Multiple sequence alignment - TraesCS3B01G045900

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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 TraesCS3B01G045900 chr3B 100.000 3741 0 0 1 3741 23181755 23185495 0.000000e+00 6909.0
1 TraesCS3B01G045900 chr3B 87.963 972 69 25 2772 3717 23317331 23318280 0.000000e+00 1103.0
2 TraesCS3B01G045900 chr3B 86.811 599 45 16 2721 3296 23193520 23194107 4.070000e-179 638.0
3 TraesCS3B01G045900 chr3B 85.185 81 11 1 147 227 23353781 23353702 8.610000e-12 82.4
4 TraesCS3B01G045900 chr3D 89.306 3357 213 77 402 3721 16031655 16034902 0.000000e+00 4076.0
5 TraesCS3B01G045900 chr3D 93.089 492 34 0 2002 2493 15996343 15995852 0.000000e+00 721.0
6 TraesCS3B01G045900 chr3D 88.800 125 14 0 287 411 16031500 16031624 1.800000e-33 154.0
7 TraesCS3B01G045900 chr3D 91.398 93 8 0 101 193 16031409 16031501 1.090000e-25 128.0
8 TraesCS3B01G045900 chr3D 83.838 99 7 4 2 99 16030950 16031040 6.660000e-13 86.1
9 TraesCS3B01G045900 chr3A 90.156 3068 192 59 279 3289 20337719 20334705 0.000000e+00 3892.0
10 TraesCS3B01G045900 chr3A 94.156 154 8 1 3570 3722 20334340 20334187 2.250000e-57 233.0
11 TraesCS3B01G045900 chr1D 80.663 181 17 9 2909 3086 451534119 451533954 1.410000e-24 124.0
12 TraesCS3B01G045900 chr1B 84.034 119 11 5 3105 3223 621064216 621064106 1.420000e-19 108.0


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 TraesCS3B01G045900 chr3B 23181755 23185495 3740 False 6909.000 6909 100.0000 1 3741 1 chr3B.!!$F1 3740
1 TraesCS3B01G045900 chr3B 23317331 23318280 949 False 1103.000 1103 87.9630 2772 3717 1 chr3B.!!$F3 945
2 TraesCS3B01G045900 chr3B 23193520 23194107 587 False 638.000 638 86.8110 2721 3296 1 chr3B.!!$F2 575
3 TraesCS3B01G045900 chr3D 16030950 16034902 3952 False 1111.025 4076 88.3355 2 3721 4 chr3D.!!$F1 3719
4 TraesCS3B01G045900 chr3A 20334187 20337719 3532 True 2062.500 3892 92.1560 279 3722 2 chr3A.!!$R1 3443

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
898 1314 0.032217 CCCTCTCTCCCTCTCTTGCT 60.032 60.0 0.0 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2769 3198 0.179051 CCTGCTCCTCCTGCATCTTC 60.179 60.0 0.0 0.0 39.86 2.87 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
34 35 4.936891 TGACAAGACATATGAGTCGATGG 58.063 43.478 10.38 0.00 43.24 3.51
36 37 3.062763 CAAGACATATGAGTCGATGGCC 58.937 50.000 10.38 0.00 43.24 5.36
42 43 0.179037 ATGAGTCGATGGCCCACATG 60.179 55.000 0.00 0.00 40.72 3.21
43 44 1.221840 GAGTCGATGGCCCACATGT 59.778 57.895 0.00 0.00 40.72 3.21
44 45 0.811616 GAGTCGATGGCCCACATGTC 60.812 60.000 0.00 0.00 40.72 3.06
45 46 1.221840 GTCGATGGCCCACATGTCT 59.778 57.895 0.00 0.00 40.72 3.41
46 47 0.392998 GTCGATGGCCCACATGTCTT 60.393 55.000 0.00 0.00 40.72 3.01
47 48 0.392863 TCGATGGCCCACATGTCTTG 60.393 55.000 0.00 0.00 40.72 3.02
48 49 0.677731 CGATGGCCCACATGTCTTGT 60.678 55.000 0.00 0.00 40.72 3.16
88 189 5.991933 AGTTGATGTCTCACATGTCTAGT 57.008 39.130 0.00 0.00 39.27 2.57
99 200 7.433719 GTCTCACATGTCTAGTCATGACAATAC 59.566 40.741 29.02 19.71 45.82 1.89
101 202 7.785033 TCACATGTCTAGTCATGACAATACAT 58.215 34.615 29.02 24.86 45.82 2.29
102 203 8.912988 TCACATGTCTAGTCATGACAATACATA 58.087 33.333 29.02 13.94 45.82 2.29
146 507 2.311463 GCTCATAGCACCTAGACCTCA 58.689 52.381 0.00 0.00 41.89 3.86
147 508 2.035321 GCTCATAGCACCTAGACCTCAC 59.965 54.545 0.00 0.00 41.89 3.51
148 509 3.291584 CTCATAGCACCTAGACCTCACA 58.708 50.000 0.00 0.00 0.00 3.58
149 510 3.894427 CTCATAGCACCTAGACCTCACAT 59.106 47.826 0.00 0.00 0.00 3.21
150 511 3.638627 TCATAGCACCTAGACCTCACATG 59.361 47.826 0.00 0.00 0.00 3.21
151 512 1.944177 AGCACCTAGACCTCACATGT 58.056 50.000 0.00 0.00 0.00 3.21
152 513 3.101643 AGCACCTAGACCTCACATGTA 57.898 47.619 0.00 0.00 0.00 2.29
153 514 3.647636 AGCACCTAGACCTCACATGTAT 58.352 45.455 0.00 0.00 0.00 2.29
154 515 4.033709 AGCACCTAGACCTCACATGTATT 58.966 43.478 0.00 0.00 0.00 1.89
155 516 4.122776 GCACCTAGACCTCACATGTATTG 58.877 47.826 0.00 0.00 0.00 1.90
