Multiple sequence alignment - TraesCS3B01G309900

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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 TraesCS3B01G309900 chr3B 100.000 4283 0 0 1 4283 498369900 498365618 0.000000e+00 7910.0
1 TraesCS3B01G309900 chr3B 86.922 1644 153 27 1487 3081 498729123 498727493 0.000000e+00 1788.0
2 TraesCS3B01G309900 chr3B 93.390 817 48 4 3378 4192 498666339 498665527 0.000000e+00 1205.0
3 TraesCS3B01G309900 chr3B 91.185 726 55 4 1080 1805 498453587 498452871 0.000000e+00 977.0
4 TraesCS3B01G309900 chr3B 87.602 492 31 11 3114 3600 498432909 498432443 1.050000e-150 544.0
5 TraesCS3B01G309900 chr3B 83.333 510 79 2 1511 2020 498917228 498916725 2.330000e-127 466.0
6 TraesCS3B01G309900 chr3B 93.985 266 16 0 2374 2639 498392903 498392638 1.850000e-108 403.0
7 TraesCS3B01G309900 chr3B 89.933 298 27 2 1066 1363 498730558 498730264 8.690000e-102 381.0
8 TraesCS3B01G309900 chr3B 94.554 202 10 1 3709 3910 498726364 498726164 1.160000e-80 311.0
9 TraesCS3B01G309900 chr3B 94.086 186 11 0 3897 4082 498719919 498719734 2.520000e-72 283.0
10 TraesCS3B01G309900 chr3B 95.833 96 4 0 4188 4283 498664496 498664401 5.730000e-34 156.0
11 TraesCS3B01G309900 chr3D 94.364 2271 81 20 2023 4283 382754356 382752123 0.000000e+00 3441.0
12 TraesCS3B01G309900 chr3D 90.848 2513 175 25 1091 3600 382808149 382805689 0.000000e+00 3315.0
13 TraesCS3B01G309900 chr3D 88.135 1635 140 23 1484 3080 383111962 383110344 0.000000e+00 1895.0
14 TraesCS3B01G309900 chr3D 91.929 508 26 6 1065 1571 382777551 382777058 0.000000e+00 697.0
15 TraesCS3B01G309900 chr3D 94.245 417 12 1 1611 2027 382777064 382776660 1.010000e-175 627.0
16 TraesCS3B01G309900 chr3D 92.251 271 21 0 186 456 382778599 382778329 6.720000e-103 385.0
17 TraesCS3B01G309900 chr3D 86.093 302 27 7 1065 1363 383113389 383113100 1.160000e-80 311.0
18 TraesCS3B01G309900 chr3D 87.288 236 9 4 2405 2639 382796025 382795810 2.560000e-62 250.0
19 TraesCS3B01G309900 chr3D 93.701 127 6 2 446 570 382778305 382778179 5.650000e-44 189.0
20 TraesCS3B01G309900 chr3D 91.729 133 10 1 666 797 382778034 382777902 2.630000e-42 183.0
21 TraesCS3B01G309900 chr3D 86.755 151 20 0 4013 4163 383109879 383109729 7.370000e-38 169.0
22 TraesCS3B01G309900 chr3D 87.692 130 10 3 1 125 382778724 382778596 3.450000e-31 147.0
23 TraesCS3B01G309900 chr3D 90.244 82 7 1 2767 2848 515230690 515230610 5.860000e-19 106.0
24 TraesCS3B01G309900 chr3D 84.112 107 4 6 798 895 382777849 382777747 1.640000e-14 91.6
25 TraesCS3B01G309900 chr3D 80.769 78 15 0 2740 2817 143460095 143460172 1.290000e-05 62.1
26 TraesCS3B01G309900 chr3A 89.249 1544 141 11 1091 2634 505737844 505736326 0.000000e+00 1908.0
27 TraesCS3B01G309900 chr3A 87.379 1648 147 25 1481 3081 506229640 506228007 0.000000e+00 1834.0
28 TraesCS3B01G309900 chr3A 96.815 942 24 3 3344 4283 505722851 505721914 0.000000e+00 1568.0
29 TraesCS3B01G309900 chr3A 93.023 516 33 2 2632 3147 505723525 505723013 0.000000e+00 750.0
30 TraesCS3B01G309900 chr3A 88.124 421 44 2 1066 1483 506231144 506230727 2.970000e-136 496.0
31 TraesCS3B01G309900 chr3A 89.262 149 4 4 3219 3356 505723017 505722870 4.400000e-40 176.0
32 TraesCS3B01G309900 chr3A 90.244 82 7 1 2767 2848 649772531 649772451 5.860000e-19 106.0
33 TraesCS3B01G309900 chr1B 71.973 1652 344 81 1459 3044 585075414 585073816 4.040000e-100 375.0
34 TraesCS3B01G309900 chr1B 85.028 354 41 7 1140 1483 676909311 676908960 2.450000e-92 350.0
35 TraesCS3B01G309900 chr1B 83.642 324 38 4 1148 1456 677037420 677037097 1.510000e-74 291.0


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 TraesCS3B01G309900 chr3B 498365618 498369900 4282 True 7910.000000 7910 100.000000 1 4283 1 chr3B.!!$R1 4282
1 TraesCS3B01G309900 chr3B 498452871 498453587 716 True 977.000000 977 91.185000 1080 1805 1 chr3B.!!$R4 725
2 TraesCS3B01G309900 chr3B 498726164 498730558 4394 True 826.666667 1788 90.469667 1066 3910 3 chr3B.!!$R8 2844
3 TraesCS3B01G309900 chr3B 498664401 498666339 1938 True 680.500000 1205 94.611500 3378 4283 2 chr3B.!!$R7 905
