Multiple sequence alignment - TraesCS7A01G167700

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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 TraesCS7A01G167700 chr7A 100.000 2512 0 0 1 2512 123100151 123097640 0.000000e+00 4639
1 TraesCS7A01G167700 chr7A 89.767 987 89 7 571 1550 674510078 674509097 0.000000e+00 1253
2 TraesCS7A01G167700 chr7A 91.036 647 55 3 1550 2194 123059378 123058733 0.000000e+00 870
3 TraesCS7A01G167700 chr7A 84.084 666 82 17 1550 2196 412668482 412667822 2.740000e-174 621
4 TraesCS7A01G167700 chr7A 100.000 317 0 0 2196 2512 123087822 123087506 1.000000e-163 586
5 TraesCS7A01G167700 chr7A 98.423 317 5 0 2196 2512 402763459 402763143 2.180000e-155 558
6 TraesCS7A01G167700 chr7A 80.383 418 50 23 1550 1938 430086281 430085867 3.160000e-74 289
7 TraesCS7A01G167700 chr7D 94.330 1552 86 2 1 1550 118904150 118902599 0.000000e+00 2377
8 TraesCS7A01G167700 chr7D 90.780 987 83 6 571 1550 58620349 58621334 0.000000e+00 1312
9 TraesCS7A01G167700 chr7D 85.667 607 67 17 1550 2144 332193475 332192877 2.740000e-174 621
10 TraesCS7A01G167700 chr4A 90.679 987 80 8 571 1550 690356432 690357413 0.000000e+00 1303
11 TraesCS7A01G167700 chr5B 90.355 985 85 6 571 1550 382534968 382535947 0.000000e+00 1284
12 TraesCS7A01G167700 chr5B 88.912 974 98 7 571 1534 501740126 501741099 0.000000e+00 1192
13 TraesCS7A01G167700 chr5B 81.548 504 54 30 1550 2025 135302601 135302109 1.820000e-101 379
14 TraesCS7A01G167700 chr5A 90.051 985 88 6 571 1550 676353336 676354315 0.000000e+00 1267
15 TraesCS7A01G167700 chr5A 78.638 426 47 23 1550 1934 211512809 211512387 2.500000e-60 243
16 TraesCS7A01G167700 chr2D 90.000 990 82 9 571 1550 518249660 518250642 0.000000e+00 1264
17 TraesCS7A01G167700 chr2D 90.592 574 50 2 1 570 447592512 447591939 0.000000e+00 758
18 TraesCS7A01G167700 chr2D 85.236 657 75 21 1550 2192 279746678 279746030 0.000000e+00 656
19 TraesCS7A01G167700 chr2D 83.639 654 86 20 1550 2192 263551090 263551733 1.660000e-166 595
20 TraesCS7A01G167700 chr6B 89.442 985 92 9 571 1550 118025818 118026795 0.000000e+00 1232
21 TraesCS7A01G167700 chr3D 91.769 571 40 1 1 571 528692857 528693420 0.000000e+00 787
22 TraesCS7A01G167700 chr2B 91.419 571 43 4 1 571 62887339 62886775 0.000000e+00 778
23 TraesCS7A01G167700 chr4B 91.404 570 43 2 1 570 480725231 480725794 0.000000e+00 776
24 TraesCS7A01G167700 chr4B 97.826 322 7 0 2191 2512 219062908 219063229 7.850000e-155 556
25 TraesCS7A01G167700 chr3B 91.197 568 48 2 1 568 167631942 167631377 0.000000e+00 771
26 TraesCS7A01G167700 chr6D 90.244 574 48 2 3 568 378159861 378160434 0.000000e+00 743
27 TraesCS7A01G167700 chr4D 90.000 580 48 4 1 571 92682297 92682875 0.000000e+00 741
28 TraesCS7A01G167700 chr4D 90.070 574 54 1 1 571 295295731 295296304 0.000000e+00 741
29 TraesCS7A01G167700 chr4D 84.568 648 81 19 1550 2187 215096324 215096962 2.120000e-175 625
30 TraesCS7A01G167700 chr4D 85.430 604 71 14 1550 2144 174959702 174959107 1.650000e-171 612
31 TraesCS7A01G167700 chr4D 84.469 631 76 22 1550 2170 209412183 209411565 9.940000e-169 603
32 TraesCS7A01G167700 chr6A 87.708 602 61 13 1550 2144 34691957 34691362 0.000000e+00 689
33 TraesCS7A01G167700 chr6A 99.054 317 3 0 2196 2512 578266302 578265986 1.010000e-158 569
34 TraesCS7A01G167700 chr6A 98.423 317 5 0 2196 2512 112180555 112180239 2.180000e-155 558
35 TraesCS7A01G167700 chrUn 98.433 319 3 1 2196 2512 271322863 271322545 6.070000e-156 560
36 TraesCS7A01G167700 chrUn 98.423 317 5 0 2196 2512 282816837 282816521 2.180000e-155 558
37 TraesCS7A01G167700 chr1B 98.423 317 5 0 2196 2512 141509551 141509867 2.180000e-155 558
38 TraesCS7A01G167700 chr1B 98.423 317 5 0 2196 2512 141519710 141520026 2.180000e-155 558
39 TraesCS7A01G167700 chr1B 75.581 258 49 11 1943 2196 434591333 434591086 5.680000e-22 115
40 TraesCS7A01G167700 chr3A 84.848 495 50 16 1550 2024 747504623 747504134 2.260000e-130 475


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 TraesCS7A01G167700 chr7A 123097640 123100151 2511 True 4639 4639 100.000 1 2512 1 chr7A.!!$R3 2511
1 TraesCS7A01G167700 chr7A 674509097 674510078 981 True 1253 1253 89.767 571 1550 1 chr7A.!!$R7 979
2 TraesCS7A01G167700 chr7A 123058733 123059378 645 True 870 870 91.036 1550 2194 1 chr7A.!!$R1 644
3 TraesCS7A01G167700 chr7A 412667822 412668482 660 True 621 621 84.084 1550 2196 1 chr7A.!!$R5 646
4 TraesCS7A01G167700 chr7D 118902599 118904150 1551 True 2377 2377 94.330 1 1550 1 chr7D.!!$R1 1549
5 TraesCS7A01G167700 chr7D 58620349 58621334 985 False 1312 1312 90.780 571 1550 1 chr7D.!!$F1 979