156 517 4.383118 GCACCTAGACCTCACATGTATTGT 60.383 45.833 0.00 0.00 39.91 2.71
157 518 5.352284 CACCTAGACCTCACATGTATTGTC 58.648 45.833 0.00 5.38 36.00 3.18
158 519 4.406003 ACCTAGACCTCACATGTATTGTCC 59.594 45.833 13.96 0.00 36.00 4.02
159 520 4.651503 CCTAGACCTCACATGTATTGTCCT 59.348 45.833 13.96 4.78 36.00 3.85
160 521 4.478206 AGACCTCACATGTATTGTCCTG 57.522 45.455 13.96 0.00 36.00 3.86
161 522 4.096681 AGACCTCACATGTATTGTCCTGA 58.903 43.478 13.96 0.00 36.00 3.86
162 523 4.718774 AGACCTCACATGTATTGTCCTGAT 59.281 41.667 13.96 0.00 36.00 2.90
163 524 5.190528 AGACCTCACATGTATTGTCCTGATT 59.809 40.000 13.96 0.00 36.00 2.57
164 525 6.384015 AGACCTCACATGTATTGTCCTGATTA 59.616 38.462 13.96 0.00 36.00 1.75
165 526 6.957631 ACCTCACATGTATTGTCCTGATTAA 58.042 36.000 0.00 0.00 36.00 1.40
166 527 7.577303 ACCTCACATGTATTGTCCTGATTAAT 58.423 34.615 0.00 0.00 36.00 1.40
167 528 8.713971 ACCTCACATGTATTGTCCTGATTAATA 58.286 33.333 0.00 0.00 36.00 0.98
168 529 9.559732 CCTCACATGTATTGTCCTGATTAATAA 57.440 33.333 0.00 0.00 36.00 1.40
180 541 9.460019 TGTCCTGATTAATAAATGTTCATGACA 57.540 29.630 0.00 7.74 43.71 3.58
192 553 8.571461 AAATGTTCATGACAAGACATATGAGT 57.429 30.769 10.38 2.24 42.62 3.41
193 554 8.571461 AATGTTCATGACAAGACATATGAGTT 57.429 30.769 10.38 0.00 42.62 3.01
194 555 7.984422 TGTTCATGACAAGACATATGAGTTT 57.016 32.000 10.38 0.00 34.69 2.66
195 556 9.671279 ATGTTCATGACAAGACATATGAGTTTA 57.329 29.630 10.38 0.00 42.62 2.01
196 557 9.671279 TGTTCATGACAAGACATATGAGTTTAT 57.329 29.630 10.38 0.00 34.69 1.40
197 558 9.926751 GTTCATGACAAGACATATGAGTTTATG 57.073 33.333 10.38 10.39 35.98 1.90
198 559 8.146479 TCATGACAAGACATATGAGTTTATGC 57.854 34.615 10.38 0.00 33.67 3.14
213 574 5.804639 AGTTTATGCCTCACATGTCTTGTA 58.195 37.500 0.00 0.00 40.06 2.41
225 586 9.154847 CTCACATGTCTTGTACTGATCAATAAA 57.845 33.333 0.00 0.00 36.57 1.40
228 589 9.453572 ACATGTCTTGTACTGATCAATAAATGT 57.546 29.630 0.00 0.00 36.57 2.71
250 611 3.930336 TCATGACAAGACATGTGAGTCC 58.070 45.455 1.15 0.00 44.12 3.85
251 612 3.324556 TCATGACAAGACATGTGAGTCCA 59.675 43.478 1.15 0.00 44.12 4.02
252 613 4.019950 TCATGACAAGACATGTGAGTCCAT 60.020 41.667 1.15 0.00 44.12 3.41
253 614 3.667360 TGACAAGACATGTGAGTCCATG 58.333 45.455 1.15 15.83 44.12 3.66
272 633 4.879197 ATGTCTCACATGTCTTGTCAGA 57.121 40.909 0.00 0.00 37.45 3.27
373 734 3.179925 CCATGAGTGGTCCATGTGG 57.820 57.895 0.00 0.00 40.83 4.17
387 748 3.079072 TCCATGTGGGGCCTAGATACTAT 59.921 47.826 0.84 0.00 37.22 2.12
389 750 3.915346 TGTGGGGCCTAGATACTATGA 57.085 47.619 0.84 0.00 0.00 2.15
406 767 8.879342 ATACTATGAGTACTCAATGCTTCAAC 57.121 34.615 28.43 0.00 43.58 3.18
424 823 9.651913 TGCTTCAACGCTCATAATAATATATGA 57.348 29.630 0.00 0.00 39.39 2.15
556 962 5.332130 CGTGAAATCAGAACATATGCTCGAG 60.332 44.000 8.45 8.45 0.00 4.04
737 1145 1.672854 TTACATCACTCGGGCTCGGG 61.673 60.000 2.99 2.99 43.72 5.14
754 1169 1.301716 GGCACTCCGAACTGAAGCA 60.302 57.895 0.00 0.00 0.00 3.91
778 1193 1.003696 CCTTCTTCCTCACACCTTCCC 59.996 57.143 0.00 0.00 0.00 3.97
893 1309 0.560688 ATCCACCCTCTCTCCCTCTC 59.439 60.000 0.00 0.00 0.00 3.20
894 1310 0.553862 TCCACCCTCTCTCCCTCTCT 60.554 60.000 0.00 0.00 0.00 3.10
895 1311 0.338120 CCACCCTCTCTCCCTCTCTT 59.662 60.000 0.00 0.00 0.00 2.85
896 1312 1.484038 CACCCTCTCTCCCTCTCTTG 58.516 60.000 0.00 0.00 0.00 3.02
897 1313 0.325203 ACCCTCTCTCCCTCTCTTGC 60.325 60.000 0.00 0.00 0.00 4.01
898 1314 0.032217 CCCTCTCTCCCTCTCTTGCT 60.032 60.000 0.00 0.00 0.00 3.91
899 1315 1.402787 CCTCTCTCCCTCTCTTGCTC 58.597 60.000 0.00 0.00 0.00 4.26
902 1322 1.360852 TCTCTCCCTCTCTTGCTCCTT 59.639 52.381 0.00 0.00 0.00 3.36
1107 1531 0.671781 CCACGTGAGCTTCCTTCCAG 60.672 60.000 19.30 0.00 0.00 3.86
1152 1576 2.421424 GTGTCTTGTTCATCCATGGAGC 59.579 50.000 21.33 10.57 0.00 4.70
1154 1578 2.941720 GTCTTGTTCATCCATGGAGCTC 59.058 50.000 21.33 4.71 0.00 4.09
1179 1603 3.739782 GATTCCATGGCGTGCGTGC 62.740 63.158 6.96 0.00 0.00 5.34
1190 1615 3.587933 TGCGTGCGTTTGGGGTTC 61.588 61.111 0.00 0.00 0.00 3.62