4 TraesCS3B01G309900 chr3B 498916725 498917228 503 True 466.000000 466 83.333000 1511 2020 1 chr3B.!!$R6 509
5 TraesCS3B01G309900 chr3D 382752123 382754356 2233 True 3441.000000 3441 94.364000 2023 4283 1 chr3D.!!$R1 2260
6 TraesCS3B01G309900 chr3D 382805689 382808149 2460 True 3315.000000 3315 90.848000 1091 3600 1 chr3D.!!$R3 2509
7 TraesCS3B01G309900 chr3D 383109729 383113389 3660 True 791.666667 1895 86.994333 1065 4163 3 chr3D.!!$R6 3098
8 TraesCS3B01G309900 chr3D 382776660 382778724 2064 True 331.371429 697 90.808429 1 2027 7 chr3D.!!$R5 2026
9 TraesCS3B01G309900 chr3A 505736326 505737844 1518 True 1908.000000 1908 89.249000 1091 2634 1 chr3A.!!$R1 1543
10 TraesCS3B01G309900 chr3A 506228007 506231144 3137 True 1165.000000 1834 87.751500 1066 3081 2 chr3A.!!$R4 2015
11 TraesCS3B01G309900 chr3A 505721914 505723525 1611 True 831.333333 1568 93.033333 2632 4283 3 chr3A.!!$R3 1651
12 TraesCS3B01G309900 chr1B 585073816 585075414 1598 True 375.000000 375 71.973000 1459 3044 1 chr1B.!!$R1 1585

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
164 169 0.034896 TGACTCGCCTCCCTTTGTTC 59.965 55.0 0.0 0.0 0.0 3.18 F
165 170 0.034896 GACTCGCCTCCCTTTGTTCA 59.965 55.0 0.0 0.0 0.0 3.18 F
1057 1234 0.040794 ACAACCCGCCTCCTACTACT 59.959 55.0 0.0 0.0 0.0 2.57 F
1744 4143 0.393537 CCTGTCATCCAACCAGCTCC 60.394 60.0 0.0 0.0 0.0 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1038 1215 0.040794 AGTAGTAGGAGGCGGGTTGT 59.959 55.000 0.00 0.00 0.00 3.32 R
2145 4549 0.167908 TGTACCGGTTAGTGTACGCG 59.832 55.000 15.04 3.53 40.12 6.01 R
2883 5358 1.040339 ATGCTCCCTCCTGACTCGTC 61.040 60.000 0.00 0.00 0.00 4.20 R
3499 6263 1.153208 GAGGAGACCTGCCTGCATG 60.153 63.158 0.00 0.00 35.44 4.06 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
28 29 2.863401 TATGCAGCCACGTAGTACTG 57.137 50.000 5.39 0.00 41.61 2.74
34 35 3.243434 GCAGCCACGTAGTACTGTATCAT 60.243 47.826 5.39 0.00 41.61 2.45
56 61 2.427095 AGGCCATTAAATTTGAGCCGTC 59.573 45.455 5.01 0.00 45.16 4.79
67 72 2.559698 TGAGCCGTCAGATTGGAAAA 57.440 45.000 0.00 0.00 0.00 2.29
71 76 2.755103 AGCCGTCAGATTGGAAAAATCC 59.245 45.455 0.00 0.00 0.00 3.01
101 106 6.202954 GTCCATATGACTTGCTATTGGTACAC 59.797 42.308 3.65 0.00 38.66 2.90
111 116 9.375974 ACTTGCTATTGGTACACTATATAGGAA 57.624 33.333 14.25 0.00 39.29 3.36
112 117 9.862371 CTTGCTATTGGTACACTATATAGGAAG 57.138 37.037 14.25 0.00 39.31 3.46
113 118 8.951614 TGCTATTGGTACACTATATAGGAAGT 57.048 34.615 14.25 11.22 39.29 3.01
133 138 9.520515 AGGAAGTACAGATTTGTCATGTTATTT 57.479 29.630 0.00 0.00 38.76 1.40
145 150 8.918961 TTGTCATGTTATTTTCTTTTTGTCGT 57.081 26.923 0.00 0.00 0.00 4.34
146 151 8.334016 TGTCATGTTATTTTCTTTTTGTCGTG 57.666 30.769 0.00 0.00 0.00 4.35
147 152 8.184848 TGTCATGTTATTTTCTTTTTGTCGTGA 58.815 29.630 0.00 0.00 0.00 4.35
148 153 8.469125 GTCATGTTATTTTCTTTTTGTCGTGAC 58.531 33.333 0.00 0.00 34.08 3.67
149 154 8.402472 TCATGTTATTTTCTTTTTGTCGTGACT 58.598 29.630 1.23 0.00 0.00 3.41
150 155 8.682016 CATGTTATTTTCTTTTTGTCGTGACTC 58.318 33.333 1.23 0.00 0.00 3.36
151 156 6.902948 TGTTATTTTCTTTTTGTCGTGACTCG 59.097 34.615 1.23 0.00 41.41 4.18
152 157 3.313274 TTTCTTTTTGTCGTGACTCGC 57.687 42.857 1.23 0.00 39.67 5.03
153 158 1.214367 TCTTTTTGTCGTGACTCGCC 58.786 50.000 1.23 0.00 39.67 5.54
154 159 1.202486 TCTTTTTGTCGTGACTCGCCT 60.202 47.619 1.23 0.00 39.67 5.52
155 160 1.192534 CTTTTTGTCGTGACTCGCCTC 59.807 52.381 1.23 0.00 39.67 4.70
156 161 0.599204 TTTTGTCGTGACTCGCCTCC 60.599 55.000 1.23 0.00 39.67 4.30
157 162 2.430382 TTTGTCGTGACTCGCCTCCC 62.430 60.000 1.23 0.00 39.67 4.30
158 163 3.063084 GTCGTGACTCGCCTCCCT 61.063 66.667 0.00 0.00 39.67 4.20
159 164 2.282958 TCGTGACTCGCCTCCCTT 60.283 61.111 0.00 0.00 39.67 3.95
160 165 1.906824 TCGTGACTCGCCTCCCTTT 60.907 57.895 0.00 0.00 39.67 3.11
161 166 1.738099 CGTGACTCGCCTCCCTTTG 60.738 63.158 0.00 0.00 0.00 2.77
162 167 1.371558 GTGACTCGCCTCCCTTTGT 59.628 57.895 0.00 0.00 0.00 2.83
163 168 0.250338 GTGACTCGCCTCCCTTTGTT 60.250 55.000 0.00 0.00 0.00 2.83
164 169 0.034896 TGACTCGCCTCCCTTTGTTC 59.965 55.000 0.00 0.00 0.00 3.18