6 TraesCS7A01G167700 chr7D 332192877 332193475 598 True 621 621 85.667 1550 2144 1 chr7D.!!$R2 594
7 TraesCS7A01G167700 chr4A 690356432 690357413 981 False 1303 1303 90.679 571 1550 1 chr4A.!!$F1 979
8 TraesCS7A01G167700 chr5B 382534968 382535947 979 False 1284 1284 90.355 571 1550 1 chr5B.!!$F1 979
9 TraesCS7A01G167700 chr5B 501740126 501741099 973 False 1192 1192 88.912 571 1534 1 chr5B.!!$F2 963
10 TraesCS7A01G167700 chr5A 676353336 676354315 979 False 1267 1267 90.051 571 1550 1 chr5A.!!$F1 979
11 TraesCS7A01G167700 chr2D 518249660 518250642 982 False 1264 1264 90.000 571 1550 1 chr2D.!!$F2 979
12 TraesCS7A01G167700 chr2D 447591939 447592512 573 True 758 758 90.592 1 570 1 chr2D.!!$R2 569
13 TraesCS7A01G167700 chr2D 279746030 279746678 648 True 656 656 85.236 1550 2192 1 chr2D.!!$R1 642
14 TraesCS7A01G167700 chr2D 263551090 263551733 643 False 595 595 83.639 1550 2192 1 chr2D.!!$F1 642
15 TraesCS7A01G167700 chr6B 118025818 118026795 977 False 1232 1232 89.442 571 1550 1 chr6B.!!$F1 979
16 TraesCS7A01G167700 chr3D 528692857 528693420 563 False 787 787 91.769 1 571 1 chr3D.!!$F1 570
17 TraesCS7A01G167700 chr2B 62886775 62887339 564 True 778 778 91.419 1 571 1 chr2B.!!$R1 570
18 TraesCS7A01G167700 chr4B 480725231 480725794 563 False 776 776 91.404 1 570 1 chr4B.!!$F2 569
19 TraesCS7A01G167700 chr3B 167631377 167631942 565 True 771 771 91.197 1 568 1 chr3B.!!$R1 567
20 TraesCS7A01G167700 chr6D 378159861 378160434 573 False 743 743 90.244 3 568 1 chr6D.!!$F1 565
21 TraesCS7A01G167700 chr4D 92682297 92682875 578 False 741 741 90.000 1 571 1 chr4D.!!$F1 570
22 TraesCS7A01G167700 chr4D 295295731 295296304 573 False 741 741 90.070 1 571 1 chr4D.!!$F3 570
23 TraesCS7A01G167700 chr4D 215096324 215096962 638 False 625 625 84.568 1550 2187 1 chr4D.!!$F2 637
24 TraesCS7A01G167700 chr4D 174959107 174959702 595 True 612 612 85.430 1550 2144 1 chr4D.!!$R1 594
25 TraesCS7A01G167700 chr4D 209411565 209412183 618 True 603 603 84.469 1550 2170 1 chr4D.!!$R2 620
26 TraesCS7A01G167700 chr6A 34691362 34691957 595 True 689 689 87.708 1550 2144 1 chr6A.!!$R1 594

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
337 341 0.321298 GCCACTGTCACAACCGGTAT 60.321 55.0 8.0 0.0 0.0 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2024 2092 0.106519 CATCCGGCCCCTCTTGAAAT 60.107 55.0 0.0 0.0 0.0 2.17 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
117 119 2.446036 GCCACGGGAGGGTAGGAT 60.446 66.667 0.00 0.00 0.00 3.24
135 137 5.511234 AGGATAAAAGATGTCATGCAAGC 57.489 39.130 0.00 0.00 0.00 4.01
238 240 8.088981 CACCCTAGGTTATGACTGTTATATGAC 58.911 40.741 8.29 0.00 31.02 3.06
332 336 1.512926 CTACTGCCACTGTCACAACC 58.487 55.000 0.00 0.00 0.00 3.77
337 341 0.321298 GCCACTGTCACAACCGGTAT 60.321 55.000 8.00 0.00 0.00 2.73
400 422 9.751542 GCTATCAAAACTATCATACTACTGTGT 57.248 33.333 0.00 0.00 0.00 3.72
451 473 3.304911 TCCAGGTGTGGTTGAATTGAA 57.695 42.857 0.00 0.00 45.28 2.69
590 612 6.204852 TCAAAGGGATAGGCAACATATGAT 57.795 37.500 10.38 0.00 41.41 2.45
592 614 7.932134 TCAAAGGGATAGGCAACATATGATAT 58.068 34.615 10.38 0.00 41.41 1.63
726 750 2.991250 AGGCAGCAATTTGTAGACGAT 58.009 42.857 0.00 0.00 0.00 3.73
741 765 7.923414 TGTAGACGATATGTATGCTGAGTAT 57.077 36.000 0.00 0.00 0.00 2.12
745 769 8.116651 AGACGATATGTATGCTGAGTATCTTT 57.883 34.615 0.00 0.00 34.92 2.52
750 774 9.645059 GATATGTATGCTGAGTATCTTTTAGCA 57.355 33.333 0.00 0.00 46.90 3.49
793 817 9.078990 TCGATTAGATAAGTTGTGATGGAGTAT 57.921 33.333 0.00 0.00 0.00 2.12
804 828 6.885952 TGTGATGGAGTATAGAGTTAGCTC 57.114 41.667 0.00 0.00 41.94 4.09
856 883 2.303175 GTGCCCTTTTTGTGTGGTAGA 58.697 47.619 0.00 0.00 0.00 2.59
887 914 1.317613 GATGGTGCCTTGTGTGTGAA 58.682 50.000 0.00 0.00 0.00 3.18
993 1021 5.925969 AGGCACACACATTTATTTTACTTGC 59.074 36.000 0.00 0.00 0.00 4.01
994 1022 5.925969 GGCACACACATTTATTTTACTTGCT 59.074 36.000 0.00 0.00 0.00 3.91
1119 1159 4.005487 CCATGCTCAAAATGGTTGGAAA 57.995 40.909 0.00 0.00 39.87 3.13
1220 1260 7.382218 AGGAAGAATTAAAACATTTGACAAGCG 59.618 33.333 0.00 0.00 0.00 4.68
1305 1345 2.516923 GTGTCGGTTGATAGTGACGAG 58.483 52.381 0.00 0.00 33.92 4.18
1337 1377 6.608405 TCTCGATATGTGGAGGTACCTAAAAA 59.392 38.462 16.29 0.93 39.86 1.94
1404 1449 3.705604 ACATTTGTGTGCTTTGTGTAGC 58.294 40.909 0.00 0.00 41.59 3.58
1590 1635 5.659440 ATACGGCCAATCTTTCACAAAAT 57.341 34.783 2.24 0.00 0.00 1.82
1624 1682 4.040376 ACTAAGAACACGAAGAACACGAC 58.960 43.478 0.00 0.00 34.70 4.34
1669 1729 9.436957 ACTAAAACCAACAAGATATAGTCACAG 57.563 33.333 0.00 0.00 0.00 3.66