1332 1757 2.224606 TGCTTGCTCTGTTCTTGGAAG 58.775 47.619 0.00 0.00 33.32 3.46
1333 1758 2.158769 TGCTTGCTCTGTTCTTGGAAGA 60.159 45.455 0.00 0.00 32.15 2.87
1334 1759 2.880890 GCTTGCTCTGTTCTTGGAAGAA 59.119 45.455 0.00 0.00 42.41 2.52
1377 1805 4.459331 TTTCTTGATGGCGCGCGC 62.459 61.111 44.40 44.40 41.06 6.86
1539 1967 2.520904 GCAGCAAGATCGAGGACGC 61.521 63.158 0.00 0.00 39.58 5.19
1540 1968 1.153765 CAGCAAGATCGAGGACGCA 60.154 57.895 0.00 0.00 39.58 5.24
1572 2000 4.477975 CCAGGTCGTCCTCGTCGC 62.478 72.222 0.00 0.00 43.07 5.19
1950 2378 2.202623 GACGCGAACTCCGATGCT 60.203 61.111 15.93 0.00 41.76 3.79
1951 2379 2.202623 ACGCGAACTCCGATGCTC 60.203 61.111 15.93 0.00 41.76 4.26
1952 2380 2.103143 CGCGAACTCCGATGCTCT 59.897 61.111 0.00 0.00 41.76 4.09
1953 2381 1.941734 CGCGAACTCCGATGCTCTC 60.942 63.158 0.00 0.00 41.76 3.20
1955 2383 1.066587 CGAACTCCGATGCTCTCCC 59.933 63.158 0.00 0.00 41.76 4.30
1956 2384 1.388065 CGAACTCCGATGCTCTCCCT 61.388 60.000 0.00 0.00 41.76 4.20
1957 2385 0.387565 GAACTCCGATGCTCTCCCTC 59.612 60.000 0.00 0.00 0.00 4.30
1962 2390 1.118838 CCGATGCTCTCCCTCTCTTT 58.881 55.000 0.00 0.00 0.00 2.52
1963 2391 1.484240 CCGATGCTCTCCCTCTCTTTT 59.516 52.381 0.00 0.00 0.00 2.27
1965 2393 2.797792 CGATGCTCTCCCTCTCTTTTCG 60.798 54.545 0.00 0.00 0.00 3.46
1966 2394 0.247736 TGCTCTCCCTCTCTTTTCGC 59.752 55.000 0.00 0.00 0.00 4.70
1967 2395 0.534873 GCTCTCCCTCTCTTTTCGCT 59.465 55.000 0.00 0.00 0.00 4.93
1968 2396 1.470805 GCTCTCCCTCTCTTTTCGCTC 60.471 57.143 0.00 0.00 0.00 5.03
1969 2397 1.821753 CTCTCCCTCTCTTTTCGCTCA 59.178 52.381 0.00 0.00 0.00 4.26
1971 2399 2.632996 TCTCCCTCTCTTTTCGCTCAAA 59.367 45.455 0.00 0.00 0.00 2.69
1973 2401 4.006319 CTCCCTCTCTTTTCGCTCAAATT 58.994 43.478 0.00 0.00 0.00 1.82
1974 2402 4.398319 TCCCTCTCTTTTCGCTCAAATTT 58.602 39.130 0.00 0.00 0.00 1.82
1975 2403 4.216257 TCCCTCTCTTTTCGCTCAAATTTG 59.784 41.667 12.15 12.15 0.00 2.32
1976 2404 4.216257 CCCTCTCTTTTCGCTCAAATTTGA 59.784 41.667 19.45 19.45 35.57 2.69
1977 2405 5.149977 CCTCTCTTTTCGCTCAAATTTGAC 58.850 41.667 16.91 12.46 32.90 3.18
1978 2406 4.772434 TCTCTTTTCGCTCAAATTTGACG 58.228 39.130 24.61 24.61 34.98 4.35
2004 2432 0.506080 GCGCGTGCTCATTATCTCTG 59.494 55.000 15.02 0.00 38.39 3.35
2006 2434 1.520174 CGCGTGCTCATTATCTCTGTG 59.480 52.381 0.00 0.00 0.00 3.66
2007 2435 1.260033 GCGTGCTCATTATCTCTGTGC 59.740 52.381 0.00 0.00 34.55 4.57
2015 2443 3.381590 TCATTATCTCTGTGCTGTACGCT 59.618 43.478 10.27 0.00 40.11 5.07
2154 2582 2.456119 GGAGTTCGTGCGGATGCTG 61.456 63.158 0.00 0.00 43.34 4.41
2156 2584 1.005037 AGTTCGTGCGGATGCTGAA 60.005 52.632 0.00 0.00 43.34 3.02
2162 2590 1.301322 TGCGGATGCTGAACGTGAA 60.301 52.632 0.00 0.00 43.34 3.18
2169 2597 2.668280 GCTGAACGTGAAGCCGGAC 61.668 63.158 5.05 0.00 33.12 4.79
2170 2598 2.355363 TGAACGTGAAGCCGGACG 60.355 61.111 5.05 9.13 41.41 4.79
2312 2740 1.811359 CGTCTACGTCAACTCCCTCTT 59.189 52.381 0.00 0.00 34.11 2.85
2323 2751 0.906756 CTCCCTCTTCCAGCTGGTCA 60.907 60.000 31.58 18.59 36.34 4.02
2372 2800 3.958860 GCAGCACCTCACCAGGGT 61.959 66.667 0.00 0.00 45.53 4.34
2391 2819 2.094659 CCAGAAGGCGTACGTGCAG 61.095 63.158 17.90 2.61 36.28 4.41
2518 2946 0.164647 GCTGCAGAGTAAGCAACACG 59.835 55.000 20.43 0.00 42.17 4.49
2530 2958 1.222115 GCAACACGTCCTCTGACCAC 61.222 60.000 0.00 0.00 38.32 4.16
2540 2968 2.305927 TCCTCTGACCACAATTCCTTCC 59.694 50.000 0.00 0.00 0.00 3.46
2551 2979 3.019564 CAATTCCTTCCGCTCCTGAAAT 58.980 45.455 0.00 0.00 0.00 2.17
2569 2997 6.095160 CCTGAAATATGCTCTGCTTTTCTTCT 59.905 38.462 0.00 0.00 0.00 2.85
2575 3004 8.743085 ATATGCTCTGCTTTTCTTCTGAATTA 57.257 30.769 0.00 0.00 31.56 1.40
2579 3008 9.182214 TGCTCTGCTTTTCTTCTGAATTATAAT 57.818 29.630 0.00 0.00 31.56 1.28
2602 3031 8.560576 AATGTCTAATGTTCAAAACGTTCTTG 57.439 30.769 0.00 8.89 40.80 3.02
2603 3032 7.079182 TGTCTAATGTTCAAAACGTTCTTGT 57.921 32.000 0.00 0.00 40.80 3.16
2663 3092 4.069232 CGCCGCTCTGGTTCCAGA 62.069 66.667 18.81 18.81 40.34 3.86
2710 3139 3.827898 GACGAGCTCCCCGACCAG 61.828 72.222 8.47 0.00 0.00 4.00