165 170 0.034896 GACTCGCCTCCCTTTGTTCA 59.965 55.000 0.00 0.00 0.00 3.18
166 171 0.472471 ACTCGCCTCCCTTTGTTCAA 59.528 50.000 0.00 0.00 0.00 2.69
167 172 1.133915 ACTCGCCTCCCTTTGTTCAAA 60.134 47.619 0.00 0.00 0.00 2.69
168 173 2.162681 CTCGCCTCCCTTTGTTCAAAT 58.837 47.619 0.00 0.00 0.00 2.32
169 174 2.159382 TCGCCTCCCTTTGTTCAAATC 58.841 47.619 0.00 0.00 0.00 2.17
170 175 1.202348 CGCCTCCCTTTGTTCAAATCC 59.798 52.381 0.00 0.00 0.00 3.01
171 176 2.529632 GCCTCCCTTTGTTCAAATCCT 58.470 47.619 0.00 0.00 0.00 3.24
172 177 2.232208 GCCTCCCTTTGTTCAAATCCTG 59.768 50.000 0.00 0.00 0.00 3.86
173 178 3.766545 CCTCCCTTTGTTCAAATCCTGA 58.233 45.455 0.00 0.00 0.00 3.86
174 179 3.507622 CCTCCCTTTGTTCAAATCCTGAC 59.492 47.826 0.00 0.00 32.21 3.51
175 180 4.401925 CTCCCTTTGTTCAAATCCTGACT 58.598 43.478 0.00 0.00 32.21 3.41
176 181 4.398319 TCCCTTTGTTCAAATCCTGACTC 58.602 43.478 0.00 0.00 32.21 3.36
177 182 3.507622 CCCTTTGTTCAAATCCTGACTCC 59.492 47.826 0.00 0.00 32.21 3.85
178 183 4.144297 CCTTTGTTCAAATCCTGACTCCA 58.856 43.478 0.00 0.00 32.21 3.86
179 184 4.022849 CCTTTGTTCAAATCCTGACTCCAC 60.023 45.833 0.00 0.00 32.21 4.02
180 185 2.766313 TGTTCAAATCCTGACTCCACG 58.234 47.619 0.00 0.00 32.21 4.94
181 186 1.464997 GTTCAAATCCTGACTCCACGC 59.535 52.381 0.00 0.00 32.21 5.34
182 187 0.389817 TCAAATCCTGACTCCACGCG 60.390 55.000 3.53 3.53 0.00 6.01
183 188 0.670546 CAAATCCTGACTCCACGCGT 60.671 55.000 5.58 5.58 0.00 6.01
184 189 0.670546 AAATCCTGACTCCACGCGTG 60.671 55.000 31.77 31.77 0.00 5.34
196 201 2.752238 CGCGTGAGTCCTCCTCCT 60.752 66.667 0.00 0.00 39.65 3.69
198 203 2.716017 GCGTGAGTCCTCCTCCTGG 61.716 68.421 0.00 0.00 39.65 4.45
210 215 1.825474 TCCTCCTGGAGATGTTCGAAC 59.175 52.381 25.18 21.42 37.46 3.95
211 216 1.469940 CCTCCTGGAGATGTTCGAACG 60.470 57.143 25.18 6.94 34.57 3.95
250 255 3.126831 CCAGTCCGCTACTTGAATCATC 58.873 50.000 0.00 0.00 35.76 2.92
283 288 2.989055 AAACCACTGACCACGAGCCG 62.989 60.000 0.00 0.00 0.00 5.52
296 301 1.812922 GAGCCGAGCCATGTCACTG 60.813 63.158 0.00 0.00 0.00 3.66
313 318 2.184020 CTGCCATCACCCCGAAGTCA 62.184 60.000 0.00 0.00 0.00 3.41
332 337 4.367023 CGTTCCCGCTTGGTCCGA 62.367 66.667 0.00 0.00 34.77 4.55
334 339 4.388499 TTCCCGCTTGGTCCGAGC 62.388 66.667 20.07 20.07 37.51 5.03
346 351 1.536284 GGTCCGAGCCGTCTAAATCAG 60.536 57.143 0.00 0.00 0.00 2.90
352 357 3.550678 CGAGCCGTCTAAATCAGGTAAAC 59.449 47.826 0.00 0.00 0.00 2.01
361 366 1.722011 ATCAGGTAAACGGCTTCACG 58.278 50.000 0.00 0.00 40.31 4.35
364 369 0.320160 AGGTAAACGGCTTCACGGAC 60.320 55.000 0.00 0.00 38.39 4.79
367 372 0.675083 TAAACGGCTTCACGGACAGA 59.325 50.000 0.00 0.00 38.39 3.41
421 426 2.808315 CGAGGCCTGCTACGTCAT 59.192 61.111 12.00 0.00 0.00 3.06
428 433 1.202268 GCCTGCTACGTCATAAGTCGT 60.202 52.381 0.00 0.00 41.99 4.34
461 500 2.657237 CGCGTTCTCCTCCTTGGT 59.343 61.111 0.00 0.00 37.07 3.67
503 542 4.760047 GCCCTTTCCGCTCGCTCA 62.760 66.667 0.00 0.00 0.00 4.26
504 543 2.510238 CCCTTTCCGCTCGCTCAG 60.510 66.667 0.00 0.00 0.00 3.35
539 580 0.107654 GCTGCCGGGTTGATCTTAGT 60.108 55.000 2.18 0.00 0.00 2.24
546 587 4.184629 CCGGGTTGATCTTAGTCTTTCTG 58.815 47.826 0.00 0.00 0.00 3.02
570 611 1.954382 TCTCAAGTATATCGGCGTGCT 59.046 47.619 6.85 0.00 0.00 4.40
571 612 3.143728 TCTCAAGTATATCGGCGTGCTA 58.856 45.455 6.85 0.00 0.00 3.49
572 613 3.566742 TCTCAAGTATATCGGCGTGCTAA 59.433 43.478 6.85 0.00 0.00 3.09
574 615 2.349297 AGTATATCGGCGTGCTAAGC 57.651 50.000 6.85 0.00 0.00 3.09
575 616 1.887198 AGTATATCGGCGTGCTAAGCT 59.113 47.619 6.85 0.00 34.52 3.74
577 618 3.504906 AGTATATCGGCGTGCTAAGCTAA 59.495 43.478 6.85 0.00 34.52 3.09
578 619 2.875087 TATCGGCGTGCTAAGCTAAA 57.125 45.000 6.85 0.00 34.52 1.85
579 620 2.018542 ATCGGCGTGCTAAGCTAAAA 57.981 45.000 6.85 0.00 34.52 1.52
580 621 1.798283 TCGGCGTGCTAAGCTAAAAA 58.202 45.000 6.85 0.00 34.52 1.94
635 702 4.869861 AGTTTGCAAACTGAATGTGAAACC 59.130 37.500 37.28 10.78 46.80 3.27
636 703 4.734398 TTGCAAACTGAATGTGAAACCT 57.266 36.364 0.00 0.00 34.36 3.50
637 704 4.044336 TGCAAACTGAATGTGAAACCTG 57.956 40.909 0.00 0.00 34.36 4.00