1796 1861 1.299939 AAGAGGGGGTCTTGAATCCC 58.700 55.000 0.00 0.00 44.41 3.85
1896 1962 6.707608 TCACATATGAGCTAAACCAATGCTAG 59.292 38.462 10.38 0.00 37.16 3.42
1976 2044 1.687123 GCCTCGACCCATACACTGTAT 59.313 52.381 0.00 0.00 0.00 2.29
2047 2115 1.048724 CAAGAGGGGCCGGATGTCTA 61.049 60.000 5.05 0.00 0.00 2.59
2095 2165 2.363406 GGGCTGGCCTTGATGCTT 60.363 61.111 13.80 0.00 36.10 3.91
2112 2185 0.835543 CTTTTTGGATGGGGGTGCCA 60.836 55.000 0.00 0.00 0.00 4.92
2116 2189 1.936767 TTGGATGGGGGTGCCAGATC 61.937 60.000 0.00 0.00 32.47 2.75
2156 2249 4.077184 CCGGGTGTTAGCGAGGCA 62.077 66.667 0.00 0.00 0.00 4.75
2187 2280 2.047655 GTTGACGCCGGATGTCCA 60.048 61.111 20.50 10.14 35.46 4.02
2196 2289 2.273449 GGATGTCCAGGGCCTGTG 59.727 66.667 30.68 21.72 35.64 3.66
2197 2290 2.606587 GGATGTCCAGGGCCTGTGT 61.607 63.158 30.68 14.10 35.64 3.72
2198 2291 1.078143 GATGTCCAGGGCCTGTGTC 60.078 63.158 30.68 19.90 0.00 3.67
2199 2292 1.841302 GATGTCCAGGGCCTGTGTCA 61.841 60.000 30.68 24.23 0.00 3.58
2200 2293 2.032681 GTCCAGGGCCTGTGTCAC 59.967 66.667 30.68 17.58 0.00 3.67
2201 2294 2.447572 TCCAGGGCCTGTGTCACA 60.448 61.111 30.68 5.36 0.00 3.58
2202 2295 2.281761 CCAGGGCCTGTGTCACAC 60.282 66.667 30.68 0.00 34.56 3.82
2203 2296 2.281761 CAGGGCCTGTGTCACACC 60.282 66.667 25.74 2.66 32.73 4.16
2204 2297 3.570212 AGGGCCTGTGTCACACCC 61.570 66.667 19.61 19.61 35.30 4.61
2205 2298 3.570212 GGGCCTGTGTCACACCCT 61.570 66.667 19.84 0.00 33.05 4.34
2206 2299 2.221299 GGGCCTGTGTCACACCCTA 61.221 63.158 19.84 0.00 33.05 3.53
2207 2300 1.296715 GGCCTGTGTCACACCCTAG 59.703 63.158 5.21 0.00 32.73 3.02
2208 2301 1.376037 GCCTGTGTCACACCCTAGC 60.376 63.158 5.21 0.00 32.73 3.42
2209 2302 1.831652 GCCTGTGTCACACCCTAGCT 61.832 60.000 5.21 0.00 32.73 3.32
2210 2303 1.557099 CCTGTGTCACACCCTAGCTA 58.443 55.000 5.21 0.00 32.73 3.32
2211 2304 1.478510 CCTGTGTCACACCCTAGCTAG 59.521 57.143 14.20 14.20 32.73 3.42
2212 2305 2.171840 CTGTGTCACACCCTAGCTAGT 58.828 52.381 19.31 0.00 32.73 2.57
2213 2306 2.164624 CTGTGTCACACCCTAGCTAGTC 59.835 54.545 19.31 2.23 32.73 2.59
2214 2307 2.168496 GTGTCACACCCTAGCTAGTCA 58.832 52.381 19.31 4.53 0.00 3.41
2215 2308 2.761208 GTGTCACACCCTAGCTAGTCAT 59.239 50.000 19.31 1.55 0.00 3.06
2216 2309 2.760650 TGTCACACCCTAGCTAGTCATG 59.239 50.000 19.31 15.31 0.00 3.07
2217 2310 1.757118 TCACACCCTAGCTAGTCATGC 59.243 52.381 19.31 0.00 0.00 4.06
2218 2311 1.482182 CACACCCTAGCTAGTCATGCA 59.518 52.381 19.31 0.00 0.00 3.96
2219 2312 2.103771 CACACCCTAGCTAGTCATGCAT 59.896 50.000 19.31 0.00 0.00 3.96
2220 2313 2.366916 ACACCCTAGCTAGTCATGCATC 59.633 50.000 19.31 0.00 0.00 3.91
2221 2314 2.366590 CACCCTAGCTAGTCATGCATCA 59.633 50.000 19.31 0.00 0.00 3.07
2222 2315 2.632028 ACCCTAGCTAGTCATGCATCAG 59.368 50.000 19.31 0.07 0.00 2.90
2223 2316 2.896044 CCCTAGCTAGTCATGCATCAGA 59.104 50.000 19.31 0.00 0.00 3.27
2224 2317 3.056678 CCCTAGCTAGTCATGCATCAGAG 60.057 52.174 19.31 0.00 0.00 3.35
2225 2318 3.573538 CCTAGCTAGTCATGCATCAGAGT 59.426 47.826 19.31 0.00 0.00 3.24
2226 2319 3.455990 AGCTAGTCATGCATCAGAGTG 57.544 47.619 0.00 0.00 0.00 3.51
2227 2320 2.765135 AGCTAGTCATGCATCAGAGTGT 59.235 45.455 0.00 0.00 0.00 3.55
2228 2321 2.864946 GCTAGTCATGCATCAGAGTGTG 59.135 50.000 0.00 0.00 0.00 3.82
2229 2322 3.678252 GCTAGTCATGCATCAGAGTGTGT 60.678 47.826 0.00 0.00 0.00 3.72
2230 2323 2.696506 AGTCATGCATCAGAGTGTGTG 58.303 47.619 0.00 0.00 0.00 3.82
2231 2324 1.129998 GTCATGCATCAGAGTGTGTGC 59.870 52.381 0.00 7.56 35.17 4.57
2232 2325 1.161843 CATGCATCAGAGTGTGTGCA 58.838 50.000 15.95 15.95 43.06 4.57
2233 2326 1.743394 CATGCATCAGAGTGTGTGCAT 59.257 47.619 18.18 18.18 46.21 3.96
2234 2327 1.445871 TGCATCAGAGTGTGTGCATC 58.554 50.000 11.60 0.00 37.89 3.91
2235 2328 1.270947 TGCATCAGAGTGTGTGCATCA 60.271 47.619 11.60 0.00 37.89 3.07
2236 2329 2.014857 GCATCAGAGTGTGTGCATCAT 58.985 47.619 9.06 0.00 34.90 2.45
2237 2330 2.223272 GCATCAGAGTGTGTGCATCATG 60.223 50.000 9.06 0.00 34.90 3.07
2238 2331 2.845363 TCAGAGTGTGTGCATCATGT 57.155 45.000 0.00 0.00 0.00 3.21
2239 2332 3.130280 TCAGAGTGTGTGCATCATGTT 57.870 42.857 0.00 0.00 0.00 2.71
2240 2333 3.479489 TCAGAGTGTGTGCATCATGTTT 58.521 40.909 0.00 0.00 0.00 2.83
2241 2334 4.640364 TCAGAGTGTGTGCATCATGTTTA 58.360 39.130 0.00 0.00 0.00 2.01
2242 2335 5.062528 TCAGAGTGTGTGCATCATGTTTAA 58.937 37.500 0.00 0.00 0.00 1.52
2243 2336 5.530543 TCAGAGTGTGTGCATCATGTTTAAA 59.469 36.000 0.00 0.00 0.00 1.52
2244 2337 6.207221 TCAGAGTGTGTGCATCATGTTTAAAT 59.793 34.615 0.00 0.00 0.00 1.40
2245 2338 6.864685 CAGAGTGTGTGCATCATGTTTAAATT 59.135 34.615 0.00 0.00 0.00 1.82