2711 3140 4.361971 ACGAGCTCCCCGACCAGA 62.362 66.667 8.47 0.00 0.00 3.86
2713 3142 2.427245 CGAGCTCCCCGACCAGAAT 61.427 63.158 8.47 0.00 0.00 2.40
2748 3177 2.169144 TCCAGATGTACTGACATGGCAG 59.831 50.000 27.47 27.47 46.64 4.85
2749 3178 2.558378 CAGATGTACTGACATGGCAGG 58.442 52.381 31.68 14.37 46.64 4.85
2750 3179 1.134280 AGATGTACTGACATGGCAGGC 60.134 52.381 31.68 23.04 46.64 4.85
2751 3180 0.914644 ATGTACTGACATGGCAGGCT 59.085 50.000 31.68 15.03 44.90 4.58
2752 3181 1.567357 TGTACTGACATGGCAGGCTA 58.433 50.000 31.68 13.93 40.20 3.93
2753 3182 1.905894 TGTACTGACATGGCAGGCTAA 59.094 47.619 31.68 12.09 40.20 3.09
2754 3183 2.304470 TGTACTGACATGGCAGGCTAAA 59.696 45.455 31.68 9.21 40.20 1.85
2755 3184 2.584835 ACTGACATGGCAGGCTAAAA 57.415 45.000 31.68 0.00 40.20 1.52
2762 3191 3.382546 ACATGGCAGGCTAAAATGTCATC 59.617 43.478 0.00 0.00 39.65 2.92
2764 3193 3.429492 TGGCAGGCTAAAATGTCATCAA 58.571 40.909 0.00 0.00 0.00 2.57
2766 3195 3.445096 GGCAGGCTAAAATGTCATCAAGT 59.555 43.478 0.00 0.00 0.00 3.16
2769 3198 6.204359 GCAGGCTAAAATGTCATCAAGTATG 58.796 40.000 0.00 0.00 36.88 2.39
2788 3217 0.179051 GAAGATGCAGGAGGAGCAGG 60.179 60.000 0.00 0.00 46.36 4.85
2793 3222 2.271497 CAGGAGGAGCAGGGCTTG 59.729 66.667 0.00 0.00 39.88 4.01
2812 3241 4.142816 GCTTGAGCTGTGTACATTAACCAG 60.143 45.833 0.00 2.20 38.21 4.00
2813 3242 3.334691 TGAGCTGTGTACATTAACCAGC 58.665 45.455 21.60 21.60 46.78 4.85
2815 3244 3.471495 GCTGTGTACATTAACCAGCAC 57.529 47.619 23.28 2.61 45.94 4.40
2816 3245 2.161609 GCTGTGTACATTAACCAGCACC 59.838 50.000 23.28 2.04 45.94 5.01
2817 3246 3.407698 CTGTGTACATTAACCAGCACCA 58.592 45.455 0.00 0.00 0.00 4.17
2818 3247 3.142951 TGTGTACATTAACCAGCACCAC 58.857 45.455 0.00 0.00 0.00 4.16
2819 3248 3.181449 TGTGTACATTAACCAGCACCACT 60.181 43.478 0.00 0.00 0.00 4.00
2820 3249 4.040584 TGTGTACATTAACCAGCACCACTA 59.959 41.667 0.00 0.00 0.00 2.74
2828 3257 2.454538 ACCAGCACCACTACTACTACC 58.545 52.381 0.00 0.00 0.00 3.18
2846 3275 5.444176 ACTACCACCACCACTACTATCTAC 58.556 45.833 0.00 0.00 0.00 2.59
2847 3276 3.285484 ACCACCACCACTACTATCTACG 58.715 50.000 0.00 0.00 0.00 3.51
2848 3277 2.034305 CCACCACCACTACTATCTACGC 59.966 54.545 0.00 0.00 0.00 4.42
2850 3279 3.129813 CACCACCACTACTATCTACGCAA 59.870 47.826 0.00 0.00 0.00 4.85
2853 3292 4.097437 CCACCACTACTATCTACGCAAGAA 59.903 45.833 0.00 0.00 37.89 2.52
2854 3293 5.221263 CCACCACTACTATCTACGCAAGAAT 60.221 44.000 0.00 0.00 37.89 2.40
2871 3310 4.142609 AGAATGTGTGTCAGTGTTCAGT 57.857 40.909 0.00 0.00 0.00 3.41
2879 3318 5.005779 GTGTGTCAGTGTTCAGTTCAGTTAG 59.994 44.000 0.00 0.00 0.00 2.34
2880 3319 5.109903 GTGTCAGTGTTCAGTTCAGTTAGT 58.890 41.667 0.00 0.00 0.00 2.24
2882 3321 5.127194 TGTCAGTGTTCAGTTCAGTTAGTCT 59.873 40.000 0.00 0.00 0.00 3.24
2884 3323 7.147966 TGTCAGTGTTCAGTTCAGTTAGTCTAA 60.148 37.037 0.00 0.00 0.00 2.10
2885 3324 7.380065 GTCAGTGTTCAGTTCAGTTAGTCTAAG 59.620 40.741 0.00 0.00 0.00 2.18
2886 3325 6.642950 CAGTGTTCAGTTCAGTTAGTCTAAGG 59.357 42.308 0.00 0.00 0.00 2.69
2963 3418 2.184322 GGCGACAAGAGGCGATCA 59.816 61.111 0.00 0.00 0.00 2.92
2993 3448 4.610680 CGGTCGAGTGAAATTCTTTGGTTC 60.611 45.833 0.00 0.00 0.00 3.62
2997 3452 6.918022 GTCGAGTGAAATTCTTTGGTTCATTT 59.082 34.615 0.00 0.00 34.04 2.32
3021 3476 8.572828 TTGTATGCTTTGTTGTAGTTTCATTG 57.427 30.769 0.00 0.00 0.00 2.82
3041 3504 2.878406 TGTCTTCTGCAAAGTTGTAGGC 59.122 45.455 8.94 0.00 40.67 3.93
3161 3625 5.313712 TCCAAGTCTCAATAAAGGGAACAC 58.686 41.667 0.00 0.00 0.00 3.32
3231 3701 3.007182 CCCAACATTTTCATGCTCTGGTT 59.993 43.478 0.00 0.00 33.05 3.67
3237 3707 5.244402 ACATTTTCATGCTCTGGTTGAATGA 59.756 36.000 0.00 0.00 33.05 2.57
3240 3710 3.753815 TCATGCTCTGGTTGAATGAACA 58.246 40.909 0.00 0.00 36.12 3.18
3241 3711 4.143543 TCATGCTCTGGTTGAATGAACAA 58.856 39.130 0.00 0.00 36.12 2.83
3242 3712 4.216902 TCATGCTCTGGTTGAATGAACAAG 59.783 41.667 0.00 0.00 36.98 3.16
3285 3760 5.119898 GCAGATATTGACCAGCTAGAAATCG 59.880 44.000 0.00 0.00 0.00 3.34