638 705 3.698539 TGCAAACTGAATGTGAAACCTGA 59.301 39.130 0.00 0.00 34.36 3.86
639 706 4.159321 TGCAAACTGAATGTGAAACCTGAA 59.841 37.500 0.00 0.00 34.36 3.02
640 707 5.163426 TGCAAACTGAATGTGAAACCTGAAT 60.163 36.000 0.00 0.00 34.36 2.57
641 708 5.403466 GCAAACTGAATGTGAAACCTGAATC 59.597 40.000 0.00 0.00 34.36 2.52
642 709 6.736794 GCAAACTGAATGTGAAACCTGAATCT 60.737 38.462 0.00 0.00 34.36 2.40
643 710 5.954296 ACTGAATGTGAAACCTGAATCTG 57.046 39.130 0.00 0.00 34.36 2.90
644 711 5.624159 ACTGAATGTGAAACCTGAATCTGA 58.376 37.500 0.00 0.00 34.36 3.27
645 712 6.243900 ACTGAATGTGAAACCTGAATCTGAT 58.756 36.000 0.00 0.00 34.36 2.90
646 713 7.397221 ACTGAATGTGAAACCTGAATCTGATA 58.603 34.615 0.00 0.00 34.36 2.15
647 714 7.335422 ACTGAATGTGAAACCTGAATCTGATAC 59.665 37.037 0.00 0.00 34.36 2.24
662 729 5.500645 TCTGATACGTATGTTCAGGACTG 57.499 43.478 13.97 0.35 35.63 3.51
663 730 5.190677 TCTGATACGTATGTTCAGGACTGA 58.809 41.667 13.97 0.00 35.63 3.41
664 731 5.828328 TCTGATACGTATGTTCAGGACTGAT 59.172 40.000 13.97 0.00 39.64 2.90
677 781 4.533707 TCAGGACTGATTCTGAAACCTGAT 59.466 41.667 21.20 0.00 44.53 2.90
690 794 6.944290 TCTGAAACCTGATTCTGATGTTCAAT 59.056 34.615 0.00 0.00 33.86 2.57
711 815 6.982724 TCAATCTAGCACTGATGTATGTTCAG 59.017 38.462 0.00 0.00 44.95 3.02
737 841 6.963796 ACTGAAATCTGATTGTGAAACTGAC 58.036 36.000 3.22 0.00 38.04 3.51
767 872 9.618890 AAACTAGCAATGATGTAGTATGTTCAT 57.381 29.630 0.00 0.00 0.00 2.57
773 878 7.516481 CAATGATGTAGTATGTTCATGCTAGC 58.484 38.462 8.10 8.10 0.00 3.42
786 891 1.659954 GCTAGCTCGCAGATGGACG 60.660 63.158 7.70 0.00 33.89 4.79
793 898 0.389817 TCGCAGATGGACGGTGAAAG 60.390 55.000 0.00 0.00 31.12 2.62
812 969 0.676151 GCTGACTAGGCAAAGCAGCT 60.676 55.000 19.17 0.00 46.17 4.24
829 986 2.921754 CAGCTAAACTGGTACTGTACGC 59.078 50.000 11.52 7.58 43.19 4.42
830 987 2.094338 AGCTAAACTGGTACTGTACGCC 60.094 50.000 11.52 0.00 40.38 5.68
831 988 2.523015 CTAAACTGGTACTGTACGCCG 58.477 52.381 11.52 5.31 40.38 6.46
832 989 0.668401 AAACTGGTACTGTACGCCGC 60.668 55.000 11.52 0.00 40.38 6.53
852 1009 2.414691 GCACTAGGCAAAGCAGCTAAAC 60.415 50.000 0.00 0.00 43.97 2.01
863 1020 2.175878 CAGCTAAACTGGTGCAGACT 57.824 50.000 0.00 0.00 43.19 3.24
864 1021 2.498167 CAGCTAAACTGGTGCAGACTT 58.502 47.619 0.00 0.00 43.19 3.01
919 1085 3.345808 CCTGCACGACGGTTGGTG 61.346 66.667 0.00 8.40 37.22 4.17
920 1086 2.279851 CTGCACGACGGTTGGTGA 60.280 61.111 14.86 2.90 36.25 4.02
922 1088 3.343421 GCACGACGGTTGGTGACC 61.343 66.667 14.86 0.00 45.55 4.02
945 1111 5.586693 GATTTATCGACGATAATCGGACG 57.413 43.478 26.25 0.00 45.59 4.79
946 1112 2.515641 TATCGACGATAATCGGACGC 57.484 50.000 15.02 0.00 45.59 5.19
947 1113 0.589708 ATCGACGATAATCGGACGCA 59.410 50.000 8.99 0.00 45.59 5.24
948 1114 0.377905 TCGACGATAATCGGACGCAA 59.622 50.000 0.00 0.00 45.59 4.85
949 1115 0.497265 CGACGATAATCGGACGCAAC 59.503 55.000 0.00 0.00 45.59 4.17
950 1116 0.497265 GACGATAATCGGACGCAACG 59.503 55.000 0.00 0.00 45.59 4.10
953 1119 1.283736 GATAATCGGACGCAACGGTT 58.716 50.000 0.00 0.00 38.37 4.44
954 1120 1.003851 ATAATCGGACGCAACGGTTG 58.996 50.000 16.35 16.35 35.19 3.77
955 1121 1.015085 TAATCGGACGCAACGGTTGG 61.015 55.000 21.37 13.83 35.19 3.77
956 1122 2.999739 AATCGGACGCAACGGTTGGT 63.000 55.000 21.37 16.64 32.76 3.67
957 1123 4.007940 CGGACGCAACGGTTGGTG 62.008 66.667 21.37 11.51 0.00 4.17
960 1137 4.178169 ACGCAACGGTTGGTGGGA 62.178 61.111 21.37 0.00 0.00 4.37
984 1161 5.998553 GCCTCGGGCTTTCTTAATAAATAC 58.001 41.667 7.58 0.00 46.69 1.89
985 1162 5.763698 GCCTCGGGCTTTCTTAATAAATACT 59.236 40.000 7.58 0.00 46.69 2.12
986 1163 6.293462 GCCTCGGGCTTTCTTAATAAATACTG 60.293 42.308 7.58 0.00 46.69 2.74
988 1165 7.929785 CCTCGGGCTTTCTTAATAAATACTGTA 59.070 37.037 0.00 0.00 0.00 2.74
989 1166 8.652810 TCGGGCTTTCTTAATAAATACTGTAC 57.347 34.615 0.00 0.00 0.00 2.90
1017 1194 9.400638 TCTAAAACAATATAAAAGGCACGTTTG 57.599 29.630 0.00 0.00 40.75 2.93
1054 1231 0.769247 AAAACAACCCGCCTCCTACT 59.231 50.000 0.00 0.00 0.00 2.57
1055 1232 1.648116 AAACAACCCGCCTCCTACTA 58.352 50.000 0.00 0.00 0.00 1.82
1056 1233 0.900421 AACAACCCGCCTCCTACTAC 59.100 55.000 0.00 0.00 0.00 2.73