2246 2339 7.383029 CAGAGTGTGTGCATCATGTTTAAATTT 59.617 33.333 0.00 0.00 0.00 1.82
2247 2340 7.927629 AGAGTGTGTGCATCATGTTTAAATTTT 59.072 29.630 0.00 0.00 0.00 1.82
2248 2341 8.075593 AGTGTGTGCATCATGTTTAAATTTTC 57.924 30.769 0.00 0.00 0.00 2.29
2249 2342 7.171337 AGTGTGTGCATCATGTTTAAATTTTCC 59.829 33.333 0.00 0.00 0.00 3.13
2250 2343 7.171337 GTGTGTGCATCATGTTTAAATTTTCCT 59.829 33.333 0.00 0.00 0.00 3.36
2251 2344 7.714377 TGTGTGCATCATGTTTAAATTTTCCTT 59.286 29.630 0.00 0.00 0.00 3.36
2252 2345 8.558700 GTGTGCATCATGTTTAAATTTTCCTTT 58.441 29.630 0.00 0.00 0.00 3.11
2253 2346 9.118300 TGTGCATCATGTTTAAATTTTCCTTTT 57.882 25.926 0.00 0.00 0.00 2.27
2268 2361 9.874195 AATTTTCCTTTTAATTTGAAATGGGGA 57.126 25.926 0.00 0.00 35.38 4.81
2270 2363 9.874195 TTTTCCTTTTAATTTGAAATGGGGATT 57.126 25.926 0.00 0.00 35.38 3.01
2271 2364 9.874195 TTTCCTTTTAATTTGAAATGGGGATTT 57.126 25.926 0.00 0.00 35.38 2.17
2272 2365 8.860780 TCCTTTTAATTTGAAATGGGGATTTG 57.139 30.769 0.00 0.00 35.38 2.32
2273 2366 8.443979 TCCTTTTAATTTGAAATGGGGATTTGT 58.556 29.630 0.00 0.00 35.38 2.83
2274 2367 8.513774 CCTTTTAATTTGAAATGGGGATTTGTG 58.486 33.333 0.00 0.00 32.52 3.33
2275 2368 9.282569 CTTTTAATTTGAAATGGGGATTTGTGA 57.717 29.630 0.00 0.00 0.00 3.58
2276 2369 9.632638 TTTTAATTTGAAATGGGGATTTGTGAA 57.367 25.926 0.00 0.00 0.00 3.18
2277 2370 9.632638 TTTAATTTGAAATGGGGATTTGTGAAA 57.367 25.926 0.00 0.00 0.00 2.69
2278 2371 7.509141 AATTTGAAATGGGGATTTGTGAAAC 57.491 32.000 0.00 0.00 37.35 2.78
2279 2372 4.615588 TGAAATGGGGATTTGTGAAACC 57.384 40.909 0.00 0.00 34.36 3.27
2280 2373 3.326297 TGAAATGGGGATTTGTGAAACCC 59.674 43.478 0.00 0.00 41.41 4.11
2281 2374 3.274281 AATGGGGATTTGTGAAACCCT 57.726 42.857 0.00 0.00 41.79 4.34
2282 2375 2.302587 TGGGGATTTGTGAAACCCTC 57.697 50.000 0.00 0.00 41.79 4.30
2283 2376 1.501170 TGGGGATTTGTGAAACCCTCA 59.499 47.619 0.00 0.00 41.79 3.86
2284 2377 2.171003 GGGGATTTGTGAAACCCTCAG 58.829 52.381 0.00 0.00 41.79 3.35
2285 2378 2.225017 GGGGATTTGTGAAACCCTCAGA 60.225 50.000 0.00 0.00 41.79 3.27
2286 2379 3.496331 GGGATTTGTGAAACCCTCAGAA 58.504 45.455 0.00 0.00 39.28 3.02
2287 2380 4.089361 GGGATTTGTGAAACCCTCAGAAT 58.911 43.478 0.00 0.00 37.19 2.40
2288 2381 4.158579 GGGATTTGTGAAACCCTCAGAATC 59.841 45.833 0.00 0.00 37.19 2.52
2289 2382 4.766891 GGATTTGTGAAACCCTCAGAATCA 59.233 41.667 10.49 0.00 37.19 2.57
2290 2383 5.420104 GGATTTGTGAAACCCTCAGAATCAT 59.580 40.000 10.49 0.00 37.19 2.45
2291 2384 6.071165 GGATTTGTGAAACCCTCAGAATCATT 60.071 38.462 10.49 0.00 37.19 2.57
2292 2385 6.729690 TTTGTGAAACCCTCAGAATCATTT 57.270 33.333 0.00 0.00 37.19 2.32
2293 2386 6.729690 TTGTGAAACCCTCAGAATCATTTT 57.270 33.333 0.00 0.00 32.60 1.82
2294 2387 6.729690 TGTGAAACCCTCAGAATCATTTTT 57.270 33.333 0.00 0.00 33.60 1.94
2295 2388 6.514947 TGTGAAACCCTCAGAATCATTTTTG 58.485 36.000 0.00 0.00 33.60 2.44
2296 2389 6.323482 TGTGAAACCCTCAGAATCATTTTTGA 59.677 34.615 0.00 0.00 33.60 2.69
2297 2390 7.147759 TGTGAAACCCTCAGAATCATTTTTGAA 60.148 33.333 0.00 0.00 33.60 2.69
2298 2391 7.710475 GTGAAACCCTCAGAATCATTTTTGAAA 59.290 33.333 0.00 0.00 33.60 2.69
2299 2392 8.263640 TGAAACCCTCAGAATCATTTTTGAAAA 58.736 29.630 0.00 0.00 0.00 2.29
2300 2393 9.276590 GAAACCCTCAGAATCATTTTTGAAAAT 57.723 29.630 0.00 0.00 39.07 1.82
2328 2421 8.916628 TCCAAATAAAAATTTCTCCAAAAGGG 57.083 30.769 0.00 0.00 38.37 3.95
2329 2422 8.498575 TCCAAATAAAAATTTCTCCAAAAGGGT 58.501 29.630 0.00 0.00 38.11 4.34
2330 2423 8.783093 CCAAATAAAAATTTCTCCAAAAGGGTC 58.217 33.333 0.00 0.00 38.11 4.46
2331 2424 8.783093 CAAATAAAAATTTCTCCAAAAGGGTCC 58.217 33.333 0.00 0.00 38.11 4.46
2332 2425 5.966853 AAAAATTTCTCCAAAAGGGTCCA 57.033 34.783 0.00 0.00 38.11 4.02
2333 2426 5.966853 AAAATTTCTCCAAAAGGGTCCAA 57.033 34.783 0.00 0.00 38.11 3.53
2334 2427 5.551305 AAATTTCTCCAAAAGGGTCCAAG 57.449 39.130 0.00 0.00 38.11 3.61
2335 2428 3.963476 TTTCTCCAAAAGGGTCCAAGA 57.037 42.857 0.00 0.00 38.11 3.02
2336 2429 3.963476 TTCTCCAAAAGGGTCCAAGAA 57.037 42.857 0.00 0.00 38.11 2.52
2337 2430 3.963476 TCTCCAAAAGGGTCCAAGAAA 57.037 42.857 0.00 0.00 38.11 2.52
2338 2431 4.258457 TCTCCAAAAGGGTCCAAGAAAA 57.742 40.909 0.00 0.00 38.11 2.29
2339 2432 4.814967 TCTCCAAAAGGGTCCAAGAAAAT 58.185 39.130 0.00 0.00 38.11 1.82
2340 2433 4.588528 TCTCCAAAAGGGTCCAAGAAAATG 59.411 41.667 0.00 0.00 38.11 2.32
2341 2434 3.070878 TCCAAAAGGGTCCAAGAAAATGC 59.929 43.478 0.00 0.00 38.11 3.56
2342 2435 3.071457 CCAAAAGGGTCCAAGAAAATGCT 59.929 43.478 0.00 0.00 0.00 3.79
2343 2436 4.309933 CAAAAGGGTCCAAGAAAATGCTC 58.690 43.478 0.00 0.00 0.00 4.26
