATGT 59.309 43.478 0.00 0.00 35.68 3.06
2552 7065 3.940852 TCGGATGAATGGACAGTTTGATG 59.059 43.478 0.00 0.00 0.00 3.07
2553 7066 4.220693 TCGGATGAATGGACAGTTTGAT 57.779 40.909 0.00 0.00 0.00 2.57
2554 7067 3.694043 TCGGATGAATGGACAGTTTGA 57.306 42.857 0.00 0.00 0.00 2.69
2555 7068 4.201950 GGAATCGGATGAATGGACAGTTTG 60.202 45.833 0.00 0.00 0.00 2.93
2556 7069 3.947834 GGAATCGGATGAATGGACAGTTT 59.052 43.478 0.00 0.00 0.00 2.66
2557 7070 3.054434 TGGAATCGGATGAATGGACAGTT 60.054 43.478 0.00 0.00 0.00 3.16
2558 7071 2.505407 TGGAATCGGATGAATGGACAGT 59.495 45.455 0.00 0.00 0.00 3.55
2559 7072 3.198409 TGGAATCGGATGAATGGACAG 57.802 47.619 0.00 0.00 0.00 3.51
2560 7073 3.862877 ATGGAATCGGATGAATGGACA 57.137 42.857 0.00 0.00 0.00 4.02
2561 7074 4.641396 TGTATGGAATCGGATGAATGGAC 58.359 43.478 0.00 0.00 0.00 4.02
2562 7075 4.803924 GCTGTATGGAATCGGATGAATGGA 60.804 45.833 0.00 0.00 0.00 3.41
2563 7076 3.438087 GCTGTATGGAATCGGATGAATGG 59.562 47.826 0.00 0.00 0.00 3.16
2564 7077 4.067192 TGCTGTATGGAATCGGATGAATG 58.933 43.478 0.00 0.00 0.00 2.67
2565 7078 4.356405 TGCTGTATGGAATCGGATGAAT 57.644 40.909 0.00 0.00 0.00 2.57
2566 7079 3.836365 TGCTGTATGGAATCGGATGAA 57.164 42.857 0.00 0.00 0.00 2.57
2567 7080 3.134623 AGTTGCTGTATGGAATCGGATGA 59.865 43.478 0.00 0.00 0.00 2.92
2568 7081 3.249320 CAGTTGCTGTATGGAATCGGATG 59.751 47.826 0.00 0.00 0.00 3.51
2569 7082 3.118261 ACAGTTGCTGTATGGAATCGGAT 60.118 43.478 0.00 0.00 43.46 4.18
2570 7083 2.236146 ACAGTTGCTGTATGGAATCGGA 59.764 45.455 0.00 0.00 43.46 4.55
2571 7084 2.632377 ACAGTTGCTGTATGGAATCGG 58.368 47.619 0.00 0.00 43.46 4.18
2572 7085 3.935203 AGAACAGTTGCTGTATGGAATCG 59.065 43.478 1.97 0.00 44.62 3.34
2573 7086 5.181748 AGAGAACAGTTGCTGTATGGAATC 58.818 41.667 1.97 0.00 44.62 2.52
2574 7087 5.046014 AGAGAGAACAGTTGCTGTATGGAAT 60.046 40.000 1.97 0.00 44.62 3.01
2575 7088 4.284490 AGAGAGAACAGTTGCTGTATGGAA 59.716 41.667 1.97 0.00 44.62 3.53
2576 7089 3.834813 AGAGAGAACAGTTGCTGTATGGA 59.165 43.478 1.97 0.00 44.62 3.41
2577 7090 4.199432 AGAGAGAACAGTTGCTGTATGG 57.801 45.455 1.97 0.00 44.62 2.74
2578 7091 5.931146 AGAAAGAGAGAACAGTTGCTGTATG 59.069 40.000 1.97 0.00 44.62 2.39
2579 7092 6.107901 AGAAAGAGAGAACAGTTGCTGTAT 57.892 37.500 1.97 0.00 44.62 2.29
2660 7176 0.391661 GAATGCCTTCTCACCGCTGA 60.392 55.000 0.00 0.00 0.00 4.26
2828 7344 2.518587 TCGATCGGGCCATCGTCT 60.519 61.111 26.30 2.84 44.99 4.18
2842 7358 0.516001 CGAAGAAGACGGTGTCTCGA 59.484 55.000 0.00 0.00 42.59 4.04
2849 7365 1.970114 TCGAGGCGAAGAAGACGGT 60.970 57.895 0.00 0.00 31.06 4.83
2873 7389 1.337110 GGAAAAATGAGTGCGTGCGC 61.337 55.000 9.85 9.85 42.35 6.09
2886 7402 2.377193 TGTAGCTAGCAAGGGGGAAAAA 59.623 45.455 18.83 0.00 0.00 1.94