1057 1234 0.040794 ACAACCCGCCTCCTACTACT 59.959 55.000 0.00 0.00 0.00 2.57
1058 1235 0.460311 CAACCCGCCTCCTACTACTG 59.540 60.000 0.00 0.00 0.00 2.74
1059 1236 1.328430 AACCCGCCTCCTACTACTGC 61.328 60.000 0.00 0.00 0.00 4.40
1061 1238 1.455959 CCGCCTCCTACTACTGCCT 60.456 63.158 0.00 0.00 0.00 4.75
1062 1239 1.043673 CCGCCTCCTACTACTGCCTT 61.044 60.000 0.00 0.00 0.00 4.35
1387 1608 1.414550 TCTCCAACAACGACATCACCA 59.585 47.619 0.00 0.00 0.00 4.17
1395 1616 2.034879 CGACATCACCAGCGCCTTT 61.035 57.895 2.29 0.00 0.00 3.11
1447 1668 1.197721 GGCACCTCGATTTGTCACTTG 59.802 52.381 0.00 0.00 0.00 3.16
1744 4143 0.393537 CCTGTCATCCAACCAGCTCC 60.394 60.000 0.00 0.00 0.00 4.70
2165 4578 1.202177 CGCGTACACTAACCGGTACAT 60.202 52.381 8.00 0.00 39.81 2.29
2471 4911 2.470362 GGATCAGAGTCGCCGTCGA 61.470 63.158 0.00 0.00 43.28 4.20
2670 5119 3.536917 TCCGGCTACATGGCTCCG 61.537 66.667 12.83 12.83 41.41 4.63
2714 5165 0.796927 TCGTCACTCGTCAGTAGCTG 59.203 55.000 0.00 0.00 40.80 4.24
2731 5203 4.574599 AGCTGAATTTTCACACCTTCAC 57.425 40.909 0.00 0.00 32.90 3.18
2872 5347 3.728373 GTCCCTGGCGGAATGGGT 61.728 66.667 0.00 0.00 44.47 4.51
3150 5822 4.142730 GCACTGTCTGAATTAAGGAGCAAG 60.143 45.833 0.00 0.00 0.00 4.01
3151 5823 4.006319 ACTGTCTGAATTAAGGAGCAAGC 58.994 43.478 0.00 0.00 0.00 4.01
3152 5824 4.005650 CTGTCTGAATTAAGGAGCAAGCA 58.994 43.478 0.00 0.00 0.00 3.91
4274 8471 0.035317 GCATGGCTGACATATCCGGA 59.965 55.000 6.61 6.61 37.84 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 7.315890 GGCTCAAATTTAATGGCCTATGATAC 58.684 38.462 3.32 0.00 36.96 2.24
34 35 3.626930 ACGGCTCAAATTTAATGGCCTA 58.373 40.909 3.32 0.00 37.66 3.93
121 126 8.184848 TCACGACAAAAAGAAAATAACATGACA 58.815 29.630 0.00 0.00 0.00 3.58
122 127 8.469125 GTCACGACAAAAAGAAAATAACATGAC 58.531 33.333 0.00 0.00 0.00 3.06
123 128 8.402472 AGTCACGACAAAAAGAAAATAACATGA 58.598 29.630 0.00 0.00 0.00 3.07
124 129 8.560576 AGTCACGACAAAAAGAAAATAACATG 57.439 30.769 0.00 0.00 0.00 3.21
125 130 7.586300 CGAGTCACGACAAAAAGAAAATAACAT 59.414 33.333 0.00 0.00 45.77 2.71
126 131 6.902948 CGAGTCACGACAAAAAGAAAATAACA 59.097 34.615 0.00 0.00 45.77 2.41
127 132 6.129794 GCGAGTCACGACAAAAAGAAAATAAC 60.130 38.462 0.00 0.00 45.77 1.89
128 133 5.905181 GCGAGTCACGACAAAAAGAAAATAA 59.095 36.000 0.00 0.00 45.77 1.40
129 134 5.437263 GCGAGTCACGACAAAAAGAAAATA 58.563 37.500 0.00 0.00 45.77 1.40
130 135 4.279659 GCGAGTCACGACAAAAAGAAAAT 58.720 39.130 0.00 0.00 45.77 1.82
131 136 3.676540 GCGAGTCACGACAAAAAGAAAA 58.323 40.909 0.00 0.00 45.77 2.29
132 137 3.313274 GCGAGTCACGACAAAAAGAAA 57.687 42.857 0.00 0.00 45.77 2.52
142 147 1.906824 AAAGGGAGGCGAGTCACGA 60.907 57.895 0.00 0.00 45.77 4.35
143 148 1.738099 CAAAGGGAGGCGAGTCACG 60.738 63.158 0.00 0.00 45.66 4.35
144 149 0.250338 AACAAAGGGAGGCGAGTCAC 60.250 55.000 0.00 0.00 0.00 3.67
145 150 0.034896 GAACAAAGGGAGGCGAGTCA 59.965 55.000 0.00 0.00 0.00 3.41
146 151 0.034896 TGAACAAAGGGAGGCGAGTC 59.965 55.000 0.00 0.00 0.00 3.36
147 152 0.472471 TTGAACAAAGGGAGGCGAGT 59.528 50.000 0.00 0.00 0.00 4.18
148 153 1.604604 TTTGAACAAAGGGAGGCGAG 58.395 50.000 0.00 0.00 0.00 5.03
149 154 2.159382 GATTTGAACAAAGGGAGGCGA 58.841 47.619 6.18 0.00 33.32 5.54
150 155 1.202348 GGATTTGAACAAAGGGAGGCG 59.798 52.381 6.18 0.00 33.32 5.52
151 156 2.232208 CAGGATTTGAACAAAGGGAGGC 59.768 50.000 6.18 0.00 33.32 4.70
152 157 3.507622 GTCAGGATTTGAACAAAGGGAGG 59.492 47.826 6.18 0.00 37.61 4.30
153 158 4.401925 AGTCAGGATTTGAACAAAGGGAG 58.598 43.478 6.18 0.00 37.61 4.30
154 159 4.398319 GAGTCAGGATTTGAACAAAGGGA 58.602 43.478 6.18 0.00 37.61 4.20
155 160 3.507622 GGAGTCAGGATTTGAACAAAGGG 59.492 47.826 6.18 0.00 37.61 3.95
156 161 4.022849 GTGGAGTCAGGATTTGAACAAAGG 60.023 45.833 6.18 0.00 37.61 3.11
157 162 4.319766 CGTGGAGTCAGGATTTGAACAAAG 60.320 45.833 6.18 0.00 37.61 2.77
158 163 3.563808 CGTGGAGTCAGGATTTGAACAAA 59.436 43.478 2.48 2.48 37.61 2.83
159 164 3.138304 CGTGGAGTCAGGATTTGAACAA 58.862 45.455 0.00 0.00 37.61 2.83
160 165 2.766313 CGTGGAGTCAGGATTTGAACA 58.234 47.619 0.00 0.00 37.61 3.18