3417 3928 5.955961 TCCAGACACATTCATATCCAAGA 57.044 39.130 0.00 0.00 0.00 3.02
3422 3933 7.270779 CAGACACATTCATATCCAAGAAGAGA 58.729 38.462 0.00 0.00 0.00 3.10
3505 4020 0.966179 GGACCCTGCGAAACCAAATT 59.034 50.000 0.00 0.00 0.00 1.82
3639 4211 1.542492 ACAGAGCATGGAAGCAAAGG 58.458 50.000 0.00 0.00 36.85 3.11
3722 4295 3.495806 GGAGGGTGCTAATGAAGATGAGG 60.496 52.174 0.00 0.00 0.00 3.86
3723 4296 3.118531 AGGGTGCTAATGAAGATGAGGT 58.881 45.455 0.00 0.00 0.00 3.85
3724 4297 3.118112 AGGGTGCTAATGAAGATGAGGTG 60.118 47.826 0.00 0.00 0.00 4.00
3725 4298 2.615912 GGTGCTAATGAAGATGAGGTGC 59.384 50.000 0.00 0.00 0.00 5.01
3726 4299 3.539604 GTGCTAATGAAGATGAGGTGCT 58.460 45.455 0.00 0.00 0.00 4.40
3727 4300 4.443457 GGTGCTAATGAAGATGAGGTGCTA 60.443 45.833 0.00 0.00 0.00 3.49
3728 4301 5.118990 GTGCTAATGAAGATGAGGTGCTAA 58.881 41.667 0.00 0.00 0.00 3.09
3729 4302 5.007136 GTGCTAATGAAGATGAGGTGCTAAC 59.993 44.000 0.00 0.00 0.00 2.34
3730 4303 4.210120 GCTAATGAAGATGAGGTGCTAACG 59.790 45.833 0.00 0.00 0.00 3.18
3731 4304 4.471904 AATGAAGATGAGGTGCTAACGA 57.528 40.909 0.00 0.00 0.00 3.85
3732 4305 3.953712 TGAAGATGAGGTGCTAACGAA 57.046 42.857 0.00 0.00 0.00 3.85
3733 4306 3.849911 TGAAGATGAGGTGCTAACGAAG 58.150 45.455 0.00 0.00 0.00 3.79
3734 4307 3.509967 TGAAGATGAGGTGCTAACGAAGA 59.490 43.478 0.00 0.00 0.00 2.87
3735 4308 4.160439 TGAAGATGAGGTGCTAACGAAGAT 59.840 41.667 0.00 0.00 0.00 2.40
3736 4309 4.052159 AGATGAGGTGCTAACGAAGATG 57.948 45.455 0.00 0.00 0.00 2.90
3737 4310 3.701542 AGATGAGGTGCTAACGAAGATGA 59.298 43.478 0.00 0.00 0.00 2.92
3738 4311 3.510388 TGAGGTGCTAACGAAGATGAG 57.490 47.619 0.00 0.00 0.00 2.90
3739 4312 2.826128 TGAGGTGCTAACGAAGATGAGT 59.174 45.455 0.00 0.00 0.00 3.41
3740 4313 3.119459 TGAGGTGCTAACGAAGATGAGTC 60.119 47.826 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.671279 TCATATGTCTTGTCATGAACACTTATT 57.329 29.630 0.00 0.00 37.70 1.40
34 35 2.095059 GTCATGAACAAGACATGTGGGC 60.095 50.000 1.15 0.00 42.99 5.36
36 37 4.834357 TTGTCATGAACAAGACATGTGG 57.166 40.909 1.15 0.00 42.95 4.17
45 46 9.500785 TCAACTTATATGTCTTGTCATGAACAA 57.499 29.630 0.00 3.82 45.60 2.83
46 47 9.671279 ATCAACTTATATGTCTTGTCATGAACA 57.329 29.630 0.00 0.00 35.59 3.18
47 48 9.926751 CATCAACTTATATGTCTTGTCATGAAC 57.073 33.333 0.00 0.00 0.00 3.18
48 49 9.671279 ACATCAACTTATATGTCTTGTCATGAA 57.329 29.630 0.00 0.00 30.54 2.57
65 166 6.015095 TGACTAGACATGTGAGACATCAACTT 60.015 38.462 1.15 0.00 36.53 2.66
70 171 5.976534 GTCATGACTAGACATGTGAGACATC 59.023 44.000 26.89 10.56 45.21 3.06
101 202 9.624697 GCACTCAATGACTTTAATTTGTTCATA 57.375 29.630 0.00 0.00 0.00 2.15
102 203 8.362639 AGCACTCAATGACTTTAATTTGTTCAT 58.637 29.630 0.00 0.00 0.00 2.57
136 497 4.651503 AGGACAATACATGTGAGGTCTAGG 59.348 45.833 9.11 0.00 44.12 3.02
142 503 9.559732 TTATTAATCAGGACAATACATGTGAGG 57.440 33.333 9.11 0.00 44.12 3.86
166 527 9.671279 ACTCATATGTCTTGTCATGAACATTTA 57.329 29.630 14.30 0.81 37.82 1.40
167 528 8.571461 ACTCATATGTCTTGTCATGAACATTT 57.429 30.769 14.30 5.89 37.82 2.32
168 529 8.571461 AACTCATATGTCTTGTCATGAACATT 57.429 30.769 14.30 2.86 37.82 2.71
169 530 8.571461 AAACTCATATGTCTTGTCATGAACAT 57.429 30.769 13.73 13.73 37.82 2.71
170 531 7.984422 AAACTCATATGTCTTGTCATGAACA 57.016 32.000 0.00 0.00 35.59 3.18
171 532 9.926751 CATAAACTCATATGTCTTGTCATGAAC 57.073 33.333 0.00 0.00 0.00 3.18
172 533 8.615211 GCATAAACTCATATGTCTTGTCATGAA 58.385 33.333 0.00 0.00 36.00 2.57
173 534 7.227314 GGCATAAACTCATATGTCTTGTCATGA 59.773 37.037 1.90 0.00 35.49 3.07
174 535 7.228108 AGGCATAAACTCATATGTCTTGTCATG 59.772 37.037 1.90 6.78 43.81 3.07
175 536 7.285566 AGGCATAAACTCATATGTCTTGTCAT 58.714 34.615 1.90 0.00 43.81 3.06
176 537 6.653020 AGGCATAAACTCATATGTCTTGTCA 58.347 36.000 1.90 0.00 43.81 3.58
177 538 6.763135 TGAGGCATAAACTCATATGTCTTGTC 59.237 38.462 1.90 0.00 45.66 3.18
178 539 6.540189 GTGAGGCATAAACTCATATGTCTTGT 59.460 38.462 1.90 0.00 45.66 3.16
179 540 6.539826 TGTGAGGCATAAACTCATATGTCTTG 59.460 38.462 1.90 0.00 45.66 3.02