2344 2437 2.978156 AGGGTCCAAGAAAATGCTCA 57.022 45.000 0.00 0.00 0.00 4.26
2345 2438 3.463048 AGGGTCCAAGAAAATGCTCAT 57.537 42.857 0.00 0.00 0.00 2.90
2346 2439 4.591321 AGGGTCCAAGAAAATGCTCATA 57.409 40.909 0.00 0.00 0.00 2.15
2347 2440 5.134725 AGGGTCCAAGAAAATGCTCATAT 57.865 39.130 0.00 0.00 0.00 1.78
2348 2441 4.891756 AGGGTCCAAGAAAATGCTCATATG 59.108 41.667 0.00 0.00 0.00 1.78
2349 2442 4.038402 GGGTCCAAGAAAATGCTCATATGG 59.962 45.833 2.13 0.00 0.00 2.74
2350 2443 4.500375 GGTCCAAGAAAATGCTCATATGGC 60.500 45.833 2.13 6.08 0.00 4.40
2351 2444 4.340381 GTCCAAGAAAATGCTCATATGGCT 59.660 41.667 14.63 0.00 0.00 4.75
2352 2445 4.581824 TCCAAGAAAATGCTCATATGGCTC 59.418 41.667 14.63 6.45 0.00 4.70
2353 2446 4.583489 CCAAGAAAATGCTCATATGGCTCT 59.417 41.667 14.63 8.12 0.00 4.09
2354 2447 5.278364 CCAAGAAAATGCTCATATGGCTCTC 60.278 44.000 14.63 7.82 0.00 3.20
2355 2448 5.307544 AGAAAATGCTCATATGGCTCTCT 57.692 39.130 14.63 9.32 0.00 3.10
2356 2449 5.064558 AGAAAATGCTCATATGGCTCTCTG 58.935 41.667 14.63 0.00 0.00 3.35
2357 2450 4.701651 AAATGCTCATATGGCTCTCTGA 57.298 40.909 14.63 0.00 0.00 3.27
2358 2451 4.701651 AATGCTCATATGGCTCTCTGAA 57.298 40.909 14.63 0.00 0.00 3.02
2359 2452 4.701651 ATGCTCATATGGCTCTCTGAAA 57.298 40.909 14.63 0.00 0.00 2.69
2360 2453 4.492494 TGCTCATATGGCTCTCTGAAAA 57.508 40.909 14.63 0.00 0.00 2.29
2361 2454 5.045012 TGCTCATATGGCTCTCTGAAAAT 57.955 39.130 14.63 0.00 0.00 1.82
2362 2455 6.178607 TGCTCATATGGCTCTCTGAAAATA 57.821 37.500 14.63 0.00 0.00 1.40
2363 2456 6.776744 TGCTCATATGGCTCTCTGAAAATAT 58.223 36.000 14.63 0.00 0.00 1.28
2364 2457 7.229308 TGCTCATATGGCTCTCTGAAAATATT 58.771 34.615 14.63 0.00 0.00 1.28
2365 2458 7.174426 TGCTCATATGGCTCTCTGAAAATATTG 59.826 37.037 14.63 0.00 0.00 1.90
2366 2459 7.361885 GCTCATATGGCTCTCTGAAAATATTGG 60.362 40.741 2.13 0.00 0.00 3.16
2367 2460 7.748677 TCATATGGCTCTCTGAAAATATTGGA 58.251 34.615 2.13 0.00 0.00 3.53
2368 2461 7.663081 TCATATGGCTCTCTGAAAATATTGGAC 59.337 37.037 2.13 0.00 0.00 4.02
2369 2462 5.178096 TGGCTCTCTGAAAATATTGGACA 57.822 39.130 0.00 0.00 0.00 4.02
2370 2463 5.188434 TGGCTCTCTGAAAATATTGGACAG 58.812 41.667 9.21 9.21 0.00 3.51
2371 2464 5.045651 TGGCTCTCTGAAAATATTGGACAGA 60.046 40.000 14.40 14.40 36.42 3.41
2387 2480 7.831691 TTGGACAGAGATAAAAATCAAACCA 57.168 32.000 0.00 0.00 0.00 3.67
2388 2481 7.831691 TGGACAGAGATAAAAATCAAACCAA 57.168 32.000 0.00 0.00 0.00 3.67
2389 2482 8.421249 TGGACAGAGATAAAAATCAAACCAAT 57.579 30.769 0.00 0.00 0.00 3.16
2390 2483 9.527157 TGGACAGAGATAAAAATCAAACCAATA 57.473 29.630 0.00 0.00 0.00 1.90
2409 2502 9.700831 AACCAATATTTTTAAGAGCTCATAGGT 57.299 29.630 17.77 6.48 0.00 3.08
2421 2514 8.697507 AAGAGCTCATAGGTATTTATTTTGGG 57.302 34.615 17.77 0.00 0.00 4.12
2422 2515 6.717084 AGAGCTCATAGGTATTTATTTTGGGC 59.283 38.462 17.77 0.00 0.00 5.36
2423 2516 6.614657 AGCTCATAGGTATTTATTTTGGGCT 58.385 36.000 0.00 0.00 0.00 5.19
2424 2517 7.069344 AGCTCATAGGTATTTATTTTGGGCTT 58.931 34.615 0.00 0.00 0.00 4.35
2425 2518 7.565029 AGCTCATAGGTATTTATTTTGGGCTTT 59.435 33.333 0.00 0.00 0.00 3.51
2426 2519 8.204160 GCTCATAGGTATTTATTTTGGGCTTTT 58.796 33.333 0.00 0.00 0.00 2.27
2427 2520 9.533253 CTCATAGGTATTTATTTTGGGCTTTTG 57.467 33.333 0.00 0.00 0.00 2.44
2428 2521 8.482128 TCATAGGTATTTATTTTGGGCTTTTGG 58.518 33.333 0.00 0.00 0.00 3.28
2429 2522 6.943899 AGGTATTTATTTTGGGCTTTTGGA 57.056 33.333 0.00 0.00 0.00 3.53
2430 2523 7.323052 AGGTATTTATTTTGGGCTTTTGGAA 57.677 32.000 0.00 0.00 0.00 3.53
2431 2524 7.927788 AGGTATTTATTTTGGGCTTTTGGAAT 58.072 30.769 0.00 0.00 0.00 3.01
2432 2525 8.390143 AGGTATTTATTTTGGGCTTTTGGAATT 58.610 29.630 0.00 0.00 0.00 2.17
2433 2526 9.674068 GGTATTTATTTTGGGCTTTTGGAATTA 57.326 29.630 0.00 0.00 0.00 1.40
2437 2530 5.956068 TTTTGGGCTTTTGGAATTAATGC 57.044 34.783 0.00 0.00 0.00 3.56
2438 2531 4.630644 TTGGGCTTTTGGAATTAATGCA 57.369 36.364 0.00 0.00 0.00 3.96
2439 2532 4.840716 TGGGCTTTTGGAATTAATGCAT 57.159 36.364 0.00 0.00 0.00 3.96
2440 2533 5.946942 TGGGCTTTTGGAATTAATGCATA 57.053 34.783 0.00 0.00 0.00 3.14
2441 2534 6.305272 TGGGCTTTTGGAATTAATGCATAA 57.695 33.333 0.00 0.00 0.00 1.90
2442 2535 6.715280 TGGGCTTTTGGAATTAATGCATAAA 58.285 32.000 0.00 0.00 0.00 1.40
2443 2536 7.344913 TGGGCTTTTGGAATTAATGCATAAAT 58.655 30.769 0.00 0.00 0.00 1.40
2444 2537 8.489489 TGGGCTTTTGGAATTAATGCATAAATA 58.511 29.630 0.00 0.00 0.00 1.40
2445 2538 9.506018 GGGCTTTTGGAATTAATGCATAAATAT 57.494 29.630 0.00 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
117 119 6.349611 GGAAAGAGCTTGCATGACATCTTTTA 60.350 38.462 19.47 0.00 37.18 1.52