161 166 1.464997 GCGTGGAGTCAGGATTTGAAC 59.535 52.381 0.00 0.00 37.61 3.18
162 167 1.808411 GCGTGGAGTCAGGATTTGAA 58.192 50.000 0.00 0.00 37.61 2.69
163 168 0.389817 CGCGTGGAGTCAGGATTTGA 60.390 55.000 0.00 0.00 0.00 2.69
164 169 0.670546 ACGCGTGGAGTCAGGATTTG 60.671 55.000 12.93 0.00 0.00 2.32
165 170 0.670546 CACGCGTGGAGTCAGGATTT 60.671 55.000 31.15 0.00 0.00 2.17
166 171 1.079819 CACGCGTGGAGTCAGGATT 60.080 57.895 31.15 0.00 0.00 3.01
167 172 1.938657 CTCACGCGTGGAGTCAGGAT 61.939 60.000 36.41 0.00 0.00 3.24
168 173 2.596338 TCACGCGTGGAGTCAGGA 60.596 61.111 36.41 14.12 0.00 3.86
169 174 2.126307 CTCACGCGTGGAGTCAGG 60.126 66.667 36.41 11.09 0.00 3.86
170 175 2.645567 ACTCACGCGTGGAGTCAG 59.354 61.111 36.41 27.43 41.63 3.51
174 179 2.179517 GAGGACTCACGCGTGGAG 59.820 66.667 36.41 30.56 38.36 3.86
175 180 3.371063 GGAGGACTCACGCGTGGA 61.371 66.667 36.41 22.40 0.00 4.02
176 181 3.343788 GAGGAGGACTCACGCGTGG 62.344 68.421 36.41 28.05 45.85 4.94
177 182 2.179517 GAGGAGGACTCACGCGTG 59.820 66.667 32.76 32.76 45.85 5.34
196 201 3.920446 TCAATTCGTTCGAACATCTCCA 58.080 40.909 26.71 4.62 0.00 3.86
198 203 5.957910 AGATCAATTCGTTCGAACATCTC 57.042 39.130 26.71 12.79 0.00 2.75
203 208 5.278367 CGACAAAAGATCAATTCGTTCGAAC 59.722 40.000 18.47 18.47 0.00 3.95
210 215 2.161410 TGGCCGACAAAAGATCAATTCG 59.839 45.455 0.00 0.00 0.00 3.34
211 216 3.191371 ACTGGCCGACAAAAGATCAATTC 59.809 43.478 0.00 0.00 0.00 2.17
250 255 4.520111 TCAGTGGTTTTCTTCACATGGATG 59.480 41.667 0.00 0.00 36.43 3.51
283 288 0.393402 TGATGGCAGTGACATGGCTC 60.393 55.000 18.48 2.77 45.51 4.70
296 301 0.815615 GATGACTTCGGGGTGATGGC 60.816 60.000 0.00 0.00 0.00 4.40
332 337 3.518590 CGTTTACCTGATTTAGACGGCT 58.481 45.455 0.00 0.00 0.00 5.52
346 351 0.600782 TGTCCGTGAAGCCGTTTACC 60.601 55.000 0.00 0.00 0.00 2.85
352 357 2.432628 GGTCTGTCCGTGAAGCCG 60.433 66.667 0.00 0.00 0.00 5.52
361 366 2.668280 GCGTTTCTGCGGTCTGTCC 61.668 63.158 0.00 0.00 0.00 4.02
364 369 2.856032 CTGCGTTTCTGCGGTCTG 59.144 61.111 0.00 0.00 36.47 3.51
367 372 3.349006 CTGCTGCGTTTCTGCGGT 61.349 61.111 0.00 0.00 43.32 5.68
370 375 0.385223 CAAGTCTGCTGCGTTTCTGC 60.385 55.000 0.00 0.00 39.73 4.26
371 376 0.236711 CCAAGTCTGCTGCGTTTCTG 59.763 55.000 0.00 0.00 0.00 3.02
421 426 2.245096 GCTTCGCTTCGTTACGACTTA 58.755 47.619 7.06 0.00 38.17 2.24
461 500 2.683933 GGAGGTGCTCCTTCGGGA 60.684 66.667 9.08 0.00 46.41 5.14
498 537 0.368227 GCAGTCGATTCAACTGAGCG 59.632 55.000 8.94 0.00 45.64 5.03
503 542 0.244994 AGCTCGCAGTCGATTCAACT 59.755 50.000 0.00 0.00 44.56 3.16
504 543 0.368227 CAGCTCGCAGTCGATTCAAC 59.632 55.000 0.00 0.00 44.56 3.18
539 580 8.082852 GCCGATATACTTGAGAATACAGAAAGA 58.917 37.037 0.00 0.00 0.00 2.52
546 587 4.323868 GCACGCCGATATACTTGAGAATAC 59.676 45.833 0.00 0.00 0.00 1.89
583 624 5.508200 TTTTTCCGTGTGCATACTCTTTT 57.492 34.783 12.05 0.00 0.00 2.27
584 625 4.556699 GCTTTTTCCGTGTGCATACTCTTT 60.557 41.667 12.05 0.00 0.00 2.52
585 626 3.058224 GCTTTTTCCGTGTGCATACTCTT 60.058 43.478 12.05 0.00 0.00 2.85
586 627 2.484264 GCTTTTTCCGTGTGCATACTCT 59.516 45.455 12.05 0.00 0.00 3.24
587 628 2.225491 TGCTTTTTCCGTGTGCATACTC 59.775 45.455 12.05 0.00 0.00 2.59
588 629 2.226330 TGCTTTTTCCGTGTGCATACT 58.774 42.857 12.05 0.00 0.00 2.12
593 660 0.591170 TAGCTGCTTTTTCCGTGTGC 59.409 50.000 7.79 0.00 0.00 4.57
628 695 6.757010 ACATACGTATCAGATTCAGGTTTCAC 59.243 38.462 4.74 0.00 0.00 3.18
629 696 6.873997 ACATACGTATCAGATTCAGGTTTCA 58.126 36.000 4.74 0.00 0.00 2.69
633 700 6.465439 TGAACATACGTATCAGATTCAGGT 57.535 37.500 4.74 0.00 0.00 4.00
634 701 6.999956 CTGAACATACGTATCAGATTCAGG 57.000 41.667 24.43 14.66 42.48 3.86
635 702 6.638873 GTCCTGAACATACGTATCAGATTCAG 59.361 42.308 24.79 24.79 42.48 3.02
636 703 6.321435 AGTCCTGAACATACGTATCAGATTCA 59.679 38.462 20.99 17.77 42.48 2.57
637 704 6.638873 CAGTCCTGAACATACGTATCAGATTC 59.361 42.308 20.99 15.02 42.48 2.52
638 705 6.321435 TCAGTCCTGAACATACGTATCAGATT 59.679 38.462 20.99 8.03 42.48 2.40
639 706 5.828328 TCAGTCCTGAACATACGTATCAGAT 59.172 40.000 20.99 8.10 42.48 2.90
640 707 5.190677 TCAGTCCTGAACATACGTATCAGA 58.809 41.667 20.99 8.64 42.48 3.27