180 541 6.653020 TGTGAGGCATAAACTCATATGTCTT 58.347 36.000 1.90 0.00 45.66 3.01
185 546 6.835174 AGACATGTGAGGCATAAACTCATAT 58.165 36.000 1.15 0.00 45.72 1.78
186 547 6.239217 AGACATGTGAGGCATAAACTCATA 57.761 37.500 1.15 0.00 45.72 2.15
187 548 5.108187 AGACATGTGAGGCATAAACTCAT 57.892 39.130 1.15 0.00 45.72 2.90
188 549 4.558226 AGACATGTGAGGCATAAACTCA 57.442 40.909 1.15 0.00 42.31 3.41
189 550 4.697352 ACAAGACATGTGAGGCATAAACTC 59.303 41.667 1.15 0.00 41.93 3.01
190 551 4.655963 ACAAGACATGTGAGGCATAAACT 58.344 39.130 1.15 0.00 41.93 2.66
191 552 5.643777 AGTACAAGACATGTGAGGCATAAAC 59.356 40.000 1.15 0.00 43.77 2.01
192 553 5.643348 CAGTACAAGACATGTGAGGCATAAA 59.357 40.000 1.15 0.00 43.77 1.40
193 554 5.046663 TCAGTACAAGACATGTGAGGCATAA 60.047 40.000 1.15 0.00 43.77 1.90
194 555 4.466015 TCAGTACAAGACATGTGAGGCATA 59.534 41.667 1.15 0.00 43.77 3.14
195 556 3.261643 TCAGTACAAGACATGTGAGGCAT 59.738 43.478 1.15 0.00 43.77 4.40
196 557 2.632512 TCAGTACAAGACATGTGAGGCA 59.367 45.455 1.15 0.00 43.77 4.75
197 558 3.319137 TCAGTACAAGACATGTGAGGC 57.681 47.619 1.15 0.00 43.77 4.70
198 559 5.077134 TGATCAGTACAAGACATGTGAGG 57.923 43.478 1.15 0.00 43.77 3.86
213 574 9.234827 TCTTGTCATGAACATTTATTGATCAGT 57.765 29.630 0.00 0.00 40.07 3.41
225 586 5.311265 ACTCACATGTCTTGTCATGAACAT 58.689 37.500 13.08 0.27 45.41 2.71
228 589 4.202346 TGGACTCACATGTCTTGTCATGAA 60.202 41.667 18.23 2.69 45.41 2.57
251 612 4.879197 TCTGACAAGACATGTGAGACAT 57.121 40.909 1.15 0.00 45.71 3.06
315 676 9.226606 GTCTAGATGCTACTAGTACTCAATGAT 57.773 37.037 0.00 0.00 40.26 2.45
328 689 3.894427 CCATGTGAGGTCTAGATGCTACT 59.106 47.826 0.00 0.00 0.00 2.57
373 734 5.817784 TGAGTACTCATAGTATCTAGGCCC 58.182 45.833 21.74 0.00 32.65 5.80
387 748 2.736721 GCGTTGAAGCATTGAGTACTCA 59.263 45.455 21.74 21.74 35.96 3.41
389 750 2.996621 GAGCGTTGAAGCATTGAGTACT 59.003 45.455 0.00 0.00 40.15 2.73
589 997 1.592131 GGCCGTCGTTGTGTACACA 60.592 57.895 24.62 24.62 39.98 3.72
597 1005 4.368808 CACAAGCGGCCGTCGTTG 62.369 66.667 28.70 26.90 41.72 4.10
737 1145 0.944386 TTTGCTTCAGTTCGGAGTGC 59.056 50.000 0.00 0.00 0.00 4.40
754 1169 2.136026 AGGTGTGAGGAAGAAGGGTTT 58.864 47.619 0.00 0.00 0.00 3.27
811 1226 1.665679 CTTATATAGCCGCCGCAATGG 59.334 52.381 0.00 0.00 42.50 3.16
838 1254 2.271497 TCGAGAGGACGAGGGGTC 59.729 66.667 0.00 0.00 45.31 4.46
893 1309 2.083002 GCTGGAAGAAGAAGGAGCAAG 58.917 52.381 0.00 0.00 34.07 4.01
894 1310 1.701847 AGCTGGAAGAAGAAGGAGCAA 59.298 47.619 0.00 0.00 34.07 3.91
895 1311 1.277557 GAGCTGGAAGAAGAAGGAGCA 59.722 52.381 0.00 0.00 34.07 4.26
896 1312 1.406751 GGAGCTGGAAGAAGAAGGAGC 60.407 57.143 0.00 0.00 34.07 4.70
897 1313 1.905215 TGGAGCTGGAAGAAGAAGGAG 59.095 52.381 0.00 0.00 34.07 3.69
898 1314 1.905215 CTGGAGCTGGAAGAAGAAGGA 59.095 52.381 0.00 0.00 34.07 3.36
899 1315 1.905215 TCTGGAGCTGGAAGAAGAAGG 59.095 52.381 0.00 0.00 34.07 3.46
902 1322 4.647564 ATTTTCTGGAGCTGGAAGAAGA 57.352 40.909 0.00 0.00 34.07 2.87
1008 1432 3.923864 TCGTGGAGCCGCTTGTGT 61.924 61.111 0.00 0.00 0.00 3.72
1152 1576 1.065102 CGCCATGGAATCAGCAAAGAG 59.935 52.381 18.40 0.00 0.00 2.85
1154 1578 0.813184 ACGCCATGGAATCAGCAAAG 59.187 50.000 18.40 0.00 0.00 2.77
1179 1603 1.901464 CACCCTGGAACCCCAAACG 60.901 63.158 0.00 0.00 42.98 3.60
1190 1615 3.164269 CCTCCCGGATCACCCTGG 61.164 72.222 0.73 0.00 40.39 4.45
1332 1757 3.152261 ACCGATCAGAACACTCGATTC 57.848 47.619 0.00 0.00 34.41 2.52
1333 1758 3.254060 CAACCGATCAGAACACTCGATT 58.746 45.455 0.00 0.00 34.41 3.34
1334 1759 2.881074 CAACCGATCAGAACACTCGAT 58.119 47.619 0.00 0.00 34.41 3.59
1377 1805 2.641439 GATCTCCTCCTGCACCTGCG 62.641 65.000 0.00 0.00 45.83 5.18
1539 1967 3.423154 GGAGTGGCTCGCCGTTTG 61.423 66.667 3.14 0.00 39.42 2.93
1540 1968 3.883744 CTGGAGTGGCTCGCCGTTT 62.884 63.158 3.14 0.00 38.89 3.60
1777 2205 1.374758 GGTGAACTGGAGGTCGCTG 60.375 63.158 5.28 0.00 0.00 5.18
1779 2207 2.432628 CGGTGAACTGGAGGTCGC 60.433 66.667 0.00 0.00 0.00 5.19
1843 2271 2.925706 TAGCTTCCCGGCACCACA 60.926 61.111 0.00 0.00 34.17 4.17