135 137 5.352284 AGTCATACGTGCTTATGGAAAGAG 58.648 41.667 0.00 0.00 31.33 2.85
337 341 4.890581 ACAGTAACAGTGGCAATGGTTTTA 59.109 37.500 19.96 6.16 0.00 1.52
430 452 3.524095 TCAATTCAACCACACCTGGAT 57.476 42.857 0.00 0.00 40.55 3.41
451 473 4.326826 TGCAAGTATTAGCAGCTGAGTTT 58.673 39.130 20.43 1.55 35.51 2.66
532 554 3.644966 AGGGGATCGCAATAGTTTTCA 57.355 42.857 12.32 0.00 0.00 2.69
590 612 7.042321 CGACTTCCCGAAGCAACAAATTATATA 60.042 37.037 4.34 0.00 41.99 0.86
592 614 5.064198 CGACTTCCCGAAGCAACAAATTATA 59.936 40.000 4.34 0.00 41.99 0.98
686 708 5.188555 TGCCTAAAATTGGACCATGCATTTA 59.811 36.000 0.00 0.00 0.00 1.40
741 765 8.768501 TCTCTAGTTCTCCATATGCTAAAAGA 57.231 34.615 0.00 0.00 0.00 2.52
745 769 7.168905 TCGATCTCTAGTTCTCCATATGCTAA 58.831 38.462 0.00 0.00 0.00 3.09
793 817 2.752030 AGGCACCATGAGCTAACTCTA 58.248 47.619 9.47 0.00 43.85 2.43
856 883 1.876497 GCACCATCACGGCCAACATT 61.876 55.000 2.24 0.00 39.03 2.71
1027 1063 3.791320 TCTCAGGAGTCCATGTAAGGTT 58.209 45.455 12.86 0.00 0.00 3.50
1119 1159 4.015764 TGCAAGCATTATACACATGTGGT 58.984 39.130 28.64 18.90 34.19 4.16
1220 1260 7.976135 AGCATCTTGGTAATGATCTCATAAC 57.024 36.000 0.00 0.00 35.10 1.89
1305 1345 1.754803 TCCACATATCGAGACCACACC 59.245 52.381 0.00 0.00 0.00 4.16
1384 1428 3.052036 GGCTACACAAAGCACACAAATG 58.948 45.455 0.00 0.00 44.64 2.32
1404 1449 0.447801 GCACGTGCATCCTTGTTAGG 59.552 55.000 34.52 0.00 41.07 2.69
1566 1611 6.767524 TTTTGTGAAAGATTGGCCGTATAT 57.232 33.333 0.00 0.00 0.00 0.86
1576 1621 5.393461 GGGATCGCTCATTTTGTGAAAGATT 60.393 40.000 1.84 0.00 36.14 2.40
1590 1635 2.565391 TGTTCTTAGTTGGGATCGCTCA 59.435 45.455 11.46 0.00 0.00 4.26
1624 1682 1.066454 GTGTTTCCCTTGTGTTTCCCG 59.934 52.381 0.00 0.00 0.00 5.14
1669 1729 5.378292 TGTGTTCGAGGATCTAGCATATC 57.622 43.478 0.00 0.00 0.00 1.63
1796 1861 2.235016 CTCTACGGAGAAGATCCCCTG 58.765 57.143 0.00 0.00 46.50 4.45
1896 1962 1.696884 CCTCCTCCATCTTTCTAGGGC 59.303 57.143 0.00 0.00 0.00 5.19
2024 2092 0.106519 CATCCGGCCCCTCTTGAAAT 60.107 55.000 0.00 0.00 0.00 2.17
2030 2098 1.152440 CTAGACATCCGGCCCCTCT 60.152 63.158 0.00 0.00 0.00 3.69
2047 2115 4.741239 ATCCGACCACCCCAGCCT 62.741 66.667 0.00 0.00 0.00 4.58
2095 2165 1.229145 CTGGCACCCCCATCCAAAA 60.229 57.895 0.00 0.00 44.33 2.44
2134 2207 0.108329 CTCGCTAACACCCGGACATT 60.108 55.000 0.73 0.00 0.00 2.71
2148 2241 4.148825 GACATCCGGTGCCTCGCT 62.149 66.667 0.00 0.00 0.00 4.93
2187 2280 3.570212 GGGTGTGACACAGGCCCT 61.570 66.667 21.65 0.00 35.86 5.19
2196 2289 2.482142 GCATGACTAGCTAGGGTGTGAC 60.482 54.545 24.35 9.83 0.00 3.67
2197 2290 1.757118 GCATGACTAGCTAGGGTGTGA 59.243 52.381 24.35 0.00 0.00 3.58
2198 2291 1.482182 TGCATGACTAGCTAGGGTGTG 59.518 52.381 24.35 16.75 0.00 3.82
2199 2292 1.866015 TGCATGACTAGCTAGGGTGT 58.134 50.000 24.35 4.29 0.00 4.16
2200 2293 2.366590 TGATGCATGACTAGCTAGGGTG 59.633 50.000 24.35 18.63 0.00 4.61
2201 2294 2.632028 CTGATGCATGACTAGCTAGGGT 59.368 50.000 24.35 5.47 0.00 4.34
2202 2295 2.896044 TCTGATGCATGACTAGCTAGGG 59.104 50.000 24.35 11.76 0.00 3.53
2203 2296 3.573538 ACTCTGATGCATGACTAGCTAGG 59.426 47.826 24.35 7.95 0.00 3.02
2204 2297 4.037803 ACACTCTGATGCATGACTAGCTAG 59.962 45.833 19.44 19.44 0.00 3.42
2205 2298 3.956848 ACACTCTGATGCATGACTAGCTA 59.043 43.478 2.46 0.00 0.00 3.32
2206 2299 2.765135 ACACTCTGATGCATGACTAGCT 59.235 45.455 2.46 0.00 0.00 3.32
2207 2300 2.864946 CACACTCTGATGCATGACTAGC 59.135 50.000 2.46 0.00 0.00 3.42
2208 2301 3.864003 CACACACTCTGATGCATGACTAG 59.136 47.826 2.46 0.00 0.00 2.57
2209 2302 3.853475 CACACACTCTGATGCATGACTA 58.147 45.455 2.46 0.00 0.00 2.59
2210 2303 2.696506 CACACACTCTGATGCATGACT 58.303 47.619 2.46 0.00 0.00 3.41
2211 2304 1.129998 GCACACACTCTGATGCATGAC 59.870 52.381 2.46 0.00 34.67 3.06
2212 2305 1.270947 TGCACACACTCTGATGCATGA 60.271 47.619 2.46 0.00 37.81 3.07
2213 2306 1.161843 TGCACACACTCTGATGCATG 58.838 50.000 2.46 0.00 37.81 4.06
2214 2307 2.124277 ATGCACACACTCTGATGCAT 57.876 45.000 0.00 0.00 43.14 3.96
2215 2308 1.270947 TGATGCACACACTCTGATGCA 60.271 47.619 5.46 5.46 43.20 3.96
2216 2309 1.445871 TGATGCACACACTCTGATGC 58.554 50.000 0.00 0.00 34.95 3.91
2217 2310 3.007635 ACATGATGCACACACTCTGATG 58.992 45.455 0.00 0.00 0.00 3.07
2218 2311 3.345508 ACATGATGCACACACTCTGAT 57.654 42.857 0.00 0.00 0.00 2.90
2219 2312 2.845363 ACATGATGCACACACTCTGA 57.155 45.000 0.00 0.00 0.00 3.27
2220 2313 3.909776 AAACATGATGCACACACTCTG 57.090 42.857 0.00 0.00 0.00 3.35
2221 2314 6.579666 ATTTAAACATGATGCACACACTCT 57.420 33.333 0.00 0.00 0.00 3.24