641 708 5.500645 TCAGTCCTGAACATACGTATCAG 57.499 43.478 14.93 14.93 40.17 2.90
642 709 6.321435 AGAATCAGTCCTGAACATACGTATCA 59.679 38.462 4.74 0.86 43.58 2.15
643 710 6.638873 CAGAATCAGTCCTGAACATACGTATC 59.361 42.308 4.74 0.00 43.58 2.24
644 711 6.321435 TCAGAATCAGTCCTGAACATACGTAT 59.679 38.462 1.14 1.14 43.58 3.06
645 712 5.650703 TCAGAATCAGTCCTGAACATACGTA 59.349 40.000 0.00 0.00 43.58 3.57
646 713 4.462834 TCAGAATCAGTCCTGAACATACGT 59.537 41.667 0.37 0.00 43.58 3.57
647 714 4.998788 TCAGAATCAGTCCTGAACATACG 58.001 43.478 0.37 0.00 43.58 3.06
662 729 6.998968 ACATCAGAATCAGGTTTCAGAATC 57.001 37.500 0.00 0.00 0.00 2.52
663 730 6.944290 TGAACATCAGAATCAGGTTTCAGAAT 59.056 34.615 0.00 0.00 0.00 2.40
664 731 6.298361 TGAACATCAGAATCAGGTTTCAGAA 58.702 36.000 0.00 0.00 0.00 3.02
677 781 6.041423 TCAGTGCTAGATTGAACATCAGAA 57.959 37.500 0.00 0.00 0.00 3.02
690 794 4.956075 TCCTGAACATACATCAGTGCTAGA 59.044 41.667 0.00 0.00 42.19 2.43
711 815 6.205464 TCAGTTTCACAATCAGATTTCAGTCC 59.795 38.462 0.00 0.00 0.00 3.85
737 841 8.668353 ACATACTACATCATTGCTAGTTTTGTG 58.332 33.333 0.00 0.00 0.00 3.33
743 847 7.172190 GCATGAACATACTACATCATTGCTAGT 59.828 37.037 0.00 0.00 30.39 2.57
767 872 1.439228 GTCCATCTGCGAGCTAGCA 59.561 57.895 20.76 20.76 45.96 3.49
773 878 0.389817 TTTCACCGTCCATCTGCGAG 60.390 55.000 0.00 0.00 0.00 5.03
786 891 2.185004 TTGCCTAGTCAGCTTTCACC 57.815 50.000 0.00 0.00 0.00 4.02
793 898 1.799383 GCTGCTTTGCCTAGTCAGC 59.201 57.895 12.27 12.27 42.46 4.26
812 969 1.402720 GCGGCGTACAGTACCAGTTTA 60.403 52.381 9.37 0.00 0.00 2.01
822 979 2.582498 GCCTAGTGCGGCGTACAG 60.582 66.667 28.80 21.55 40.79 2.74
829 986 3.044059 GCTGCTTTGCCTAGTGCGG 62.044 63.158 0.00 0.00 45.60 5.69
830 987 0.740868 TAGCTGCTTTGCCTAGTGCG 60.741 55.000 7.79 0.00 45.60 5.34
831 988 1.453155 TTAGCTGCTTTGCCTAGTGC 58.547 50.000 7.79 0.00 41.77 4.40
832 989 3.077359 AGTTTAGCTGCTTTGCCTAGTG 58.923 45.455 7.79 0.00 0.00 2.74
852 1009 2.743928 GCGGGAAGTCTGCACCAG 60.744 66.667 0.00 0.00 46.73 4.00
902 1068 3.345808 CACCAACCGTCGTGCAGG 61.346 66.667 0.00 0.00 0.00 4.85
904 1070 2.586635 GTCACCAACCGTCGTGCA 60.587 61.111 0.00 0.00 0.00 4.57
905 1071 3.343421 GGTCACCAACCGTCGTGC 61.343 66.667 0.00 0.00 38.58 5.34
918 1084 5.897291 CCGATTATCGTCGATAAATCGGTCA 60.897 44.000 35.19 18.45 42.33 4.02
919 1085 4.494764 CCGATTATCGTCGATAAATCGGTC 59.505 45.833 35.19 26.03 42.33 4.79
920 1086 4.154737 TCCGATTATCGTCGATAAATCGGT 59.845 41.667 37.51 24.65 44.30 4.69
922 1088 4.199772 CGTCCGATTATCGTCGATAAATCG 59.800 45.833 29.01 29.01 44.06 3.34
923 1089 4.028670 GCGTCCGATTATCGTCGATAAATC 60.029 45.833 26.66 21.53 44.06 2.17
924 1090 3.850273 GCGTCCGATTATCGTCGATAAAT 59.150 43.478 26.66 16.91 44.06 1.40
925 1091 3.228749 GCGTCCGATTATCGTCGATAAA 58.771 45.455 26.66 11.40 44.06 1.40
926 1092 2.223845 TGCGTCCGATTATCGTCGATAA 59.776 45.455 25.51 25.51 44.06 1.75
927 1093 1.799994 TGCGTCCGATTATCGTCGATA 59.200 47.619 24.20 10.91 44.06 2.92
928 1094 0.589708 TGCGTCCGATTATCGTCGAT 59.410 50.000 24.20 13.16 44.06 3.59
929 1095 0.377905 TTGCGTCCGATTATCGTCGA 59.622 50.000 24.20 10.47 44.06 4.20
930 1096 0.497265 GTTGCGTCCGATTATCGTCG 59.503 55.000 18.90 18.90 38.40 5.12
931 1097 0.497265 CGTTGCGTCCGATTATCGTC 59.503 55.000 13.73 5.56 38.40 4.20
932 1098 0.868602 CCGTTGCGTCCGATTATCGT 60.869 55.000 13.73 0.00 38.40 3.73
933 1099 0.868602 ACCGTTGCGTCCGATTATCG 60.869 55.000 7.74 7.74 40.07 2.92
936 1102 1.015085 CCAACCGTTGCGTCCGATTA 61.015 55.000 5.68 0.00 0.00 1.75
937 1103 2.322081 CCAACCGTTGCGTCCGATT 61.322 57.895 5.68 0.00 0.00 3.34
938 1104 2.740826 CCAACCGTTGCGTCCGAT 60.741 61.111 5.68 0.00 0.00 4.18
939 1105 4.224274 ACCAACCGTTGCGTCCGA 62.224 61.111 5.68 0.00 0.00 4.55
941 1107 3.656045 CCACCAACCGTTGCGTCC 61.656 66.667 5.68 0.00 0.00 4.79
943 1109 4.178169 TCCCACCAACCGTTGCGT 62.178 61.111 5.68 2.99 0.00 5.24
945 1111 3.670377 GCTCCCACCAACCGTTGC 61.670 66.667 5.68 0.00 0.00 4.17
946 1112 2.983592 GGCTCCCACCAACCGTTG 60.984 66.667 4.12 4.12 0.00 4.10
947 1113 3.175710 AGGCTCCCACCAACCGTT 61.176 61.111 0.00 0.00 0.00 4.44