1950 2378 1.924731 TGAGCGAAAAGAGAGGGAGA 58.075 50.000 0.00 0.00 0.00 3.71
1951 2379 2.751166 TTGAGCGAAAAGAGAGGGAG 57.249 50.000 0.00 0.00 0.00 4.30
1952 2380 3.703001 ATTTGAGCGAAAAGAGAGGGA 57.297 42.857 0.00 0.00 0.00 4.20
1953 2381 4.216257 TCAAATTTGAGCGAAAAGAGAGGG 59.784 41.667 16.91 0.00 32.50 4.30
1955 2383 4.842911 CGTCAAATTTGAGCGAAAAGAGAG 59.157 41.667 25.57 5.75 37.98 3.20
1956 2384 4.272504 ACGTCAAATTTGAGCGAAAAGAGA 59.727 37.500 31.29 6.86 37.98 3.10
1957 2385 4.376861 CACGTCAAATTTGAGCGAAAAGAG 59.623 41.667 31.29 17.92 37.98 2.85
1962 2390 3.311322 AGTTCACGTCAAATTTGAGCGAA 59.689 39.130 31.29 24.54 37.98 4.70
1963 2391 2.869801 AGTTCACGTCAAATTTGAGCGA 59.130 40.909 31.29 21.59 37.98 4.93
1965 2393 2.721090 GCAGTTCACGTCAAATTTGAGC 59.279 45.455 21.05 13.92 37.98 4.26
1966 2394 2.966708 CGCAGTTCACGTCAAATTTGAG 59.033 45.455 21.05 16.25 37.98 3.02
1967 2395 2.852901 GCGCAGTTCACGTCAAATTTGA 60.853 45.455 16.91 16.91 34.20 2.69
1968 2396 1.447938 GCGCAGTTCACGTCAAATTTG 59.552 47.619 12.15 12.15 0.00 2.32
1969 2397 1.753956 GCGCAGTTCACGTCAAATTT 58.246 45.000 0.30 0.00 0.00 1.82
1971 2399 1.204062 CGCGCAGTTCACGTCAAAT 59.796 52.632 8.75 0.00 0.00 2.32
1973 2401 2.583868 ACGCGCAGTTCACGTCAA 60.584 55.556 5.73 0.00 34.35 3.18
1974 2402 3.326981 CACGCGCAGTTCACGTCA 61.327 61.111 5.73 0.00 38.09 4.35
1975 2403 4.702826 GCACGCGCAGTTCACGTC 62.703 66.667 5.73 0.00 38.09 4.34
1977 2405 4.415501 GAGCACGCGCAGTTCACG 62.416 66.667 5.73 0.00 42.27 4.35
1978 2406 2.175184 AATGAGCACGCGCAGTTCAC 62.175 55.000 18.09 5.73 42.27 3.18
2015 2443 0.882927 GTGCTTCCGGTACACTGCAA 60.883 55.000 14.29 0.00 32.10 4.08
2154 2582 2.355481 ACGTCCGGCTTCACGTTC 60.355 61.111 12.79 0.00 46.93 3.95
2184 2612 3.576356 GTCATGCCGTCGCCCATG 61.576 66.667 14.39 14.39 40.05 3.66
2312 2740 3.385384 CGAGCCTGACCAGCTGGA 61.385 66.667 39.19 17.21 41.75 3.86
2361 2789 1.557269 CCTTCTGGACCCTGGTGAGG 61.557 65.000 0.00 0.00 35.60 3.86
2372 2800 2.260434 GCACGTACGCCTTCTGGA 59.740 61.111 16.72 0.00 34.57 3.86
2391 2819 2.815647 GCCTCCACGTACAGCTGC 60.816 66.667 15.27 0.00 0.00 5.25
2518 2946 3.339141 GAAGGAATTGTGGTCAGAGGAC 58.661 50.000 0.00 0.00 43.55 3.85
2530 2958 2.113860 TTCAGGAGCGGAAGGAATTG 57.886 50.000 0.00 0.00 0.00 2.32
2540 2968 1.530293 GCAGAGCATATTTCAGGAGCG 59.470 52.381 0.00 0.00 0.00 5.03
2551 2979 8.743085 ATAATTCAGAAGAAAAGCAGAGCATA 57.257 30.769 0.00 0.00 37.29 3.14
2579 3008 7.079182 ACAAGAACGTTTTGAACATTAGACA 57.921 32.000 21.76 0.00 0.00 3.41
2584 3013 7.596995 TCTGAAAACAAGAACGTTTTGAACATT 59.403 29.630 21.76 13.56 46.39 2.71
2596 3025 2.376032 GCTGCGTCTGAAAACAAGAAC 58.624 47.619 0.00 0.00 0.00 3.01
2602 3031 2.127232 GGCGCTGCGTCTGAAAAC 60.127 61.111 24.04 3.64 0.00 2.43
2603 3032 3.711842 CGGCGCTGCGTCTGAAAA 61.712 61.111 24.86 0.00 0.00 2.29
2702 3131 2.825836 GCAGCCATTCTGGTCGGG 60.826 66.667 0.00 0.00 43.06 5.14
2708 3137 1.310933 AAGCCGAAGCAGCCATTCTG 61.311 55.000 0.00 0.00 45.62 3.02
2709 3138 1.001641 AAGCCGAAGCAGCCATTCT 60.002 52.632 0.00 0.00 43.56 2.40
2710 3139 1.431036 GAAGCCGAAGCAGCCATTC 59.569 57.895 0.00 0.00 43.56 2.67
2711 3140 2.048603 GGAAGCCGAAGCAGCCATT 61.049 57.895 0.00 0.00 43.56 3.16
2713 3142 3.907260 CTGGAAGCCGAAGCAGCCA 62.907 63.158 0.00 0.00 43.56 4.75
2717 3146 0.901827 TACATCTGGAAGCCGAAGCA 59.098 50.000 0.00 0.00 43.56 3.91
2718 3147 1.134670 AGTACATCTGGAAGCCGAAGC 60.135 52.381 0.00 0.00 40.32 3.86
2722 3151 1.204704 TGTCAGTACATCTGGAAGCCG 59.795 52.381 0.00 0.00 43.76 5.52
2748 3177 8.213518 TCTTCATACTTGATGACATTTTAGCC 57.786 34.615 0.00 0.00 44.53 3.93
2749 3178 9.661187 CATCTTCATACTTGATGACATTTTAGC 57.339 33.333 0.00 0.00 44.53 3.09
2750 3179 9.661187 GCATCTTCATACTTGATGACATTTTAG 57.339 33.333 6.41 0.00 44.53 1.85
2751 3180 9.176460 TGCATCTTCATACTTGATGACATTTTA 57.824 29.630 6.41 0.00 44.53 1.52
2752 3181 8.058667 TGCATCTTCATACTTGATGACATTTT 57.941 30.769 6.41 0.00 44.53 1.82
2753 3182 7.201794 CCTGCATCTTCATACTTGATGACATTT 60.202 37.037 6.41 0.00 44.53 2.32