2222 2315 7.642071 AAATTTAAACATGATGCACACACTC 57.358 32.000 0.00 0.00 0.00 3.51
2223 2316 7.171337 GGAAAATTTAAACATGATGCACACACT 59.829 33.333 0.00 0.00 0.00 3.55
2224 2317 7.171337 AGGAAAATTTAAACATGATGCACACAC 59.829 33.333 0.00 0.00 0.00 3.82
2225 2318 7.215789 AGGAAAATTTAAACATGATGCACACA 58.784 30.769 0.00 0.00 0.00 3.72
2226 2319 7.656707 AGGAAAATTTAAACATGATGCACAC 57.343 32.000 0.00 0.00 0.00 3.82
2227 2320 8.674263 AAAGGAAAATTTAAACATGATGCACA 57.326 26.923 0.00 0.00 0.00 4.57
2242 2335 9.874195 TCCCCATTTCAAATTAAAAGGAAAATT 57.126 25.926 0.00 0.00 33.47 1.82
2244 2337 9.874195 AATCCCCATTTCAAATTAAAAGGAAAA 57.126 25.926 0.00 0.00 33.47 2.29
2245 2338 9.874195 AAATCCCCATTTCAAATTAAAAGGAAA 57.126 25.926 0.00 0.00 30.46 3.13
2246 2339 9.294614 CAAATCCCCATTTCAAATTAAAAGGAA 57.705 29.630 0.00 0.00 30.46 3.36
2247 2340 8.443979 ACAAATCCCCATTTCAAATTAAAAGGA 58.556 29.630 0.00 0.00 30.46 3.36
2248 2341 8.513774 CACAAATCCCCATTTCAAATTAAAAGG 58.486 33.333 0.00 0.00 28.97 3.11
2249 2342 9.282569 TCACAAATCCCCATTTCAAATTAAAAG 57.717 29.630 0.00 0.00 28.97 2.27
2250 2343 9.632638 TTCACAAATCCCCATTTCAAATTAAAA 57.367 25.926 0.00 0.00 28.97 1.52
2251 2344 9.632638 TTTCACAAATCCCCATTTCAAATTAAA 57.367 25.926 0.00 0.00 28.97 1.52
2252 2345 9.061435 GTTTCACAAATCCCCATTTCAAATTAA 57.939 29.630 0.00 0.00 28.97 1.40
2253 2346 7.663493 GGTTTCACAAATCCCCATTTCAAATTA 59.337 33.333 0.00 0.00 28.97 1.40
2254 2347 6.489700 GGTTTCACAAATCCCCATTTCAAATT 59.510 34.615 0.00 0.00 28.97 1.82
2255 2348 6.003326 GGTTTCACAAATCCCCATTTCAAAT 58.997 36.000 0.00 0.00 28.97 2.32
2256 2349 5.372373 GGTTTCACAAATCCCCATTTCAAA 58.628 37.500 0.00 0.00 28.97 2.69
2257 2350 4.202409 GGGTTTCACAAATCCCCATTTCAA 60.202 41.667 0.00 0.00 35.54 2.69
2258 2351 3.326297 GGGTTTCACAAATCCCCATTTCA 59.674 43.478 0.00 0.00 35.54 2.69
2259 2352 3.582647 AGGGTTTCACAAATCCCCATTTC 59.417 43.478 0.00 0.00 42.92 2.17
2260 2353 3.582647 GAGGGTTTCACAAATCCCCATTT 59.417 43.478 0.00 0.00 42.92 2.32
2261 2354 3.173151 GAGGGTTTCACAAATCCCCATT 58.827 45.455 0.00 0.00 42.92 3.16
2262 2355 2.111613 TGAGGGTTTCACAAATCCCCAT 59.888 45.455 0.00 0.00 42.92 4.00
2263 2356 1.501170 TGAGGGTTTCACAAATCCCCA 59.499 47.619 0.00 0.00 42.92 4.96
2264 2357 2.171003 CTGAGGGTTTCACAAATCCCC 58.829 52.381 0.00 0.00 42.92 4.81
2265 2358 3.154827 TCTGAGGGTTTCACAAATCCC 57.845 47.619 0.00 0.00 42.92 3.85
2266 2359 4.766891 TGATTCTGAGGGTTTCACAAATCC 59.233 41.667 0.00 0.00 42.20 3.01
2267 2360 5.964958 TGATTCTGAGGGTTTCACAAATC 57.035 39.130 0.00 0.00 35.44 2.17
2268 2361 6.923199 AATGATTCTGAGGGTTTCACAAAT 57.077 33.333 0.00 0.00 0.00 2.32
2269 2362 6.729690 AAATGATTCTGAGGGTTTCACAAA 57.270 33.333 0.00 0.00 0.00 2.83
2270 2363 6.729690 AAAATGATTCTGAGGGTTTCACAA 57.270 33.333 0.00 0.00 0.00 3.33
2271 2364 6.323482 TCAAAAATGATTCTGAGGGTTTCACA 59.677 34.615 0.00 0.00 0.00 3.58
2272 2365 6.748132 TCAAAAATGATTCTGAGGGTTTCAC 58.252 36.000 0.00 0.00 0.00 3.18
2273 2366 6.975196 TCAAAAATGATTCTGAGGGTTTCA 57.025 33.333 0.00 0.00 0.00 2.69
2274 2367 8.661352 TTTTCAAAAATGATTCTGAGGGTTTC 57.339 30.769 0.00 0.00 0.00 2.78
2302 2395 9.519191 CCCTTTTGGAGAAATTTTTATTTGGAT 57.481 29.630 0.00 0.00 44.07 3.41
2303 2396 8.498575 ACCCTTTTGGAGAAATTTTTATTTGGA 58.501 29.630 0.00 0.00 44.07 3.53
2304 2397 8.690203 ACCCTTTTGGAGAAATTTTTATTTGG 57.310 30.769 0.00 0.00 44.07 3.28
2305 2398 8.783093 GGACCCTTTTGGAGAAATTTTTATTTG 58.217 33.333 0.00 0.00 44.07 2.32
2306 2399 8.498575 TGGACCCTTTTGGAGAAATTTTTATTT 58.501 29.630 0.00 0.00 44.07 1.40
2307 2400 8.040002 TGGACCCTTTTGGAGAAATTTTTATT 57.960 30.769 0.00 0.00 44.07 1.40
2308 2401 7.625498 TGGACCCTTTTGGAGAAATTTTTAT 57.375 32.000 0.00 0.00 44.07 1.40
2309 2402 7.345914 TCTTGGACCCTTTTGGAGAAATTTTTA 59.654 33.333 0.00 0.00 44.07 1.52
2310 2403 5.966853 TGGACCCTTTTGGAGAAATTTTT 57.033 34.783 0.00 0.00 44.07 1.94
2311 2404 5.665360 TCTTGGACCCTTTTGGAGAAATTTT 59.335 36.000 0.00 0.00 44.07 1.82
2312 2405 5.215845 TCTTGGACCCTTTTGGAGAAATTT 58.784 37.500 0.00 0.00 44.07 1.82
2313 2406 4.814967 TCTTGGACCCTTTTGGAGAAATT 58.185 39.130 0.00 0.00 44.07 1.82
2314 2407 4.469469 TCTTGGACCCTTTTGGAGAAAT 57.531 40.909 0.00 0.00 44.07 2.17
2315 2408 3.963476 TCTTGGACCCTTTTGGAGAAA 57.037 42.857 0.00 0.00 44.07 2.52
2316 2409 3.963476 TTCTTGGACCCTTTTGGAGAA 57.037 42.857 0.00 0.00 44.07 2.87
2317 2410 3.963476 TTTCTTGGACCCTTTTGGAGA 57.037 42.857 0.00 0.00 44.07 3.71
2318 2411 4.800582 GCATTTTCTTGGACCCTTTTGGAG 60.801 45.833 0.00 0.00 44.07 3.86
2319 2412 3.070878 GCATTTTCTTGGACCCTTTTGGA 59.929 43.478 0.00 0.00 44.07 3.53
2320 2413 3.071457 AGCATTTTCTTGGACCCTTTTGG 59.929 43.478 0.00 0.00 41.37 3.28