948 1114 3.637273 GAGGCTCCCACCAACCGT 61.637 66.667 2.15 0.00 0.00 4.83
949 1115 4.760047 CGAGGCTCCCACCAACCG 62.760 72.222 9.32 0.00 0.00 4.44
950 1116 4.410400 CCGAGGCTCCCACCAACC 62.410 72.222 9.32 0.00 0.00 3.77
988 1165 8.736244 ACGTGCCTTTTATATTGTTTTAGATGT 58.264 29.630 0.00 0.00 0.00 3.06
989 1166 9.567848 AACGTGCCTTTTATATTGTTTTAGATG 57.432 29.630 0.00 0.00 0.00 2.90
992 1169 9.187455 ACAAACGTGCCTTTTATATTGTTTTAG 57.813 29.630 0.00 0.00 0.00 1.85
994 1171 7.096394 CGACAAACGTGCCTTTTATATTGTTTT 60.096 33.333 0.00 0.00 37.22 2.43
995 1172 6.361214 CGACAAACGTGCCTTTTATATTGTTT 59.639 34.615 0.00 0.00 37.22 2.83
996 1173 5.854338 CGACAAACGTGCCTTTTATATTGTT 59.146 36.000 0.00 0.00 37.22 2.83
997 1174 5.179742 TCGACAAACGTGCCTTTTATATTGT 59.820 36.000 0.00 0.00 43.13 2.71
998 1175 5.623335 TCGACAAACGTGCCTTTTATATTG 58.377 37.500 0.00 0.00 43.13 1.90
999 1176 5.866335 TCGACAAACGTGCCTTTTATATT 57.134 34.783 0.00 0.00 43.13 1.28
1000 1177 5.866335 TTCGACAAACGTGCCTTTTATAT 57.134 34.783 0.00 0.00 43.13 0.86
1001 1178 5.007430 TGTTTCGACAAACGTGCCTTTTATA 59.993 36.000 0.00 0.00 44.41 0.98
1002 1179 4.201930 TGTTTCGACAAACGTGCCTTTTAT 60.202 37.500 0.00 0.00 44.41 1.40
1003 1180 3.126514 TGTTTCGACAAACGTGCCTTTTA 59.873 39.130 0.00 0.00 44.41 1.52
1004 1181 2.095161 TGTTTCGACAAACGTGCCTTTT 60.095 40.909 0.00 0.00 44.41 2.27
1008 1185 1.897641 TTTGTTTCGACAAACGTGCC 58.102 45.000 0.00 0.00 44.41 5.01
1037 1214 0.900421 GTAGTAGGAGGCGGGTTGTT 59.100 55.000 0.00 0.00 0.00 2.83
1038 1215 0.040794 AGTAGTAGGAGGCGGGTTGT 59.959 55.000 0.00 0.00 0.00 3.32
1039 1216 0.460311 CAGTAGTAGGAGGCGGGTTG 59.540 60.000 0.00 0.00 0.00 3.77
1040 1217 1.328430 GCAGTAGTAGGAGGCGGGTT 61.328 60.000 0.00 0.00 0.00 4.11
1050 1227 1.959042 CCATGGCAAGGCAGTAGTAG 58.041 55.000 0.00 0.00 0.00 2.57
1078 1283 4.796231 GAGGGACGCGCGACATGT 62.796 66.667 39.36 18.30 0.00 3.21
1276 1497 4.803426 GGAGAGGCTGGTGACGCG 62.803 72.222 3.53 3.53 0.00 6.01
1277 1498 4.459089 GGGAGAGGCTGGTGACGC 62.459 72.222 0.00 0.00 0.00 5.19
1278 1499 2.681778 AGGGAGAGGCTGGTGACG 60.682 66.667 0.00 0.00 0.00 4.35
1279 1500 2.716017 CGAGGGAGAGGCTGGTGAC 61.716 68.421 0.00 0.00 0.00 3.67
1280 1501 2.363018 CGAGGGAGAGGCTGGTGA 60.363 66.667 0.00 0.00 0.00 4.02
1281 1502 4.154347 GCGAGGGAGAGGCTGGTG 62.154 72.222 0.00 0.00 0.00 4.17
1395 1616 2.849096 ATCGGTACAGGCTGGTCGGA 62.849 60.000 20.34 18.79 0.00 4.55
1447 1668 4.208686 CTCGCCGTGGAGGTAGGC 62.209 72.222 0.00 0.00 46.88 3.93
1856 4255 4.451150 GTGATCCCGCGGCACAGA 62.451 66.667 22.85 12.59 32.96 3.41
2139 4543 1.629013 GGTTAGTGTACGCGGGTAAC 58.371 55.000 14.50 13.75 0.00 2.50
2140 4544 0.170116 CGGTTAGTGTACGCGGGTAA 59.830 55.000 14.50 2.41 0.00 2.85
2141 4545 1.653094 CCGGTTAGTGTACGCGGGTA 61.653 60.000 12.47 8.44 32.05 3.69
2142 4546 2.568090 CGGTTAGTGTACGCGGGT 59.432 61.111 12.47 10.91 0.00 5.28
2143 4547 1.653094 TACCGGTTAGTGTACGCGGG 61.653 60.000 15.04 0.00 36.67 6.13
2144 4548 0.523335 GTACCGGTTAGTGTACGCGG 60.523 60.000 15.04 0.00 37.65 6.46
2145 4549 0.167908 TGTACCGGTTAGTGTACGCG 59.832 55.000 15.04 3.53 40.12 6.01
2146 4550 2.454055 GATGTACCGGTTAGTGTACGC 58.546 52.381 15.04 0.00 40.12 4.42
2209 4625 1.219393 GCCTCTCTTCCACCTTCCG 59.781 63.158 0.00 0.00 0.00 4.30
2714 5165 4.682860 CAGCATGTGAAGGTGTGAAAATTC 59.317 41.667 0.00 0.00 0.00 2.17
2731 5203 1.873863 CACTCTGCACACCAGCATG 59.126 57.895 0.00 0.00 44.68 4.06
2883 5358 1.040339 ATGCTCCCTCCTGACTCGTC 61.040 60.000 0.00 0.00 0.00 4.20
3150 5822 2.176792 GCTTACAGGCGCTGTTGC 59.823 61.111 15.81 15.61 42.59 4.17
3151 5823 1.499056 CTGCTTACAGGCGCTGTTG 59.501 57.895 15.81 10.80 42.59 3.33
3152 5824 3.972227 CTGCTTACAGGCGCTGTT 58.028 55.556 15.81 0.00 42.59 3.16
3496 6260 1.297689 GAGACCTGCCTGCATGTGA 59.702 57.895 4.76 0.00 0.00 3.58
3498 6262 1.908340 GAGGAGACCTGCCTGCATGT 61.908 60.000 0.00 0.00 35.44 3.21
3499 6263 1.153208 GAGGAGACCTGCCTGCATG 60.153 63.158 0.00 0.00 35.44 4.06
3957 7117 4.803426 GGACAGAGCGCCGAGTGG 62.803 72.222 2.29 0.00 38.77 4.00


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

AutoCloner maintained by Alex Coulton.