2754 3183 6.262496 CCTGCATCTTCATACTTGATGACATT 59.738 38.462 6.41 0.00 44.53 2.71
2755 3184 5.763698 CCTGCATCTTCATACTTGATGACAT 59.236 40.000 6.41 0.00 44.53 3.06
2762 3191 4.378774 CTCCTCCTGCATCTTCATACTTG 58.621 47.826 0.00 0.00 0.00 3.16
2764 3193 2.368221 GCTCCTCCTGCATCTTCATACT 59.632 50.000 0.00 0.00 0.00 2.12
2766 3195 2.367894 CTGCTCCTCCTGCATCTTCATA 59.632 50.000 0.00 0.00 39.86 2.15
2769 3198 0.179051 CCTGCTCCTCCTGCATCTTC 60.179 60.000 0.00 0.00 39.86 2.87
2788 3217 3.127030 GGTTAATGTACACAGCTCAAGCC 59.873 47.826 0.00 0.00 43.38 4.35
2812 3241 2.094338 GTGGTGGTAGTAGTAGTGGTGC 60.094 54.545 0.00 0.00 0.00 5.01
2813 3242 2.494870 GGTGGTGGTAGTAGTAGTGGTG 59.505 54.545 0.00 0.00 0.00 4.17
2815 3244 2.494870 GTGGTGGTGGTAGTAGTAGTGG 59.505 54.545 0.00 0.00 0.00 4.00
2816 3245 3.428532 AGTGGTGGTGGTAGTAGTAGTG 58.571 50.000 0.00 0.00 0.00 2.74
2817 3246 3.822097 AGTGGTGGTGGTAGTAGTAGT 57.178 47.619 0.00 0.00 0.00 2.73
2818 3247 4.853007 AGTAGTGGTGGTGGTAGTAGTAG 58.147 47.826 0.00 0.00 0.00 2.57
2819 3248 4.934797 AGTAGTGGTGGTGGTAGTAGTA 57.065 45.455 0.00 0.00 0.00 1.82
2820 3249 3.822097 AGTAGTGGTGGTGGTAGTAGT 57.178 47.619 0.00 0.00 0.00 2.73
2828 3257 2.686405 TGCGTAGATAGTAGTGGTGGTG 59.314 50.000 0.00 0.00 0.00 4.17
2846 3275 1.599071 ACACTGACACACATTCTTGCG 59.401 47.619 0.00 0.00 0.00 4.85
2847 3276 3.065233 TGAACACTGACACACATTCTTGC 59.935 43.478 0.00 0.00 0.00 4.01
2848 3277 4.333649 ACTGAACACTGACACACATTCTTG 59.666 41.667 0.00 0.00 0.00 3.02
2850 3279 4.142609 ACTGAACACTGACACACATTCT 57.857 40.909 0.00 0.00 0.00 2.40
2851 3280 4.332543 TGAACTGAACACTGACACACATTC 59.667 41.667 0.00 0.00 0.00 2.67
2853 3292 3.872696 TGAACTGAACACTGACACACAT 58.127 40.909 0.00 0.00 0.00 3.21
2854 3293 3.261580 CTGAACTGAACACTGACACACA 58.738 45.455 0.00 0.00 0.00 3.72
2861 3300 6.642950 CCTTAGACTAACTGAACTGAACACTG 59.357 42.308 0.00 0.00 0.00 3.66
2862 3301 6.739008 GCCTTAGACTAACTGAACTGAACACT 60.739 42.308 0.00 0.00 0.00 3.55
2871 3310 5.577100 TCACCTAGCCTTAGACTAACTGAA 58.423 41.667 0.00 0.00 0.00 3.02
2879 3318 3.369576 CCCAAGTTCACCTAGCCTTAGAC 60.370 52.174 0.00 0.00 0.00 2.59
2880 3319 2.838202 CCCAAGTTCACCTAGCCTTAGA 59.162 50.000 0.00 0.00 0.00 2.10
2882 3321 1.280998 GCCCAAGTTCACCTAGCCTTA 59.719 52.381 0.00 0.00 0.00 2.69
2884 3323 1.685820 GCCCAAGTTCACCTAGCCT 59.314 57.895 0.00 0.00 0.00 4.58
2885 3324 1.745489 CGCCCAAGTTCACCTAGCC 60.745 63.158 0.00 0.00 0.00 3.93
2886 3325 1.745489 CCGCCCAAGTTCACCTAGC 60.745 63.158 0.00 0.00 0.00 3.42
2963 3418 7.339620 AAAGAATTTCACTCGACCGATCGATT 61.340 38.462 18.66 0.00 46.36 3.34
2993 3448 8.572828 TGAAACTACAACAAAGCATACAAATG 57.427 30.769 0.00 0.00 36.09 2.32
2997 3452 7.711846 ACAATGAAACTACAACAAAGCATACA 58.288 30.769 0.00 0.00 0.00 2.29
3021 3476 2.096218 CGCCTACAACTTTGCAGAAGAC 60.096 50.000 13.35 0.00 0.00 3.01
3161 3625 5.866633 TGTTCTGTACAAAAAGGCAAGTTTG 59.133 36.000 0.00 6.15 39.98 2.93
3231 3701 4.136796 CACCTTGGAGTCTTGTTCATTCA 58.863 43.478 0.00 0.00 0.00 2.57
3237 3707 5.825593 TTATCTCACCTTGGAGTCTTGTT 57.174 39.130 0.00 0.00 36.30 2.83
3240 3710 4.225942 TGCATTATCTCACCTTGGAGTCTT 59.774 41.667 0.00 0.00 36.30 3.01
3241 3711 3.776969 TGCATTATCTCACCTTGGAGTCT 59.223 43.478 0.00 0.00 36.30 3.24
3242 3712 4.125703 CTGCATTATCTCACCTTGGAGTC 58.874 47.826 0.00 0.00 36.30 3.36
3384 3894 7.239763 TGAATGTGTCTGGATTTGAGTAGTA 57.760 36.000 0.00 0.00 0.00 1.82
3400 3911 7.344093 TCTCTCTCTTCTTGGATATGAATGTGT 59.656 37.037 0.00 0.00 0.00 3.72
3447 3958 7.398024 AGAGCTTTGTTGTTATAGATCTGGTT 58.602 34.615 5.18 0.00 32.61 3.67
3455 3966 8.087982 TCAAACAGAGAGCTTTGTTGTTATAG 57.912 34.615 7.11 3.80 37.57 1.31
3505 4020 1.694150 ACTTCTCACTGCTTACTGCCA 59.306 47.619 0.00 0.00 42.00 4.92
3548 4064 1.134280 CATGTCCCTTTCGCATCTCCT 60.134 52.381 0.00 0.00 0.00 3.69
3639 4211 3.873361 TGGAACGAATCAATGATGCTCTC 59.127 43.478 0.00 0.00 0.00 3.20


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

AutoCloner maintained by Alex Coulton.