2891 7407 0.107165 GGTTGTAGCTAGCAAGGGGG 60.107 60.000 18.83 0.00 0.00 5.40
2998 7514 0.256464 TCTTCCTCCTCGACTCCTCC 59.744 60.000 0.00 0.00 0.00 4.30
3009 7525 2.188207 GCCGCTCCTTCTTCCTCC 59.812 66.667 0.00 0.00 0.00 4.30
3035 7551 1.478471 CCCACAAGTGACAATGACCCA 60.478 52.381 0.94 0.00 0.00 4.51
3104 7623 1.275291 CTGCGAGTAAGTTTCCCAGGA 59.725 52.381 0.00 0.00 0.00 3.86
3388 7934 6.862209 TGCTGCTCAAAGTAAAAGAAAAGAA 58.138 32.000 0.00 0.00 0.00 2.52
3435 7987 1.134367 TCCTGTCCATCATCGTCGTTC 59.866 52.381 0.00 0.00 0.00 3.95
3436 7988 1.135083 GTCCTGTCCATCATCGTCGTT 60.135 52.381 0.00 0.00 0.00 3.85
3452 8011 3.715315 ACTCATCATCACCATCATGTCCT 59.285 43.478 0.00 0.00 0.00 3.85
3529 8089 0.040499 GGGTTTGGTAGGCCATGGAA 59.960 55.000 18.40 0.00 45.56 3.53
3554 8114 7.401493 ACAGCATTATTATCTAGACCTGGCTAT 59.599 37.037 0.00 0.00 0.00 2.97
3563 8123 9.306777 AGTCATCTCACAGCATTATTATCTAGA 57.693 33.333 0.00 0.00 0.00 2.43
3594 8154 4.377841 GCATGAGTTACTCAAAGACTGCAC 60.378 45.833 24.30 4.61 44.04 4.57
3628 8188 4.825422 GATCAGTGGAGTTGATCACTTGA 58.175 43.478 9.65 0.00 46.47 3.02
3726 11020 4.649954 GAGTGTGTGTGTGCGCGC 62.650 66.667 27.26 27.26 36.27 6.86
3727 11021 4.000557 GGAGTGTGTGTGTGCGCG 62.001 66.667 0.00 0.00 0.00 6.86
3728 11022 3.649986 GGGAGTGTGTGTGTGCGC 61.650 66.667 0.00 0.00 0.00 6.09
3729 11023 1.956170 GAGGGAGTGTGTGTGTGCG 60.956 63.158 0.00 0.00 0.00 5.34
3730 11024 0.601311 GAGAGGGAGTGTGTGTGTGC 60.601 60.000 0.00 0.00 0.00 4.57
3731 11025 0.752658 TGAGAGGGAGTGTGTGTGTG 59.247 55.000 0.00 0.00 0.00 3.82
3732 11026 1.722034 ATGAGAGGGAGTGTGTGTGT 58.278 50.000 0.00 0.00 0.00 3.72
3733 11027 2.847327 AATGAGAGGGAGTGTGTGTG 57.153 50.000 0.00 0.00 0.00 3.82
3746 11040 6.906157 ATGCCTTGAAGAAAGAAAATGAGA 57.094 33.333 0.00 0.00 38.24 3.27
3747 11041 7.654520 TCAAATGCCTTGAAGAAAGAAAATGAG 59.345 33.333 0.00 0.00 41.21 2.90
3748 11042 7.499292 TCAAATGCCTTGAAGAAAGAAAATGA 58.501 30.769 0.00 0.00 41.21 2.57
3749 11043 7.718272 TCAAATGCCTTGAAGAAAGAAAATG 57.282 32.000 0.00 0.00 41.21 2.32
3774 11072 3.842925 ATGCGCCAGAACCACCGTT 62.843 57.895 4.18 0.00 33.88 4.44
3775 11073 4.329545 ATGCGCCAGAACCACCGT 62.330 61.111 4.18 0.00 0.00 4.83
3776 11074 3.803082 CATGCGCCAGAACCACCG 61.803 66.667 4.18 0.00 0.00 4.94
3777 11075 2.359850 TCATGCGCCAGAACCACC 60.360 61.111 4.18 0.00 0.00 4.61
3778 11076 3.044059 GCTCATGCGCCAGAACCAC 62.044 63.158 4.18 0.00 0.00 4.16
3779 11077 2.747460 GCTCATGCGCCAGAACCA 60.747 61.111 4.18 0.00 0.00 3.67
3780 11078 2.437359 AGCTCATGCGCCAGAACC 60.437 61.111 4.18 0.00 45.42 3.62
3781 11079 2.806856 CGAGCTCATGCGCCAGAAC 61.807 63.158 15.40 0.00 45.42 3.01