2321 2414 4.202243 TGAGCATTTTCTTGGACCCTTTTG 60.202 41.667 0.00 0.00 0.00 2.44
2322 2415 3.966665 TGAGCATTTTCTTGGACCCTTTT 59.033 39.130 0.00 0.00 0.00 2.27
2323 2416 3.575805 TGAGCATTTTCTTGGACCCTTT 58.424 40.909 0.00 0.00 0.00 3.11
2324 2417 3.243359 TGAGCATTTTCTTGGACCCTT 57.757 42.857 0.00 0.00 0.00 3.95
2325 2418 2.978156 TGAGCATTTTCTTGGACCCT 57.022 45.000 0.00 0.00 0.00 4.34
2326 2419 4.038402 CCATATGAGCATTTTCTTGGACCC 59.962 45.833 3.65 0.00 0.00 4.46
2327 2420 4.500375 GCCATATGAGCATTTTCTTGGACC 60.500 45.833 3.65 0.00 0.00 4.46
2328 2421 4.340381 AGCCATATGAGCATTTTCTTGGAC 59.660 41.667 15.63 0.00 0.00 4.02
2329 2422 4.539726 AGCCATATGAGCATTTTCTTGGA 58.460 39.130 15.63 0.00 0.00 3.53
2330 2423 4.583489 AGAGCCATATGAGCATTTTCTTGG 59.417 41.667 15.63 0.00 0.00 3.61
2331 2424 5.531659 AGAGAGCCATATGAGCATTTTCTTG 59.468 40.000 15.63 0.00 0.00 3.02
2332 2425 5.531659 CAGAGAGCCATATGAGCATTTTCTT 59.468 40.000 15.63 0.00 0.00 2.52
2333 2426 5.064558 CAGAGAGCCATATGAGCATTTTCT 58.935 41.667 15.63 10.47 0.00 2.52
2334 2427 5.061853 TCAGAGAGCCATATGAGCATTTTC 58.938 41.667 15.63 6.88 0.00 2.29
2335 2428 5.045012 TCAGAGAGCCATATGAGCATTTT 57.955 39.130 15.63 0.00 0.00 1.82
2336 2429 4.701651 TCAGAGAGCCATATGAGCATTT 57.298 40.909 15.63 3.90 0.00 2.32
2337 2430 4.701651 TTCAGAGAGCCATATGAGCATT 57.298 40.909 15.63 5.83 0.00 3.56
2338 2431 4.701651 TTTCAGAGAGCCATATGAGCAT 57.298 40.909 15.63 6.37 0.00 3.79
2339 2432 4.492494 TTTTCAGAGAGCCATATGAGCA 57.508 40.909 15.63 0.00 0.00 4.26
2340 2433 7.361885 CCAATATTTTCAGAGAGCCATATGAGC 60.362 40.741 3.65 6.18 0.00 4.26
2341 2434 7.881751 TCCAATATTTTCAGAGAGCCATATGAG 59.118 37.037 3.65 0.00 0.00 2.90
2342 2435 7.663081 GTCCAATATTTTCAGAGAGCCATATGA 59.337 37.037 3.65 0.00 0.00 2.15
2343 2436 7.446319 TGTCCAATATTTTCAGAGAGCCATATG 59.554 37.037 0.00 0.00 0.00 1.78
2344 2437 7.520798 TGTCCAATATTTTCAGAGAGCCATAT 58.479 34.615 0.00 0.00 0.00 1.78
2345 2438 6.899089 TGTCCAATATTTTCAGAGAGCCATA 58.101 36.000 0.00 0.00 0.00 2.74
2346 2439 5.759059 TGTCCAATATTTTCAGAGAGCCAT 58.241 37.500 0.00 0.00 0.00 4.40
2347 2440 5.045651 TCTGTCCAATATTTTCAGAGAGCCA 60.046 40.000 8.84 0.00 32.49 4.75
2348 2441 5.431765 TCTGTCCAATATTTTCAGAGAGCC 58.568 41.667 8.84 0.00 32.49 4.70
2361 2454 9.527157 TGGTTTGATTTTTATCTCTGTCCAATA 57.473 29.630 0.00 0.00 0.00 1.90
2362 2455 8.421249 TGGTTTGATTTTTATCTCTGTCCAAT 57.579 30.769 0.00 0.00 0.00 3.16
2363 2456 7.831691 TGGTTTGATTTTTATCTCTGTCCAA 57.168 32.000 0.00 0.00 0.00 3.53
2364 2457 7.831691 TTGGTTTGATTTTTATCTCTGTCCA 57.168 32.000 0.00 0.00 0.00 4.02
2383 2476 9.700831 ACCTATGAGCTCTTAAAAATATTGGTT 57.299 29.630 16.19 0.00 0.00 3.67
2395 2488 9.793259 CCCAAAATAAATACCTATGAGCTCTTA 57.207 33.333 16.19 12.12 0.00 2.10
2396 2489 7.231519 GCCCAAAATAAATACCTATGAGCTCTT 59.768 37.037 16.19 11.54 0.00 2.85
2397 2490 6.717084 GCCCAAAATAAATACCTATGAGCTCT 59.283 38.462 16.19 3.04 0.00 4.09
2398 2491 6.717084 AGCCCAAAATAAATACCTATGAGCTC 59.283 38.462 6.82 6.82 0.00 4.09
2399 2492 6.614657 AGCCCAAAATAAATACCTATGAGCT 58.385 36.000 0.00 0.00 0.00 4.09
2400 2493 6.901081 AGCCCAAAATAAATACCTATGAGC 57.099 37.500 0.00 0.00 0.00 4.26
2401 2494 9.533253 CAAAAGCCCAAAATAAATACCTATGAG 57.467 33.333 0.00 0.00 0.00 2.90
2402 2495 8.482128 CCAAAAGCCCAAAATAAATACCTATGA 58.518 33.333 0.00 0.00 0.00 2.15
2403 2496 8.482128 TCCAAAAGCCCAAAATAAATACCTATG 58.518 33.333 0.00 0.00 0.00 2.23
2404 2497 8.616799 TCCAAAAGCCCAAAATAAATACCTAT 57.383 30.769 0.00 0.00 0.00 2.57
2405 2498 8.437274 TTCCAAAAGCCCAAAATAAATACCTA 57.563 30.769 0.00 0.00 0.00 3.08
2406 2499 6.943899 TCCAAAAGCCCAAAATAAATACCT 57.056 33.333 0.00 0.00 0.00 3.08
2407 2500 8.574251 AATTCCAAAAGCCCAAAATAAATACC 57.426 30.769 0.00 0.00 0.00 2.73
2411 2504 8.518702 GCATTAATTCCAAAAGCCCAAAATAAA 58.481 29.630 0.00 0.00 0.00 1.40
2412 2505 7.667219 TGCATTAATTCCAAAAGCCCAAAATAA 59.333 29.630 0.00 0.00 0.00 1.40
2413 2506 7.170965 TGCATTAATTCCAAAAGCCCAAAATA 58.829 30.769 0.00 0.00 0.00 1.40
2414 2507 6.008960 TGCATTAATTCCAAAAGCCCAAAAT 58.991 32.000 0.00 0.00 0.00 1.82
2415 2508 5.380043 TGCATTAATTCCAAAAGCCCAAAA 58.620 33.333 0.00 0.00 0.00 2.44
2416 2509 4.978099 TGCATTAATTCCAAAAGCCCAAA 58.022 34.783 0.00 0.00 0.00 3.28
2417 2510 4.630644 TGCATTAATTCCAAAAGCCCAA 57.369 36.364 0.00 0.00 0.00 4.12
2418 2511 4.840716 ATGCATTAATTCCAAAAGCCCA 57.159 36.364 0.00 0.00 0.00 5.36
2419 2512 7.806409 ATTTATGCATTAATTCCAAAAGCCC 57.194 32.000 3.54 0.00 0.00 5.19


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

AutoCloner maintained by Alex Coulton.