3782 11080 2.510012 CGAGCTCATGCGCCAGAA 60.510 61.111 15.40 0.00 45.42 3.02
3814 11112 1.815003 CATTTTCACTCCTGACCAGCC 59.185 52.381 0.00 0.00 0.00 4.85
3819 11117 1.523758 ACGCCATTTTCACTCCTGAC 58.476 50.000 0.00 0.00 0.00 3.51
3825 11123 2.297701 ACTCACAACGCCATTTTCACT 58.702 42.857 0.00 0.00 0.00 3.41
3854 11152 0.822532 CCTCCATCATTGGCCTCTGC 60.823 60.000 3.32 0.00 43.29 4.26
3856 11154 2.004408 GCCCTCCATCATTGGCCTCT 62.004 60.000 3.32 0.00 43.29 3.69
3858 11156 2.605299 GCCCTCCATCATTGGCCT 59.395 61.111 3.32 0.00 43.29 5.19
3859 11157 2.908940 CGCCCTCCATCATTGGCC 60.909 66.667 0.00 0.00 43.29 5.36
3860 11158 2.908940 CCGCCCTCCATCATTGGC 60.909 66.667 0.00 0.00 43.29 4.52
3861 11159 0.178981 ATTCCGCCCTCCATCATTGG 60.179 55.000 0.00 0.00 45.15 3.16
3862 11160 1.696063 AATTCCGCCCTCCATCATTG 58.304 50.000 0.00 0.00 0.00 2.82
3863 11161 3.138283 TCTTAATTCCGCCCTCCATCATT 59.862 43.478 0.00 0.00 0.00 2.57
3907 11212 2.889678 CACCCGATCTGATCTGATCTCA 59.110 50.000 29.14 5.53 40.32 3.27
4041 11349 0.104934 CCTATACAGGGGGTGGCTCT 60.105 60.000 0.00 0.00 38.41 4.09
4165 11473 4.223125 AGCCCAGGCAGCACCAAA 62.223 61.111 12.03 0.00 44.88 3.28
4262 11575 3.124686 GCAAAAACGTGCCAGGGA 58.875 55.556 0.00 0.00 38.66 4.20
4332 11653 2.832733 GCTCAACAGTAGGAGTACCCTT 59.167 50.000 8.03 0.00 44.85 3.95
4335 11656 3.955650 TTGCTCAACAGTAGGAGTACC 57.044 47.619 4.55 0.00 33.66 3.34
4336 11657 6.043411 CCTATTTGCTCAACAGTAGGAGTAC 58.957 44.000 8.22 0.00 39.25 2.73
4337 11658 5.720041 ACCTATTTGCTCAACAGTAGGAGTA 59.280 40.000 15.76 0.00 39.25 2.59
4338 11659 4.532521 ACCTATTTGCTCAACAGTAGGAGT 59.467 41.667 15.76 0.00 39.25 3.85
4339 11660 5.091261 ACCTATTTGCTCAACAGTAGGAG 57.909 43.478 15.76 0.00 39.25 3.69
4340 11661 6.614694 TTACCTATTTGCTCAACAGTAGGA 57.385 37.500 15.76 4.16 39.25 2.94
4341 11662 7.865706 AATTACCTATTTGCTCAACAGTAGG 57.134 36.000 10.73 10.73 41.12 3.18
4342 11663 9.167311 AGAAATTACCTATTTGCTCAACAGTAG 57.833 33.333 0.00 0.00 36.59 2.57
4343 11664 9.162764 GAGAAATTACCTATTTGCTCAACAGTA 57.837 33.333 0.00 0.00 36.59 2.74
4344 11665 7.148407 CGAGAAATTACCTATTTGCTCAACAGT 60.148 37.037 0.00 0.00 36.59 3.55
4345 11666 7.064609 TCGAGAAATTACCTATTTGCTCAACAG 59.935 37.037 0.00 0.00 36.59 3.16
4346 11667 6.876789 TCGAGAAATTACCTATTTGCTCAACA 59.123 34.615 0.00 0.00 36.59 3.33
4347 11668 7.303634 TCGAGAAATTACCTATTTGCTCAAC 57.696 36.000 0.00 0.00 36.59 3.18
4348 11669 8.506168 AATCGAGAAATTACCTATTTGCTCAA 57.494 30.769 0.00 0.00 36.59 3.02
4349 11670 9.607988 TTAATCGAGAAATTACCTATTTGCTCA 57.392 29.630 0.00 0.00 36.59 4.26


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

AutoCloner maintained by Alex Coulton.